Rui:LabNotes/SingleCell/2011-5-17: Difference between revisions

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* 15 colonies directly for TempliPhi, roughly ~500ng/ul in 10ul PCR, 3ul sending for sequencing (M13R provided by Genewiz)
* 15 colonies directly for TempliPhi, roughly ~500ng/ul in 10ul PCR, 3ul sending for sequencing (M13R provided by Genewiz)
* No priming: 3
* No priming: 3
* mRNA:
* mRNA: 11
* Intergenic region?: 1
* Potential non-coding region: 1




Line 156: Line 156:
TATGGTTACCGCCTCCTCTTCCTTATCCACATTGCTTGTTTGTGACAACTNCCATGTTCCCGTTGCCAAGCTCTCCACTT
TATGGTTACCGCCTCCTCTTCCTTATCCACATTGCTTGTTTGTGACAACTNCCATGTTCCCGTTGCCAAGCTCTCCACTT
GAAGAAAACTTAAAAAAAAAAAAAAAAAAAAAAGGATANCCCTANANNGAGTCNNATTTAAAGCCNAATTCTGCANATNN
GAAGAAAACTTAAAAAAAAAAAAAAAAAAAAAAGGATANCCCTANANNGAGTCNNATTTAAAGCCNAATTCTGCANATNN
===DNA samples===
* 15 colonies directly for TempliPhi, roughly ~500ng/ul in 10ul PCR, 3ul sending for sequencing (M13R provided by Genewiz)
* No priming: 1
* Vector seq: 3
* Non-coding region with poly A/T: 10
DNA-1: vector seq. no A tail
>DNA-1-M13R_G04.ab1
NNNNNNNNNNNNNNNNNNNNNNCTCGGATNNNCTAGTAACGGCCGCCAGTGTGCTGGAATTCTGCAGATATCCATCACAC
TGNCNNCCGNNCGAGCATGCATCTAGAGGGCCCAATTCGCCCTATAGTGAGTCGTATTACAATTCACTGGCCGTCGTTTT
ACAACGTCGTGACTGGGAAAACCCTGGCGTTACCCAACTTAATCGCCTTGCAGCACATCCCCCTTTCGCCAGCTGGCGTA
ATAGCGAAGAGGCCCGCACCGATCGCCCTTCCCAACAGTTGCGCAGCCTGAATGGCGAATGGACGCGCCCTGTAGCGGCG
CATTAAGCGCGGCGGGTGTGGTGGTTACGCGCAGCGTGACCGCTACACTTGCCAGCGCCCTAGCGCCCGCTCCTTTCGCT
TTCTTCCCTTCCTTTCTCGCCACGTTCGCCGGCTTTCCCCGTCAAGCTCTAAATCGGGGGCTCCCTTTAGGGTTCCGATT
TAGTGCTTTACGGCACCTCGACCCCAAAAAACTTGATTAGGGTGATGGTTCACGTAGTGGGCCATCGCCCTGATAGACGG
TTTTTCGCCCTTTGACGTTGGAGTCCACGTTCTTTAATAGTGGACTCTTGTTCCAAACTGGAACAACACTCAACCCTATC
TCGGTCTATTCTTTTGATTTATAAGGGATTTTGCCGATTTCGGCCTATTGGTTAAANAATGAGCTGATTTAACAAAAATT
TAACGCGAATTTTAACAAAATTCAGGGCGCAAGGGCTGCTAAAGGAAGCGGAACACGTAGAAAGCCAGTCCGCAGAAACG
GTGCTGACCCCGGATGAATGTCAGCTACTGGGCTATCTGGACAAGGGAAAACGCAAGCGCAAAGAGAAAGCANGTAGCTT
GCAGTGGGCTTACATGGCGATAGCTAGACTGGGCGGTTTTATGGACAGCAAGCGAANCGGAATTGCCAGCTGGGGCGCCC
TCTGGTAAGGTTGGGAAGCCCTGCANNACNGNNGNTCTGCNCAGNNNNGNNGNNNNNNNNNNNGNNGGNNNGGGGNANNA
NNNNTCTNNAANAANNANNNGNGATGNNNGNTNNNTTTCNNATNNANNGAAANAANNNNGATTGCACCGCNGGTNNCNCC
NNNNCNNNNNNNNNNNNNNNNNNNNNNNNNNTNNNNACNGGGNNNNNN
DNA-2: vector; no A tail
>DNA-2-M13R_G05.ab1
NNNNNNNNNNNNNNNNNNNNAGCTCGGATCCNCTAGTAACGGCCGCCAGTGTGCTGGAATTCTGCAGATATCCATCACAC
TGGCGGCCGCTCGAGCATGCATCTAGAGGGCCCAATTCGCCCTATAGTGAGTCGTATTACAATTCACTGGCCGTCGTTTT
ACAACGTCGTGACTGGGAAAACCCTGGCGTTACCCAACTTAATCGCCTTGCAGCACATCCCCCTTTCGCCAGCTGGCGTA
ATAGCGAAGAGGCCCGCACCGATCGCCCTTCCCAACAGTTGCGCAGCCTGAATGGCGAATGGACGCGCCCTGTAGCGGCG
CATTAAGCGCGGCGGGTGTGGTGGTTACGCGCAGCGTGACCGCTACACTTGCCAGCGCCCTAGCGCCCGCTCCTTTCGCT
TTCTTCCCTTCCTTTCTCGCCACGTTCGCCGGCTTTCCCCGTCAAGCTCTAAATCGGGGGCTCCCTTTAGGGTTCCGATT
TAGTGCTTTACGGCACCTCGACCCCAAAAAACTTGATTAGGGTGATGGTTCACGTAGTGGGCCATCGCCCTGATAGACGG
TTTTTCGCCCTTTGACGTTGGAGTCCACGTTCTTTAATAGTGGACTCTTGTTCCAAACTGGAACAACACTCAACCCTATC
TCGGTCTATTCTTTTGATTTATAAGGGATTTTGCCGATTTCGGCCTATTGGTTNNAAAATGAGCTGATTTAACAAAAATT
TAACGCGAATTTTAACAAAATTCAGGGCGCAAGGGCTGCTAAAGGAAGCGGAACACGTAGAAAGCCAGTCCGCAGAAACG
GTGCTGACCCCGGATGAATGTCAGCTACTGGGCTATCTGGACAAGGGAAAACGCAAGCGCAAAGAGAAAGCNNTAGCTTG
CAGTGGGCTTACATGGCGATAGCTAGACTGGCGGTTTTATGGACAGCAAGCGAACCGGAATTGCCAGCTGGGGCGCCCTC
TGGTAAGGTTGGGAAGCCCTGCAAAGTAAACTGGATGGCTTTCTTGCNGCCNGGATCTGATGGCGCAGGGGATCANATCT
GATCAGAGACAGGATGANGNNCGTTTCCNCATGATTGAACAAGAATGGATTGCNNNNANGGTNNNNCNNNNNNTTNGGNN
GNNANNGCTATNNNNNNTANNNNNN
DNA-3: Intergenic region with 20bp poly A
>DNA-3-M13R_G06.ab1
NNNNNNNNNNNNNNNNCCNAGCTCGGATCCACTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTCACT
ATAGGGGTATCCTTTTTTTTTTTTTTTTTTTTTTTTTTCTTGAATTGTACTCCCATAATTCCCACATGTTGTGGGAGAGA
GCTGGTGGGAGATAATTTGAATCATGGGGGTGGTTTCCCCCATACAGTTCTCATGGTAGTGAATAAATCTCATGAGATTG
CATGGTTTTATCAGGGGTTTCTGCTTTTGTATCATCCTCGTTTTCTCTTGCCACTGCCATGTAAGAAGTGCCTTTCGGCC
GGGTGCAGTAGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGTGGATCACAAGGTCAGGAGATCGATACC
CTCCTGGCTAACACAGTGAGACCCCGTCTCTACTAAAAATACAAAAAATTAGCCAGGCATGGTGGTGGGCGCCTGTAGTC
CCAGCTACTCAGGAGGCTGAGGCAGGAGAATGGCGTGAACCCCAGAGGCGGAGCTTGCAGTGAGCCGAGATCTCGCCACG
GCACTCCAGCCTGGGTGACAGAGCGAGACTCTGTCTCAAAAAAAAAAAAAAAAAAAAAAAAGGATACCCCTNATAGTGAG
TCNNNTTAAAGCCGAATTCTGCANATATCCATTCACACTGGNGGCCGCTNGAGNNTNCCNTNTAAAAGGGCCCAATTCNC
CCTANANTGAGTNCGTATTAACAATTCACTGGCCGTCGTTTTACAACGNCGTGACTGGGAAAACCCTGGCGTTTCCCCAN
