Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 276 of 318
Found at i:88496264 original size:21 final size:21
Alignment explanation
Indices: 88496223--88496267 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
88496213 AATCAATTCA
*
88496223 ATTTTATTTTAAATATTTATT
1 ATTTTATTTTAAATATATATT
*
88496244 ATTTTATTTTTAACT-TATATT
1 ATTTTA-TTTTAAATATATATT
88496265 ATT
1 ATT
88496268 ATTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTATTTTAAATATATATT
Found at i:88496684 original size:18 final size:18
Alignment explanation
Indices: 88496632--88496687 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
88496622 GTCAGCAAAT
88496632 AATTCAAAAATTATAAAA
1 AATTCAAAAATTATAAAA
*
88496650 AA-TAAAAAATATATAAAA
1 AATTCAAAAAT-TATAAAA
88496668 AATTCATAAAATT-TAAAA
1 AATTCA-AAAATTATAAAA
88496686 AA
1 AA
88496688 AAATTGACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 7 0.21
18 18 0.55
19 3 0.09
20 5 0.15
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.27
Consensus pattern (18 bp):
AATTCAAAAATTATAAAA
Found at i:88496825 original size:32 final size:32
Alignment explanation
Indices: 88496779--88496846 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 32
88496769 AAAAAACATC
* *
88496779 ATTTTGACTCTTTTTTAAAAGGTTGATGGTCAA
1 ATTTTGAC-CCTTTTTAAAAGGTTGATGCTCAA
* *
88496812 ATTTT-ACCCTTTTTAATAGGTTGATTCTCAA
1 ATTTTGACCCTTTTTAAAAGGTTGATGCTCAA
88496843 ATTT
1 ATTT
88496847 AACTAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 24 0.77
32 2 0.06
33 5 0.16
ACGTcount: A:0.26, C:0.12, G:0.13, T:0.49
Consensus pattern (32 bp):
ATTTTGACCCTTTTTAAAAGGTTGATGCTCAA
Found at i:88502425 original size:26 final size:26
Alignment explanation
Indices: 88502396--88502449 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
88502386 GAACAATTCT
*
88502396 ATCAAATTAAATTGAGTAAAAACACC
1 ATCAAATTAAATTGAGCAAAAACACC
88502422 ATCAAATTAAATTGAGCAAAAACACC
1 ATCAAATTAAATTGAGCAAAAACACC
88502448 AT
1 AT
88502450 TAACTTTATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.54, C:0.17, G:0.07, T:0.22
Consensus pattern (26 bp):
ATCAAATTAAATTGAGCAAAAACACC
Found at i:88504126 original size:5 final size:5
Alignment explanation
Indices: 88504116--88504144 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
88504106 AGAAAACCGC
88504116 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
88504145 AGAGCTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:88512594 original size:16 final size:15
Alignment explanation
Indices: 88512556--88512594 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
88512546 TGGATTCTCG
*
88512556 TATCATGGATTTCTT
1 TATCTTGGATTTCTT
88512571 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
88512586 TATTCTTGG
1 TA-TCTTGG
88512595 CTTCTCTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:88514711 original size:49 final size:48
Alignment explanation
Indices: 88514539--88514712 Score: 150
Period size: 49 Copynumber: 3.5 Consensus size: 48
88514529 GTAATAGTCA
* ** *
88514539 TAAGTGCAGGCTACTATGCGTACTTGATAACTTTGATCACGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGCGTACCAGATAA--TTGGTCAC-TGTGTAGTAC
* * ** ** * *
88514590 TAAGTGTAGGCTACTACGTGTATTAGATGGTTAGGTAACTATGTAGTAC
1 TAAGTGCAGGCTACTACGCGTACCAGATAATT-GGTCACTGTGTAGTAC
* * * *
88514639 TAAGTGCAGGTTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTAC
1 TAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCAC-TGTGTAGTAC
*
88514688 TAAGTGCAGGCTACTATGCGTACCA
1 TAAGTGCAGGCTACTACGCGTACCA
88514713 AATAGCTTCG
Statistics
Matches: 97, Mismatches: 24, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
48 4 0.04
49 66 0.68
50 4 0.04
51 23 0.24
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (48 bp):
TAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCACTGTGTAGTAC
Found at i:88524536 original size:8 final size:8
Alignment explanation
Indices: 88524502--88524561 Score: 68
Period size: 8 Copynumber: 7.5 Consensus size: 8
88524492 TAATGATGTG
*
88524502 AATAATAA
1 AATATTAA
88524510 AATATATAA
1 AATAT-TAA
88524519 AATA-TAA
1 AATATTAA
88524526 AATATTAA
1 AATATTAA
*
88524534 AATATCAA
1 AATATTAA
*
88524542 AATATCAA
1 AATATTAA
*
88524550 AATATTAG
1 AATATTAA
88524558 AATA
1 AATA
88524562 ATAATAATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
7 7 0.15
8 32 0.70
9 7 0.15
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (8 bp):
AATATTAA
Found at i:88524771 original size:22 final size:24
Alignment explanation
Indices: 88524711--88524775 Score: 98
Period size: 25 Copynumber: 2.8 Consensus size: 24
88524701 CGTGATAATA
88524711 TTAAAAATATATACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
88524736 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
88524759 TT-AAAATATATACATAA
1 TTAAAAATATATACATAA
88524776 GATAACATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 14 0.37
23 3 0.08
25 21 0.55
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:88524832 original size:16 final size:18
Alignment explanation
Indices: 88524793--88524832 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
88524783 TGTAGAAAAA
*
88524793 ATATATATGTATATAAAT
1 ATATATATGTATATAAAG
88524811 A-ATATA-GTAT-TAAAG
1 ATATATATGTATATAAAG
88524826 ATATATA
1 ATATATA
88524833 CATAAAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 5 0.25
16 9 0.45
17 5 0.25
18 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (18 bp):
ATATATATGTATATAAAG
Found at i:88524856 original size:59 final size:60
Alignment explanation
Indices: 88524750--88524867 Score: 147
Period size: 59 Copynumber: 2.0 Consensus size: 60
88524740 AAATACATAC
88524750 ATAATATAGTTAAAATATATACATAAGATAACATGTAGAAAAAATATATATGT-ATATAA
1 ATAATATAGTTAAAATATATACATAAGATAACATGTAGAAAAAATATATATGTAATATAA
* *
88524809 ATAATATAGTATTAAAGATATATACAT-A-A-AATA-GTATAAAAATATATATATGTAATATA
1 ATAATATAG--TTAAA-ATATATACATAAGATAACATGTAGAAAAA-ATATATATGTAATATA
88524868 GAATTTAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
58 8 0.15
59 22 0.42
60 6 0.12
61 6 0.12
62 10 0.19
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.34
Consensus pattern (60 bp):
ATAATATAGTTAAAATATATACATAAGATAACATGTAGAAAAAATATATATGTAATATAA
Found at i:88524868 original size:26 final size:25
