Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_015121
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 401262
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Found at i:122056 original size:12 final size:12
Alignment explanation
Indices: 122039--122064 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
122029 CGAAATTGCC
122039 TAGAATTACCTA
1 TAGAATTACCTA
122051 TAGAATTACCTA
1 TAGAATTACCTA
122063 TA
1 TA
122065 CTAGATAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
TAGAATTACCTA
Left flanking sequence: Indices 121539 -- 122038
AGAGGAGTTCATTGCTGCCTTTCTTTATCCCGGTTTCTCCCGTCTGGACCTGGCGGAGTGGGATG
GGGCTAGCCCCGCAGAAGAAGAGAAGAGCAGAACCCGCTGTTGCTGTCCACGAAGTAGCAAAGGG
CACCCAAGAATCAACATAAGCCAAATCCGGGTAAGTGGAATCCCTTTATCCTGAATTCGTTCCTG
AAGAAGCGGAAGAGGCAGAAGAATTGGTCGACCCTTTCTTTCATCCCCGCTAGCGCTAGATTAGA
TCATGAAAGAGCGAAAGAGCTGAGCTAATAAGAACCCCTTGCTGCAGTAGCAAAAGACGAAGCGG
AGTCTGCTGCTTCATTTCCATATATAGAGGAGAGGGTTCCAGCTAACGTGTTAGCTAAGCGGTCC
GGCACCGGAAACCGATGACGCGATAGGAGATTGATTCCATTCTAAGCTTAAGTAGGCCCGCAATC
TCAAGAAGAAGGAGGTATGGAGTCGGAATAAGAATCGAAATTGCC
Right flanking sequence: Indices 122065 -- 122564
CTAGATAAGCTTCTTAGGGCTAAGGTATTCGTCCTTGCTGGGTAAAGACCAACCAATAGAAGAAG
GTTAGCAAGCTTGGGTCGAAAGCAAAGCGTGGGAGGCTCTCGAATCAGCATCAGAAAAAGAAGAA
ACCGAAAAAGAACCATTATCCCTTGCGGAAAAACCATAATCAGCCAGCTGTGCACAAAAGCAGAA
GTTCTAAAAGATTGCTCATAATGAACTGAATTCGAAGGACCGGACTGACTTGTCTTATTTGTTCC
GATATAAAGAAAGAGGTCCAGTTCTCCGTAAGCTAGCTCCTCCTGCTCCTTACGTTAGTTCAAAA
TAGCCCGCCCAGTCCCGGAAGGACTTTAACCGTAATTCCCTTTTCTTGCTTTGCATTAGCGATGA
GAGGCTAAATAGCAAAATAGAAAAATAAAGAATCTTAGAATTCCATCAATTCAGTTCGAATCAAT
TCTTTTTTTCGGTAACCTTTACTAAAATGGGGGCTTTTGCCCTTA
Found at i:150749 original size:18 final size:18
Alignment explanation
Indices: 150728--150770 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
150718 CAACCTTGTT
150728 GACTATGACAACAG-TCGC
1 GACTATGA-AACAGATCGC
150746 GACTAT-AAACAGACTCGC
1 GACTATGAAACAGA-TCGC
150764 GACTATG
1 GACTATG
150771 GCAGGGCGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
18 16 0.73
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.19
Consensus pattern (18 bp):
GACTATGAAACAGATCGC
Left flanking sequence: Indices 150228 -- 150727