CTTAATCCGCCTNGCANCACATCCCCCTTTCGCCAGCTGGGGNAATANCGAAANANGCCCGCACCNNTNNGCCCTTCCCA
ACAGTTGCNCANCCTGAATGGNAAANGGANNGCNNCCCTTGTAGCGNNN
DNA-4: intronic region with 40bp poly T
>DNA-4-M13R_G07.ab1
NNNNNNNNNNNNNNNNNNNNNNNAANCTNGNNTCCNCTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGAC
TCACTATAGGGGTATCCTTTTTTTTTTTTTTTTTTTTTTTTATCAGAAGCAAAACCACAAAATCCTCACTCTCAAGGAAT
GCACAGGCTATTGCAGAAGCCAGGAAGAAATCTATATTATTACAGAGTACTTATCTCAGAGGGTTGTTATAAATATTAAA
TGAGAGTTATTTTATGGAATACATCTGATCTAGTGCCTGGCACATAAAAAGTGTTATATAAGTATCAGCTATTGTAATTA
CAGAGTGACAAATAAAAGGTCGGAGTGCTATGGTTATGGAATAGAATGATGAGAAAGGAAACTTCCAGGAGCTTAGGTGT
ACTTTAAGTGCAGGTATCAAATATTGATGCTTCATTATGGCAAGGGGGCTAACAAGTTGCCAGTGTGTCACAAGTCAACA
TGCAGGCAAAGATGGAAACATTTTCCAGATCTAAAATGTAGTTAAATATGTTGTACTTTGGAATTGTATATGAACTTTAT
TCCCCTTTCAGAATTACAAATCTCTTAGAAAGCCATTTTATTTCTTTCTGAAACTGAGTTATGATCATCTACTATTTAGC
ACAGAAATAAAAGGGAGGGATAAAATCTACCAACCCAGCAAAGACACATCTTGCTTNNNNNNNTCTTGAGGAAGGCCTTC
AGCAGAATGGAAAGATGACTCTCTGTTGATTACTCTATGTTGAGAACCTTAAGATTCAGATGGTATAGGATTCCAGCTAG
GCAGTTGTGAACTGTCCATTTGTCTTATGCAAGAAAGTCTCNTTCAGCTTTCTGAACTTTTCTGTATTTCACATACTCAT
TTCTAGTTCATGCTCATGTTCAAAGCTTGCTAGAATAGCATGAAAAAGTTTCCAAAGTAAACTCAGCATACTCAAANNTT
TTTCTAGGNTTATTATCTNNNNNNGGAAAGGTGAAAAGANAGCTTGCNTTTANTTTTAAACNCTTACNNNNNNNNAAAAT
ANNNNNCNCTGNCANNANNNNNAAANTGACTGGNNNGNGNNCNNNCNNNANCCAGNNNTTGGNGCNANGNNGGCNNNNNN
N
DNA-5: intronic region with 30 poly A
>DNA-5-M13R_G08.ab1
NNNNNNNNNNNNTNGNNNNNNNNNNCGGATNNNCTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTCA
CTATANGGGTATCCTTTTTTTTTTTTTTTTTTTTTTTTACTCTTTGAGATAATACAACTGGCACAGAAAAATAAGGAGGA
ACAAGAGAAAGAAAATTCCTTCAAAAGAAAGAATATATACAAAGACTCTGAGGTGGAAGAGATTGGCCTTTTCAAGAAAT
TAAAAGAAAATCCACGTGACTAAAGCATAATGAGCAAAGGAAAGCCCAGTCAACAGGGGCAGATTATATAAGGTCTTGGA
TAAATAGTGTCTATTTCATTCAAAGTATAATGGAAAGACACTGGAGGGTTAAAGCAAGGAAGTAAAATCATCGAATTTAC
TTTTTTCTTTTTTAATTCATGAAGCTATACTGTGGAGAATGGATTATAGACGGGTTAAAGAAAAACAATGAGGCCGGGCA
CAGTGGCTCATACCTATAATCCCAGCACTTTGGGAGGCCAAGGCAGGCAGATCACGAGGTCAGGAGACCAAGACCATCCT
GGCCAACATGGTGAAACCCCGTCTGTACTAAAAATACAAAAATTAGCTGGGCATGGTGGCGGGTGCCTGTGATCCCAGCT
ACTCAGAAGGCTGAGGCAGGAGAATCNTCTGAACCAGGGAGTCGGANATTGCAGTAAGCCGAGATCATGCCACTGCACTC
CAGCTTTGGCAACAGAGTGAGACTCCCATCTCNAAAAAAAAAAAAAAAAANAAAAAAAANAAAAGGATACCCCTNTAGNG
AGTCGTATTNAAGCCGAAATTCTGCANATATTCCATCACACTGGGNGG
DNA-6: interginc region with 30 poly A
>DNA-6-M13R_G09.ab1
NNNNNNNNNNNNNNNNNNNNAGCTCGNNNCCNCTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTCAC
TATAGGGGTATCCTTTTTTTTTTTTTTTTTTTTTTTTTTTCAAAACTAAAATGAAATATTATCTCCCCCCAGTTAAAATG
GCTTTTATCCAAAAAACAGGCAATAACGAACACTAGAGAGGATGTGAAGAAAAGGGAACCCTCGTACACTGTTGTTGGGA
ATGTAAATTAAGACAACCACTATAGAGAACAGTTTGGAGGTTCCTCAAAAAACTAAAAATAGGGGTCCAGCACGGTGGCT
CACGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGCGGGCGGCTCACAAAGTTAGGAGATCGAAACCATCCTGGTTGACA
CAGTGAAACCCCGTCTCTACCAAAAACACAAAAAATTAGCTGGGCATGGTGGCAGGTCCCTGTAGTCCCAGCGACTCAGG
AGGCTGAGGCAGGAGAATGGGGTGGACCCGGGAGGCAGAGCTTGCAGTAAGCTGAGATCACGCCACTGCACTCCAGCCTA
GGCGACAGAGCGAGACTTGGTCTCAAAAAAAAAAAAAAAAAAAAAAAAGGATACCCCTATAGTGAGTCGNATTAAAGCCN
AATTCTGNNAANATCCNTNACACTGGCGGCCGCTCGAGCATGCATCAAAAGGNNNCNAANTCGCCCTATNNNGANTCGNA
TTNCANNTCACTGGCCGTCGTTTTACAACGTCNNACTGGNAAAACCCCTGGCGTTACCNAACTTAANNNNCTTGCAGCAC
ATNCCCCCTTTCCNCCNGNTGGCGTTATANCGNAGAGGCCCNGCACCGGATCNCCCNTTCCCAANANTTNGCNNCNACCC
TG
DNA-7: interginc with 15 poly T
>DNA-7-M13R_G10.ab1
NNNNNNNNNNNNNNNNNNNNNNNNNTCNNNNCCNNTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTC
ACNANNGGGGTATCCTTTTTTTTTTTTTTTTTTTTTTTTTGCTTTAAGTATATTTTAAATATCCTAAACAAAATATTAGC
AAAGTGAATCTAACAAACATACTTAACATTTTGTTGAGAATATTCTTATAGAAAGAATAATACACCACAAACAAGTGGGA
TTTATTTCAGGGATGCAAGGCTGGTTCAACATTTAAAAATCAGTTAATGTTATCCATCACACCAACAAGCTAAAAAGGAA
CAGTCATATATTCATATTAATAAATGAAGAAAAAGCAGTTGAAAAAATTCAACATTCAAGATTTAAAAAACAACAAATTA
GGAGAGGACTTCCTCGACTTGTTAAGGAACATCTATAAAAAACCTATAGCTAACATCATATATAATGGTGAGAAACACAA
ATCTCTTACATTAAGATCAGGGAAAAAGCAAGACTGTTCTCTGTCCCCACAGCTTTTCAACATTATATAGGAAGTTTAAG
CTAATGCAATGAAAAAGAAAAGAAAAGGTAGATAAATTGGAAAAGGAGAAATTAAACTGTCTTTGTTTTCAGGTGACATA
TTTACCTATGGAGAATATCCAAAGAAGCTGACGAGAAAAAAAACCTGAAACCCATAAGCAATTAGGTTTCAGGATAAACG
GTTAATGTACAAAAGACAATTACTTTTTTATGCACCATCAATGGAAAATGAGACTTGAATTGTAAAATACAGTATCACTC
ATATTAGCACCCAAAAATGAATAGAAANTAAATCAAGCAACATATGTACNAGATCTATATGAGAAAAACTATAAAAATCT
GANCAAAAATATATCTAAGAAGAANCTAAATAAANNAAGAGAGTCCATGNTTCATGGANNAGAAANGACTAAANATNGTC
AACTTGTCAGTTTCCNTNCCNNACTTGATCTACAGACNTNCACAAAAATCCTNCAGTCNAAAACCNNNCANCAAANTNTT
NNNNNNNNNNNNNCCNNNNNAANNTGGATNCCNNNANNNNNATNNNNNNNAANANNCNGNANNNGCTNATNCNANACTNA
