Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_040132
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: 162572
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Found at i:13389 original size:23 final size:23
Alignment explanation
Indices: 13363--13409 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
13353 AGGCCCATAA
13363 GGAAGACCTAGAGG-AAATCATTG
1 GGAAGACCTAG-GGTAAATCATTG
*
13386 GGAAGACCTAGGGTAGATCATTG
1 GGAAGACCTAGGGTAAATCATTG
13409 G
1 G
13410 TTTTCGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.19
Consensus pattern (23 bp):
GGAAGACCTAGGGTAAATCATTG
Left flanking sequence: Indices 12863 -- 13362
TTTAACTCTACACAGCTTATCAAAGCAACTCTGATGGATCTCAGATTGGCTGTGACCGACACGGT
ACGGTATGCGGTTTGCTCCCTGTTAGGCCCTTGGATCTCTAGCTATGAAAAAAAGCGAACAGGCG
GACAAAGCGGCTTGAAAGTCCTCTAGCTTCTCCAGCAAGCTATAGGGTACGGCGCGGCACAAAAT
AGTTTAAATTCACTTGGTCCGCCTGCCCTGGCTCCCCCGGCGAAACTTCCCAAGGATGCTCAAAC
TCTGCAAGGCGATAAGTATAAACTCTGGAATCGCTAAAAAAGCAGAGCAACCCGACAAATACGAG
ATCATTCTATGCCCTGTCTTGCGTGGCTCCGGCTGTTCAGCACTGTAAAAAATAAAAAAGGCTCC
TCGCCCGCTCTCTGCGCATCGACGGAGAGCACGGAATGGAATCATGCTTTTGATAGGATGAAGAA
ACATATTCTTTTTATTCGGAGATACCACCCGCCGGAGGCCCATAA
Right flanking sequence: Indices 13410 -- 13909
TTTTCGGAAACCGAAAAGAGATATATAAATATATATATATATATATATATATATATATATATATA
TGTTAATATATATATATATATATATATGCTGCGCCCGTAGTGAAAGAGGGACCAAAGTAAGTAGA
GTTAGTGAGCCGTGTAATGGGCAACTATTTCGCACGGTTCGGAGGGCACTTCAGTAGGCCCTACA
TGCATGGGCTGAAGTCTTGACCCCTATTCCTTTTGATGATGCCAGAAGTCGTTTCGATATACGAT
TTTATCTTGTTTCTATTTTATTTATTATATCCGATTCGGAAGTCACCTTTTCATTTCCTTGGGCA
GTTTCTCTTAACAAGATTGGTTCGTTTGGATTCTGGTCTATGATGGTATTTTTACTTATTTCGAC
GATTGGATTTGTATATGAATGGAAAAAGGGCGCTTTAGATTGGGAGTAACTCTTCATCCGCGAAA
GCGAATGGAGTGGAAAGAAAAAATATAAGCCCGTAGGGCTGAAGC
Found at i:13443 original size:2 final size:2
Alignment explanation
Indices: 13430--13501 Score: 112
Period size: 2 Copynumber: 37.0 Consensus size: 2
13420 CCGAAAAGAG
*
13430 AT AT AT AA AT AT AT 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
*
13472 AT AT GT -T A- 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
13502 GCTGCGCCCG
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
1 2 0.03
2 63 0.97
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 12930 -- 13429
GGTATGCGGTTTGCTCCCTGTTAGGCCCTTGGATCTCTAGCTATGAAAAAAAGCGAACAGGCGGA
CAAAGCGGCTTGAAAGTCCTCTAGCTTCTCCAGCAAGCTATAGGGTACGGCGCGGCACAAAATAG
TTTAAATTCACTTGGTCCGCCTGCCCTGGCTCCCCCGGCGAAACTTCCCAAGGATGCTCAAACTC
TGCAAGGCGATAAGTATAAACTCTGGAATCGCTAAAAAAGCAGAGCAACCCGACAAATACGAGAT
CATTCTATGCCCTGTCTTGCGTGGCTCCGGCTGTTCAGCACTGTAAAAAATAAAAAAGGCTCCTC
GCCCGCTCTCTGCGCATCGACGGAGAGCACGGAATGGAATCATGCTTTTGATAGGATGAAGAAAC
ATATTCTTTTTATTCGGAGATACCACCCGCCGGAGGCCCATAAGGAAGACCTAGAGGAAATCATT
GGGAAGACCTAGGGTAGATCATTGGTTTTCGGAAACCGAAAAGAG
Right flanking sequence: Indices 13502 -- 14001
GCTGCGCCCGTAGTGAAAGAGGGACCAAAGTAAGTAGAGTTAGTGAGCCGTGTAATGGGCAACTA
TTTCGCACGGTTCGGAGGGCACTTCAGTAGGCCCTACATGCATGGGCTGAAGTCTTGACCCCTAT
TCCTTTTGATGATGCCAGAAGTCGTTTCGATATACGATTTTATCTTGTTTCTATTTTATTTATTA
TATCCGATTCGGAAGTCACCTTTTCATTTCCTTGGGCAGTTTCTCTTAACAAGATTGGTTCGTTT
GGATTCTGGTCTATGATGGTATTTTTACTTATTTCGACGATTGGATTTGTATATGAATGGAAAAA
GGGCGCTTTAGATTGGGAGTAACTCTTCATCCGCGAAAGCGAATGGAGTGGAAAGAAAAAATATA
AGCCCGTAGGGCTGAAGCTCTCATCGCTCTCTTTCTCCCTCTCCGGACACTTTTTTGGTCCAAAG
GACACGAAACTTGCCGGGTATCGTGTGCGGATTCCAGCCAAAAAG
Found at i:16708 original size:18 final size:18
Alignment explanation
Indices: 16685--16719 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16675 ACTTAAGCTG
16685 TTTATCCCTATTCTCTTT
1 TTTATCCCTATTCTCTTT
*
16703 TTTATCCTTATTCTCTT