TACCGTCTAGCCGTTGGTACTCCGCATCTTCACGGAGAATTCAATTTCACCGGGTCCATGTCGGA
GACAGCGGGGCAGTCGTTACACCATTCGTGCAGGTCGCTACTTATGCGACAAGGAATTTCGCTAC
CTTAGGACAGTTAGAGTTACTGCCGCCGTTTACCGGGGCTTCCATTCAAAGCTTATAACACTTCT
CCTTCCGACCTTCCAGCACCGGGCAGGTGTCAGACTCTATACATCGTGTTACCACTTAGCAGAGT
CCTGTGTTTTTAATAAACAGTCGCTACCCCCTGGTATGTGCCGCTTTCCTAATCAAAAGATAGGA
GAGCACCCCTTCTCCCGAAGTTACGGGGTCATTTTGCCGAGTTCCTTCGACATGGTTCTCTCAAG
CGCCCTAGTATACTCTACTTGTTCACCTGTGTCGGTTTGGGGTACGGTCAGTTCACCGGGAGGAT
CGCCCTCCCAATTCGAAGTTTTTTCCTGGAAGTTTCAACCTTGTT
Right flanking sequence: Indices 150771 -- 151270
GCAGGGCGGTACGCTCTGCTCTCTCGCGACCCCTACTCTAACGAGTAAGCAAGTCAACTACCTTT
TGAAGCGCCAGTCGCGTAGGGCGACCGGGCCAGGCCGAGTCAGAAAGGCTTTGATGACTCAAGCA
AGGTTCATATTAGGGAAAGGAGAGTGAGGGGAAGAGGGGGCAGCCCTCGGCCCGATCATCCAATT
CACTCCAACAGACAGGCATGGTTCTGTAGTCAAAGCAACTTCGTCACTTTCGTGTACCCATCGGA
CGGCAGCCCTTTCGGGGTCGGGGCTTCCTTAGGGACCGATTCACTCTGCGTAGATTGACTGAACG
CAGAAAGCCTTCCACTGGCAGGCGATCGTGTTTTTCACAGGATTTCTCGTTACTCATGTCAGCAT
TCTCACTTCTGATATCTCCAGGTGTTGTCACCAAAAACCTTCCCCGATTGACAGAACGTCCCGCT
ACTGACACTTGAAAAAGCAACTTTCAAGGTCTCGTCGCTTCGGTG
Found at i:199721 original size:18 final size:18
Alignment explanation
Indices: 199695--199732 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
199685 CTTTTTGCAT
199695 TATTATTCTCTTCTAATG
1 TATTATTCTCTTCTAATG
*
199713 TATTCTTCTCTTCTAATG
1 TATTATTCTCTTCTAATG
199731 TA
1 TA
199733 AGGGTATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.18, G:0.05, T:0.55
Consensus pattern (18 bp):
TATTATTCTCTTCTAATG
Left flanking sequence: Indices 199195 -- 199694
ATAGTAAGATTTTTTTTCGGCTATTGGCACTTATATAGAATAGAAAGAAGGAGTTGTCACCCCTC
GTCAAAGTACGCCCAAAGACTTTTCTGAAATTCCTTTAAGCAGAGAGAGACCTTTTTCAGTGAGG
GGTCGTAGGCCAGTCTTTCAGTAATTTCCGAGGAGTGTCAGCCATTTTTTAAGTTATTTATAGGT
TCACGAACACGACCCGGCAATCGTAGACCCTTCCTCTAGTTAGTTACTTGGCTCCCTTCCTTCTA
GTCACTGCTAGTAGGATAACATACATCTATTAGTCCCTTCTCTTCCTTCTCCTTTTGCTTTCTTT
CTGTCCTCTGGTTTAAGGTTCATAAGGGGGTGCTCGCTACTATAAGACAGCTCTGCATTCATTCC
TTAACCATTATCAGGGGGCTTTGTATCCGGTGGCTTCGTTTCTGGATCCATTCGATGTTTCACTG
TATTGATATTCTCTTTGCCCCCATCCTCTTCACCCCTTTTTGCAT
Right flanking sequence: Indices 199733 -- 200232
AGGGTATTCTTTTGTGATTCTTTTCTTCGCCGGTCTATTATACCTTTTTCCTGTTCCAGCTGAAC