AANNNNNGNAAATNNNNNNNTNNNN
DNA-8: intronic region, 16 poly A
>DNA-8-M13R_G11.ab1
NNNNNNNNNNNNNNNNNNNNGCTCGGATCCACTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTCACT
ATAGGGGTATCCTTTTTTTTTTTTTTTTTTTTTTTTCGGCATTTCGGAGGCCTAGGTGGGTGGATCACTTGAGGTCAGGA
GTTCAAGACCAGTCTGGCCAACATGGTGAAACCCCATCNCNACTAAAAATACAAAAATTAGCAGGGCGTGGTGGCAGGCC
CTTGTAATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCCCTTGAACCTGGGAGGCGGAGGTTGCAGTAAGCTGAGAT
TGCACCACTGAACTCCAGCCTGGCTGATAAAACAAGACTTCAACTAAAAAAAAAAAAAAAAAAANAAAAGGATACCCCAA
TA
DNA-9: intronic with 25 poly T
>DNA-9-M13R_G12.ab1
NNNNNNNNNNNNNNNNNNNNNNCNNGNATCCACTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTCAC
TATAGGGGTATCCTTTTTTTTTTTTTTTTTTTTTTTTTTGAGACAGTCTNGGTCTGTTGCCCAGGCTGGAGCACANCGGC
NTGATCCTGGCTCACTGCAGCCTCCACCTCTGAGGTTCAGCAATTCTCCTGCTTNNGCTTGAGTAGCTGGTACTACAGGN
ACATGCCACCATGCCCAGCTAATTTTTGTATTTTTGGTAAAGACAGGGTTTCGCCATGTTGGCCAGTCTGGTCTTGAANN
CCTGACTTCAAGTGATCCACCAGCCTCAGCCTCCCAAAGTGG
DNA-10: no priming
DNA-11: intergenic with 22 poly A
>DNA-11-M13R_H02.ab1
NNNNNNNNNNNNNNNNNNNNNNNGNNTCGNNNNNCACTAGTAACGGCCCGCNNAGTGTGNTGGAATTCGGCTTTAATACG
ACTCACTNNNGNTNNTNTCCTTTTTTTTTTTTTTTTTTTTTTTTTATCTTCTGTTATAGTCACAATAACATGTTATGCCT
TTGCTTGTATGTTCATCTCTCTCTGTGTACTAGCAGTCCATCCTAATAATGATCTTATCATCTGGAATATAATTGAATAT
TACAATTGAGAATAAAATAGATTATCCAGATTATTTCAGTGAATATAAGTCTAGCTGACTAAGAGGGAAAAATAATTATA
GATACCGTGACATCCCCACACCAACTTCTTGTAACAATGAGATGAGTGAAACTTTAATGAAACAGTGTTATCATCAAAGA
CCTGCCAACCTAAAATTATCTGTTTTGATGAATTGTCATTAAATAAATGAAGACGCCAAAATAAAGATATTTTATACAAA
AACTAAATCCCTTATTCCCTCAGAGAGTTTGTAGGTTTCATTCCAAAAAGCCACAATAAAGTGAATATTGCAATAAAGCA
AGTCACACAAATTTTTTGGTTTCCCAGTGCATATAAAAGTTATGCTTGGGGCTGGGCACGGTGGCTCACGCCTGTAATCC
CAGCTCTTTGGGAGGCCGAGGCAGGCGGATCACAAGGTCNNNNGATCGAGACCATCCTGGCTAACACGGTGAAACCCCGT
CTCTATTGAAAATACAAAAAATTAGTCGGGCGCAGTGGCGGGCGNCTGTAGTCCCAGCTACTGGGGAGGCTGAGGCAGGA
NAATGGTGNCAACCNGGGGGGCGGGAGCTTGCAGTGAGCCGAGATTGCGCCACTGCACTCCAGCCTGGTGACAGANCGAG
ACTGCNTCTCNAAANAAAAANAAANNANAAAAANGNNACCCCNATAGNNGNGTCGTATAAANNCNNATTCTGCNNATNTC
ATTNNCANNNNCGGNCNGCTCNAGCATGCATCTAGAGGGCCNAATTNNNCCTNTANNNAGTCGTATTANATTNACTGGCN
GTNNTTTTANNANNGTNNNNGACNNNGGAAAANCCTGNNN
DNA-12: intergenic with 23 poly T
>DNA-12-M13R_H03.ab1
NNNNNNNNNNNNTNGNNNNNNNNNTNGNNNNNNNANTANCGGCCGCCNGTGTGCTGGAATTCGGCTTTAATACGACTCAN
NNTANNGGNNNNNNTTTTTTTTTTTTTTTTTTTTTTTTGANACAAGAGTNTCCCTCTGTCATCCAGGCTGGAGTGCAGTG
GCGTGATGTTGGCTCACTGCAACCTCTGCCTGCCAGGTTCAAGCAATTCTCCTGCCTCAGCCTTCTGAGTAGCTAGGATT
GCAAGCACATACCACCATACCCGGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTTGGCCAGGATGGTCT
CAATCTCTTGACCTCGGGATCTGCCCGCCTTGGCCTCCCAAAGTGCTGGGATTACACGCNTGAGCCACCATGCATGGCCA
AAAGCTGCTACNTCTAAAGGTGTTTCTTAGAAATAGCAAAGNANTATAGCCAGGAAAAACAATTACAACAGCCACAAACT
CTAN
DNA-13: vector seq.
>DNA-13-M13R_H04.ab1
NNNNNNNNNNNNNNNNNNNNNNNNCTCNNNNNNNCTAGTAACGGCCGCCAGTGTGCTGGAATTCTGCAGATATCCATCAC
ACTGGCGGCCGCTCGAGCATGCATCTAGAGGGCCCAATTCGCCCTATAGTGAGTCGTATTACAATTCACTGGCCGTCGTT
TTACAACGTCGTGACTGGGAAAACCCTGGCGTTACCCAACTTAATCGCCTTGCAGCACATCCCCCTTTCGCCAGCTGGCG
TAATAGCGAAGAGGCCCGCACCGATCGCCCTTCCCAACAGTTGCGCAGCCTGAATGGCGAATGGACGCGCCCTGTAGCGG
CGCATTAAGCGCGGCGGGTGTGGTGGTTACGCGCAGCGTGACCGCTACACTTGCCAGCGCCCTAGCGCCCGCTCCTTTCG
CTTTCTTCCCTTCCTTTCTCGCCACGTTCGCCGGCTTTCCCCGTCAAGCTCTAAATCGGGGGCTCCCTTTAGGGTTCCGA
TTTAGTGCTTTACGGCACCTCGACCCCAAAAAACTTGATTAGGGTGATGGTTCACGTAGTGGGCCATCGCCCTGATAGAC
GGTTTTTCGCCCTTTGACGTTGGAGTCCACGTTCTTTAATAGTGGACTCTTGTTCCAAACTGGAACAACACTCAACCCTA
TCTCGGTCTATTCTTTTGATTTATAAGGGATTTTGCCGATTTCGGCCNNTTGGTTAAAAAATGAGCTGATTTAACAAAAA
TTTAACGCGAATTTTAACAAAATTCAGGGCGCAAGGGCTGCTAAAGGAAGCGGAACACGTAGAAAGCCAGTCCGCAGAAA
CGGTGCTGACCCCGGATGAATGTCAGCTACTGGGCTATCTGGACAAGGGAAAACGCAAGCGCAAAGAGAAAGCANGTAGC
TTGCAGTGGGCTTACATGGCGATAGCTAGACTGGGCNGGTTTTATGGACAGCAAGCGAAACCGGAATTGCCAGCTGGGGC
GCCCTCTGNTAAGGTGGGAAGCCCTGCAAAGTAAACTGGAATNGCTTCTTGCCGCCAAGGATCTGATGGCGCANGGGATC
AAGAANCTGATCAANNANANNGNATGANGNATCGTTTCGCATGAATGAANAANAATGGAATTGCNCNCAGGNTNNNCNGN
N
DNA-14: intergenic region with 16 poly T/G
>DNA-14-M13R_H05.ab1
NNNNNNNNNNNNNNNGNNNNNNNNNNNNNNNNNTCCACTAGTAACGGCCGCNAGTGTGCTGGAATTCGGCTTTAATACGA
CTCACTATNGGGGNNTCCNTTTTTTTTNTTTTTTTTTTTTTTGAGACAGAGTCTCGCTCTGTCCCCAAGTTGGAGTGNNN
TGGCCCGN
DNA-15: intergenic region
>DNA-15-M13R_H06.ab1
NNNNNNNNNNNNNNNNACNAGNNNGGANCCACTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTCNCN
NNANNGNNNNGCNTTTTTTTTTTTTTTTTTTTTTTTCTCNGCNANNACCNNNAAATATCATGGTCTCTGGCAAGATGTCC
AAAATCTGATTCAGGTCTTCCGGTCAGTCGTAGCCAGCTATCA

