Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_038052
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: 594390
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Found at i:102077 original size:18 final size:19
Alignment explanation
Indices: 102056--102091 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
102046 TAGAGGAAAG
*
102056 ACTCTACTGG-AATGTATA
1 ACTCCACTGGAAATGTATA
102074 ACTCCACTGGAAATGTAT
1 ACTCCACTGGAAATGTAT
102092 CGAACCTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (19 bp):
ACTCCACTGGAAATGTATA
Left flanking sequence: Indices 101556 -- 102055
GAGCAGCATCAGTAGCGCCCGGTTTTCCACTTGATGTAAAGCCCCAACCGTGGGGATAGTGAATT
GGGTAACAACATTCGAGATTAGCTAAAGGCTCAAGGCCCATCTATCCTAGTTAAGTTAACCTTTA
GCTAAGCTCTGATCTGATTCCTCTTCGCTCCCAATTAGAAAGAAAGTAACCCGATGCCTTGCCTT
GGACCTTTGGGTACGCTACTAGGCTATTCCAAGCATCTCTCCAACTAGAAAAAGGGCCATACCCA
CTCAAATCGGATCTAAACTAAACAGTGGTTTTTCTCTCCCTCGACTTTCTTGGCTTCCTTTCTTT
CCTCTGTAAGAGATACTGGATCTACTGTCTCTAATTCAGCATCTGCTTTCAACTATTTCATAGCC
TCCCGTCCCGAGCTAACTTGAGAGCTGGGTTAAGAGCAACTACGGAAAATCCATAGAGTTGGGAG
CCTAGATTGCCTCCACTGGAACCTTGTCCTCTATCTAGAGGAAAG
Right flanking sequence: Indices 102092 -- 102591
CGAACCTGTAACCTATAACATCCTATGCATGGAACGCAACTACAACTTGAACTCAAGCCCTAGCA
CTGAACCTCCAAAAAGGGAACTGGATGAATGGGAACTGGCTAGCCTCTATCCTTAGGACCTAGAA
TCCGCTATCCAAGGTAGGACGGACATCATCATATGGTTTTTTTGAATACTTTCATTTCATTCCCT
GCTAGGTCTAACGATGAGAGAGTGCTCCGGAAATAGAAGAGCAAATAAGAATTCTTTTTGCCCAC
TTGCTTTACTCCTTTGAGTGGCTAGCTTTCCTAAAAGATCTAGTTTCAAAAGGGACATTCGATAG
AGTAAGATACGGCTTTTTAAAGACTTTCAAACTAACGCTTGAAAAAAAATATACCACCTAATACA
GCTTTCAATAAATATTCCTGCGCTTACCCTTGCCCTTGCTTACCCTGCGGTGACACAGAACATAG
AAAGGCTGGAGGAACAGGCATACTTCAAAAAAAGGAGGATTCAAT
Found at i:120633 original size:2 final size:2
Alignment explanation
Indices: 120626--120668 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
120616 CGGTAAGGTA
*
120626 AT AT AT AT AT -T TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120667 AT
1 AT
120669 TTCTTTTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 120126 -- 120625
CGCTGCCTGCCTTCTTCTTCGTGTTCGTCCGTATCGCAAAGCGGGTCGACGCCAGCTATAATGGT
TGAAAATAGGGGGGCCAACCAAGACCCCCTACCCCTAATAAAGCTTTGTTTGATAAAGCAAACGA
TTCGTTCCGACAACTTCGGACCAGATTAACCCCTTTAAATTAGCTGATCTTACAAAAAAAATCGG
GCGGGCTGGTTGGGAAGGGGTTTTTGGCGGAGAAAAGAATCGCTGAGAGATAGATTCTACTATTT
AGTCAGGACAAATGAGTGGCTGTGCAGCATGCTCCGGAGGAGATTGACCCTTCCCCGAGTCAGTC