Alignment explanation
Indices: 88524802--88524927 Score: 84
Period size: 25 Copynumber: 5.2 Consensus size: 25
88524792 AATATATATG
* *
88524802 TATATAAATAATATAGTATTAAAGA
1 TATATACATAATATAGTATTAAAAA
*
88524827 TATATACATAAAATAGTA-TAAAAA
1 TATATACATAATATAGTATTAAAAA
* * *
88524851 TATATATATGTAATATAGAATT-TAAA
1 TATATACA--TAATATAGTATTAAAAA
* *
88524877 -ATATACCT-A-ATA-TATTAAAAG
1 TATATACATAATATAGTATTAAAAA
* * *
88524898 GATATATATAATATAATATTAAGAAA
1 TATATACATAATATAGTATTAA-AAA
88524924 TATA
1 TATA
88524928 ATAATAACAA
Statistics
Matches: 76, Mismatches: 16, Indels: 17
0.70 0.15 0.16
Matches are distributed among these distances:
20 3 0.04
21 5 0.07
22 7 0.09
23 2 0.03
24 15 0.20
25 27 0.36
26 16 0.21
27 1 0.01
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (25 bp):
TATATACATAATATAGTATTAAAAA
Found at i:88525510 original size:30 final size:30
Alignment explanation
Indices: 88525476--88525596 Score: 224
Period size: 30 Copynumber: 4.0 Consensus size: 30
88525466 AATGGAGCAA
*
88525476 GTGTGGCTAGTGGATTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
88525506 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
88525536 GAGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
88525566 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
88525596 G
1 G
88525597 CTAAGATTTA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 88 1.00
ACGTcount: A:0.21, C:0.03, G:0.50, T:0.26
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
Found at i:88526496 original size:14 final size:14
Alignment explanation
Indices: 88526477--88526508 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
88526467 TTGATTCTTA
88526477 AAAAGCAAAAATTG
1 AAAAGCAAAAATTG
*
88526491 AAAAGCATAAATTG
1 AAAAGCAAAAATTG
88526505 AAAA
1 AAAA
88526509 TACCTCAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.06, G:0.12, T:0.16
Consensus pattern (14 bp):
AAAAGCAAAAATTG
Found at i:88526623 original size:191 final size:190
Alignment explanation
Indices: 88526334--88526681 Score: 592
Period size: 191 Copynumber: 1.8 Consensus size: 190
88526324 ACGTGAGCCA
88526334 AGGCTCAACTCACCTCTCGCAATATGAGTTTTTTTTTGAAACACAGAAATTAAAAAAAAATAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTTTTTTTTGAAACACAGAAATT-AAAAAAAATAGAA
* *
88526399 ATTAAAAACAGAATTTGAAAAGACCTTGGCGTGTGGCCCGAGACTCAATTCACCTCTCGCAATAT
65 ATTAAAAACAGAATTTGAAAAGACCTCGGCGTGTGGCCCGAGACTCAACTCACCTCTCGCAATAT
88526464 GAGTTGATTCTTAAAAAGCAAAAATTGAAAAGCATAAATTGAAAATACCTCAACGTGCCCTG
130 GAGTTGATT-TTAAAAAGCAAAAATTGAAAAGCATAAATTGAAAATACCTCAACGTGCCCTG
*
88526526 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTGAAACACAGAAATT-AAAAAAA-AGA
1 AGGCTCAACTCACCTCTCGCAATATGAGTT--TTTTTTTGAAACACAGAAATTAAAAAAAATAGA
*
88526589 AATTAAAGACAGAATTTGAAAAGACCTCGGCGTGTGGCCCGAGACTCAACTCACCTCTCGCAATA
64 AATTAAAAACAGAATTTGAAAAGACCTCGGCGTGTGGCCCGAGACTCAACTCACCTCTCGCAATA
* *
88526654 TGAGTTGATTTTGAAAAGCAGAAATTGA
129 TGAGTTGATTTTAAAAAGCAAAAATTGA
88526682 GAACGCCTCA
Statistics
Matches: 148, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
190 16 0.11
191 75 0.51
192 36 0.24
194 21 0.14
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (190 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTTTTTTTTGAAACACAGAAATTAAAAAAAATAGAAA
TTAAAAACAGAATTTGAAAAGACCTCGGCGTGTGGCCCGAGACTCAACTCACCTCTCGCAATATG
AGTTGATTTTAAAAAGCAAAAATTGAAAAGCATAAATTGAAAATACCTCAACGTGCCCTG
Found at i:88526719 original size:74 final size:75
Alignment explanation
Indices: 88526613--88526758 Score: 213
Period size: 74 Copynumber: 1.9 Consensus size: 75
88526603 TTTGAAAAGA
* *
88526613 CCTCGGCGTGTGGCCCGAGACTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAGCAGAA
1 CCTCAGCGTGTGACCCGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAA
88526677 ATTGAGAACG
66 ATTGAGAACG
* * * *
88526687 CCTCAGCGTGTGACCCGAGGCTTAACTCACCTCTTGCAATATGAGTTGATTCTTTTGAAAAGTAG
1 CCTCAGCGTGTGACCCGAGACTCAACTCACCTCTCGCAATATGAGTTGA-T-TTTTGAAAAGCAG
88526752 AAATTGA
64 AAATTGA
88526759 AAACCAGAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
74 44 0.70
77 19 0.30
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (75 bp):
CCTCAGCGTGTGACCCGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAA
ATTGAGAACG
Found at i:88526852 original size:15 final size:15
Alignment explanation
Indices: 88526832--88526861 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
88526822 GATTTTGATG
88526832 AACAGAAATTGAAAA
1 AACAGAAATTGAAAA
88526847 AACAGAAATTGAAAA
1 AACAGAAATTGAAAA
88526862 TACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.13, T:0.13
Consensus pattern (15 bp):
AACAGAAATTGAAAA
Found at i:88526930 original size:89 final size:85
Alignment explanation
Indices: 88526664--88527022 Score: 411
Period size: 88 Copynumber: 4.1 Consensus size: 85
88526654 TGAGTTGATT
* * ** * *
88526664 TTGAAAAGCAGAAATTGAGAACGCCTCAGCGTGTGACCCGAGGCTTAACTCACCTCTTGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATAT
88526729 GAGTTGATTCTTTTGAAAAGTAGAAA
64 GAGTTGA-T-TTTTGAAAA--AGAAA
* *
88526755 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAA-TCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
*
88526819 GTTGA-TTTTGATGAACAGAAA
66 GTTGATTTTTGA--AAAAGAAA
*
88526840 TTGAAAAAACAGAAATTGAAAATACCTCAGCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATA
1 TTG-AAAAACAGAAATTGAAAATACCTCAG--CGTGACCCGAGGCTCAACTCACCTCTCGCAATA
*
88526905 TGAGTTGGATTTTTGAAAAATAAA
63 TGAGTT-GATTTTTGAAAAAGAAA
* * **
88526929 TTGACAAACGGAAATTGAAAATACCTCAGCGT--CTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
88526992 GTTGATTTTTTTGAAAGACAGAAA
66 GTTGA--TTTTTGAAA-A-AGAAA
88527016 TTGAAAA
1 TTGAAAA
88527023 TACCTCAACG
Statistics
Matches: 236, Mismatches: 20, Indels: 28
0.83 0.07 0.10
Matches are distributed among these distances:
83 2 0.01
84 31 0.13
85 23 0.10
86 29 0.12
87 12 0.05
88 61 0.26
89 44 0.19
90 2 0.01
91 32 0.14
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (85 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAAAGAAA
Found at i:88527060 original size:75 final size:75
Alignment explanation
Indices: 88526929--88527142 Score: 326
Period size: 75 Copynumber: 2.9 Consensus size: 75
88526919 GAAAAATAAA
* * *