Latest revision as of 21:39, 17 May 2011

Sequence result[edit]

Continue with lab note on 5.16.11

RNA sample Hues54[edit]

  • 15 colonies directly for TempliPhi, roughly ~500ng/ul in 10ul PCR, 3ul sending for sequencing (M13R provided by Genewiz)
  • No priming: 3
  • mRNA: 11
  • Potential non-coding region: 1


RNA-1: poor quality; first 60bp match to intergenic region with 88% >RNA-1-M13R_F01.ab1 NNNNNNANNNTGNNNNNNGCTCGGATCCNCTAGTAACGGCCGCCNGTGTGCTGGAATTCGGCTTTAATACGACTCACNNN NGGNGTATGCTTTTTTTTTTTTTTTTTTTTTTTTTCCNCNGGAANAANTGCACCTGTGTCGCCNTCCCACAGGGGAACTC GGGAGACAAAGGCGCTTTGNCNCNTCTGGGGGANCCTATCAGGACCAATTCCCATGGCGAATACCATGATATCGTCCGTN ACTGGGGGGANANTGACNTGGNTCCNAANACTGNGGNTCGGCCCGATNTTTANAAAAAAACNAACGCTAAANAAAATTGA CAATTCCAAATTAACCGGTTCCCCGTAGANCTTTCGGGGGNGGGGANCNGGGGANNNNNNNGGNCTTTCCNNCNNCCANA ANAAAAAAGAAAGGGACGGGCCGGGGAAAGGCCGGNGAAACAGGCNATAGNNCCTAGGACANTGNNNATGATNAAGACCG ACTAATGGGGGCTGCGGNCCCGTGTGTANGNGTCAGGCTGTTTCTTTTGGNANGAAGAGGGGTGGTCTTTCATANAATTC GGTGGGGGGTGGGCTCGGAGAGGGTCTACTTTGTGGAGAGNATGANGGCCAANNNANNCCNAAAGCCNAGCACNTCGGCG AAGATCAGAATCCGANNTACCNNTN

RNA-2: "poor quality"; spliced form of RPL35, 98.1% >RNA-2-M13R_F02.ab1 NNNNNNNNNNNNNNNNNNNNNCTCGGANCCACTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTCACT ATAGGGGTATCCTTTTTTTTTTTTTTTTTTTTTTTTGGAGCTGCTGAAACAGCTGGACGACCTGAAGGTGGAGCTGTCCN NNCTGCGCGTCGCCAAAGTGACAGGGGGNGCGGCCTCCAAGCTCTCTAAGATCCGAGTCGTCCGGAAATCCATTGCCCGT GTTCTCACAGTTATTAACCAGACTCAGAAAGAAAACCTCAGGAAATTCTACAAGGGCAAGTAGTACAAGCCCCTGGACCT GCGGCCTAAGAAGAAACGTGCCATGCNCCGCCGGCTCAATAANCACGANGANAACCTGAAAACCAAGAAGCAGCAGCGGA AGGAGCGGCTGTACCCGCTGCGGAAATACCCGGTCAAGGNCTGAGGGGCGCATTGTCAATAAAGCACAGCTGGNTGAGAA A

RNA-3: "poor quality; spliced form of BQBP1, 98.4% >RNA-3-M13R_F03.ab1 NNNNNNNNNNNNNNNNNNNNNNCTNNNNATCCNCTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTCA CTNNNGGGGGANCCTTTTTTTTTTTTTTTTTTTTTTTTTCCCNNGANANGNTCTGNCAGGGATCGAGAGCGTGGNTATGA CAAGGTAGACAGANAGAGAGAGCGANNGNNNNAACGGGATCGGGACCGCGGGTATGANAAGGCAGACCGGGAANAGGGCA AAGAAGGGCGCCCCCATCGCCGGGAGGAGCNGNCTCCCTATCCCAAGAGCNAGAAGGCAGTAAGCCGAAAGGATGAAGAG TTANACCCCNTGGACCCTAGCTCATACNCNNACGCCCCCCGGGGCNGTNGNCAACAGGANTCCCCAAGNGGAATGAGGCN AAAAN

RNA-4: PQ; MTF1, 98.6% >RNA-4-M13R_F04.ab1 NNNNNNNNNNNNNNNNNNNNNTCGGATCCNCTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTCACTA NAGGGGNNNCCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTAAAGCCGACAAGCAGAGACTCCTTCAGACCCTCAAAC AGAAACATTAAGTGCCATGGATGTGTNAGAGTTTCTNTCCCTCCAGAGCCTGGACACCCCGTCCAATCTGATTCCCATTG AAGCACTACTGCAGGGGGAGGAGGAGATGGGCCTCACCAGCAGCTTCTCCAAGTNAAGGGCCCATGTGTGCTCCCCTCTG GGAAAAGCGGGTGAGCAGGAGGCATGAGGTACAATGCCTGCCATCATGGGTCAAAAATTTGAAGGATGAAAAAATCTACT GTTTGAAATCCTCACCTTTTAGACGTATTTTTTTTATTCAN

RNA-5: PQ; SNX9, 99.5% >RNA-5-M13R_F05.ab1 NNNNNNNNNNNNNNNNNCNNANNNNNNNNNCACNANTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTCAC TATANNGNGNGNNTTTTTTTTTTTTTTTTTTTTTTTAACAGGNNCNNGNNACACCGTCAGCTCGAACTCAACACTGGCAG CCACCGTCTCACCCCTGCGGAGGAGCGCTCCCGTCTCCCACAGGTGCCTTACCGCGTTCCCTCCCGCTGCTTTCATTTTT CTGACCTAATAATTACGGGAAANGGAAAGTCTGGGCCANCANCNATAAAATGACACCAAAAATAAGTANANGANATCGAA T

RNA-6: no priming

RNA-7:PQ; CR594125, 94.6% >RNA-7-M13R_F07.ab1 NNNNNNNNNNNNTGNNNNNAGCTCGNATNNNNTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTCACT ANNGGGGNNNCCNTTTTTTTTTTTTTTTTTTTTTTTTTTGCTTCCCCGTGGTTTAATATGAACAGAGTTGAATATGACAT TGTCTGACAAAAGAATGAACAATTTGCTGAATAAAAGCCCCAAGTCAGGATATATACACAGAAGAAATGGAGCCTCAGAG TCTCAGCACTTGTGCNCAATGAAAGGAGAAATCTTTAAAAAAAAAAATCTGTAACAGAGGATAAAAATCAAAAGGCAGCA AGGACACCGACACTGGNGAGGTGGGAAAGGGGCTNNTCANCTACCAGCATGGGCTCNNCNGCTAGAGAGCTAACCNATNT CAAGGATTTTCAACNCTGAGGTGGGTTCCANNTCCCCTGNN

RNA-8: spliced NUCKS1, 99.7% >RNA-8-M13R_F08.ab1 NNNNNNNNNNNNNNNNNNNNNNTCGGNNCCNCTAGTNNCGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTCACT ATAGGGGTATCCTTTTTTTTTTTTTTTTTTTTTTTTCGAACTGCCATAGTCACTATCGTCATCATCTTCCATTAGGAAAT CTTCATCGCTGCCGGAATTCTCCTGGAATGGTGCCTCATCCTCCTCTTCTTGTTCTTCCTCACTGCCCACATCTTCCATG AGCATCTCTCTCTGTTTAGAAGCTGCTTTCGATGCCGCCTGCCGTTGTTGGCGCACATTTTTATGATCTTCTTTTTCATC TTCACTATCCTCTGCTGAGTGAGAATCATCCTTCTTGGTCTTCACATCTTTGTCTTCTGAGTCCTCACTATCTTCCTGTG AATTCTTTCCAGATCGCCTCTTATTTTTAGCTTCTCGGGGAGATGATCGAATTTTCTTAGTGGGAGGGCCCGAATCTCTT CCATAATCTTCATCTGCNTCATCAGATTCCTGAAACTGTGAGTAATCAACAACCTTCCTATTTCTGACAGGCCGCGACAT GTTCGCTGTCGAAACAGGACCGAGTCGAGAAGCCAAAGACCAGGACCCCCCCTACCCCGCGCGCTCGGCGCCCCACCCAA AANNNANNNAAANANAAAAGGGATACCCCTATNNNNNNTCGTATTNAAGCCNNNNNNNNGCAAGATATCCATCACACTGG NCGGCCGCTCGAGCATGCATCTAGAGGGNCCCAATTTCNCCCCTAT