1 TTTATCCCTATTCTCTT
16720 CATAGTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.26, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTATCCCTATTCTCTTT
Left flanking sequence: Indices 16185 -- 16684
TTCAAACTGCATGGAAATTAAAAAGATCCGATTCTACTAATGGTTTCAAATTGACTGAATTAGTA
GTATCCATCAATAAAGCCCAAAATTCTGCAGGCACGGGTAATTAAAACGAAGTGTAATGTCTTTC
ACGAAATAATTCAGAATATCACTACCCGAGCGAGTAATTATACCAATTCCCGAAATAAACCATAG
ACGGATCCCAGGCTATAGTTCGAGAGGATTTGCTATAGGTGTAACTTCGGATATCTCGACTGTGT
TACTGGTAGAGGCAACGGATTTCTCTCTATTTCTTTCTTGTGAAAATACTGAGATCGTATCTCCG
GCTGCGGTCGACTTTTTCGAATTTGACGCCCATAATTCCTTTTTAGAGTATTAATTACCCTGGGA
CGGTTTAGTTCTCTGTAATCCGTAACGGGAGGGCCGCGGCGGCCCCCAATTTGATATCAACATCA
TCTTAGCGACTGCATTCGGGCATCATCCCGCGGAAACTTAAGCTG
Right flanking sequence: Indices 16720 -- 17219
CATAGTTATGAATTTTCCCTATTCATCATTGGCTTTATAATTAGCTAAATAAGCGAGACCCGCAC
GACCAACATATCGGCCACAAGTCTGCCTCCTTCCACGATCGTATCAACAGAAGGAATTTTAGATT
TTCAAGCTGCTTCAACCGCGCATTGCCCCGTGTTTCGTTTAGGTATAAACCTAAAGCTGTGTGTG
TTGAAAATCCAATTTATCATCCATAAAACCTGCTACGTGCTGTTCGATGAAGTACTAATTCAAAC
CACCTATCACGGACGGAGGATTCCCACTTGAAGTGATGGTCAGGGCCATAAAACTCACTCCAGTT
GATCGTCGTTCACCACATGATGACGCAAGCGTATATAATAAATGGTGGCAGACACGCAAGTGTGG
AATATGAAATTGGCCACGTGGGTTAAAAAATAAGCTCATTATTGGATGCGAAATAAGGAACAAGA
TGAAACAGCCACTCCAGTAATCCTCCCTATCACGCTTTTCTAAAC
Found at i:19119 original size:12 final size:12
Alignment explanation
Indices: 19102--19127 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19092 ATCTCCCGCC
19102 CGCTTCATGTTT
1 CGCTTCATGTTT
19114 CGCTTCATGTTT
1 CGCTTCATGTTT
19126 CG
1 CG
19128 ATGGACGGCG
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:0.08, C:0.27, G:0.19, T:0.46
Consensus pattern (12 bp):
CGCTTCATGTTT
Left flanking sequence: Indices 18602 -- 19101
TGGTTGTAGTATTCGATTCCAATGCAGCTTTATCGAAAGCTGCCGAAATTTTATGTCTGGGTTTT
TCCCTAGCCAATAAATAGGCAATCTCTACCTTTAATTTAGCGATATAATTGCCGTTGGGCGCTGT
GTCCGTGAACTTCCGTTTATCGAAATCATTTTTACATAATAGGAAGTCTACAGCGTAACTAATAG
TCTTCAGGCGAAATTCGGAAAGGGTTGGGGTGTCAGGTAATGGTGCATCATTATCCTTTTCTTGT
TTGGTGTGTTAATTGGATCCGTAACCTTGCGCGGCAGGAACTCCTCCAGGCTCAGAACCTTTCTT
ATTTAGGCCACGAGGCTGGACTCTCTATGTCATCCAGCTCACGATAACCTGTTTGGAATTTTCTT
GCGCCAGCCATATGACGAATGTAGTAAACGAAGCTCGGTATAAGTCCCGGAGTCATACGCCCTTG
GCTCTACTTCCTTTTTTTCAGCACAAGTAAGTTGCATCTCCCGCC
Right flanking sequence: Indices 19128 -- 19627
ATGGACGGCGTAGGCACCTATGAAAGAGCCTGTATTGAAACGGCTTCGGCCTCCTCCACGGTTTT
ACGGAACTATAGAGCTGGAGCCGGTTTGAAGGAAGCCATGTTAATTATGATGAAGTTGCGTTCTG
GCATGTTAAGGCCTGTCCCAACAACGCCAGCCGCGATATGCCACAGGTCGCCGGGCCTCACTCAC
CACCGAGATTCATTTCCTTACTACTCCCGATGGGTCCCAACCTGACAAATGGGTTTTTGCGAGTT
ACATACATAATTGTCAAACGTGCGGGCTAATGGGAATTCCCCCCCCCCCATGGTATAGAACGCGG
CGGCTCCGGGAGCATGTTCTTATAACGCTATCCTAGAAAGCCTTATCCATTATATTGAACCAGTT
GGAGGGGGTTAGGATAGGTAATCCAACACTTTAAAAAATTTGTGTTTTTGCTGCCGAAACACACT
TTTATCCGAGTTATAAGGTAGATCGGCCACACGTTCGAACATGTA
Found at i:31765 original size:53 final size:53
Alignment explanation
Indices: 31682--31786 Score: 140
Period size: 53 Copynumber: 2.0 Consensus size: 53
31672 CCCAAGGGCC
* * *
31682 GAAGGCCGGAAATAGCTTGACGATTTCCGCACACGATACTGGTAAGAAGGACG
1 GAAGGCCGGAAATAGCTGGACGATTCCCGCACACGATACTGGGAAGAAGGACG
* * *
31735 GAAGGCCGGAAATGGCTGGTA-GATTCCCGCACACGATATTGGGGAGAAGGAC
1 GAAGGCCGGAAATAGCTGG-ACGATTCCCGCACACGATACTGGGAAGAAGGAC
31787 ACGAGACCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 44 0.98
54 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.33, T:0.16
Consensus pattern (53 bp):
GAAGGCCGGAAATAGCTGGACGATTCCCGCACACGATACTGGGAAGAAGGACG
Left flanking sequence: Indices 31182 -- 31681