TAGTCAGAAAGGGGAGGGCCCACTGTCTAGACTGCATTTCGGGAGTTTGAACACCATCCCATTTC
AACCAAAAATACAACCCTGTCAAAGGTATCTAACCTTCCTTCCTTATGAGTGGAAATCCAATCCC
GTTTTGTTTTTTTTTTTGCATAAAAACCGGCCAGCCGGTAAGGTA
Right flanking sequence: Indices 120669 -- 121168
TTCTTTTTTAAACCCGTTCTTCCGACCATTTTTGAAAAGCGCATAGTTTCTACTCCAAAATGACC
TCCCCAGTCGGGGAACGCATGAGATATTTACCTAAACCAAGTAGGTAGGTCCTTGAGCGGATCCC
ACGTTAGCCCCAAGACGTTGGTCTCTAACTAGAAAAGTAAATGCTTGAGCTTGAGTGATAAGGGC
CTCCTCCCCCCGCTGGTATTTTGCCTGTATGGTGTTTACCGGGTGGGACCCTCGATCCGGAAGGT
ATGCCACTTCTACTATCTATACATGTCTGCTTCCCTTGAAAGCTCCTGGTGCTGCGACTATCACC
GGTAAGTTGCGTTGGATCAACATCGGGATGAAAATCAACTGCAAAAGCAACTAAGTCAACGCCTA
TTTGCTCTGGATCTACTGGCCCGGACGCTTTTTTCTATTCCACCGCAAACAACCGAATATACTAC
TGCAGGATCTTCCGCTGCTTTTGTTATTATTGCTCTCACCTGTCA
Found at i:174931 original size:23 final size:23
Alignment explanation
Indices: 174901--174946 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
174891 TCTGATGTGC
174901 GCTCTATTATTG-GCTCCTATTCT
1 GCTCTATTATTGCG-TCCTATTCT
174924 GCTCTATTATTGCGTCCTATTCT
1 GCTCTATTATTGCGTCCTATTCT
174947 TGAGGGGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.13, C:0.26, G:0.13, T:0.48
Consensus pattern (23 bp):
GCTCTATTATTGCGTCCTATTCT
Left flanking sequence: Indices 174401 -- 174900
AACCAAAGAAAGCACATGGGGATATGGGACGCGTGTCTAGTTCTCATTGGAAAGGAATCAGCGGA
ATATTCCTTCTGTCTCCCGCCTGACACAGTTTGACACGCGGTGATACCTGATTGGCTCCAAATCT
ATAGTTGTAGAAATAATATCAAGAGAACAAGCACGCGGGAAAAGCAAGCGTCTGATCAGATCAAT
CAAGAGATAGGGGTTCAGCCAAACATCTTTTTTCTAAGCTAGGACGGAGCTGGCGAGTGACGATT
GGCCGAGGGGAGTTCCATCATGTAGCTGGGTACAAATAAGCCAGTAAAAGACAAGTAGAAGCCAG
TGAACGAGGAGTAGTAAGGGTACGACGAAGCCAGTGGGGTACGTAAACGAGGACGGATCACATGG
TTTTGTACTGGTCAGCTTTGAGCTGTCGAGTGAGGATTGCTCTATCTCTTAAGAAAGGGGCTTTG
GAAAACCCTGCCTTATTATTAAAAGGGGAGTAGTCTCTGATGTGC
Right flanking sequence: Indices 174947 -- 175446
TGAGGGGGTGATCGGGGTTAAGCCGCGTGGCGATACCCGCGAAAAACAAAGGACTATTCGCTCTT
TGGGGTGGGCCTTTCGTACTCAAATCCGAACGGGGAAAGGACAATTATTCAGCGCACTAAAATCT
AGTGGATCTGGTTCACTATTAATGAAAAGCCAGGGTTGAAATGATCCTTGTTAGGGAACCAAGAC
AAGAATTCTTACTAATAATAAGAAAGGGTTAAGGGCCTCCAACGCCTATAAATAGAAGCTTCTTT
CAGTCTCTCTTTGCCAAATAGAGACGTAGAAGTCAGAAAGTAAGACTTATGGATATCGCCGAAAT
ACTTGCAACAATTCAGCAATCAATCCATCAAATAGAAAACGAGAAGCTCCAACAGGAGCAATTGC
TCGGTCTGTTCTGGGAGCATCCGCCTGCTCTCGATCCGGAGGTCGTAGGACGAATGATGCAATCG
ATCCGGGACCGCATTCGCGGTCTGGAAGACAGGAGGAGGGCCCTA