RNA-9: no priming

RNA-10: spliced EST, 99.0% >RNA-10-M13R_F10.ab1 NNNNNNNNNNNNGNNNNNNNNNNNNCNNNNNNNCTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTCA CTATNGGGGTATCCTTTTTTTTTTTTTTTTTTTTTTTTTCTTTTCCTAGCTCATCCTGGCTCAAAAAGCACCCCCACTGA GCACCTTGCGACCCCCACTCCTGCCCGCCAGAGAACAAACCCCCTTTGACTGTAATTTTCCTTTACCTACCCAAATCCTA TAAAACAGCTCCACCCCTATCTCCCTTCACTGACTCTCTTTTCGGACTCGGCCCCCCTGCACCCAGGTGAAATAAACAGC CATGTTGCTCACACAAAGCCTGTTTGGTGATCTCTTCACATGGATGCACATGAAATTTGGTGCTGTGACTCAAATCGGGG GACCTCCCTTGGGAGATCAATCCCCTGTACTCCTGTTCTTTGCTCCATGACAAAGATCCACCTATGACCTCAGGTCCTCA GACCAACCANCCCAAGGAACATCTCACCGATTGTAAATCAGGTGAAGTATGAAGTTATGAGGAGAAAGGAACAGAGGACA ACCACACAGAGAAAGTGTAGCTTTATCTACTAGAGCTGAAGACATTCAAATTTATGATCCAACAATTCTACTCTGAAGTG CAGTGGTGNATATACTGCAACAATGTGTACTCATGTGCCCTGAGAACTANNNNTGAAAAAAACCTTACAGCAATATGCNT AATANNNNNNAAAAAAAAAAAAAAAAAAAANGGGATNCCCCCTATNGNNGNNTCNNNNTTAAAGCCAAATTCTGGCNGAN ANTNCNTCANN

RNA-11: PQ, CMTM3, 97.5% >RNA-11-M13R_F11.ab1 NNNNNNNNNNNNNNNNNNNANCNNNGATCCACTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTATACGACTCACTAT AGGGGTANCCTTTTTTTTTTTTTTTTTTTTTTTTTGTCAGTCTGGCTTAATTCATTATGGCTTTTTTTCAGGGTAAGAAA TTCACACCCAAGAGAATAAGGCTACAAATGCTCCAAACATGGGTCCAGAACTCCGGCTCTTTTGTGAGGCCTAGAGTCAC AAAAAATGCCATCTGTTAAAAAGCTGCCTTTGCATAAAAAAATATAAAAAGTTACAAAATTCCATCAAAGACAGATACAC AGTATAAATCGTTAGGTGAACACAGAAAGCTGGTCTCATCTCCTGCAGTGGCCCATAAACCTGCCCTGANGTCTGGAAAT TCACTGTCCTGAGGGTCCAGGAACTCCTGCCTGCTGGCTGGGCTCTAGGAAGAAGGAGGGTTTGGCTGGGCCTGCCCAGC TCCCCATGACACTGTCACTGTGATGCCACTGTTGTACCCTCTGTCTTCTGGACCAGTCAGTCTATGAGCTCTTCTTTGAA ACAGTCGTAGACCCAGAATGGTCATCTCACCCCCAGAANACATGGTTTCCAAGGGTGGGAGGTGTTAGTTATGGGTGCCG AGCCCCACTTCCTGGGCGACAAGGCAAAAGGTCAATTTCCCCCTGCTTCAAGAATGAAGAGGGAACTGAAAAAAAAAAAA AAAAAAAAAAAAAAGGATACCCCTAANANTGAGTCNTATTAAANCCGAATTCTGCAANAATCCATNACNANTGGNGGCNG CTCGAANNNGCATTTAGAGGGNCCCNATNTCGCCCCTATANTGAGGTCNNAATANNAANTCACTGGCCCNTCNTTTTAAC AACNNTCNNTGNANNGGGAAAAACCCTGGCNGTTANCCCAATNTTNANTCGCCCTTGNAAGCANNNNCCCCCCTTTTNCC AGNCTGGGNGTAATAACCGAAAAGNNCCCNCANCNNNNCGCCCNTTCCCNANAGTTGCGCNACCNGANANNGNNAATGGG NCNGCNCCCNGNNNNCGGCGNNNTTATANNNNNGNNNNNNNNGN

RNA-12: PQ, HN1, 98.9% >RNA-12-M13R_F12.ab1 NNNNNNNNNNNNNNGNNNNNNNNNNTCGGANCCACTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTC ACTNNNAGGNGATNNTTTTTTTTTTTTTTTTTTTTTTTTTTTACNNGTCCTAAACTACTAAACCTGCATTAAAAATTTCG GTTGGGGCGACCTCGGANCAAAACCCAACCTCCGANCAGTACNTGCTAAGACTTCACCAGTCAAAGCGAACTACTATACT CAATTGATCCAATAACTTGNCCAACGGAACAAGTTACCCTAGGGATAACAGCGCAATTCTATTCTAGAGTCCATATCAAC AATAGGGTTTACGACCTCNATGTTGGATCAGGACATCCCAATGGTGCAGCCGCTATTAAAGGTTCGTTTGTTCAACGATT AAAGTCCTACGTGATCTGAGTTCAGACCGGAGNAATCCNNGTCGGTTTNTATCTACTTCAAATTCCTCCCTGTACGAAAG GACAAGAGAAATAAGGNCTACTTCACATAGNGCCTTCCCCCGTAAATGANATCATCTCAACTTAGTATNNTACCCACACC C

RNA-13: no priming

RNA-14: PQ, spliced TVC (truncated?) 87.6% >RNA-14-M13R_G02.ab1 NNNNNNNNNNNNNNNNNNNNNNTCGGNNNNNCTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTCACT ATAGGGGTATCCTTTTTTTTTTTTTTTTTTTTTTTTTTTTGAAAAGTACTGTGCTTTTATTAAAAAACAAAACAAAACAA AAAAAATACAATCAGGTACTGTCCAGACANGTTTGGGAAGGGAAAATCTCTTTTAAAGTCCTCAGTTTTCATCATCACCA TCACCATTATTATATTAATAATATTAATGTCCTTGAAATTTAAACAATATCACTTTTCTGGCTTCAGTTGTAGGAAATGT ACAAAACATCGAGGGTGGGGGTGGGGCAAGGGGTAACTTCCAATGACACAAGTTTCATCTTTGTGACCTCAACCAATAAC AATTGNACAGCTTTGTGTAAAACACAGCTGGCTCGGAGAATGACCATGTCCCCTGTATGGCCAGCTTGCCCCTCTCCCAT TCCCAGAGCCACCCAAGAGAAGTAAAATTCATGGTGTTGCTGTCACTAGGAGACTTTGCTCAATCGAACAAAAAAGTAGA AACTTGTAGACTGTTGTCTTTGGTGCAAAGGAAGTCGTTGCAGAGGGGCCTACCTCAGTGCCTCAGTGATCCGTGTGGTC TGCTTGGACGCCCATCAAATGCCCAAGGAGAGCTTCNNTGTNNNNNNTGGNTGTGTCGATGCTTTGGNAAAAATCCTTTC TTTTCTCTGGGGCCCCATTCCCTCTCTCACCNAATTATCCCTGGAATTTATGCCCNGCTTACGCCTGCCNTTCNANATTT CGGGAAGTTGCTGGGTNCTCAANTTTCANCTCACAAACTGGANTTGAGTACTCATGGCCCNTTNCAANNGGNAANCNAGT NTAANGCCCCTGACTGTNNATTATNGNNCCATATCTGCCCCATCAGGNNNCNCGATGACANTTCNNNAAAAAAAAAAAAA AAANNANAANAAAAANNGTNACCCCCTANNNNNAGTCTANTTTAAAGCCCNAATTCTCNGCNAAATANNNNTNNNNNNNG CNN