TAATTTCTGAGAAAGAGCACAATTCTCTTTTTCTAAATTAGCATTTTTCCTTTTCAAATAATTGA
TGAGATTTGTTCCAATGTAATTTAGATCTGACAAGTCATTGATCTCAAGTGGATCTGTATCTACA
CATTTTCCATATTCATCCATTAAGGGTATCCTCTTGGTGTTACCTATAGTTCTAAGAGTGGTTGT
ACTCTCTATCTTTTTAACCACAAGTTCTTTCCAATCGGTTCGAAAAGGATAAGTTACATTCTCTA
TCACACTTCTGGATGGGTCGGCGTACTGCTCTTTATACCATTCTGGAGTTATAACACTTCTACCC
GCTCCCTTGTACTTCAAGACCTTCTTATTGCCATCAGACTCTTCTGTGGTATAGTAATAGCATTT
AGATGCTAAAAAGTATCCCTCCAAGATCCTATCTTCTAATTTGAA
Found at i:202565 original size:18 final size:18
Alignment explanation
Indices: 202522--202568 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
202512 TTATGAAATG
*
202522 TATTCTTATCTTTCTCTT
1 TATTCTTGTCTTTCTCTT
*
202540 TATTCTTGTCTTTGTCTT
1 TATTCTTGTCTTTCTCTT
202558 TATTCTTGTCT
1 TATTCTTGTCT
202569 ATTTTGCAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.09, C:0.19, G:0.06, T:0.66
Consensus pattern (18 bp):
TATTCTTGTCTTTCTCTT
Left flanking sequence: Indices 202022 -- 202521
TCAAGTAATTTCAATATACTACGATACACACTAGCATATATCTCAGACTTTGAAATTGGCTTACC
ATTATCAAACGTTAAGGGTATAGACTTTTTATTGAGTGGTTTTGCGATTTCGCCATCTTCTCCTT
TTTGAAAATAGAATATGATATTTGCTTTCGCGTACCCTCCTGATAAGACAGGAAAAACATCGCGT
ACTAAAAGATCCATCAAACTTAGGCTGAGGAGGTCTGTTTCATGGACCGATACAGGTTCTTTATA
CTCCAAACACGGAATTAGTAACTTAGGGTGCGGGAATATTAATTTCTTACTAGAATTGGACTGAA
TCCGGTTCAATAAGATAGATGTTTCAGTTGATCTAGCACTACTGTCTGTTGTGTACGGTACATTA
TGCCTTGCCCCATGGGTTCTAATTATCTGCTTCATATTAATAATGTATACAATTTTGCCCTCCAA
GGGAATTATGAAACATATTCCACTTAACCAAATGCTTATGAAATG
Right flanking sequence: Indices 202569 -- 203068
ATTTTGCAGACCTCCCCACAATAGAGTTGATATCTTTGTTTCAACTGCTCGATTATTTTCTTCCA
ACCAGAAGCATTCTTTACCTCTGATGGAGGAGTGCCCCCCATTTTTAAGAACTCATCTAGAATAT
GCGCCGGTATTATTTGATTATCAAAAGAATTCAAATTGAAACCTTTGACATTATTATAGTTACCA
TTCACTATAGCAGGCTCGATAAGATTTATATAAAGAAAACGGTTAATGATTCTAAGAGGGGGCCC
CATTTCCTTAATGATATCTATGTACATTTCGCTTAACGATTTACAATGAATTGTATTTGATATGA
AGTTGTCGTGCACTGTATACAGAGGTATACCTTTTGAGTTCGCCTTTAACGCCATAGACATAGCA
ATATGCGCATCTTTTTGATGAATGAAGTTCACGAATGTGGATGTCCGACTTTTCCTCTTATCCCG
CACATTTGAGGGAAACGACAGTGTGACATTATGTGCCTTTTTCAA
Found at i:211732 original size:15 final size:15
Alignment explanation
Indices: 211709--211738 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
211699 CCTACCCTAT
*