88526929 TTGACAAACGGAAATTGAAAATACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
88526992 GTTGATTTTT
66 GTTGATTTTT
* *
88527002 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTTACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
88527067 GTTGATTTTT
66 GTTGATTTTT
* * *
88527077 TTGAAAAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATGTG
1 TTGAAAAACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
88527141 AG
65 AG
88527143 CAGAAATTGA
Statistics
Matches: 128, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
73 24 0.19
74 5 0.04
75 99 0.77
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:88527175 original size:58 final size:58
Alignment explanation
Indices: 88527085--88527200 Score: 162
Period size: 58 Copynumber: 2.0 Consensus size: 58
88527075 TTTTGAAAAA
* *
88527085 CAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATGTGAG
1 CAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* * * *
88527143 CAGAAATTGAAAA-TACCTCAATGTGTCTTGAGGCTTAACTCACCTCTCGTAATATGAG
1 CAGAAATT-AAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
88527201 TTGATTTTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
58 47 0.92
59 4 0.08
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (58 bp):
CAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
Found at i:88527319 original size:73 final size:72
Alignment explanation
Indices: 88527146--88527436 Score: 343
Period size: 71 Copynumber: 3.9 Consensus size: 72
88527136 ATGTGAGCAG
** * * * *
88527146 AAATTGAAAATACCTCAATGTGTCTTGAGGCTTAACTCACCTCTCGTAATATGAGTTGATTTTT-
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
88527210 AAAAAAT
66 AAAACAT
*
88527217 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
88527282 ACAAACAT
66 A-AAACAT
* * * *
88527290 AAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTTTCACAATGT-AGGTTGATTTTT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA-GTTGA--TTT
*
88527354 TTGAAAACCAG
63 TTGAAAA-CAT
* *
88527365 AGATTGAAAATACCTCAGTATGCCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AAATTGAAAATACCTC---A-G-CGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
88527430 TTTTGAA
61 TTTTGAA
88527437 TATAGAAATA
Statistics
Matches: 188, Mismatches: 20, Indels: 17
0.84 0.09 0.08
Matches are distributed among these distances:
71 57 0.30
72 2 0.01
73 57 0.30
74 3 0.02
75 23 0.12
78 9 0.05
79 1 0.01
80 35 0.19
81 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (72 bp):
AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAACAT
Found at i:88534888 original size:10 final size:10
Alignment explanation
Indices: 88534873--88534902 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
88534863 TAAAACTTGA
88534873 ATTTAAAATC
1 ATTTAAAATC
*
88534883 ATTTAAAATA
1 ATTTAAAATC
88534893 ATTTAAAATC
1 ATTTAAAATC
88534903 GTTAGTACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (10 bp):
ATTTAAAATC
Found at i:88546665 original size:21 final size:20
Alignment explanation
Indices: 88546641--88546679 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
88546631 CCGTGTTAAT
88546641 TTTGTACTTTGGCCCATTTTC
1 TTTGT-CTTTGGCCCATTTTC
* *
88546662 TTTGTTTTTGGCGCATTT
1 TTTGTCTTTGGCCCATTT
88546680 CTCGTTCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.08, C:0.18, G:0.18, T:0.56
Consensus pattern (20 bp):
TTTGTCTTTGGCCCATTTTC
Found at i:88549531 original size:27 final size:26
Alignment explanation
Indices: 88549500--88549677 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
88549490 TAAATTGTAC
88549500 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
88549527 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
88549553 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
88549581 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
88549609 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
88549636 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
88549663 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
88549678 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:88549616 original size:82 final size:81
Alignment explanation
Indices: 88549501--88549656 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
88549491 AAATTGTACA
* * *
88549501 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
88549565 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
88549582 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
88549647 TGCGAGTTGA
65 TGCGAATTGA
88549657 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:88549668 original size:82 final size:81
Alignment explanation
Indices: 88549497--88549677 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
88549487 GATTAAATTG
* * *
88549497 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
88549562 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
88549578 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
88549642 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
88549660 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
88549678 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:88560874 original size:56 final size:56
Alignment explanation
Indices: 88560805--88560918 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
88560795 ATGATGTTTT
88560805 AGATCCCGAAAAACAAGATTTGAACCTAGAATGAGAGAAAAATTGAAAATTGGGAA
1 AGATCCCGAAAAACAAGATTTGAACCTAGAATGAGAGAAAAATTGAAAATTGGGAA
*
88560861 AGATCCCGGAAAACAAGATTTGAACCTAGAATGAGAGAAAAATTGAAAATTGGGAA
1 AGATCCCGAAAAACAAGATTTGAACCTAGAATGAGAGAAAAATTGAAAATTGGGAA
88560917 AG
1 AG
88560919 TTGGTAAAAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.49, C:0.11, G:0.23, T:0.18
Consensus pattern (56 bp):
AGATCCCGAAAAACAAGATTTGAACCTAGAATGAGAGAAAAATTGAAAATTGGGAA
Found at i:88578293 original size:46 final size:46
Alignment explanation
Indices: 88578242--88578636 Score: 524
Period size: 46 Copynumber: 8.8 Consensus size: 46
88578232 GTGTGCTCTC
* *
88578242 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
** *
88578288 TGATATGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
88578334 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
88578380 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