RNA-15: spliced and truncated PCNA, 88.4% >RNA-15-M13R_G03.ab1 NNNNNNNNNNNNNNNNNNNNNNGNNTCGGANCCNCTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTC ACTANNNGGGNTCCTTTTTTTTTTTTTTTTTTTTTTTTACTTTNAAANTTGTTAACTTTATTTAAATTGTACAATATTTC TTAAACTGCATTTAGCGTCAAGATCNNNNNNGAGAATCACCAGTATTTGTAAAGCAGAAACATTCATGTTAACAAAACTA GTTTTTACTTTGGAGCTTATTCTTTAAGCAAATTATGGAGAATGGAGAGAAAAGAAAGTAGGTTATTTACAGAAGATATC TACATATTTTATTTTAATATTTAAGAATACTCAGGTACAAACTTGGTGACAGAAAAGACCTCAGGACACGCTGGCATCTC AGGAGCAATCTTCAAAGGTTTAGTTTTCTCAATTTCTAGCAATGCCTAAGATGCTTCCTCATCTTCAATCTTGGGAGCCA AATAATACTTTAAGTGTCCCATGTCAGCAATTTTATACTCTACAACAAGGGGCACATCTGCAGACATACTGAGTGTTACT GTTGNAGACAGTGGAGTGGCTTTTGTGAAAAAGTTCAGGTACCTCANAGCAAACGTTAGGTGAACAGGCTCATTCATCTC TATGGTTACCGCCTCCTCTTCCTTATCCACATTGCTTGTTTGTGACAACTNCCATGTTCCCGTTGCCAAGCTCTCCACTT GAAGAAAACTTAAAAAAAAAAAAAAAAAAAAAAGGATANCCCTANANNGAGTCNNATTTAAAGCCNAATTCTGCANATNN


DNA samples[edit]

  • 15 colonies directly for TempliPhi, roughly ~500ng/ul in 10ul PCR, 3ul sending for sequencing (M13R provided by Genewiz)
  • No priming: 1
  • Vector seq: 3
  • Non-coding region with poly A/T: 10

DNA-1: vector seq. no A tail >DNA-1-M13R_G04.ab1 NNNNNNNNNNNNNNNNNNNNNNCTCGGATNNNCTAGTAACGGCCGCCAGTGTGCTGGAATTCTGCAGATATCCATCACAC TGNCNNCCGNNCGAGCATGCATCTAGAGGGCCCAATTCGCCCTATAGTGAGTCGTATTACAATTCACTGGCCGTCGTTTT ACAACGTCGTGACTGGGAAAACCCTGGCGTTACCCAACTTAATCGCCTTGCAGCACATCCCCCTTTCGCCAGCTGGCGTA ATAGCGAAGAGGCCCGCACCGATCGCCCTTCCCAACAGTTGCGCAGCCTGAATGGCGAATGGACGCGCCCTGTAGCGGCG CATTAAGCGCGGCGGGTGTGGTGGTTACGCGCAGCGTGACCGCTACACTTGCCAGCGCCCTAGCGCCCGCTCCTTTCGCT TTCTTCCCTTCCTTTCTCGCCACGTTCGCCGGCTTTCCCCGTCAAGCTCTAAATCGGGGGCTCCCTTTAGGGTTCCGATT TAGTGCTTTACGGCACCTCGACCCCAAAAAACTTGATTAGGGTGATGGTTCACGTAGTGGGCCATCGCCCTGATAGACGG TTTTTCGCCCTTTGACGTTGGAGTCCACGTTCTTTAATAGTGGACTCTTGTTCCAAACTGGAACAACACTCAACCCTATC TCGGTCTATTCTTTTGATTTATAAGGGATTTTGCCGATTTCGGCCTATTGGTTAAANAATGAGCTGATTTAACAAAAATT TAACGCGAATTTTAACAAAATTCAGGGCGCAAGGGCTGCTAAAGGAAGCGGAACACGTAGAAAGCCAGTCCGCAGAAACG GTGCTGACCCCGGATGAATGTCAGCTACTGGGCTATCTGGACAAGGGAAAACGCAAGCGCAAAGAGAAAGCANGTAGCTT GCAGTGGGCTTACATGGCGATAGCTAGACTGGGCGGTTTTATGGACAGCAAGCGAANCGGAATTGCCAGCTGGGGCGCCC TCTGGTAAGGTTGGGAAGCCCTGCANNACNGNNGNTCTGCNCAGNNNNGNNGNNNNNNNNNNNGNNGGNNNGGGGNANNA NNNNTCTNNAANAANNANNNGNGATGNNNGNTNNNTTTCNNATNNANNGAAANAANNNNGATTGCACCGCNGGTNNCNCC NNNNCNNNNNNNNNNNNNNNNNNNNNNNNNNTNNNNACNGGGNNNNNN

DNA-2: vector; no A tail >DNA-2-M13R_G05.ab1 NNNNNNNNNNNNNNNNNNNNAGCTCGGATCCNCTAGTAACGGCCGCCAGTGTGCTGGAATTCTGCAGATATCCATCACAC TGGCGGCCGCTCGAGCATGCATCTAGAGGGCCCAATTCGCCCTATAGTGAGTCGTATTACAATTCACTGGCCGTCGTTTT ACAACGTCGTGACTGGGAAAACCCTGGCGTTACCCAACTTAATCGCCTTGCAGCACATCCCCCTTTCGCCAGCTGGCGTA ATAGCGAAGAGGCCCGCACCGATCGCCCTTCCCAACAGTTGCGCAGCCTGAATGGCGAATGGACGCGCCCTGTAGCGGCG CATTAAGCGCGGCGGGTGTGGTGGTTACGCGCAGCGTGACCGCTACACTTGCCAGCGCCCTAGCGCCCGCTCCTTTCGCT TTCTTCCCTTCCTTTCTCGCCACGTTCGCCGGCTTTCCCCGTCAAGCTCTAAATCGGGGGCTCCCTTTAGGGTTCCGATT TAGTGCTTTACGGCACCTCGACCCCAAAAAACTTGATTAGGGTGATGGTTCACGTAGTGGGCCATCGCCCTGATAGACGG TTTTTCGCCCTTTGACGTTGGAGTCCACGTTCTTTAATAGTGGACTCTTGTTCCAAACTGGAACAACACTCAACCCTATC TCGGTCTATTCTTTTGATTTATAAGGGATTTTGCCGATTTCGGCCTATTGGTTNNAAAATGAGCTGATTTAACAAAAATT TAACGCGAATTTTAACAAAATTCAGGGCGCAAGGGCTGCTAAAGGAAGCGGAACACGTAGAAAGCCAGTCCGCAGAAACG GTGCTGACCCCGGATGAATGTCAGCTACTGGGCTATCTGGACAAGGGAAAACGCAAGCGCAAAGAGAAAGCNNTAGCTTG CAGTGGGCTTACATGGCGATAGCTAGACTGGCGGTTTTATGGACAGCAAGCGAACCGGAATTGCCAGCTGGGGCGCCCTC TGGTAAGGTTGGGAAGCCCTGCAAAGTAAACTGGATGGCTTTCTTGCNGCCNGGATCTGATGGCGCAGGGGATCANATCT GATCAGAGACAGGATGANGNNCGTTTCCNCATGATTGAACAAGAATGGATTGCNNNNANGGTNNNNCNNNNNNTTNGGNN GNNANNGCTATNNNNNNTANNNNNN

DNA-3: Intergenic region with 20bp poly A >DNA-3-M13R_G06.ab1 NNNNNNNNNNNNNNNNCCNAGCTCGGATCCACTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTCACT ATAGGGGTATCCTTTTTTTTTTTTTTTTTTTTTTTTTTCTTGAATTGTACTCCCATAATTCCCACATGTTGTGGGAGAGA GCTGGTGGGAGATAATTTGAATCATGGGGGTGGTTTCCCCCATACAGTTCTCATGGTAGTGAATAAATCTCATGAGATTG CATGGTTTTATCAGGGGTTTCTGCTTTTGTATCATCCTCGTTTTCTCTTGCCACTGCCATGTAAGAAGTGCCTTTCGGCC GGGTGCAGTAGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGTGGATCACAAGGTCAGGAGATCGATACC CTCCTGGCTAACACAGTGAGACCCCGTCTCTACTAAAAATACAAAAAATTAGCCAGGCATGGTGGTGGGCGCCTGTAGTC CCAGCTACTCAGGAGGCTGAGGCAGGAGAATGGCGTGAACCCCAGAGGCGGAGCTTGCAGTGAGCCGAGATCTCGCCACG GCACTCCAGCCTGGGTGACAGAGCGAGACTCTGTCTCAAAAAAAAAAAAAAAAAAAAAAAAGGATACCCCTNATAGTGAG TCNNNTTAAAGCCGAATTCTGCANATATCCATTCACACTGGNGGCCGCTNGAGNNTNCCNTNTAAAAGGGCCCAATTCNC CCTANANTGAGTNCGTATTAACAATTCACTGGCCGTCGTTTTACAACGNCGTGACTGGGAAAACCCTGGCGTTTCCCCAN CTTAATCCGCCTNGCANCACATCCCCCTTTCGCCAGCTGGGGNAATANCGAAANANGCCCGCACCNNTNNGCCCTTCCCA ACAGTTGCNCANCCTGAATGGNAAANGGANNGCNNCCCTTGTAGCGNNN