211709 GTATTGTATAGTAGG
1 GTATAGTATAGTAGG
211724 GTATAGTATAGTAGG
1 GTATAGTATAGTAGG
211739 CGAGCGAGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.37
Consensus pattern (15 bp):
GTATAGTATAGTAGG
Left flanking sequence: Indices 211209 -- 211708
GTACCTTTTGATTATGGTATGGTATTGTCAGATTCGAACATAGGGCTACTTTATTTGTTTGCCAT
ATCTTCGTTAGGTGTTTATGGAATTATTACAGCGGGTTGGTCTAGTAATTAGGGGGCGGCCGTTC
GGTCGCCTATGATACTAGGACCAATAGGTCAAAAATGGGTTTGTGCCGCAGGTGTTGAACGATCT
ACTCTACACAGGTGTGGGCTTACAGGGCTAGGGCTCATAAAGCCTTTCTTTCATTCAAAAAGAGG
GCCCTGGTCGGTCACTTTTCCGGGCCGGGATCGATAGATAAGTGGAAGTCATAAAAAAGAGATCT
TGATCTTCGCACCTAAGATCCAGAGGAAGGGTAGCTTGTCAAGCTGGCCTATATAAAATATCTTT
TTCATTATTCTAGAATCTTTTATAAATATATTTCTAAAGATTCACTGTCTTTTAACCGGCTGTTC
TTCTTTGTCAACGCTACTAAGGACCTATGGGTTAGCCTACCCTAT
Right flanking sequence: Indices 211739 -- 212238
CGAGCGAGTTAGCGAAGACGCTTAGGCTAATAGATAAGAGAGCGTCAGTGCGTAGCCTTCATTCT
ACTACGCTACGCAAAGGTTACGAAGTCACTTAGCTCGACGTTAGGAGAGTCAAGGGGGAAGGCCA
TACCTACAAGAACCGCTGTTCGCTGACTTTCTAAGGAAGGTCTAACCCTTAGCTCCCCTACTGAA
AAGGGGCACAAAGCCGCTTTGCACCACTGATAGACTACTAAAGATTCAATTCATTCAAAAGGCCC
TACTTAGTTTCGCAAGCCTTTGTCATTGTAAGTCAACTAAGTAGGGCCTGAGGCCCCCTGCGAAT
CCGTAAATCTGAGGAGCATGCCGCAACACAACAAAAGGATGGTCCCCTATGCATTTCTTTCCGGA
AGGGAAAAAAAAACAAGTACCCCCATCATGGTGAACCTCTCCTTGTGATCGGGATGAGGTAGATG
CCTCCCAGCTGGGGGGCGGATCGAATCGGAGTTTCCTTAGGTAGC
Found at i:303377 original size:20 final size:19
Alignment explanation
Indices: 303341--303378 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
303331 TCTCGTCCAA
303341 GTCTTTTTTTTATAGTATT
1 GTCTTTTTTTTATAGTATT
303360 GTCTTCTTTTCTTA-AGTAT
1 GTCTT-TTTT-TTATAGTAT
303379 ATAAAGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 9 0.53
21 3 0.18
ACGTcount: A:0.16, C:0.11, G:0.11, T:0.63
Consensus pattern (19 bp):
GTCTTTTTTTTATAGTATT
Left flanking sequence: Indices 302841 -- 303340
TCTCGTACTCTCGACCGGCTCGAACCACTACGTTATCCATGTTCCGGCTCATCCTATTCATGTCA
CCAGAACCTGTAATAAACCATCATTTCAAACCATCCTGTTACAGGGAATCTTTGGATATCAGTTC
GAGGGGAGCCCCGGGTAATTTGATCAAACAAAGTATGTGATCGGAGGAAGGAATAGAAATACCCC
TAGTAATCTTAAACAACAAGGACAAACACAAGGTACAGAGACAGAGAGAGAGGCGCGACAGCCGC
AAGGCACTTTTGCTTTGCTTTGATTTGATTGTATCGGGAGATGGGCTTGCGTATTAGTTGGGTTT