88578426 TGATATGAAATGTGTAAGACCATGGTT----GA-A--A--G-AACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
88578462 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
* * *
88578508 TGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
* * *** *
88578554 TGACAGGAAAATGAAAAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
* * * * *
88578601 TGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATAC
88578637 TATGACATCA
Statistics
Matches: 319, Mismatches: 19, Indels: 22
0.89 0.05 0.06
Matches are distributed among these distances:
36 31 0.10
37 1 0.00
39 1 0.00
40 2 0.01
41 2 0.01
42 2 0.01
43 1 0.00
45 1 0.00
46 236 0.74
47 42 0.13
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:88578469 original size:36 final size:36
Alignment explanation
Indices: 88578422--88578494 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
88578412 ATACCATGGC
88578422 AACGTGATATGAAATGTGTAAGACCATGGTTGAAAG
1 AACGTGATATGAAATGTGTAAGACCATGGTTGAAAG
88578458 AACGTGATATGAAATGTGTAAGACCATGGTTGAAAG
1 AACGTGATATGAAATGTGTAAGACCATGGTTGAAAG
88578494 A
1 A
88578495 TACCATGGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.40, C:0.08, G:0.27, T:0.25
Consensus pattern (36 bp):
AACGTGATATGAAATGTGTAAGACCATGGTTGAAAG
Found at i:88578473 original size:82 final size:82
Alignment explanation
Indices: 88578376--88578540 Score: 312
Period size: 82 Copynumber: 2.0 Consensus size: 82
88578366 ATACCATGGC
* *
88578376 AACGTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGTGT
1 AACGTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAGT
88578441 AAGACCATGGTTGAAAG
66 AAGACCATGGTTGAAAG
88578458 AACGTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAGT
1 AACGTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAGT
88578523 AAGACCATGGTTGAAAG
66 AAGACCATGGTTGAAAG
88578540 A
1 A
88578541 TACCATGGCA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.23
Consensus pattern (82 bp):
AACGTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAGT
AAGACCATGGTTGAAAG
Found at i:88580575 original size:44 final size:43
Alignment explanation
Indices: 88580430--88580586 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
88580420 AGCATATACA
* * * * *
88580430 ATGCCAACGTCCCAGACGTGGTTTTACATGT-AACCAAACATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAAACAGA-ATCG
* * *
88580473 ATGCC-ACTGTCCCAGATAAGGTCTTACACG-AAATCAGATAT-G
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAAACAGA-ATCG
* * *
88580515 ATGCCGATGTCACAGACATGGTCTTACACGTAAAACAGAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAAACAGAA-TCG
*
88580559 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
88580587 TAATAACACA
Statistics
Matches: 91, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
42 28 0.31
43 38 0.42
44 25 0.27
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAAACAGAATCG
Found at i:88585425 original size:23 final size:23
Alignment explanation
Indices: 88585399--88585446 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
88585389 ATAATAATTT
88585399 TTACTAGTCCTTTTTTCTATAAG
1 TTACTAGTCCTTTTTTCTATAAG
88585422 TTACTAGTCCTTTTTTCTATAAG
1 TTACTAGTCCTTTTTTCTATAAG
88585445 TT
1 TT
88585447 TAGTCAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.17, G:0.08, T:0.54
Consensus pattern (23 bp):
TTACTAGTCCTTTTTTCTATAAG
Found at i:88585450 original size:21 final size:22
Alignment explanation
Indices: 88585403--88585451 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 22
88585393 TAATTTTTAC
88585403 TAGTCCTTTTTTCTATAAGTTA
1 TAGTCCTTTTTTCTATAAGTTA
88585425 CTAGTCCTTTTTTCTATAAGTT-
1 -TAGTCCTTTTTTCTATAAGTTA
88585447 TAGTC
1 TAGTC
88585452 AAATTTGCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 5 0.19
23 21 0.81
ACGTcount: A:0.20, C:0.16, G:0.10, T:0.53
Consensus pattern (22 bp):
TAGTCCTTTTTTCTATAAGTTA
Found at i:88586221 original size:16 final size:15
Alignment explanation
Indices: 88586189--88586228 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
88586179 AATATATATT
88586189 TATAAAATATAAAATA
1 TATAAAA-ATAAAATA
*
88586205 TCTAAAAATAAAGATA
1 TATAAAAATAAA-ATA
88586221 TATAAAAA
1 TATAAAAA
88586229 GCCTATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (15 bp):
TATAAAAATAAAATA
Found at i:88586285 original size:26 final size:25
Alignment explanation
Indices: 88586163--88586337 Score: 86
Period size: 24 Copynumber: 6.7 Consensus size: 25
88586153 TTACTATTAT
** *
88586163 TTTAAAAAT-TATATTAAATATATA
1 TTTAAAAATATATAAAAAATATAAA
* * *
88586187 TTTATAAA-ATATAAAATATCTAAA
1 TTTAAAAATATATAAAAAATATAAA
** * *
88586211 AATAAAGATATATAAAAAGCCTATAATA
1 TTTAAAAATATATAAAAA--ATATAA-A
*
88586239 TTTTTGAAAAATATACAAAAAAATATATAA
1 --TTT-AAAAATATA-TAAAAAATATA-AA
* *
88586269 TTTAAAAATTTATAAAATAAATAAAAA
1 TTTAAAAATATAT-AAA-AAATATAAA
* *
88586296 TTTTAAATATATATAAAAACTA-AAA
1 -TTTAAAAATATATAAAAAATATAAA
*
88586321 TTTATAAATATATAAAA
1 TTTAAAAATATATAAAA
88586338 GAACTAAAAA
Statistics
Matches: 112, Mismatches: 26, Indels: 26
0.68 0.16 0.16
Matches are distributed among these distances:
24 36 0.32
25 11 0.10
26 4 0.04
27 20 0.18
28 21 0.19
30 6 0.05
31 9 0.08
32 5 0.04
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (25 bp):
TTTAAAAATATATAAAAAATATAAA
Found at i:88586291 original size:28 final size:27
Alignment explanation
Indices: 88586240--88586347 Score: 89
Period size: 27 Copynumber: 4.0 Consensus size: 27
88586230 CCTATAATAT
* *
88586240 TTTTGAAAAATATACAAAAAAATATATAA
1 TTTT-AAAAATATATAAAAAAATA-AAAA
*
88586269 -TTTAAAAATTTATAAAATAAATAAAAA
1 TTTTAAAAATATATAAAA-AAATAAAAA
* *
88586296 TTTTAAATATATAT-AAAAACT-AAAA
1 TTTTAAAAATATATAAAAAAATAAAAA
* *
88586321 -TTTATAAATATATAAAAGAACTAAAAA
1 TTTTAAAAATATATAAAA-AAATAAAAA
88586348 ACACGTTTAG
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
24 11 0.17
25 7 0.11
26 7 0.11
27 22 0.33
28 19 0.29
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (27 bp):
TTTTAAAAATATATAAAAAAATAAAAA
Found at i:88586295 original size:19 final size:19
Alignment explanation
Indices: 88586271--88586314 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
88586261 ATATATAATT
88586271 TAAAAATTTATAAA-ATAAA
1 TAAAAATTT-TAAATATAAA
*
88586290 TAAAAATTTTAAATATATA
1 TAAAAATTTTAAATATAAA
88586309 TAAAAA