DNA-4: intronic region with 40bp poly T >DNA-4-M13R_G07.ab1 NNNNNNNNNNNNNNNNNNNNNNNAANCTNGNNTCCNCTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGAC TCACTATAGGGGTATCCTTTTTTTTTTTTTTTTTTTTTTTTATCAGAAGCAAAACCACAAAATCCTCACTCTCAAGGAAT GCACAGGCTATTGCAGAAGCCAGGAAGAAATCTATATTATTACAGAGTACTTATCTCAGAGGGTTGTTATAAATATTAAA TGAGAGTTATTTTATGGAATACATCTGATCTAGTGCCTGGCACATAAAAAGTGTTATATAAGTATCAGCTATTGTAATTA CAGAGTGACAAATAAAAGGTCGGAGTGCTATGGTTATGGAATAGAATGATGAGAAAGGAAACTTCCAGGAGCTTAGGTGT ACTTTAAGTGCAGGTATCAAATATTGATGCTTCATTATGGCAAGGGGGCTAACAAGTTGCCAGTGTGTCACAAGTCAACA TGCAGGCAAAGATGGAAACATTTTCCAGATCTAAAATGTAGTTAAATATGTTGTACTTTGGAATTGTATATGAACTTTAT TCCCCTTTCAGAATTACAAATCTCTTAGAAAGCCATTTTATTTCTTTCTGAAACTGAGTTATGATCATCTACTATTTAGC ACAGAAATAAAAGGGAGGGATAAAATCTACCAACCCAGCAAAGACACATCTTGCTTNNNNNNNTCTTGAGGAAGGCCTTC AGCAGAATGGAAAGATGACTCTCTGTTGATTACTCTATGTTGAGAACCTTAAGATTCAGATGGTATAGGATTCCAGCTAG GCAGTTGTGAACTGTCCATTTGTCTTATGCAAGAAAGTCTCNTTCAGCTTTCTGAACTTTTCTGTATTTCACATACTCAT TTCTAGTTCATGCTCATGTTCAAAGCTTGCTAGAATAGCATGAAAAAGTTTCCAAAGTAAACTCAGCATACTCAAANNTT TTTCTAGGNTTATTATCTNNNNNNGGAAAGGTGAAAAGANAGCTTGCNTTTANTTTTAAACNCTTACNNNNNNNNAAAAT ANNNNNCNCTGNCANNANNNNNAAANTGACTGGNNNGNGNNCNNNCNNNANCCAGNNNTTGGNGCNANGNNGGCNNNNNN N

DNA-5: intronic region with 30 poly A >DNA-5-M13R_G08.ab1 NNNNNNNNNNNNTNGNNNNNNNNNNCGGATNNNCTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTCA CTATANGGGTATCCTTTTTTTTTTTTTTTTTTTTTTTTACTCTTTGAGATAATACAACTGGCACAGAAAAATAAGGAGGA ACAAGAGAAAGAAAATTCCTTCAAAAGAAAGAATATATACAAAGACTCTGAGGTGGAAGAGATTGGCCTTTTCAAGAAAT TAAAAGAAAATCCACGTGACTAAAGCATAATGAGCAAAGGAAAGCCCAGTCAACAGGGGCAGATTATATAAGGTCTTGGA TAAATAGTGTCTATTTCATTCAAAGTATAATGGAAAGACACTGGAGGGTTAAAGCAAGGAAGTAAAATCATCGAATTTAC TTTTTTCTTTTTTAATTCATGAAGCTATACTGTGGAGAATGGATTATAGACGGGTTAAAGAAAAACAATGAGGCCGGGCA CAGTGGCTCATACCTATAATCCCAGCACTTTGGGAGGCCAAGGCAGGCAGATCACGAGGTCAGGAGACCAAGACCATCCT GGCCAACATGGTGAAACCCCGTCTGTACTAAAAATACAAAAATTAGCTGGGCATGGTGGCGGGTGCCTGTGATCCCAGCT ACTCAGAAGGCTGAGGCAGGAGAATCNTCTGAACCAGGGAGTCGGANATTGCAGTAAGCCGAGATCATGCCACTGCACTC CAGCTTTGGCAACAGAGTGAGACTCCCATCTCNAAAAAAAAAAAAAAAAANAAAAAAAANAAAAGGATACCCCTNTAGNG AGTCGTATTNAAGCCGAAATTCTGCANATATTCCATCACACTGGGNGG

DNA-6: interginc region with 30 poly A >DNA-6-M13R_G09.ab1 NNNNNNNNNNNNNNNNNNNNAGCTCGNNNCCNCTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTCAC TATAGGGGTATCCTTTTTTTTTTTTTTTTTTTTTTTTTTTCAAAACTAAAATGAAATATTATCTCCCCCCAGTTAAAATG GCTTTTATCCAAAAAACAGGCAATAACGAACACTAGAGAGGATGTGAAGAAAAGGGAACCCTCGTACACTGTTGTTGGGA ATGTAAATTAAGACAACCACTATAGAGAACAGTTTGGAGGTTCCTCAAAAAACTAAAAATAGGGGTCCAGCACGGTGGCT CACGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGCGGGCGGCTCACAAAGTTAGGAGATCGAAACCATCCTGGTTGACA CAGTGAAACCCCGTCTCTACCAAAAACACAAAAAATTAGCTGGGCATGGTGGCAGGTCCCTGTAGTCCCAGCGACTCAGG AGGCTGAGGCAGGAGAATGGGGTGGACCCGGGAGGCAGAGCTTGCAGTAAGCTGAGATCACGCCACTGCACTCCAGCCTA GGCGACAGAGCGAGACTTGGTCTCAAAAAAAAAAAAAAAAAAAAAAAAGGATACCCCTATAGTGAGTCGNATTAAAGCCN AATTCTGNNAANATCCNTNACACTGGCGGCCGCTCGAGCATGCATCAAAAGGNNNCNAANTCGCCCTATNNNGANTCGNA TTNCANNTCACTGGCCGTCGTTTTACAACGTCNNACTGGNAAAACCCCTGGCGTTACCNAACTTAANNNNCTTGCAGCAC ATNCCCCCTTTCCNCCNGNTGGCGTTATANCGNAGAGGCCCNGCACCGGATCNCCCNTTCCCAANANTTNGCNNCNACCC TG

DNA-7: interginc with 15 poly T >DNA-7-M13R_G10.ab1 NNNNNNNNNNNNNNNNNNNNNNNNNTCNNNNCCNNTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTC ACNANNGGGGTATCCTTTTTTTTTTTTTTTTTTTTTTTTTGCTTTAAGTATATTTTAAATATCCTAAACAAAATATTAGC AAAGTGAATCTAACAAACATACTTAACATTTTGTTGAGAATATTCTTATAGAAAGAATAATACACCACAAACAAGTGGGA TTTATTTCAGGGATGCAAGGCTGGTTCAACATTTAAAAATCAGTTAATGTTATCCATCACACCAACAAGCTAAAAAGGAA CAGTCATATATTCATATTAATAAATGAAGAAAAAGCAGTTGAAAAAATTCAACATTCAAGATTTAAAAAACAACAAATTA GGAGAGGACTTCCTCGACTTGTTAAGGAACATCTATAAAAAACCTATAGCTAACATCATATATAATGGTGAGAAACACAA ATCTCTTACATTAAGATCAGGGAAAAAGCAAGACTGTTCTCTGTCCCCACAGCTTTTCAACATTATATAGGAAGTTTAAG CTAATGCAATGAAAAAGAAAAGAAAAGGTAGATAAATTGGAAAAGGAGAAATTAAACTGTCTTTGTTTTCAGGTGACATA TTTACCTATGGAGAATATCCAAAGAAGCTGACGAGAAAAAAAACCTGAAACCCATAAGCAATTAGGTTTCAGGATAAACG GTTAATGTACAAAAGACAATTACTTTTTTATGCACCATCAATGGAAAATGAGACTTGAATTGTAAAATACAGTATCACTC ATATTAGCACCCAAAAATGAATAGAAANTAAATCAAGCAACATATGTACNAGATCTATATGAGAAAAACTATAAAAATCT GANCAAAAATATATCTAAGAAGAANCTAAATAAANNAAGAGAGTCCATGNTTCATGGANNAGAAANGACTAAANATNGTC AACTTGTCAGTTTCCNTNCCNNACTTGATCTACAGACNTNCACAAAAATCCTNCAGTCNAAAACCNNNCANCAAANTNTT NNNNNNNNNNNNNCCNNNNNAANNTGGATNCCNNNANNNNNATNNNNNNNAANANNCNGNANNNGCTNATNCNANACTNA AANNNNNGNAAATNNNNNNNTNNNN