Found at i:245735 original size:30 final size:30
Alignment explanation
Indices: 245692--245764 Score: 139
Period size: 30 Copynumber: 2.5 Consensus size: 30
245682 TTACGGAAGA
245692 AGGAGCG-AAAGCCACTCGACTGGTTGGAG
1 AGGAGCGAAAAGCCACTCGACTGGTTGGAG
245721 AGGAGCGAAAAGCCACTCGACTGGTTGGAG
1 AGGAGCGAAAAGCCACTCGACTGGTTGGAG
245751 AGGAGCGAAAAGCC
1 AGGAGCGAAAAGCC
245765 GCTTTTTCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 7 0.16
30 36 0.84
ACGTcount: A:0.32, C:0.21, G:0.37, T:0.11
Consensus pattern (30 bp):
AGGAGCGAAAAGCCACTCGACTGGTTGGAG
Left flanking sequence: Indices 245192 -- 245691
CGAAGTAGGTAGACCATTTAGCATGTGTCCTCTCAATGCCTGCTGTTATTATTTCTCCACCGTCT
TCCCGCGTCGAAAAATCGGTTTTGTATTGTATTATGTACGATTGGAGAATCATTCTTTGGAAAAA
TCATATGAACTATCTTCCCCGCCGCCCAGACTAAGATTCTTTCCTATCGCGCTATGGGCTTTGAT
GCTTACGCGCGCCTTAGCACGCGAAATATTGCCTTCCTAACTAAGCTAAGCGGAGCTCTTGCCCT
GTCATATTGTTCGGTCCTCCCTTCTCTAACACTGCGCTAATAAAGCACGGGGCTATTAAGATGTA
GAATATGTCCCCTACACTCTTTCAATCTCTTAAGATTTGGAATCTCAGCCATACTCCCCATCCTC
CATTGAATTTGGTCTATCTTTTGATTCTGGTCATTTTTTCTCCATCATACAAGACCCGTGCCACT
TTCACCTGTAGTTGCAGCAGCCGTTTTGCTTTATTTTACGGAAGA
Right flanking sequence: Indices 245765 -- 246264
GCTTTTTCAAGCTTCCCATTTGCTGATCAAGTGAGTGAGGTCGAAAGACTTCCCAGGTCGGGGGG
TTTATCTGGACATCTAATCCATGCAGGTATGCCAAATGACTTTCTCTTTATAACGAGGAAGGGAA
ATGGAATTTATAGGAAGAAACCTCTGTGATGTGGTATAAGATGGCCAATTGCATTAAAAGAGTGG
CTAAAGATGTTTTTGGAGAATCTAAGGGTTAAAATCACTCACATAAAGAAAGTTGGTGGTGGAAC
CAACCAAGATGTATGTCGTCCGACCCAACCTCAGACTCTTTCTTCCCGACCTATTTGACTTTTTG
GCCGCAGTTATTTAGGTGGTATCCCGAGATTGAAGAGATCGAATTCCTCCCGGGAACACACGAAA
CAAAGATATGAACTAGGTAAATAGAAATGGAAAAGAGATGTTTCCAATTCATCAAAATCAGAAGC
TTTTTCTACATCCATATGATCTACTAAAGTAGATCGGTATTGCCC
Found at i:292772 original size:20 final size:20
Alignment explanation
Indices: 292747--292784 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
292737 GGGGTGCACT
292747 CTCGAGCGACAGCGAGAGGA
1 CTCGAGCGACAGCGAGAGGA
292767 CTCGAGCGACAGCGAGAG
1 CTCGAGCGACAGCGAGAG
292785 CAAAGCCCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.39, T:0.05
Consensus pattern (20 bp):
CTCGAGCGACAGCGAGAGGA
Left flanking sequence: Indices 292247 -- 292746
AACTCCACTTGAGCAATTTGACATTAGCCCATGGGTGAACATGGGCAAGTATTTCTCATTCACAA
ATCCATCTTTGTTTATGCTACTAAGTCTCACTTTGGTCAACCTATGGGTTCATTTGGTTAAGAGG
AGAAAGAAGGGGTCAACTTAGTAGTTAATGCTTGGAATTACAACAATGAAAGCGGCATTCCCCCA