1 TAAAAA
88586315 CTAAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAAAATTTTAAATATAAA
Found at i:88586306 original size:24 final size:26
Alignment explanation
Indices: 88586292--88586346 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
88586282 AAAATAAATA
88586292 AAAATTT-TAAATATATATAAAAACT
1 AAAATTTATAAATATATATAAAAACT
88586317 AAAATTTATAAATATATA-AAAGAACT
1 AAAATTTATAAATATATATAAA-AACT
88586343 AAAA
1 AAAA
88586347 AACACGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (26 bp):
AAAATTTATAAATATATATAAAAACT
Found at i:88586342 original size:26 final size:24
Alignment explanation
Indices: 88586246--88586346 Score: 85
Period size: 26 Copynumber: 3.9 Consensus size: 24
88586236 ATATTTTTGA
* *
88586246 AAAATATACAAAAAAATATATAATTT
1 AAAATATATAAAAAACTA-A-AATTT
* *
88586272 AAAAATTTATAAAATAAATAAAAATTT
1 -AAAATATATAAAA-AACT-AAAATTT
*
88586299 TAAATATATATAAAAACTAAAATTT
1 AAAATATATA-AAAAACTAAAATTT
88586324 ATAAATATATAAAAGAACTAAAA
1 A-AAATATATAAAA-AACTAAAA
88586347 AACACGTTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
25 10 0.16
26 28 0.44
27 19 0.30
28 5 0.08
29 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (24 bp):
AAAATATATAAAAAACTAAAATTT
Found at i:88587850 original size:10 final size:10
Alignment explanation
Indices: 88587835--88587869 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
88587825 TTTCCTATTA
88587835 TCATTGCCCT
1 TCATTGCCCT
88587845 TCATTGCCCT
1 TCATTGCCCT
* *
88587855 TCATTTCTCT
1 TCATTGCCCT
88587865 TCATT
1 TCATT
88587870 TTTTTCTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.11, C:0.34, G:0.06, T:0.49
Consensus pattern (10 bp):
TCATTGCCCT
Found at i:88589762 original size:25 final size:25
Alignment explanation
Indices: 88589705--88589763 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
88589695 CTCAAAAGAA
* *
88589705 CTTACCGATATTCAACTCGTATGAG
1 CTTACCGTTACTCAACTCGTATGAG
* *
88589730 CTTACCGTTACTCAGCTCGTATGAT
1 CTTACCGTTACTCAACTCGTATGAG
88589755 CTTACCGTT
1 CTTACCGTT
88589764 TACAGATTGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (25 bp):
CTTACCGTTACTCAACTCGTATGAG
Found at i:88591728 original size:43 final size:44
Alignment explanation
Indices: 88591663--88591838 Score: 180
Period size: 43 Copynumber: 4.0 Consensus size: 44
88591653 AAAGAGGAAG
* *
88591663 AATTTGTGGCTTCGTCCACAACCTACATGACAACTTGTCTGCAA
1 AATTTGTGGCTTCATCCACAACCTACATGACAGCTTGTCTGCAA
* *
88591707 AATTTGTGG-TTTATCCACAACCTACACGACAGCTTGTCTGCGAA
1 AATTTGTGGCTTCATCCACAACCTACATGACAGCTTGTCTGC-AA
* * * * * *
88591751 TATTGGTGGCTTCGTCCACAATCTACATGACAGTTTGTCT--ATG
1 AATTTGTGGCTTCATCCACAACCTACATGACAGCTTGTCTGCA-A
* * *
88591794 AATTTG-GTGCTTTATCCACAATCTACATGACATCTTGTCTGCAA
1 AATTTGTG-GCTTCATCCACAACCTACATGACAGCTTGTCTGCAA
88591838 A
1 A
88591839 TATTGGTAGC
Statistics
Matches: 107, Mismatches: 19, Indels: 12
0.78 0.14 0.09
Matches are distributed among these distances:
42 2 0.02
43 60 0.56
44 19 0.18
45 26 0.24
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (44 bp):
AATTTGTGGCTTCATCCACAACCTACATGACAGCTTGTCTGCAA
Found at i:88591820 original size:88 final size:87
Alignment explanation
Indices: 88591668--88591858 Score: 249
Period size: 88 Copynumber: 2.2 Consensus size: 87
88591658 GGAAGAATTT
*
88591668 GTGGCTTCGTCCACAACCTACATGACAACTTGTCTGCAAAATTTGTGGTTTATCCACAACCTACA
1 GTGGCTTCGTCCACAACCTACATGACAACTTGTCT-CAAAATTTGTGCTTTATCCACAACCTACA
*
88591733 CGACAGCTTGTCTGCGAATATTG
65 CGACAGCTTGTCTGCAAATATTG
* ** * *
88591756 GTGGCTTCGTCCACAATCTACATGACAGTTTGTCT-ATGAATTTGGTGCTTTATCCACAATCTAC
1 GTGGCTTCGTCCACAACCTACATGACAACTTGTCTCA-AAATTT-GTGCTTTATCCACAACCTAC
* *
88591820 ATGACATCTTGTCTGCAAATATTG
64 ACGACAGCTTGTCTGCAAATATTG
* *
88591844 GTAGCTTCGACCACA
1 GTGGCTTCGTCCACA
88591859 TATACTGGAG
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
86 1 0.01
87 5 0.06
88 84 0.93
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (87 bp):
GTGGCTTCGTCCACAACCTACATGACAACTTGTCTCAAAATTTGTGCTTTATCCACAACCTACAC
GACAGCTTGTCTGCAAATATTG
Found at i:88593162 original size:25 final size:24
Alignment explanation
Indices: 88593120--88593181 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 24
88593110 AATCAATTTT
*
88593120 AAAATAATATA-AAAATTATT-TAA
1 AAAATAAAATATAAAATTATTAT-A
88593143 AAAATAAAATTATAAAATTATTATA
1 AAAATAAAA-TATAAAATTATTATA
*
88593168 AATATAAAATATAA
1 AAAATAAAATATAA
88593182 TTTTTTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 8 0.24
24 7 0.21
25 18 0.53
26 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (24 bp):
AAAATAAAATATAAAATTATTATA
Found at i:88609664 original size:21 final size:21
Alignment explanation
Indices: 88609625--88609664 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
88609615 ACTCCAAACC
* *
88609625 TAACTCATAATAGGCATATTG
1 TAACTCATAAAAGGAATATTG
*
88609646 TAACTCATAAAATGAATAT
1 TAACTCATAAAAGGAATAT
88609665 GAAATTGAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (21 bp):
TAACTCATAAAAGGAATATTG
Found at i:88613981 original size:47 final size:47
Alignment explanation
Indices: 88613930--88614042 Score: 190
Period size: 47 Copynumber: 2.4 Consensus size: 47
88613920 TCACAGTAAT
*
88613930 GCAGATAAACTACCAATAATCAAAATTGTGGACAAGCCACCAAAATC
1 GCAGATAAACTACCAATAATCAAAATCGTGGACAAGCCACCAAAATC
*
88613977 GCAGATAAAATACCAATAATCAAAATCGTGGACAAGCCACCAAAATC
1 GCAGATAAACTACCAATAATCAAAATCGTGGACAAGCCACCAAAATC
* *
88614024 ACAGATAAACTGCCAATAA
1 GCAGATAAACTACCAATAA
88614043 CTTCCACCTT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 61 1.00
ACGTcount: A:0.49, C:0.23, G:0.12, T:0.16
Consensus pattern (47 bp):
GCAGATAAACTACCAATAATCAAAATCGTGGACAAGCCACCAAAATC
Found at i:88620372 original size:22 final size:23
Alignment explanation
Indices: 88620347--88620391 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
88620337 TTTGTTCAAA
*
88620347 TTTAACTT-TTATTTAAAAACAT
1 TTTAACTTGTTATATAAAAACAT
* *
88620369 TTTAATTTGTTATATCAAAACAT
1 TTTAACTTGTTATATAAAAACAT
88620392 AATATCAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTAACTTGTTATATAAAAACAT
Found at i:88625145 original size:20 final size:19
Alignment explanation
Indices: 88625120--88625206 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 19
88625110 AAAGGCATCA