DNA-8: intronic region, 16 poly A >DNA-8-M13R_G11.ab1 NNNNNNNNNNNNNNNNNNNNGCTCGGATCCACTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTCACT ATAGGGGTATCCTTTTTTTTTTTTTTTTTTTTTTTTCGGCATTTCGGAGGCCTAGGTGGGTGGATCACTTGAGGTCAGGA GTTCAAGACCAGTCTGGCCAACATGGTGAAACCCCATCNCNACTAAAAATACAAAAATTAGCAGGGCGTGGTGGCAGGCC CTTGTAATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCCCTTGAACCTGGGAGGCGGAGGTTGCAGTAAGCTGAGAT TGCACCACTGAACTCCAGCCTGGCTGATAAAACAAGACTTCAACTAAAAAAAAAAAAAAAAAAANAAAAGGATACCCCAA TA

DNA-9: intronic with 25 poly T >DNA-9-M13R_G12.ab1 NNNNNNNNNNNNNNNNNNNNNNCNNGNATCCACTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTCAC TATAGGGGTATCCTTTTTTTTTTTTTTTTTTTTTTTTTTGAGACAGTCTNGGTCTGTTGCCCAGGCTGGAGCACANCGGC NTGATCCTGGCTCACTGCAGCCTCCACCTCTGAGGTTCAGCAATTCTCCTGCTTNNGCTTGAGTAGCTGGTACTACAGGN ACATGCCACCATGCCCAGCTAATTTTTGTATTTTTGGTAAAGACAGGGTTTCGCCATGTTGGCCAGTCTGGTCTTGAANN CCTGACTTCAAGTGATCCACCAGCCTCAGCCTCCCAAAGTGG

DNA-10: no priming

DNA-11: intergenic with 22 poly A >DNA-11-M13R_H02.ab1 NNNNNNNNNNNNNNNNNNNNNNNGNNTCGNNNNNCACTAGTAACGGCCCGCNNAGTGTGNTGGAATTCGGCTTTAATACG ACTCACTNNNGNTNNTNTCCTTTTTTTTTTTTTTTTTTTTTTTTTATCTTCTGTTATAGTCACAATAACATGTTATGCCT TTGCTTGTATGTTCATCTCTCTCTGTGTACTAGCAGTCCATCCTAATAATGATCTTATCATCTGGAATATAATTGAATAT TACAATTGAGAATAAAATAGATTATCCAGATTATTTCAGTGAATATAAGTCTAGCTGACTAAGAGGGAAAAATAATTATA GATACCGTGACATCCCCACACCAACTTCTTGTAACAATGAGATGAGTGAAACTTTAATGAAACAGTGTTATCATCAAAGA CCTGCCAACCTAAAATTATCTGTTTTGATGAATTGTCATTAAATAAATGAAGACGCCAAAATAAAGATATTTTATACAAA AACTAAATCCCTTATTCCCTCAGAGAGTTTGTAGGTTTCATTCCAAAAAGCCACAATAAAGTGAATATTGCAATAAAGCA AGTCACACAAATTTTTTGGTTTCCCAGTGCATATAAAAGTTATGCTTGGGGCTGGGCACGGTGGCTCACGCCTGTAATCC CAGCTCTTTGGGAGGCCGAGGCAGGCGGATCACAAGGTCNNNNGATCGAGACCATCCTGGCTAACACGGTGAAACCCCGT CTCTATTGAAAATACAAAAAATTAGTCGGGCGCAGTGGCGGGCGNCTGTAGTCCCAGCTACTGGGGAGGCTGAGGCAGGA NAATGGTGNCAACCNGGGGGGCGGGAGCTTGCAGTGAGCCGAGATTGCGCCACTGCACTCCAGCCTGGTGACAGANCGAG ACTGCNTCTCNAAANAAAAANAAANNANAAAAANGNNACCCCNATAGNNGNGTCGTATAAANNCNNATTCTGCNNATNTC ATTNNCANNNNCGGNCNGCTCNAGCATGCATCTAGAGGGCCNAATTNNNCCTNTANNNAGTCGTATTANATTNACTGGCN GTNNTTTTANNANNGTNNNNGACNNNGGAAAANCCTGNNN

DNA-12: intergenic with 23 poly T >DNA-12-M13R_H03.ab1 NNNNNNNNNNNNTNGNNNNNNNNNTNGNNNNNNNANTANCGGCCGCCNGTGTGCTGGAATTCGGCTTTAATACGACTCAN NNTANNGGNNNNNNTTTTTTTTTTTTTTTTTTTTTTTTGANACAAGAGTNTCCCTCTGTCATCCAGGCTGGAGTGCAGTG GCGTGATGTTGGCTCACTGCAACCTCTGCCTGCCAGGTTCAAGCAATTCTCCTGCCTCAGCCTTCTGAGTAGCTAGGATT GCAAGCACATACCACCATACCCGGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTTGGCCAGGATGGTCT CAATCTCTTGACCTCGGGATCTGCCCGCCTTGGCCTCCCAAAGTGCTGGGATTACACGCNTGAGCCACCATGCATGGCCA AAAGCTGCTACNTCTAAAGGTGTTTCTTAGAAATAGCAAAGNANTATAGCCAGGAAAAACAATTACAACAGCCACAAACT CTAN

DNA-13: vector seq. >DNA-13-M13R_H04.ab1 NNNNNNNNNNNNNNNNNNNNNNNNCTCNNNNNNNCTAGTAACGGCCGCCAGTGTGCTGGAATTCTGCAGATATCCATCAC ACTGGCGGCCGCTCGAGCATGCATCTAGAGGGCCCAATTCGCCCTATAGTGAGTCGTATTACAATTCACTGGCCGTCGTT TTACAACGTCGTGACTGGGAAAACCCTGGCGTTACCCAACTTAATCGCCTTGCAGCACATCCCCCTTTCGCCAGCTGGCG TAATAGCGAAGAGGCCCGCACCGATCGCCCTTCCCAACAGTTGCGCAGCCTGAATGGCGAATGGACGCGCCCTGTAGCGG CGCATTAAGCGCGGCGGGTGTGGTGGTTACGCGCAGCGTGACCGCTACACTTGCCAGCGCCCTAGCGCCCGCTCCTTTCG CTTTCTTCCCTTCCTTTCTCGCCACGTTCGCCGGCTTTCCCCGTCAAGCTCTAAATCGGGGGCTCCCTTTAGGGTTCCGA TTTAGTGCTTTACGGCACCTCGACCCCAAAAAACTTGATTAGGGTGATGGTTCACGTAGTGGGCCATCGCCCTGATAGAC GGTTTTTCGCCCTTTGACGTTGGAGTCCACGTTCTTTAATAGTGGACTCTTGTTCCAAACTGGAACAACACTCAACCCTA TCTCGGTCTATTCTTTTGATTTATAAGGGATTTTGCCGATTTCGGCCNNTTGGTTAAAAAATGAGCTGATTTAACAAAAA TTTAACGCGAATTTTAACAAAATTCAGGGCGCAAGGGCTGCTAAAGGAAGCGGAACACGTAGAAAGCCAGTCCGCAGAAA CGGTGCTGACCCCGGATGAATGTCAGCTACTGGGCTATCTGGACAAGGGAAAACGCAAGCGCAAAGAGAAAGCANGTAGC TTGCAGTGGGCTTACATGGCGATAGCTAGACTGGGCNGGTTTTATGGACAGCAAGCGAAACCGGAATTGCCAGCTGGGGC GCCCTCTGNTAAGGTGGGAAGCCCTGCAAAGTAAACTGGAATNGCTTCTTGCCGCCAAGGATCTGATGGCGCANGGGATC AAGAANCTGATCAANNANANNGNATGANGNATCGTTTCGCATGAATGAANAANAATGGAATTGCNCNCAGGNTNNNCNGN N

DNA-14: intergenic region with 16 poly T/G >DNA-14-M13R_H05.ab1 NNNNNNNNNNNNNNNGNNNNNNNNNNNNNNNNNTCCACTAGTAACGGCCGCNAGTGTGCTGGAATTCGGCTTTAATACGA CTCACTATNGGGGNNTCCNTTTTTTTTNTTTTTTTTTTTTTTGAGACAGAGTCTCGCTCTGTCCCCAAGTTGGAGTGNNN TGGCCCGN

DNA-15: intergenic region >DNA-15-M13R_H06.ab1 NNNNNNNNNNNNNNNNACNAGNNNGGANCCACTAGTAACGGCCGCCAGTGTGCTGGAATTCGGCTTTAATACGACTCNCN NNANNGNNNNGCNTTTTTTTTTTTTTTTTTTTTTTTCTCNGCNANNACCNNNAAATATCATGGTCTCTGGCAAGATGTCC AAAATCTGATTCAGGTCTTCCGGTCAGTCGTAGCCAGCTATCA