ACAAATGAATTGTTTTGAAAACTATATATGGAATTCTCTCCCAGAGCAGGGCGCTGAGGTTTATC
CAAAGTGAAAAGACGCCTTGTTAGCTGAATCCCACTCAAAAAATTCTATTCGAGAGAAGGGAGAT
TATTATCATTTATAACTCGAACGAAGTGAGAGGACTTCCCTCTTACCCTATATTAAATTAACAAT
CCCTAGTCTTAGTCTTAGTCTTAGCGTTTCACTTCCTTGGTTCGAGCCCGGGTGTGACTCGTTGC
TCTCTCGAGCGTTAGCGAGAGCACTCTTTCAGACAGGGGTGCACT
Right flanking sequence: Indices 292785 -- 293284
CAAAGCCCTGCCGGCGATTGAGGCAAAGCAACGGACAGGGAACTAAGAAGAGAGGGAAGGGGGTG
CTCGGGGAGTACCCTCTTTCCGAACGGAGCGGTATGCCAGTAGGGATATTACCCGATATTCTTCT
TTCTCTTATAACACGCGCCCCTGCTAACACGCGTGCAATCTATAAAGATCATGCTTATAACACGA
GTAACACGTTGGCTGACGTCCTTGTGTTAAGCATATTGGTTATGAGACGGAAGACATTCGTTATA
TCTCTTTGGAGTCTCACTCCAATCCAGTATTCTACTCCGACGATCTTACACCGATCAGAGGTGAC
CGGCTACTACTACCCTCCCCTACGGGGTTTGCGGGTGTTTTGTAGAGCACATTGGGCCCGTCAGC
TTCTCGATCATAGAATAGCTACCGGATTAGAATAGTTCCGAGTGTGAGATGCCCGATGCATTTAT
CTTATCGACTTGTGCGAGAAACGAGGGGAAGCAACGAGTCCTCTC
Found at i:293554 original size:10 final size:10
Alignment explanation
Indices: 293539--293563 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
293529 GGAGCTCTGT
293539 TGTTATTTTA
1 TGTTATTTTA
293549 TGTTATTTTA
1 TGTTATTTTA
293559 TGTTA
1 TGTTA
293564 ATAGTTGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (10 bp):
TGTTATTTTA
Left flanking sequence: Indices 293039 -- 293538
GTTATATCTCTTTGGAGTCTCACTCCAATCCAGTATTCTACTCCGACGATCTTACACCGATCAGA
GGTGACCGGCTACTACTACCCTCCCCTACGGGGTTTGCGGGTGTTTTGTAGAGCACATTGGGCCC
GTCAGCTTCTCGATCATAGAATAGCTACCGGATTAGAATAGTTCCGAGTGTGAGATGCCCGATGC
ATTTATCTTATCGACTTGTGCGAGAAACGAGGGGAAGCAACGAGTCCTCTCACTTCGTTCTTCGT
TCGAGCTCGAACGAAGCACTATTTCCATCGAGCGTTAACGACTGAGCCAGTTAATAGTTGTCTGA
TCTGAGTTCCCTGACCGGAGGGAAGCAACGAGTCCTCTTCGAGCGTTAACGTTTGTCTTAGTTTG
TCTTATAATACAACTAAACACGAGAGTGCACCCCGGTTATTTAATGTTAATAGTTAAGTTGCGTT
AGGTATTTTAAGATAAGAAATGTTATTTAATGTTAGGAGCTCTGT
Right flanking sequence: Indices 293564 -- 294063
ATAGTTGTGTTAACACCCGGTAACTCAAACTAAGCTTCGCTCGAGCGTTAACGACTTAGCTCGAC
GCGTTGTTGTGTGCCTGCGCTTCGCGCCGGTCGAGAACGCACTCACATACCCGGTTTCTTATTTC
TTACCCAACCGGTATTAATCAATGATCGAGAGTGCACTCTCGAGCGTGAGCTCGATCTTCGTTCG
ACCCTCAGTGGCACCTCTCGAGCGAGAGCGAGAGCACTCGAGCGACAGCGAGAGCAAAGCCCAGC
CGGCGATTGAGGCGTATCCCTCTTACCCTAGTCTTAATATTAAATTAACAATCCCTAAATACTTG
GTCTTATCATCCTTGGTTAGGGTCCGAGGCTTCGCCGATTGAGAACAAAGCCCTGCCGGCGATTG
AGGCAAAGCAACGGACAGTTCTTATTCTTATTCTTTGATTAATGTTGTCATTAGTTATTACCCGA
TATTCTTCTTTTATTATTCTAAGACAAATGTCTTATAAGAGAAAA