AGCACTTCGTCTATGGGCATTGTAGAAAGAATCGAGTATGACCCAAATCGTTCGTCTTGGATTGC
TTTAGTACGATGGATCGAAGGGGTTCTACGCCCTGGAAAGCACCCGGCTAGAGCAAATAGTCGAA
AAGAAAAAAATATGTTATTTTTCGGCCCCTTATTCTCGTTCTCTTCGCTGCCTAGACAAGCTGAG
GGAATAAAATACGAAAAAACGAGGCCCGGAGGCGGGCAGATACTGGAAAGTTCTTGGGTCTTAAG
GCCACGAGACCTTAGGACCAAAAAAGTGGCCTTAAGACCTTTGGGTCTTGGTTTACCCAGCGTAG
CAGTAGCTGGGGCAAAGCCCGCTTTCTTCGCTTTTCGAGGCCCTTCCTCCCTAACGGGAAGAGAG
TGCCTGTCGGCCCGAGAAAATACGTTCTCTCGAAGCGGAGGCCAAAGATGGAGAACGCATAGCGG
GGCGACGAGAATAACAAGCCTAGTACTCCCTTGGTCCCAAGGGCC
Right flanking sequence: Indices 31787 -- 32286
ACGAGACCCAAGGGACAGGCACGTAGTGCTCGACCCTTCTTTCTCCAAGCCCGAACATGCTCCCC
GCGCACTCCGTGCCGTCGGGCCTTCGGGTTCGGATCGAGTGCTACGCACCTCCGAGCCTTTCACT
TATATATTAGCCAGTGAAAAATTGGAAGTAGGCAAGACGGTGATGAATTTTCATTGGTCTAAACC
TTCGACCCCGTTAAACTACCATCAATCTTTCCAGAAAGCTAATGACCCTTCGGGCCTTAGGGTGG
AGACCGAGCGAGATAGCCAAGCTTGGCTACACAGAGACTACGTTTTTAGTGAGAATAAATACATA
CTTGATTCATATTATCAAATGGTCGGAAATTGCATACCATTAGCCAAAATACCTATAGGCACGTG
GGTACATAACATTGAAAGGAACCCAGGTCAAGGCGCAAAGTTTACTCGAGCCGCGGGAACCTTTG
CTCAAATAATTAAGAAAGTTGAGAATACACCGCAATGTATTGTGC
Found at i:36044 original size:16 final size:16
Alignment explanation
Indices: 36023--36055 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
36013 GCGTGTTCGG
36023 GCTTGTAGATTGAAGC
1 GCTTGTAGATTGAAGC
*
36039 GCTTGTCGATTGAAGC
1 GCTTGTAGATTGAAGC
36055 G
1 G
36056 TTTATAGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.30
Consensus pattern (16 bp):
GCTTGTAGATTGAAGC
Left flanking sequence: Indices 35523 -- 36022
CCTCCCGTACTCAAAGTATACTAAGATCTTGATACTCGTATTGTTATATGTACAGCTCGGCGTAG
TTCTATACGTATTATCCCGCTCTAATCGTTGCGGAAGGTTACTTATTCCCAATCTCTCACAGTGG
GAGACCTTATTCAAAGATCTCCCGCTCCCTCTAAGCATCCGTTACCCGACGGCAAAAAATAAATA
CATTTTGCAGGCAGATCCTTCTGAGCTAATCTGAGCTAATCATCCGTGACCCATCGCAAATAAAT
ATGTGTATATTTTTTCATCAGAAGAGAGAAAAATGGAAAAAAAGATGATATATTTTAAATGAAAA
ACTTTTTGGACAACTTGTTTTCTCCTAATGAACCGTCAATAGTAACCCCATTTTGCTAATCCGGT
GTTACTATCGAAAAGGAATATTACCTTTTACTATAAGTAGTCGCTTATTATTGGCAAGCATTGCT
CACCTTCGGACCCATCGGCACGTAGTGCGCGGGAAGCGTGTTCGG
Right flanking sequence: Indices 36056 -- 36555
TTTATAGAGGCGCGTGGTGCTTGCTATCTTTCGTACCGCGCTTACCGGTCATTCCGGCTACAACG
TGACTTTAGCCCGGATTGGCCGCGCAAATGGGTGGGCTTTGGCACTTTTCCATGGTTGGGAAACC
GGCATAGCTGCTTATTCCGCTAGTCGCACGTTGCACAATCAATATTGTTACTGACTTAATGACTG
GGATAACAACGCCAAAAATATCTTTGAAATGTTATCGCCGCCGGACTTTCAGGGAACGCCAGAAG
ACTTACAAAGGATTCGGACTCATTCCCGCCAAGAGCCGTCGTTTACGCGCAGTCTTCAGGAAGGG
ATCGAGAAGGTGGTCATTATGGGTGCTGTCAAAAGTGCCTGCGATGAAGTAGGTCGAATCTCTAG
GGTGCGTGGTCTTAACTTCGCACCATGCCATCAAGTATTACTGTCTCTATATCCATCGGGGTGAG
CTGATGACTGCTCGCCCTTCCCGATAAACGATTGGGCTGGTACAT
Found at i:40149 original size:27 final size:27
Alignment explanation
Indices: 40119--40174 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
40109 ATAAACAATC
* *
40119 ATGCAAGAAAAGCACGGTATTACTAAT
1 ATGCAAAAAAAACACGGTATTACTAAT
* *
40146 ATGCAAAAAAAACACTGTATTACTTAT
1 ATGCAAAAAAAACACGGTATTACTAAT
40173 AT
1 AT
40175 TCAATCAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.27
Consensus pattern (27 bp):
ATGCAAAAAAAACACGGTATTACTAAT
Left flanking sequence: Indices 39619 -- 40118
AGGGAAAAAAAAATAAATAATGTCATATATTTTAGGAACCAATCTGAATTCCAATAAACAGGTGA
AAATTGCCTTAACTCGAATCTTCGGAATTGGGCCTAAAAAGGCAATTCAAGTTTGTGATCGATTA
GGCCTCAGCGATAACATTAAGGTTAATAAGTTAACTAAATATCAATTTGACCAAATTCTAGAAAT
AATAAGTCAAAATTATTTAGTCGATTCGGAATTGGAGAGAGTCATTCAGAGGGACATCAAACGAT
TAATTAGTATTGGTTGTTATCGCGGGTTTCGCCATAATGCAGGATTGCCCTTACGCGGCCAACGG
ACTCATACTAATGCTAAGACTTCTCGCAAATTGAGATACATTTCGATCAGAAGTTGAGAAAAGTT
TTTTTCCAGTTCGTACAAAATATCTCTGTAATTGGTGAACGGATTGGATGGATCATAAAAAAACG