**
88625120 AAGTGCAGGCAGAGGCACG
1 AAGTGCAGAAAGAGGCACG
*
88625139 AATGTGCA-ATTAGAGGCACCG
1 AA-GTGCAGA-AAGAGGCA-CG
*
88625160 AAGTGCAGAAAGAGGCACCA
1 AAGTGCAGAAAGAGGCA-CG
88625180 AAGTGCA-AATAGAGGCACCG
1 AAGTGCAGAA-AGAGGCA-CG
88625200 AAGTGCA
1 AAGTGCA
88625207 AACCCATACA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
19 4 0.07
20 49 0.84
21 5 0.09
ACGTcount: A:0.38, C:0.20, G:0.32, T:0.10
Consensus pattern (19 bp):
AAGTGCAGAAAGAGGCACG
Found at i:88625167 original size:40 final size:40
Alignment explanation
Indices: 88625120--88625206 Score: 129
Period size: 40 Copynumber: 2.2 Consensus size: 40
88625110 AAAGGCATCA
** * * *
88625120 AAGTGCAGGCAGAGGCACGAATGTGCAATTAGAGGCACCG
1 AAGTGCAGAAAGAGGCACCAAAGTGCAAATAGAGGCACCG
88625160 AAGTGCAGAAAGAGGCACCAAAGTGCAAATAGAGGCACCG
1 AAGTGCAGAAAGAGGCACCAAAGTGCAAATAGAGGCACCG
88625200 AAGTGCA
1 AAGTGCA
88625207 AACCCATACA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.38, C:0.20, G:0.32, T:0.10
Consensus pattern (40 bp):
AAGTGCAGAAAGAGGCACCAAAGTGCAAATAGAGGCACCG
Found at i:88625207 original size:20 final size:20
Alignment explanation
Indices: 88625130--88625208 Score: 108
Period size: 20 Copynumber: 4.0 Consensus size: 20
88625120 AAGTGCAGGC
*
88625130 AGAGGCA-CGAATGTGCAATT
1 AGAGGCACCGAA-GTGCAAAT
88625150 AGAGGCACCGAAGTGCAGAA-
1 AGAGGCACCGAAGTGCA-AAT
*
88625170 AGAGGCACCAAAGTGCAAAT
1 AGAGGCACCGAAGTGCAAAT
88625190 AGAGGCACCGAAGTGCAAA
1 AGAGGCACCGAAGTGCAAA
88625209 CCCATACAAG
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.04
20 46 0.87
21 5 0.09
ACGTcount: A:0.41, C:0.19, G:0.30, T:0.10
Consensus pattern (20 bp):
AGAGGCACCGAAGTGCAAAT
Found at i:88629898 original size:23 final size:23
Alignment explanation
Indices: 88629853--88630610 Score: 564
Period size: 23 Copynumber: 33.2 Consensus size: 23
88629843 ACATAAACAA
*
88629853 AATTT-CAGCAAC-TAAACAATTC
1 AATTTGCAGC-ACTTAAACACTTC
* *
88629875 AATTTGCAGTACTTAAAAACTTC
1 AATTTGCAGCACTTAAACACTTC
* * *
88629898 AATTTACAACATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
88629921 AATTTGCAGCACTTTAACACTTT
1 AATTTGCAGCACTTAAACACTTC
* * *
88629944 AATTTACAACATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
88629967 AATTTGCAGCACTTTAACA-TCTC
1 AATTTGCAGCACTTAAACACT-TC
** * * * * *
88629990 AATTAACAACATTTATACTCCTC
1 AATTTGCAGCACTTAAACACTTC
* *
88630013 AA-TTACAGC-GTTAAA-ACATCTC
1 AATTTGCAGCACTTAAACAC-T-TC
*
88630035 AATTTCCAGCAAC-TAAACACTTC
1 AATTTGCAGC-ACTTAAACACTTC
* *
88630058 AATTTGCAGTACTTAAACACTCC
1 AATTTGCAGCACTTAAACACTTC
* * *
88630081 AATTTACAACATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* * *
88630104 AATTTACAACA-TTCACACACTTC
1 AATTTGCAGCACTT-AAACACTTC
*
88630127 AATTTGCAGCACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* * *
88630150 AATTTACAACATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
** * * * *
88630173 AATTAACAACATTTATACACCTC
1 AATTTGCAGCACTTAAACACTTC
* *
88630196 AA-TTACAGCGA-TAAAACA-TCTC
1 AATTTGCAGC-ACTTAAACACT-TC
* *
88630218 AATTTCCAGCAATTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
88630241 AATTTGCAGTACTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* * *
88630264 AATTTACAACATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
88630287 AATTTGCAGCACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
88630310 AATTTGCAGCACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
88630333 AATTTACAGCATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
88630356 AATTTGCAGCACTTTAACA-TCTC
1 AATTTGCAGCACTTAAACACT-TC
** * * * *
88630379 AATTAACAACATTTATACACCTC
1 AATTTGCAGCACTTAAACACTTC
* *
88630402 AA-TTACAGCGA-TAAAACA-TCTC
1 AATTTGCAGC-ACTTAAACACT-TC
88630424 AATTT-CGAGCAAC-TAAACACTTC
1 AATTTGC-AGC-ACTTAAACACTTC
* *
88630447 AACTTGCAGTACTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* * ** *
88630470 AATTTACAACTTTTAAGCACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
88630493 AATTTACAGCATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
88630516 AATTTACAGCA-TTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
88630538 AATTTGCAGCACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
88630561 AATTTACAGCATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
88630584 AATTTGCTGCACTTTAACA-TCTC
1 AATTTGCAGCACTTAAACACT-TC
88630607 AATT
1 AATT
88630611 AATAACATTT
Statistics
Matches: 589, Mismatches: 117, Indels: 59
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.00
21 4 0.01
22 75 0.13
23 497 0.84
24 10 0.02
25 2 0.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (23 bp):
AATTTGCAGCACTTAAACACTTC
Found at i:88629922 original size:46 final size:46
Alignment explanation
Indices: 88629865--88630588 Score: 631
Period size: 46 Copynumber: 15.8 Consensus size: 46
88629855 TTTCAGCAAC
* * * * *
88629865 TAAACAATTCAATTTGCAGTACTTAAAAACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCATT
* * * *
88629911 TAAACACTTCAATTTGCAGCACTTTAACACTTTAATTTACAACATT
1 TAAACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCATT
* * * *
88629957 TAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACATT
1 TAAACACTTCAATTTACAGCACTTAAACACT-TCAATTTACAGCATT
* * * * * **
88630003 TATACTCCTCAA-TTACAGC-GTTAAA-ACATCTCAATTTCCAGCAAC
1 TAAACACTTCAATTTACAGCACTTAAACAC-T-TCAATTTACAGCATT
* * * *
88630048 TAAACACTTCAATTTGCAGTACTTAAACACTCCAATTTACAACATT
1 TAAACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCATT
* * *
88630094 TAAACACTTCAATTTACAACA-TTCACACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCACTT-AAACACTTCAATTTACAGCA-TT
* * * *
88630141 T-AACACTTCAATTTACAACATTTAAACACTTCAATTAACAACATT
1 TAAACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCATT
* * * * *
88630186 TATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATTTCCAGCAAT
1 TAAACACTTCAATTTACAGC-ACTTAAACACT-TCAATTTACAGCATT
* * *
88630231 TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCATT
* * *
88630277 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCA-TT
* *
88630324 T-AACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCA-TT
* * * * *
88630370 T-AACA-TCTCAATTAACAACATTTATACACCTCAA-TTACAGCGA-T
1 TAAACACT-TCAATTTACAGCACTTAAACACTTCAATTTACAGC-ATT
* * * * *
88630414 AAAACA-TCTCAATTT-CGAGCAAC-TAAACACTTCAACTTGCAGTACT