Found at i:293798 original size:20 final size:20
Alignment explanation
Indices: 293775--293814 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
293765 AGTGGCACCT
*
293775 CTCGAGCGAGAGCGAGAGCA
1 CTCGAGCGACAGCGAGAGCA
293795 CTCGAGCGACAGCGAGAGCA
1 CTCGAGCGACAGCGAGAGCA
293815 AAGCCCAGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.38, T:0.05
Consensus pattern (20 bp):
CTCGAGCGACAGCGAGAGCA
Left flanking sequence: Indices 293275 -- 293774
GAGTCCTCTCACTTCGTTCTTCGTTCGAGCTCGAACGAAGCACTATTTCCATCGAGCGTTAACGA
CTGAGCCAGTTAATAGTTGTCTGATCTGAGTTCCCTGACCGGAGGGAAGCAACGAGTCCTCTTCG
AGCGTTAACGTTTGTCTTAGTTTGTCTTATAATACAACTAAACACGAGAGTGCACCCCGGTTATT
TAATGTTAATAGTTAAGTTGCGTTAGGTATTTTAAGATAAGAAATGTTATTTAATGTTAGGAGCT
CTGTTGTTATTTTATGTTATTTTATGTTAATAGTTGTGTTAACACCCGGTAACTCAAACTAAGCT
TCGCTCGAGCGTTAACGACTTAGCTCGACGCGTTGTTGTGTGCCTGCGCTTCGCGCCGGTCGAGA
ACGCACTCACATACCCGGTTTCTTATTTCTTACCCAACCGGTATTAATCAATGATCGAGAGTGCA
CTCTCGAGCGTGAGCTCGATCTTCGTTCGACCCTCAGTGGCACCT
Right flanking sequence: Indices 293815 -- 294314
AAGCCCAGCCGGCGATTGAGGCGTATCCCTCTTACCCTAGTCTTAATATTAAATTAACAATCCCT
AAATACTTGGTCTTATCATCCTTGGTTAGGGTCCGAGGCTTCGCCGATTGAGAACAAAGCCCTGC
CGGCGATTGAGGCAAAGCAACGGACAGTTCTTATTCTTATTCTTTGATTAATGTTGTCATTAGTT
ATTACCCGATATTCTTCTTTTATTATTCTAAGACAAATGTCTTATAAGAGAAAATCGTTTGCCCT
CGCAGGAAATACAGCGGAAGCAAGACGGTTCGCTCCGGTTATGCGTTGATTATCGGGCCCTCAAC
AAAGTCACGGTCAAGAACAAGTATAAAGCCGGTGCCCCTTGTCGCTGACCTGTTCGATCGCTTGG
CGAAGGCGAGCTACTTCACCAAGTTAGACTAGCGTTCGGGCAACTATAAAGTCAAGTACGGATTG
CCGCAGGCGATGAGCCAATGATTTTGAACCATGGACCTTCCTTCG
Found at i:303109 original size:5 final size:5
Alignment explanation
Indices: 303099--303257 Score: 193
Period size: 5 Copynumber: 31.8 Consensus size: 5
303089 CTGTCCCTAC
* *
303099 TATAG TATAG TATAG TA-AT TAATAG TATAG TATAG TATAG TA-AT TAATAG
1 TATAG TATAG TATAG TATAG T-ATAG TATAG TATAG TATAG TATAG T-ATAG
* *
303149 TATAG TATAG TATAG TA-AT TAATAG TATAG TATAG TATAG TA-AT TAATAG
1 TATAG TATAG TATAG TATAG T-ATAG TATAG TATAG TATAG TATAG T-ATAG
*
303199 TATAG TATAG TATAG TA-AT TAATAG TATAG TATAG TATAG TATAG TATAG
1 TATAG TATAG TATAG TATAG T-ATAG TATAG TATAG TATAG TATAG TATAG
303249 TATAG TATA
1 TATAG TATA
303258 TTTCTACCTA
Statistics
Matches: 134, Mismatches: 10, Indels: 20
0.82 0.06 0.12
Matches are distributed among these distances:
4 10 0.07
5 114 0.85
6 10 0.07