AAATCGATGATATCGAGCAACACCAAAAACATTCAATAAACAATC
Right flanking sequence: Indices 40175 -- 40674
TCAATCAACTTTTGGTAATACAATTATTACTTTAACGGATTATGACGGAAATACAAAAACTTGGT
CCCCCTCGGGTTCAGTGGGGTTTAAGGGATCTCGTCGCTCAACCAATTATGCTGCTCAAGCAACC
GCAGAAAATGCCGCGCGAGCTGCCATTCAACTTGGATTTAAGTTTGTTGAAGTGAGAATCAAAGG
ATTGGGTTATGGAAAGGAATCTTCGCTACGTGGTTCAAAACCAGGAGGTCTTATTATTACCAAAA
TTCGCGATGTAACCCCAACGCCACATAATGGATGCCGACCCCCTAAAAAACGTCGTGTTTAAATA
TCATCATAAAGTGCTATGTCATCATAAAATGGTAAATTGAGGTTCAAGAGTAGAAACAATTTTTT
TAGGGTCCGAGGGAGACGGGATACTTCTTTGGCTTCACGGGGCTTAACCCGTCCTTCGTAAAGGC
GGAGAAGGAAATCTACAAGCCATGTCTGGCCCTCGGCGGCCCTTC
Found at i:49098 original size:2 final size:2
Alignment explanation
Indices: 49085--49114 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
49075 GAAAGAACAA
*
49085 AT AT AT AG 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
49115 TTATCCACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 48585 -- 49084
ATTTTTTCTTTCCCTACTCGGTACAAGGGAAGGGGCTTAAGCGTCTGCTATATCTTAGCAGATCG
GATTCAACCAAGTCCTCATCAAATAAGGATCCCAAGGACCCCGCCGGACGGGTCCATACACGGAA
AAATAATATTTGGGCTGACGCGGATCTTCGGATTTTTAGATTTTGGAAAAAAAATACGCTACGCG
CCTCGTTTCGTAAATGCACCATGTGGGGTCTCAAGGACGAGGGGGGCTCGTGAGAATGCTTGGTT
TTATTCCTTCCCACCCACTAGAATCGCACATGAGCGCTATAGTGGGAAAGCAAGTTACTTCATGT
AACTCACGCCACTTGTAGGCCCACATAGGTCACTGGAAAAACAAGACAAGACCTTGCGACAGAAG
CGAATCCAAAGTAAGGTTGAATCGGAGAGCCGTATGATGGGCGACCATCTCGTACGGTTCGGAGA
GGGCTCGAGTACCAATGCATTCAATATGTGTCTGGGAAAGAACAA
Right flanking sequence: Indices 49115 -- 49614
TTATCCACTCTATTCAATTGCATGAAGGGTTAAGCACAAAACATGTGCTTCGCCTCTATTTTTCA
AATACGAAGTATACTTGGGAGAGACAGGATTCGAACCTACGTAGAAAACCTTCAGCAGATTTACA
GTCTGTCGCTTTTAACCACTCGGCCACTCTCCCTATGATAAGTAAGCTTCTATTTTCCGGCGGTG
CAATGGGACTCTGACGAAAAATAGGTCAATCCACGCGTGTACCGTTGTTCCTATGGACTAATCGA
ACAAGTAAAAGGATGTACCGTTGATATATATTATTCATTGCACACCTTACGCATCCTACAGGATT
TGAACCTGTGACCTTCAACTTAGAAGGTTGTTGCTCTATCCAACTGAGCTAAGAATGCGGCACAT
TACTAACCATTTCGCAAAAAAAAAGTGAATTCCAGAGAAGAAAGAAGCTTGCTTCTTTCTTCTCT
CCTGCTTTATTCGCATCGCGAATGGAGGCCGAAAGGGAAGAAAGG
Found at i:50822 original size:21 final size:21
Alignment explanation
Indices: 50796--50881 Score: 127
Period size: 21 Copynumber: 4.1 Consensus size: 21
50786 CATATACGAC
50796 GAATCCATAAATCGAGAGATT
1 GAATCCATAAATCGAGAGATT
50817 GAATCCATAAATCGAGAGATT
1 GAATCCATAAATCGAGAGATT
* *
50838 GAATCCATAAGTCGAGAGAGT
1 GAATCCATAAATCGAGAGATT
* * *
50859 AAATCTATAAATCAAGAGATT
1 GAATCCATAAATCGAGAGATT
50880 GA
1 GA
50882 GGCAAGGGTT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.23
Consensus pattern (21 bp):
GAATCCATAAATCGAGAGATT
Left flanking sequence: Indices 50296 -- 50795
AGTCTGCGCAGTTTGCAGTTGATACGTTCTAGGCTTAATTCTAGCCTTTGCGCTTCCTTCGAGGT
AATGACAAAGCAATTTGTGGAATACTTCGCAGGGGTTATGCGACAGCTCACATCGGCAATCATCC
AGCATCCGCGAATGTCTACCGGATTTAAGCGTTGTATTATTCGATGGAGGACTCGACCAGGGGCA
ACCCATTAAGTAAGAACAAGGTGGATGCAGCCAATTATATCGAGTCAATAAAATCGTCCAATAAA
GAACCGCGGCAAATTAAATATTTTCGCAACAGCGTCGGCACAAACGCATATGAGATGCTATTTGG
GAGAAAAAATAATATGAAACGGGAGACCGAGCCGGGTAGAGAGATAGTGGAAGAAGAAAGCGTAA
TGGAGCACGGATAACATAAGGCTTCTATTTCGTGTATACGGAAATAATAATACATAAATCAATAA
ATTTGGGTGGGAGCAAATTATAATCATTATATATGCATATACGAC
Right flanking sequence: Indices 50882 -- 51381
GGCAAGGGTTAAATCCGTAAATTTGGAGCAAATAATAATATTTAATCATATGAGTTCACGAAGTA
AGAGATCCGACAGGAGTTCTCGGCCACCATATTAGAGAAATGGGTAGGAACGGGCCACCACATTA
GATGAATGGATGAAAATCGTCAGGATTTAACCATTCATCTAATTTTGTGGCCCGTTGGGGAAGAC
TTCACGGACCGTAACCGGTTGGATTGGCTACTCCTGCGCGGGTGGTACTTCCGCCTCTTCGCTGA
GGTTAGATGGTCGGACGACAGACCTTGGACCCTTTTATTTTTATGGCTATTTGGAAAACAAAATA