GCTTCTACCGAGGCAATGTTCCGGAAATTAGGTTTATCTAAAGAGCAACCGGCTGAGCACGAGGT
CCCACATTGTCTCCATCAGCGGCTAGGAAAAAGTCTTTGACTCTTCTTCTAGTTAACCACTGCTT
TAGACTATTCCTACTATTCATAGTTCTCAATCTGATCTCGTCCAA
Right flanking sequence: Indices 303379 -- 303878
ATAAAGAAAGAAGAAAGTCAAGCTTTCGGGAAAGGAGTGAATGATTTGAATACTTCTTCCTCTTT
CCCTTCTTCTCAAGCTCTTACTCTTACTGGCGCAGAGAAAGTCTTACGGCCAGACGACTTAAACA
CAGCGCTCTGATCTCCGACCTCCTAGGACCCAAGCAAAGGATTGACTTCGCTAACCTCAGCTTAA
CCGAAGTCAATATTCTAACAGAACTAGAAAGGGCATACCTTGAATACAGATCAAGATTCACTCAT
GCACTCTGGAACTTACTTAGGAAAGCTAGCCTTAGCCCAAAAATAAAGGAAGGCAGCCGAAAGCC
CTACAAAGAATATCGCTGATGAACAGGCCCATCGGGTGGGGTTGTCAGTTGAGAAGGAAGTCTTT
ATTGAATTGATCATAGAAAAAAAAGGATAGAAATGGAATCGGTTGTTTAAGTCGGAAGATCAGAT
GTTTTGAGCGGAGAATCGGGTTCTGCTAAGCAGAAAAGCCTTCTT
Found at i:331736 original size:21 final size:21
Alignment explanation
Indices: 331712--331772 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
331702 GGAAAGGTCT
331712 GGGGCTTGAGGCTGCTCTGCA
1 GGGGCTTGAGGCTGCTCTGCA
*
331733 GGGGGC--AAGG--G--CT-CA
1 -GGGGCTTGAGGCTGCTCTGCA
331748 GGGGCTTGAGGCTGCTCTGCA
1 GGGGCTTGAGGCTGCTCTGCA
331769 GGGG
1 GGGG
331773 GCAAGGGCGC
Statistics
Matches: 30, Mismatches: 2, Indels: 15
0.64 0.04 0.32
Matches are distributed among these distances:
14 5 0.17
15 2 0.07
16 5 0.17
18 2 0.07
20 5 0.17
21 6 0.20
22 5 0.17
ACGTcount: A:0.11, C:0.21, G:0.49, T:0.18
Consensus pattern (21 bp):
GGGGCTTGAGGCTGCTCTGCA
Left flanking sequence: Indices 331212 -- 331711
CTACTCATTCGATTTTGAACCTGACCCCTCATTCATTCCCGCCACAACCACCAACGGCAATCAAG
CCAGCCAAGCCCAGGGAGCAGCTTAACCTTCTCCCCCCCCCACTGTTCCCACAGTCTTCTAACGT
TCCCACCTCTTGATTTTCTTGACTTTGGTTAAAAATAGGTTGGAAGAAGAGATGGCATCGATAAG
AACTTGATAGGGACGGCTACGGTGGGTCCCAAATTGGACTTCTTTCACATATGAGTCATATGTTT
TCATCGAAAGAAGTTTCCCATTACGAGCCCCTAATCTCATCTCGTTTGCTCTTTTGATAAAGCTC
ATCCCGGGAATACCCGTCGGAGAGCAGAGCTTTCTCAATGGCCCTTTCTATTTGGACTTGTGCCA
AAAGCACTTTGTCTTTATTCTTTTCCGACAACCCCACAAAATGAAACCCCGCGCGCTCATCTAGT
TCGGCGCGACGAGTGTTGTCATCCAGTAAAGGATGGGAAAGGTCT
Right flanking sequence: Indices 331773 -- 332272
GCAAGGGCGCCCGTGAGCTGGTTAAAAAGATTTTGATATCCTTTTTTATTCATTTTTTTCATAAG
TTGTAATTTTTTGCTTTTTCTTTGAAGAATTTTTCTAGTTCTATTTTTATTTCGCTAGTTAGTCC
ACCTTTTAGTGATTGTAGTAATTCAGGTTTAATAGTAGTTAGAATGTCTCTTTCATATTGAGGAA