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.40
Consensus pattern (5 bp):
TATAG
Left flanking sequence: Indices 302599 -- 303098
GTGTATCTCAACTCTCATGTTTGAGAGATCTGACTACGCGAGCCCGAAGTGTACTCATTTCAGGG
GGGCTTAGATGCCCGGTTTGGCATCATATGAACAAGGGCTGATTGATTGTCGACTCGGGCTTTGC
TTTCTGTCTCAAAAAGCATCAGGCTTTTTCGTAGCGCTCGGAAGCTACCGCTATATTTGAAAGAG
GGTCTTGTGCGGGGGGCATATGGGTGTATATGCATATAATTCAACCGGGTCGTTTCGGGAGAAGG
ATTTGTCGACCTGACCTTACACCACAACTCAAAAGATGATGCACCAGATCGAGAGCCATCATCCT
CATTGCATGTATCAATAATCCCACGCGTCCTATACTATATTAGAACCAAACCAATTGGAAGAAGT
GGTCTGGCACGACTTGAAGAATCACTTATAGACTGGAAGAGAGATTGATAAAATAGGTTACGTTA
CACCTCTGCTCTGTCATCCCATATTCACTCAATCGCTGTCCCTAC
Right flanking sequence: Indices 303258 -- 303757
TTTCTACCTATCTCTCCCAAGACCTTTGGTATGTATCTGGTATGGGAGGAAGGTAGCAGAATGCT
TGCTTAGTACTTGTGCTAAGGAGCAAGTCTCAGCTTCACGCATGACTAACATACCAAAAAGGCTT
AAACTAGAAGAGAAGGTACGAAGTCACTCTGCGCATAGCTATGAGGTAGCAGAACGGAGGTCGGA
AAAAGGCATAAACTTTAACTAGCAGAAATAGTACATTCATGTACGTAGTCACTCATATAGCTATA
TGAGGAGTGAGGATAGGATCTCCTGCCTGTCTTCAGGCCCGGATACAAGATCCAACATCACATAC
ACTCTTTATTGACTAGAAAGGGGAAGCGCTATCGAATCAGAGAAATGAAATAAAGTATCATAGCC
AGCACTTTCTCTTCTTACTGATAAAATCACGTTTAACGATTCATAATGGCTTCATCCCGGCACCT
TAGGTGCTTCCAAGAAGTTCAGACTAAAGTAAAGGGCACTCAAAC
Found at i:303133 original size:25 final size:25
Alignment explanation
Indices: 303099--303257 Score: 293
Period size: 25 Copynumber: 6.4 Consensus size: 25
303089 CTGTCCCTAC
303099 TATAGTATAGTATAGTAATTAATAG
1 TATAGTATAGTATAGTAATTAATAG
303124 TATAGTATAGTATAGTAATTAATAG
1 TATAGTATAGTATAGTAATTAATAG
303149 TATAGTATAGTATAGTAATTAATAG
1 TATAGTATAGTATAGTAATTAATAG
303174 TATAGTATAGTATAGTAATTAATAG
1 TATAGTATAGTATAGTAATTAATAG
303199 TATAGTATAGTATAGTAATTAATAG
1 TATAGTATAGTATAGTAATTAATAG
*
303224 TATAGTATAGTATAGTATAGT-ATAG
1 TATAGTATAGTATAGTA-ATTAATAG
303249 TATAGTATA
1 TATAGTATA
303258 TTTCTACCTA
Statistics
Matches: 132, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
25 130 0.98
26 2 0.02
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.40
Consensus pattern (25 bp):
TATAGTATAGTATAGTAATTAATAG
Left flanking sequence: Indices 302599 -- 303098
GTGTATCTCAACTCTCATGTTTGAGAGATCTGACTACGCGAGCCCGAAGTGTACTCATTTCAGGG
GGGCTTAGATGCCCGGTTTGGCATCATATGAACAAGGGCTGATTGATTGTCGACTCGGGCTTTGC
TTTCTGTCTCAAAAAGCATCAGGCTTTTTCGTAGCGCTCGGAAGCTACCGCTATATTTGAAAGAG
GGTCTTGTGCGGGGGGCATATGGGTGTATATGCATATAATTCAACCGGGTCGTTTCGGGAGAAGG