GAGACTCGTGACGATATATGTTCGTAATGAGATATGTAAAAACTCTAACCAAATCCCCATCTTTC
AAAGCGCCATCAATGATTCCCATTATACGGCAGACGCGCTCCCTTTCCGCTTTCGGTTTTATCCC
TTTCGCCTACAAGGTTTTAGATAATGTATCTGAAACCTCGTAAGT
Found at i:52770 original size:21 final size:21
Alignment explanation
Indices: 52745--52790 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
52735 TCGTACTCGA
52745 ACTTTTCCTGATCCAGCTCAT
1 ACTTTTCCTGATCCAGCTCAT
* *
52766 ACTTTTCCTTATTCAGCTCAT
1 ACTTTTCCTGATCCAGCTCAT
52787 ACTT
1 ACTT
52791 CTTATCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.30, G:0.07, T:0.43
Consensus pattern (21 bp):
ACTTTTCCTGATCCAGCTCAT
Left flanking sequence: Indices 52245 -- 52744
TAATAAGAAAGACAGTGATTGCTAGTAGTAAGGATTTTTCACGATCCATGGGTTTATATAAAATC
CATGTTTCGGGTGTATCAAAATACATTATTTTCACAAAGCGTATATAATAAAAACAACTGATAAC
GCTAGTAACTACTCCTATTAGGGCTAGTAAGTAGGCCCCACAGCCTGGAGCGGCAAAAAAACAAA
TAGAATTTGCTACGAAATCCAGCTAATGGGGGTATTCCCGCGTATGGGAACATAGTGATAGACAG
GGTAATAGCTAAAATAGGATTAGTTTTGGCTAGAACAACAAAGCCAGGCGCGTAGCGTTGCTCTT
GGGAAAGTGAAAAAAAAAAAATCGAAGATGTTAAACGTAGGCTCAAAATTTTGTTACGAGCTCCC
CCGAAAGCCCTCCATGCTTTTGAATAAATACCGATTGTGGACCCTATGGAGTCTTTTCAGGGGCG
TTAAGATCTTACATGGCCGCCTTTTTTTCAACTTTTCGTACTCGA
Right flanking sequence: Indices 52791 -- 53290
CTTATCATTTTAGGCGAGCTCTTCATCTTTCTGCTCCAGGGCTTGGTCTTTTCGAGCGTTTCCAC
GCTCATTGACATATATTTTATAACCGAAAAACCCCGGCTACAATGACAGCAATAGACGCCCCAGA
ATAGACCCAATCAGTTGCTCATTGTCCCGCCGCGGATTTCCCGACGGCCCCAGCGTCGGCAGATC
CACCATCACCGGGTGCTTCTCTTGCAACTGAAGCATAAGAAGGCCTTGTAAAAAACGGGAAGGGA
AGATCACTGATTTAAGAGGATTTGTTCGATAGTTTATTTACAAAAAAAGACCCGATAAACTCTTC
AATATTACCCTTGTAGCCGGCCGACTGTTGCTCAATAGCACCTCGCTCGGAGCTGACTCAATATA
AAATCCCACGTTATTATTTTTTGTGAATTCTTGGTGATTTGAAACACCAAAAAATAGCGTCTTAA
TCGATAGTAGATTATTATAAACACAGTTACTATTTTTGCTAAAAC
Found at i:55573 original size:13 final size:13
Alignment explanation
Indices: 55555--55579 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55545 AGAGATAGAT
55555 AAATAAAGAAATG
1 AAATAAAGAAATG
55568 AAATAAAGAAAT
1 AAATAAAGAAAT
55580 ATATATATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (13 bp):
AAATAAAGAAATG
Left flanking sequence: Indices 55055 -- 55554
CCTTCTATTATCTGCTTTGGAACTGCCATGTCTCCTTGAGAAACTTCGACGGCAGATATAAGGAC
AAGCAATTCCGCAATCAACTAGACTTGTTGGCTCAAAGGCATTCGTGTTCAGTTCGCGGAGTGTT
GGAGTCATGGAAATCCGAGGAAGCTTATTATCTCGGCTTCAAGTATGGACATAGCGTATCCCAGG
TTCCCTCTATCGGATCATGTAGCAGGAATGAGTCTATCCCATCGTAATTACAAAGGTTTCCAACG
GGATTATTTACTAGGATGTCAAGGTCCCTTCTTAGTTTTATTTATAAAAAGTTGAAGTCGAGTTT
CCCGACTTGAAAAACCGAATTAGTCATTCAAAAATTCTCAGTATTTAGTAGTATCAGTTCCCATT
CTGAACCTAATAATTATTACTATCCTTAATATCTTGTCTAATAATAGTAATTTCATCTTACGTAT
AAAAGAAAGGGGATCGAAGTTCCTGGACCATATAGAGAGATAGAT
Right flanking sequence: Indices 55580 -- 56079
ATATATATATCTATTTGGCCCGTAAGCAACTATTCTATATGAATCGCCACGTATATATATATATA
TATATGTAATGTTCCAATCTTTTAAATTGCGATGGTGGAACAAAGCGAATATACTCGCTCTTCGA
AAATTATCGGTGGCTCCCCTGTCGCGCTTGCCGAGAAAAGAGGGCGCCACTGTGCGCCTTTCGGC
CCCCCCACTTTTGGGCGACAGAACGGGAAAAAGGGTTGCTCTGTTCATAAAAATGTATCAATATA
TGAGGCTAAGTACTAGGTACCCGTCAGCCACGAATAGAGAAACGATTAGGGAAAGGGCAAAAAGT
CAGTCGACCAAAGAAGCACATAATACGGCCTGAAAGATGCGTGCGAGTAGGCGGCAGAAAAACTT
AATCTTATATTAATCGACCTGACACTAAGGGCTATATAAAAGCGGACGTGAGCCTCATCACACGG
GATATCTGCTTGGATAACTTTTGCCATTCCATAATCTATCAAAGG
Found at i:62056 original size:12 final size:12
Alignment explanation
Indices: 62039--62064 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62029 CTGCGACCTT
62039 CCAAGCATTATA
1 CCAAGCATTATA
62051 CCAAGCATTATA
1 CCAAGCATTATA
62063 CC
1 CC
62065 TTTTTACGAA
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:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (12 bp):