TTTGATCTAATGGCATTTTATCACAGAATCCATTGACAGCTGCATAAATGACTAGAATTTGTTTT
TCAATTGGAAGTGGTGCATATTGTGGTTGTTTCAGTACTTCTGTAAGCCTTGCACCTCTATTGAG
TAATGCCTGAGTCGCAGCATCAAGGTCTGAGCCAAATTGAGCAAAGGCGGCGACTTCGCGATATT
GTGCCAATTCAAGTTTTAAACTACCGCAGACTTGTTTCATAGCTTTCAACTGAGCGGCAGACCCG
ACGCGACTGACAGATAAGCCGACGTTAATAGCAGGTCTAATTCCG
Found at i:331759 original size:36 final size:36
Alignment explanation
Indices: 331712--331780 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
331702 GGAAAGGTCT
331712 GGGGCTTGAGGCTGCTCTGCAGGGGGCAAGGGCTCA
1 GGGGCTTGAGGCTGCTCTGCAGGGGGCAAGGGCTCA
331748 GGGGCTTGAGGCTGCTCTGCAGGGGGCAAGGGC
1 GGGGCTTGAGGCTGCTCTGCAGGGGGCAAGGGC
331781 GCCCGTGAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.13, C:0.22, G:0.49, T:0.16
Consensus pattern (36 bp):
GGGGCTTGAGGCTGCTCTGCAGGGGGCAAGGGCTCA
Left flanking sequence: Indices 331212 -- 331711
CTACTCATTCGATTTTGAACCTGACCCCTCATTCATTCCCGCCACAACCACCAACGGCAATCAAG
CCAGCCAAGCCCAGGGAGCAGCTTAACCTTCTCCCCCCCCCACTGTTCCCACAGTCTTCTAACGT
TCCCACCTCTTGATTTTCTTGACTTTGGTTAAAAATAGGTTGGAAGAAGAGATGGCATCGATAAG
AACTTGATAGGGACGGCTACGGTGGGTCCCAAATTGGACTTCTTTCACATATGAGTCATATGTTT
TCATCGAAAGAAGTTTCCCATTACGAGCCCCTAATCTCATCTCGTTTGCTCTTTTGATAAAGCTC
ATCCCGGGAATACCCGTCGGAGAGCAGAGCTTTCTCAATGGCCCTTTCTATTTGGACTTGTGCCA
AAAGCACTTTGTCTTTATTCTTTTCCGACAACCCCACAAAATGAAACCCCGCGCGCTCATCTAGT
TCGGCGCGACGAGTGTTGTCATCCAGTAAAGGATGGGAAAGGTCT
Right flanking sequence: Indices 331781 -- 332280
GCCCGTGAGCTGGTTAAAAAGATTTTGATATCCTTTTTTATTCATTTTTTTCATAAGTTGTAATT
TTTTGCTTTTTCTTTGAAGAATTTTTCTAGTTCTATTTTTATTTCGCTAGTTAGTCCACCTTTTA
GTGATTGTAGTAATTCAGGTTTAATAGTAGTTAGAATGTCTCTTTCATATTGAGGAATTTGATCT
AATGGCATTTTATCACAGAATCCATTGACAGCTGCATAAATGACTAGAATTTGTTTTTCAATTGG
AAGTGGTGCATATTGTGGTTGTTTCAGTACTTCTGTAAGCCTTGCACCTCTATTGAGTAATGCCT
GAGTCGCAGCATCAAGGTCTGAGCCAAATTGAGCAAAGGCGGCGACTTCGCGATATTGTGCCAAT
TCAAGTTTTAAACTACCGCAGACTTGTTTCATAGCTTTCAACTGAGCGGCAGACCCGACGCGACT
GACAGATAAGCCGACGTTAATAGCAGGTCTAATTCCGCGATAAAA
Found at i:343131 original size:31 final size:31
Alignment explanation
Indices: 343092--343162 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
343082 AGTTTGAGCA
343092 AAAATGTTATGTGATTTGAGTGGAGTCGATC
1 AAAATGTTATGTGATTTGAGTGGAGTCGATC