ATTTGTCGACCTGACCTTACACCACAACTCAAAAGATGATGCACCAGATCGAGAGCCATCATCCT
CATTGCATGTATCAATAATCCCACGCGTCCTATACTATATTAGAACCAAACCAATTGGAAGAAGT
GGTCTGGCACGACTTGAAGAATCACTTATAGACTGGAAGAGAGATTGATAAAATAGGTTACGTTA
CACCTCTGCTCTGTCATCCCATATTCACTCAATCGCTGTCCCTAC
Right flanking sequence: Indices 303258 -- 303757
TTTCTACCTATCTCTCCCAAGACCTTTGGTATGTATCTGGTATGGGAGGAAGGTAGCAGAATGCT
TGCTTAGTACTTGTGCTAAGGAGCAAGTCTCAGCTTCACGCATGACTAACATACCAAAAAGGCTT
AAACTAGAAGAGAAGGTACGAAGTCACTCTGCGCATAGCTATGAGGTAGCAGAACGGAGGTCGGA
AAAAGGCATAAACTTTAACTAGCAGAAATAGTACATTCATGTACGTAGTCACTCATATAGCTATA
TGAGGAGTGAGGATAGGATCTCCTGCCTGTCTTCAGGCCCGGATACAAGATCCAACATCACATAC
ACTCTTTATTGACTAGAAAGGGGAAGCGCTATCGAATCAGAGAAATGAAATAAAGTATCATAGCC
AGCACTTTCTCTTCTTACTGATAAAATCACGTTTAACGATTCATAATGGCTTCATCCCGGCACCT
TAGGTGCTTCCAAGAAGTTCAGACTAAAGTAAAGGGCACTCAAAC
Found at i:558330 original size:21 final size:21
Alignment explanation
Indices: 558306--558355 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
558296 TTCAATTTGA
* *
558306 ATATTTATTCAATTTTTATTT
1 ATATATATTCAAATTTTATTT
558327 ATATATATTCAAATTTTATTT
1 ATATATATTCAAATTTTATTT
558348 ATATATAT
1 ATATATAT
558356 ATATAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATATTCAAATTTTATTT
Left flanking sequence: Indices 557806 -- 558305
GATCTGCAGATCCAGTGTTTGAAGTTATTCTAGTGTGTTTCGATTTTCGATTTAAGAATTCCACA
GTTCAGACAGAGACGTTGTTGAGTATGTGACTTGACTTACTCCAGGGTGACTCAAGTCTCGATTG
AGCAGTCATTTTTCATAGTCACGGGTCCTGCTTTAGCACTGTTTCACATTTGCAACTGTAGAGGG
CGGTTTGTGACCTTCCCATTTTCCAGTGAAACCGGGGACCGAAAGGTCGGTGAGAGATAGCAATA
AGATGCATCCATTTCTAGGCTAATTCAGTGTCTTGTGGATGCTATCTATGAGGTAGTTAGACACG
CCCCTTGGGGGATCTGTTGGGTCTTTTAAAAAGACTCAATCAAAGGGCACAAACAAATGAAGGGA
AAGCCTGCTGTTTTTCTGAGGTTGGGTTTTGAGATGAGAGTAAGATACACACGTCGAAGAAATCC
GTTGTCTAGAGAGAGTGGAGTGATCTCAAAGAGTTTTCAATTTGA
Right flanking sequence: Indices 558356 -- 558855
ATATAAATAAAATTCTTTTTTAATATAGTTTTATTTGATTCGAAAAACTATATTATAGTTTTTCT
TGCCCCTTTACTTGAGACTTTCATTCCCCTTTGATAGCTCTTTTTTGGGAAGGATCGAAGATCGG
ATATATCGGCTCTATTTTCCTATCGGACCTGTGAAAGTACTTGCCTAATTGTGAGAACTCGTTAG
CCCTTATCAATTATTGTACGCCAATACTTGAAAAAGAACTCCCGAAATTAGAAGTTCCACGTCTG
CCTTTCACCGGTGTGGGATCAAGCCCTTCTACTAGCCCCCCAAGAGCTATATCGGTGGCACTCGG
GATCTACGACTTATTTAGTTACGATAGGACGACTAATCAAAATTCAGCTTCCTTCCCTGGAAAAG
CAACTGAACCTGAACCTTCGCTACGTTCCAGCTAGTCGAACTACCTCAGTGAACCAGAGAAAGCA
TTTCTATTCAAAGCAATCCACCCAAGCCAAGGAAGGCTAGCTAGT
Done.