CCAAGCATTATA
Left flanking sequence: Indices 61539 -- 62038
TCTGAGACTGTGGCAGATTCGGTCCGTTGATAAAGCTCAGAGACCGGTCCTTAGACCTTATCGAC
GGATCATCTCATCCGCGGAAGCACTCCACGAACCAAACTCGTGTAGTAGTGCGAGCTGCCGCAAA
TTATGGAGCTCTTAGACATTCGGGAAAGAGGAAACGCGATGCAATCCCATTTCGCTGTCTCCGCC
TGTCCCGTAAATAACATTCGGTAATTGTGATAGAGCCCTCCCTTCCAAGTCCTCTACCGTCTAGG
AGGAAGTAGAGCCTTGATACGAGCGCCTCAATCGGCCAGCGAAATAATCGCGGTCGTAAGCCCGA
AAATCCGATTAAATCGCGAAAATCAAAACCAGACTCCGTCCCTAGCCCGCCACAGCGAGCTAGGG
ACGGATTCAACGAAGAGTGCGTAGGCCCGTAACTCTAAAGCTGAGGCGATCATGAGTGAAACCAA
AAGAGGAAGGCAGATGTATTGGAAAAGGTCGTAATCTGCGACCTT
Right flanking sequence: Indices 62065 -- 62564
TTTTTACGAATAATTCGGCTTTACATTCGTAAAGAGTGATCGTTACAGCGAAGTAGTAGAAAAAA
CCCACTGGAGCAATTTGTCCAATAGTAACATATGGTGCTTACACAGGTTGACATCCAATCCAACC
TAAAGGGCGAGCGATCTGCTACAAGCAACCGAAACAATTTTTGGTGAATTGGTAGAAAAAATTGA
ACTACGTACATATGAAGTGTTAGTGAAAGGTAGAGTCAATAATGACACAAAAACTAGTCCTATGG
TAGACTCCCTAATTCGTTAGGTATACTTCGAGGAATTGCATAGACTGGTAAGAAATAACATTCCA
GCACCATTCGAGCCGGGGTTGACATGGGATTTGCGGGATAGAGTCAAGAGTACACCCTATACGGC
CCCAGGGTTACCCCCGTTAACCGATCTGGGCTACTTAAGTGCTCCCCGAACCGTACAAGATAGTC
GCCCATCACACGGCTCTCTAACATGACTTTATCCCTCCTTCGGAG
Found at i:93437 original size:10 final size:10
Alignment explanation
Indices: 93422--93493 Score: 94
Period size: 10 Copynumber: 7.4 Consensus size: 10
93412 GCTGCAATAG
*
93422 ATATCTAGAT
1 ATATCTATAT
93432 ATATCTATAT
1 ATATCTATAT
93442 ATA--TATAT
1 ATATCTATAT
93450 ATATCTATAT
1 ATATCTATAT
93460 ATATCTATAT
1 ATATCTATAT
*
93470 ATATATATAT
1 ATATCTATAT
* *
93480 ATATATATAG
1 ATATCTATAT
93490 ATAT
1 ATAT
93494 ATAATTTATG
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
8 8 0.14
10 49 0.86
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (10 bp):
ATATCTATAT
Left flanking sequence: Indices 92922 -- 93421
GCTAAATGACTAAATTTCGCTAATATGGCTAAATCCCGAGGATTTGTAGATAAATATATGTAATT
AATATTCTAGAAGCCTCATCGCTAATGACACCTTCGCTAAATGACGCATATTTAGCTAATATGAC
TAAACCTGTTGGGGATCTGTAGTATAATACGTAAAGGAATACCCTAATATGTAATTAAAGGGTCG
GGAGAGGAATATATAATAGGAATCTATATGGGATATGGAAGAATTCCATATAATTGGGAGGGAAG
AGTTAATCAATTGAATTGGAATAAATAGAATGGATTAGTAAATAAAATAAATTAAAATATATATA
TACATATTATATATTTGTGTATAACGGAGAAAATGCATAAATCAAATAGATTCTATTTTTTTTTA
TTATTTATAGGAGAGACTATTAAATTCATGTTTATTCTTTCTCCGCCCATCTTCCAAAAGAAAAT
GAGCTACTATTTTTCTTATTCGAGAGAGACGATGAGCTGCAATAG
Right flanking sequence: Indices 93494 -- 93993
ATAATTTATGGGTCAGGGGAGGAGATAGCCTTGACCTCTAACCTTTGAAGATACTAAGGACCTGG
ATCTTCCCTGGGTTACCACGTTCTTGAGATCTGTTACATAGGCCTCTAGTTTTCCCTTGGGAACG
CCCAGAGACTTTCATCGTGGAAGTGACATAGGAACTCCGGGCGGGGATCATGGCACTTCTACTAG
AACCTTAGGTACGCTTTCGCTAGGAGCTCAAACTGGACTGGAGATGGGAAGCATAGATCGGGGGG
GGGGCACGAAGGAACTATTTTTTCGGTCACGCGGTACGTACCGCCTGTAGGTCCCGTAAGCATCT
CGTCTTTATGGAGTTCGTAAACGGTGTCCGCTATATTCCGAAGATCAAGAATTATATCTGGTTGT
TGGTTGCGGGGCGGGGGACTTGGTTTTGTCGGCTACCATAAAACCGAAAAACTGTCCGACAAAAC
AAAGGGCACTTACGACCAACTCTGCCTCGGAATACCTTTCAGTAA
Found at i:93442 original size:2 final size:2
Alignment explanation
Indices: 93430--93496 Score: 98
Period size: 2 Copynumber: 33.5 Consensus size: 2
93420 AGATATCTAG
* * *
93430 AT AT AT CT AT AT AT AT AT AT AT AT CT AT AT AT AT CT 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
*
93472 AT AT AT AT AT AT AT AT AG AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
93497 ATTTATGGGT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Left flanking sequence: Indices 92930 -- 93429
ACTAAATTTCGCTAATATGGCTAAATCCCGAGGATTTGTAGATAAATATATGTAATTAATATTCT
AGAAGCCTCATCGCTAATGACACCTTCGCTAAATGACGCATATTTAGCTAATATGACTAAACCTG