*
343123 GAAATGTTATGTGATTTGAGTGGAGTCGATC
1 AAAATGTTATGTGATTTGAGTGGAGTCGATC
343154 AAAATGTTA
1 AAAATGTTA
343163 GAAGGTGCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.35
Consensus pattern (31 bp):
AAAATGTTATGTGATTTGAGTGGAGTCGATC
Left flanking sequence: Indices 342592 -- 343091
TAAAAGATAGATATTGAAAGTGTTCAGCAATTGAATTCTAGTCAGTCTTTACTTAACTCGACCCA
AGCGATGCCTTTCGACTCCCAAGTATTTCTTGGTCAACAACCAAGCACATACACATTTCTGACAA
GTCTTTCCTAACGAAAGTAAGTCAAGCGGATCACAAAGACTGTTCATATAATATGGACAAAAAAG
ATATCCCCGATCTACACTCCCAACATAGGGAAAAATCCAATTTTATGTTTCGACTCGTCCACCAA
TTGTCCGACTGGCCTAAACGTTTGGAGAATTTCTTCTTAACTGATGATCAGGTCAAGTTATTCAT
TGTATTCCTATTTGTTTTTCTTCTCATCCACAAGGTACTGGTTTTGATCTTTATAGTTTTACCCC
ATATGTCCTATTTGCAGGAAATGAATATCGTGTATGAATCCTTATCCTCGCCGTGGGGGGTCATT
ATACGCCCCACCTCGGGGGGTGTAATGAAACCGTAAGTTTGAGCA
Right flanking sequence: Indices 343163 -- 343662
GAAGGTGCAAAATCAATGGGTGCCGGAGCTGCTACAATTGCTTCAGCGGGAGCTGCTGTAGGTAT
TGGAAACGTATTCAGTTCATTAATTCATTCCGTGGCAAGAAATCCATCATTGGCAAAACAGTTAT
TCGGATATGCAATCCTGGGCTTTGCTCTAACCGAGGCTATTGCCTTGTTCGCATTAATGATGGCC
TTTTTGATTCTCTTTGTTTTCTAAGTTTCTCCTTTTGAAAGGTGTAGTCTCTCCTACCTGAAGAG
GACGAGGCCCCCGGAAATGGGGGGAAGGGGATAAAGGAGAACCCTCAAATCCCTCATTAGGGAAC
ACCTGTAAGATGAGTCTGCCGCTTTCTTTCATAACAGAGCCGGGAATAACGGCTGGCATAGAAGT
CTCTCGCACGCAAGGAGATGCATTTCTGGTACTGGACAAGCTCTTAGGTAATAATATCTTTCTGA
TTTATTCCTTTTTTCCCATGACGACTAGGAACGGGCAAATCAAAA
Found at i:378006 original size:14 final size:14
Alignment explanation
Indices: 377987--378017 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
377977 TTTACATGCA
*
377987 CTAGGGAGTCAACT
1 CTAGGGAGTAAACT
378001 CTAGGGAGTAAACT
1 CTAGGGAGTAAACT
378015 CTA
1 CTA
378018 TGCGGTCTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (14 bp):
CTAGGGAGTAAACT
Left flanking sequence: Indices 377487 -- 377986
AGTAGGAATCCGCTTCTCCATGCCCTTCCATTTTCAAGGGGTAGGCCCTTCGCGGCACACAAATC
AGATTTTATTGTCTCACTGGCGCATTCGGTAGCCCCTTCTAGTGCGCGTACTAAGACTAAGGCTA
CAGCTCACTTCTTCCTTACTAGACCGATTGCCATGAATGAACTGGCTTGACTTGACTTTAGCTAC
AGGGACAGTTTCACCGACCTAAGAACCATTTCCTTTAGCAGCAGCGGAGGATCTTCTATGAAAGC
AAAGAACACACCGAAGCTCCCTTTAGATCGAAGGCCTTGCATACTAAGATTCTTCTTATACGTGC
TTTCGTGGAAGTCTCACCTATCAAGGAAGTCTGACTAAGAAAGTTTATCCCTGCGGGAAGCATTA