TTGGGGATCTGTAGTATAATACGTAAAGGAATACCCTAATATGTAATTAAAGGGTCGGGAGAGGA
ATATATAATAGGAATCTATATGGGATATGGAAGAATTCCATATAATTGGGAGGGAAGAGTTAATC
AATTGAATTGGAATAAATAGAATGGATTAGTAAATAAAATAAATTAAAATATATATATACATATT
ATATATTTGTGTATAACGGAGAAAATGCATAAATCAAATAGATTCTATTTTTTTTTATTATTTAT
AGGAGAGACTATTAAATTCATGTTTATTCTTTCTCCGCCCATCTTCCAAAAGAAAATGAGCTACT
ATTTTTCTTATTCGAGAGAGACGATGAGCTGCAATAGATATCTAG
Right flanking sequence: Indices 93497 -- 93996
ATTTATGGGTCAGGGGAGGAGATAGCCTTGACCTCTAACCTTTGAAGATACTAAGGACCTGGATC
TTCCCTGGGTTACCACGTTCTTGAGATCTGTTACATAGGCCTCTAGTTTTCCCTTGGGAACGCCC
AGAGACTTTCATCGTGGAAGTGACATAGGAACTCCGGGCGGGGATCATGGCACTTCTACTAGAAC
CTTAGGTACGCTTTCGCTAGGAGCTCAAACTGGACTGGAGATGGGAAGCATAGATCGGGGGGGGG
GCACGAAGGAACTATTTTTTCGGTCACGCGGTACGTACCGCCTGTAGGTCCCGTAAGCATCTCGT
CTTTATGGAGTTCGTAAACGGTGTCCGCTATATTCCGAAGATCAAGAATTATATCTGGTTGTTGG
TTGCGGGGCGGGGGACTTGGTTTTGTCGGCTACCATAAAACCGAAAAACTGTCCGACAAAACAAA
GGGCACTTACGACCAACTCTGCCTCGGAATACCTTTCAGTAACCT
Found at i:111294 original size:21 final size:22
Alignment explanation
Indices: 111262--111303 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
111252 TTAGAGTAAG
111262 AAAAACCACTAC-AAAGAAACA
1 AAAAACCACTACTAAAGAAACA
*
111283 AAAAATCC-CTACTACAGAAAC
1 AAAAA-CCACTACTAAAGAAAC
111304 GTATGAGCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.60, C:0.26, G:0.05, T:0.10
Consensus pattern (22 bp):
AAAAACCACTACTAAAGAAACA
Left flanking sequence: Indices 110762 -- 111261
TGTAACCCAAATAAACTTGCCGTATTGTCTTTGCGAAAGAGACAAGAGCCTATGAACTCTGTATT
AGAGTTTTATTCCGGTCGGTATAAGTGTGAATTGAAACCGAGTGTTTAACCATTATTTCGCTATT
CCCGATATTATAGCGACGGAGGCCCTTGATCCAATCCAGCGAGTTTTCTGCTATGTTTGTTTCTT
CGGTGAAGGAAGGGGGGGGGGGGGTAGACGCCAGCCTAACCCAGGAGGGCCTGGTGGCTCCTCGG
TCAAGTCCCTAACTTTCAGGGCGGGCTCCGCCCTATAAGGACTAGGTCTGTATAGGGCGGAGCGG
ATCGGTGCTTAAGCTGCACAAATTGCTGAGACGTCTAAATGCTTTCCTTGATAGCTGGAAGTTCT
TCAAAAGTATGAAATGCCGGAGGGCTCGGGACCATCCATTCAAGTGTCGTTGAATTCTGTTCAAC
AGCCCAAGGACTTGGAGCACACTTGTTTTCACTAGTTAGAGTAAG
Right flanking sequence: Indices 111304 -- 111803
GTATGAGCCAAAACTACTAAAGGCATTCCGTCCAGCGTAAGCATCTGGATAATCAGGAATGCGAC
GTGGCATACCTGCAAGCGGTTTTTCCCTTATTTATCAAATGTTAATGGATTGTGACTAAATATTT
TTCTTTTGTAAACTTCTTCATCTGGAATTAGTCCCTCAGACGTTTCGGTGTGTTTAAATCCCAAT
GTTGAATCAGTTATTTTATTGGTATTAAGAACTGGTTCATAAAGATCTAAATAGTACTGTTCCCG
AGCTAAATAATCCTTTTCAGTAATAGTACCTGTTGAACCACATGACTCAATAATAACTAAAATTG
TCATGACCATATTTCCAACTGGAATTTTAAATATATCTGTTATCGGATAATTTAGAAGGGTGATA
GTATTCAGCAAGTCTATCGCTTAATTTATAACCACTACCTACATATTGTTTCTTTCCCATTAACT
AAATTCTGCCAAATATAGATTCCAGTTTCCGTTAGATAATCAGAA
Found at i:127962 original size:15 final size:15
Alignment explanation
Indices: 127939--127969 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
127929 TCCTTCAGAG
*
127939 AATTCTATATAAATA
1 AATTATATATAAATA
127954 AATTATATATAAATA
1 AATTATATATAAATA
127969 A
1 A
127970 TGAAACCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
AATTATATATAAATA
Left flanking sequence: Indices 127439 -- 127938
TTTGGTGTTTACCCAACTAAAGCGATTGGCTGGAGACGAAACCACGGTAGCTTCCCTACCACCCG
CGCACAGGTCATGAATTAGGGGTGTTATGAAGGAGGCACGTGGATTACCTTAGGCAACAACGAGC
CCGCCGCAATCGGTAACATAATGAAAAAGTACACAGGCACTACGTGCTTCTGGAACATACTTCTT
TTAGTTTTCGTCCGGAGCGATAATTGTATGGAATACAGGAAGCGATAAGGAAGCAGGAAGGTTTA
TGGAGGGGGTTGAGCTACGGGTTTGTTTTCAACCAACCGTAGCTCTACCTCGTTCGTAGGAGGCT
GTGACCCCTAAACCAGCTTGCCGAGAAGACCTTACTTACACAAAGATACATTGAGGAGTTGCTGT
CCTCCCCCTCTCGAGATAAAAATGGACCAACGAGAGATTAACTTCGATGATCCCGATGGCGTTTT
CGAGTAAATCCTGGCTGGAGAATATAGATCATACTTCCTTCAGAG
Right flanking sequence: Indices 127970 -- 128469
TGAAACCTTATTAACGAATTAACGAGGTTGAGCGGATAATTACTTATTCTCACAAAGAGGTTGGG
ACCGGAATTGTAACCGTAAGTAACCATTTCAACTGGGTAACGGCGCGCGTAAGGGCTCAGTACCT
AATAAATAACCTTAGACTAATAATTTATAAGGGATATCGTCCCGTATAGATCAGGTGTTTATGAT
ACTCTACGAACCCCGGACTCGTATTTGAAGTGAAGGTCTTCTTCGGTGAAGGAAATGCCTGAAAG
AAGCTTGGAAGCCGGGAGTATTCGGTTATGTTCGTAAGGAATTTCCCCAAGCACACACAACAAAG
GTTTTGGAGATTTATATAATTAATTAGCCAGCTTTAGATATTGCAATCCAATCCTCTCTTTTCCG
AGGAGGGAATAAAGCTATTATGATTCGAGGAATTCTTGAAGTTGATAGGAAAGGTCTAGCCATTT
CCATCAATGAGTTGAAGGAGTTGCCATAGGTTACTGAAAGGTATT
Found at i:145768 original size:21 final size:21
Alignment explanation
Indices: 145743--145785 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
145733 AAAGAAGAAA
*
145743 TTTACAAAAAAATATTTTTTT
1 TTTACAAAAAAATATTTCTTT
* *
145764 TTTACGAAAATATATTTCTTT
1 TTTACAAAAAAATATTTCTTT
145785 T
1 T
145786 GTTGCTCGCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTACAAAAAAATATTTCTTT
Left flanking sequence: Indices 145243 -- 145742
CCGATGAGAAGTGGGTAACAATGTGTTTGTCCTCCGAGGAAGCCAATCGTGGATTGGAGGTTGCC
CGAGCTAAGCCCTTGGCGTTTTTTCTCGCGTATCCAAGTTCCAAGGCTTTGGTTATTAAGTCCGT
TATGGGAGCAATTAGTTGTGGACGAGATCGGAGTCTTACTTGGTTGACACCGGATATCTTGCCAG
TGCTTGAGATTTCCACACTTCGGGTGCCGTAATATATTACTAATGCGCCCAAGTATTTGGCCATC
CCGGACTTTGCGTGTAAGATTTTATGTTCGTTTATGTCCAACTCCAGTTCTTCCTGCAGGAAGTT
TTGCACGGCTTTTATAATATCTAGGGCATCTCGTTTGGTGCCCATAACACCTAGAATTATGTTAT
CCGCGTACCGTAGGTACTTAAGTCTTTCTAATCCTTCTTTCTCAGCCATTTCTGGAAGCGTCTTT
CGGCCCAAAGGGCACGAAACTTTAGGGTTTCGGAAAAAGAAGAAA
Right flanking sequence: Indices 145786 -- 146285
GTTGCTCGCGGTTCATCCATTCTAGGTGTTCGATGTTTTTGATGGCCTGCCCCAATTCTGTATAG
TACTCGAAGAAGGCTTTGTATTTTGAATGGATATCAAGCCTTTTCCTACTATATTCTGCCGACGC
GAGGCGCATATTCGCTACATTGTATTTGGGTACGAGTATGTCTTCGACGTAGCAATCCAACTTAT
GTAGGAAGATATTGGTACAAAGCGGGGATAGTATAGAGCCCTGCGGAACGCCCTCTGTGTTGTAT
CCCGCTCGATCCGTAAGGTTATATACATCTATGTATCCTGCGTTAAGTAGCTTTCGCATAAGATC
CTGTAGTGCTTTAGATCGCAGTACTGATCCCATCTCCTTAATAAGCAGGTCGTGATGAATCTTGT
CAAAGTCTTTCTTAATATCAATTTGTACAAGCCAAGTCGGTGCCGTCCACGAGTAACGTAGGGTT
CGCAGGGCTTCATGACAGCTTCTCCCAGGGCGGAACCCGTGGCTT
Found at i:157613 original size:21 final size:21
Alignment explanation
Indices: 157587--157630 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
157577 TTTATAAACC
*
157587 GTCCCTGACAAACCCATTGAT
1 GTCCCTGACAAACCCATTAAT
157608 GTCCCTGACAAACCCATTAAT
1 GTCCCTGACAAACCCATTAAT
157629 GT
1 GT
157631 TTGAGCATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.25
Consensus pattern (21 bp):
GTCCCTGACAAACCCATTAAT
Left flanking sequence: Indices 157087 -- 157586
TTGTTGTTCTTTCATTTTACTATTATCAAATTCATGGGGGACTTTTCATATTTGGAATCTTTTTG
CGGTGTGCTTTGTTTCTTCCTCTTCCGTACGTTCTTTTTATCGTCTCATCATAGGCGCGATAGGT
TAGCGAGGCACAAATTTCCTTTCTTTGTTTTTCACAGGCAGAGAAGACGCGAGCTTATTATATCG
TCACTGAGAAGAAATAACTTGAATTGGAGTAGATGTTTTCTTGTTCGCGCCTTACCGAGTGGACC
GATGACTGTTGGTTATTACTTTCGAAAAGCTCCCGTTAATATGAAGCTTTCACATGGAGGAGTTT
GCATCTTTATTATGGGTGTAATTCTGCCCAACGCAAAAAAGATACAATCTACAGGGAAAACACCT
TTGGGTTCCGAACTACATATAGGGAAGGTTCGTAGCACTTTGCGAGGTATTGATCAATTACATGG
GCCCACTTTTCACTCCATTTGTGGTAATTCAATCATTTATAAACC
Right flanking sequence: Indices 157631 -- 158130
TTGAGCATGACGAATCACGTCCTGCCCTGTTGCAATCCCGGCCTACCGAAGGTGCAAAGCTCTCG
ACCGACGGTAGAGGCTTTAGCTCTCCACCAACGGGAGGAGGAAACTTCTGTGGTTCGCCGAAGGG
ACGAAGGCCAGAAATGGCTGGTAGATTTACGCACACTTCTTTACGAAAGAAGGGCTTTACAGTTC
TCGAACATAACAGTTTTTCACATTGGTTGACTATGTTCCCAGAAAAAAGATTCTATTTTTCGAAT
CAAGAAACGAGCACTACCAAAGTGGCTATACATACCAATCTCTTTACGGATCTATATGCTTTGAT
CGGAACTGGAAGTTTTGAAACAGGCTGGTATACGACAGTAATTAAGCTCCCTTTTATTTTCCGTA
TTTGGATAGGTTTCATTATGGCTTCGTTGGGAGGCTCGCTCAGTCTTTTCCGTAAGCTCACCTTT
TACAGATTGGATTGGAATTAAAAATTTATTGTGGTTATTTCTGTT
Done.