GCACCTCAGCTCAGTACGCATAGAAGTAAAGTCCCCCCTAAAAAGCTCTACCTTTAGGGAAATAA
ATGGTTCGCGACCCTACTACACATAGTAGGGAAAATTTACATGCA
Right flanking sequence: Indices 378018 -- 378517
TGCGGTCTGGCTCGTACAGATGTAATGGTTGAAAGGGTCCTATTACATTTGGTATGGGTTACTAC
CTGAACAGACATGCGCCGAATGTAGTGTAATATAAGGTGCGACCTACCCTTATATAGAGGGGGCA
AAATGCCTGCTTTATTGTCTAATTAAAGAAAACCAATTCACCATGAGAAGGACTTTAAATAAAGC
TGCTTATCAAGAAGTAGTTGCTCAAGTAGAGAATGAATACAATGTATTTACTATTACTAATAGAA
TCCGTAATTTATCATTGTCTGATAGTAGTGCAAGTAGTAGTTCTAGCTCTAGTTCTAGCTCTAGC
TTTACTGGCGTAAATAATTCTGATTTTTTTTCTACTTTGTCTCCTACTGCATCTATTTTGGAAAG
GTTTAAGATTCGTACTAATCCATCTGCTTTTACTCGGAATGTTATTGAAATGACTAAAGCACCAT
TTTTTGACATACACAACCCTATTATGAATATGAATTTCACCGAAA
Found at i:378330 original size:12 final size:12
Alignment explanation
Indices: 378315--378341 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
378305 GTGCAAGTAG
378315 TAGTTCTAGCTC
1 TAGTTCTAGCTC
378327 TAGTTCTAGCTC
1 TAGTTCTAGCTC
378339 TAG
1 TAG
378342 CTTTACTGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.41
Consensus pattern (12 bp):
TAGTTCTAGCTC
Left flanking sequence: Indices 377815 -- 378314
CGTGGAAGTCTCACCTATCAAGGAAGTCTGACTAAGAAAGTTTATCCCTGCGGGAAGCATTAGCA
CCTCAGCTCAGTACGCATAGAAGTAAAGTCCCCCCTAAAAAGCTCTACCTTTAGGGAAATAAATG
GTTCGCGACCCTACTACACATAGTAGGGAAAATTTACATGCACTAGGGAGTCAACTCTAGGGAGT
AAACTCTATGCGGTCTGGCTCGTACAGATGTAATGGTTGAAAGGGTCCTATTACATTTGGTATGG
GTTACTACCTGAACAGACATGCGCCGAATGTAGTGTAATATAAGGTGCGACCTACCCTTATATAG
AGGGGGCAAAATGCCTGCTTTATTGTCTAATTAAAGAAAACCAATTCACCATGAGAAGGACTTTA
AATAAAGCTGCTTATCAAGAAGTAGTTGCTCAAGTAGAGAATGAATACAATGTATTTACTATTAC
TAATAGAATCCGTAATTTATCATTGTCTGATAGTAGTGCAAGTAG
Right flanking sequence: Indices 378342 -- 378841
CTTTACTGGCGTAAATAATTCTGATTTTTTTTCTACTTTGTCTCCTACTGCATCTATTTTGGAAA
GGTTTAAGATTCGTACTAATCCATCTGCTTTTACTCGGAATGTTATTGAAATGACTAAAGCACCA
TTTTTTGACATACACAACCCTATTATGAATATGAATTTCACCGAAAATGTTAGTAGTTATATTAT
GTCGATTGGCTTTCGCTTTATGCCAGGACAAGGGGAATTCTTAGTCAAAGATCTCCGAGCTCCTG
ATACCTTAGTGGGATTAAGAAAGTTAAGAGATAGCCTAGGCTTATCCTTAACAAAAGGAACTCTT
AGCAGTACTCCAATACTGAAGTTAAAGGGTATTTCAGACACTGTTTCGAATAGTATGCAGTTACT
AGCTTCTCGTGTATTGATTGAAGCAATTACATTTAATGAAGGCTATTATGGGCGATTCTTAATCC
TGGTTCAAATTGGTATTGGTTGTACTGTATGGTATGGCTTCGCTC
Done.