1 TAAACACT-TCAATTTAC-AGC-ACTTAAACACTTCAATTTACAGCATT
* ** *
88630460 TAAACACTTCAATTTACAACTTTTAAGCACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCATT
* *
88630506 TAAACACTTCAATTTACAGCA-TTTAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCA-TT
*
88630552 T-AACACTTCAATTTACAGCATTTAAACACTTCAATTT
1 TAAACACTTCAATTTACAGCACTTAAACACTTCAATTT
88630589 GCTGCACTTT
Statistics
Matches: 559, Mismatches: 91, Indels: 56
0.79 0.13 0.08
Matches are distributed among these distances:
43 1 0.00
44 7 0.01
45 137 0.25
46 395 0.71
47 17 0.03
48 2 0.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (46 bp):
TAAACACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCATT
Found at i:88630177 original size:183 final size:182
Alignment explanation
Indices: 88629853--88630541 Score: 846
Period size: 183 Copynumber: 3.8 Consensus size: 182
88629843 ACATAAACAA
* *
88629853 AATTT-CAGCAACTAAACAATTCAATTTGCAGTACTTAAAAACTTCAATTTACAACATTTAAACA
1 AATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAACA
* * * * *
88629917 CTTCAATTTGCAGCACTTTAACACTTTAATTTACAACATTTAAACACTTCAATTTGCAGCACTTT
66 CTTCAATTTACAACACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCA-TTT
88629982 AACA-TCTCAATTAACAACATTTATACTCCTCAATTACAGCGTTAAAACATCTC
130 AACACT-TCAATTAACAACATTTATACTCCTCAATTACAGCGTTAAAACATCTC
*
88630035 AATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTCCAATTTACAACATTTAAACA
1 AATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAACA
* * *
88630100 CTTCAATTTACAACA-TTCACACACTTCAATTTGCAGCACTTT-AACACTTCAATTTACAACATT
66 CTTCAATTTACAACACTTTA-ACACTTCAATTTACAGCA-TTTAAACACTTCAATTTACAGCATT
* *
88630163 TAAACACTTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTC
129 T-AACACTTCAATTAACAACATTTATACTCCTCAATTACAGCGTTAAAACATCTC
*
88630218 AATTTCCAGCAATTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAACA
1 AATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAACA
* * *
88630283 CTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTACAGCATTT
66 CTTCAATTTACAACACTTTAACACTTCAATTTACAGCA-TTTAAACACTTCAATTTACAGCATTT
** * * * * * *
88630347 AAACACTTCAATTTGCAGCACTTTA-ACAT-CTCAATTAACAACATTTATACACCTC
130 -AACACTTCAATTAACAACA-TTTATAC-TCCTCAATT-ACAGCGTTAAAACATCTC
* * * * * ** *
88630402 AA-TTACAGCGA-TAAA-ACATCTCAATTT-CGAGCAAC-TAAACACTTCAACTTGCAGTACTTA
1 AATTTCCAGCAACTAAACAC-T-TCAATTTGC-AG-TACTTAAACACTTCAATTTACAACATTTA
*
88630462 AACACTTCAATTTACAAC-TTTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGC
62 AACACTTCAATTTACAACACTTTAA-CACTTCAATTTACAGCATTTAAACACTTCAATTTACAGC
88630526 ATTTAACACTTCAATT
126 ATTTAACACTTCAATT
88630542 TGCAGCACTT
Statistics
Matches: 451, Mismatches: 41, Indels: 30
0.86 0.08 0.06
Matches are distributed among these distances:
181 2 0.00
182 37 0.08
183 385 0.85
184 27 0.06
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (182 bp):
AATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAACA
CTTCAATTTACAACACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTTA
ACACTTCAATTAACAACATTTATACTCCTCAATTACAGCGTTAAAACATCTC
Found at i:88630260 original size:206 final size:203
Alignment explanation
Indices: 88629861--88630587 Score: 893
Period size: 206 Copynumber: 3.5 Consensus size: 203
88629851 AAAATTTCAG
* * * * *
88629861 CAAC-TAAACAATTCAATTTGCAGTACTTAAAAACTTCAATTTACAACATTTAAACACTTCAATT
1 CAACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAACATTT-AACACTTCAATT
* ** * *
88629925 TGCAGCACTTTAACACTTTAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTA-ACATCT
65 TGCAGCACTTTAACACTTCAATTTACAACATTTAAACACTTCAATTAACAACA-TTTATACACCT
* * * * * * *
88629989 CAATTAACAAC-ATTTATAC-TCCTCAA-TTACAGC-GTTAAA-ACATCTCAATTTCCAGCAAC-
129 CAATT-ACAGCGA-TAAAACAT-CTCAATTTCCAGCAATTAAACAC-T-TCAATTTGCAG-TACT
*
88630048 TAAACACTTCAATTTG
188 TAAACACTTCAATTTA
* * *
88630064 CAGTACTTAAACACTCCAATTTACAACATTTAAACACTTCAATTTACAACATTCACACACTTCAA
1 CA--ACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAACATTTA-ACACTTCAA
88630129 TTTGCAGCACTTTAACACTTCAATTTACAACATTTAAACACTTCAATTAACAACATTTATACACC
63 TTTGCAGCACTTTAACACTTCAATTTACAACATTTAAACACTTCAATTAACAACATTTATACACC
88630194 TCAATTACAGCGATAAAACATCTCAATTTCCAGCAATTAAACACTTCAATTTGCAGTACTTAAAC
128 TCAATTACAGCGATAAAACATCTCAATTTCCAGCAATTAAACACTTCAATTTGCAGTACTTAAAC
88630259 ACTTCAATTTA
193 ACTTCAATTTA
* * *
88630270 CAACATTTAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTGCAGCACTTTAACACTTCA
1 CAAC--TTAAACACTTCAATTTACAGCA-TTTAAACACTTCAATTTACAACA-TTTAACACTTCA
* * *
88630334 ATTTACAGCA-TTTAAACACTTCAATTTGCAGCACTTT-AACA-TCTCAATTAACAACATTTATA
62 ATTTGCAGCACTTT-AACACTTCAATTTACAACA-TTTAAACACT-TCAATTAACAACATTTATA
* * *
88630396 CACCTCAATTACAGCGATAAAACATCTCAATTTCGAGCAACTAAACACTTCAACTTGCAGTACTT
124 CACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAATTAAACACTTCAATTTGCAGTACTT
88630461 AAACACTTCAATTTA
189 AAACACTTCAATTTA
* *
88630476 CAACTTTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTTAACACTTCAAT
1 CAAC--TTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAACATTTAACACTTCAAT
*
88630541 TTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATT
64 TTGCAGCACTTTAACACTTCAATTTACAACATTTAAACACTTCAATT
88630588 TGCTGCACTT
Statistics
Matches: 463, Mismatches: 39, Indels: 42
0.85 0.07 0.08
Matches are distributed among these distances:
203 2 0.00
204 5 0.01
205 78 0.17
206 361 0.78
207 15 0.03
208 2 0.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (203 bp):
CAACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAACATTTAACACTTCAATTT
GCAGCACTTTAACACTTCAATTTACAACATTTAAACACTTCAATTAACAACATTTATACACCTCA
ATTACAGCGATAAAACATCTCAATTTCCAGCAATTAAACACTTCAATTTGCAGTACTTAAACACT
TCAATTTA
Found at i:88634717 original size:7 final size:7
Alignment explanation
Indices: 88634707--88634760 Score: 101
Period size: 7 Copynumber: 7.9 Consensus size: 7
88634697 AAATATTAAG
88634707 TTTTTTA
1 TTTTTTA
88634714 TTTTTTA
1 TTTTTTA
88634721 -TTTTTA
1 TTTTTTA
88634727 TTTTTTA
1 TTTTTTA
88634734 TTTTTTA
1 TTTTTTA
88634741 TTTTTTA
1 TTTTTTA
88634748 TTTTTTA
1 TTTTTTA
88634755 TTTTTT
1 TTTTTT
88634761 TTGAAGATTT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.13
7 40 0.87
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTA
Found at i:88634738 original size:21 final size:20
Alignment explanation
Indices: 88634707--88634760 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
88634697 AAATATTAAG
88634707 TTTTTTATTTTTTATTTT-T
1 TTTTTTATTTTTTATTTTAT
*
88634726 ATTTTTTATTTTTTATTTTTT
1 -TTTTTTATTTTTTATTTTAT
88634747 ATTTTTTATTTTTT
1 -TTTTTTATTTTTT
88634761 TTGAAGATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (20 bp):
TTTTTTATTTTTTATTTTAT
Found at i:88635425 original size:20 final size:20
Alignment explanation
Indices: 88635368--88635425 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
88635358 CAAACTCCGA
88635368 ACCATAAACCATAAA-ATAT
1 ACCATAAACCATAAATATAT
*
88635387 --CATAGACCATAAACT-TAT
1 ACCATAAACCATAAA-TATAT
*
88635405 ACCATAAACCCTAAATATAT
1 ACCATAAACCATAAATATAT
88635425 A
1 A
88635426 TGTATTACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
17 12 0.39
18 3 0.10
19 1 0.03
20 15 0.48
ACGTcount: A:0.52, C:0.22, G:0.02, T:0.24
Consensus pattern (20 bp):
ACCATAAACCATAAATATAT
Found at i:88635825 original size:22 final size:21
Alignment explanation
Indices: 88635777--88635825 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
88635767 ATTCCCAACT
* *
88635777 CTTAAACCATAAACCATAATC
1 CTTAAACCATAAACCACAAAC
* *
88635798 CCTAAACCCATAATCCACAAAC
1 CTTAAA-CCATAAACCACAAAC
88635820 CTTAAA
1 CTTAAA
88635826 ATATTTAACA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (21 bp):
CTTAAACCATAAACCACAAAC
Found at i:88636390 original size:16 final size:18
Alignment explanation
Indices: 88636351--88636384 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
88636341 AGTGTTTATA
88636351 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
88636368 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
88636385 AATTTAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:88637962 original size:21 final size:21
Alignment explanation
Indices: 88637924--88637963 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
88637914 AAATTGTAAA
* * *
88637924 TAAATAAAATATTTAAATAAG
1 TAAATAAAAGAGTAAAATAAG
88637945 TAAATAAAAGAGTAAAATA
1 TAAATAAAAGAGTAAAATA
88637964 TAACATGGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (21 bp):
TAAATAAAAGAGTAAAATAAG
Found at i:88640029 original size:45 final size:45
Alignment explanation
Indices: 88639872--88640297 Score: 344
Period size: 44 Copynumber: 9.6 Consensus size: 45
88639862 AATTTGGTCC
* * * * *
88639872 ACTGCAACTTCAGCGAGATAAGACTTG-TAGCTTCAATCTGTTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGCTCT
* * * * * *
88639916 ATTGCTACTTGAGGGAGATAAGATTTG-TAGCTTCAA-CTTACTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATC-TGCTCT
* * * *
88639960 AATGGAACTTCAGAGAGATAAGATTTGCTATCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGCTCT
* * * * ** *
88640005 AATGCAACTTCAGGGGGATGAGATTT-ATGGCTTTAATCTACTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGCTCT
** ** * *
88640049 ACTGCAACTTCAAAGAGATAAGATTCACTATCTTTAATCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGCTCT
* **
88640094 ACTGTAACTTCAGGGAGATAAGATTTG-TGGCTTTAATCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGCTCT
* *** * * *
88640138 ACTGTAACTTCAATAAGATAAGATTTACTATCTTCAATCTGCTCA
1 ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGCTCT
* * * * * *
88640183 ATTACTACTTCAGGGAGATTAGATTT-ATAGCTTTAATCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGCTCT
** * *
88640227 ACTGCAACTTCAGAAAGATAAGATTTGCTATATTCAATCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGCTCT
* *
88640272 ACTACAACTTCAGGGA-ATATGATTTG
1 ACTGCAACTTCAGGGAGATAAGATTTG
88640298 TAGCTTCATC
Statistics
Matches: 298, Mismatches: 78, Indels: 12
0.77 0.20 0.03
Matches are distributed among these distances:
43 1 0.00
44 169 0.57
45 127 0.43
46 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (45 bp):
ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGCTCT
Found at i:88640047 original size:89 final size:89
Alignment explanation
Indices: 88639872--88640303 Score: 442
Period size: 89 Copynumber: 4.9 Consensus size: 89
88639862 AATTTGGTCC
* * * * * * * *
88639872 ACTGCAACTTCAGCGAGATAAGACTTG-TAGCTTCAATCTGTTCTATTGCTACTTGAGGGAGATA
1 ACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCAATGCAACTTCAGGGAGATA
* *
88639936 AGATTTGTAGCTTCAA-CTTACTCT
66 AGATTTATAGCTTTAATC-TACTCT
* * * * *
88639960 AATGGAACTTCAGAGAGATAAGATTTGCTATCTTTAATCTGCTCCAATGCAACTTCAGGGGGATG
1 ACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCAATGCAACTTCAGGGAGATA
*
88640025 AGATTTATGGCTTTAATCTACTCT
66 AGATTTATAGCTTTAATCTACTCT
* ** * * * *
88640049 ACTGCAACTTCAAAGAGATAAGATTCACTATCTTTAATCTACTCCACTGTAACTTCAGGGAGATA
1 ACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCAATGCAACTTCAGGGAGATA
* * *
88640114 AGATTTGTGGCTTTAATCTGCTCT
66 AGATTTATAGCTTTAATCTACTCT
* * * * *
88640138 ACTGTAACTTCA-ATAAGATAAGATTTACTATCTTCAATCTGCT-CAATTACTACTTCAGGGAGA
1 ACTGCAACTTCAGA-GAGATAAGATTTGCTATCTTCAATCTGCTCCAA-TGCAACTTCAGGGAGA
* *
88640201 TTAGATTTATAGCTTTAATCTGCTCT
64 TAAGATTTATAGCTTTAATCTACTCT
* * * * *
88640227 ACTGCAACTTCAGAAAGATAAGATTTGCTATATTCAATCTGCTCTACTACAACTTCAGGGA-ATA
1 ACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCAATGCAACTTCAGGGAGATA
* *
88640291 TGATTTGTAGCTT
66 AGATTTATAGCTT
88640304 CATCTTGCTC
Statistics
Matches: 289, Mismatches: 49, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
88 39 0.13
89 247 0.85
90 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (89 bp):
ACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCAATGCAACTTCAGGGAGATA
AGATTTATAGCTTTAATCTACTCT
Found at i:88640159 original size:178 final size:179
Alignment explanation
Indices: 88639922--88640327 Score: 493
Period size: 178 Copynumber: 2.3 Consensus size: 179
88639912 TTCTATTGCT
* * * * * *
88639922 ACTTGAGGGAGATAAGATTTGTAGCTTCAA-CTTACTCTAATGGAACTTCAGAGAGATAAGATTT
1 ACTTCAGGGAGATAAGATTTGTAGCTTTAATCTTGCTCTACTGTAACTTCAGAAAGATAAGATTT
* * * * *
88639986 GCTATCTTTAATCTGCTCCAA-TGCAACTTCAGGGGGATGAGATTTATGGCTTTAATCTACTCTA
66 ACTATCTTCAATCTGCT-CAATTACAACTTCAGGGAGATGAGATTTATAGCTTTAATCTACTCTA
* * **
88640050 CTGCAACTTCA-AAGAGATAAGATTCACTATCTTTAATCTACTCCACTGTA
130 CTGCAACTTCAGAA-AGATAAGATTCACTATATTCAATCTACTCCACTACA
*
88640100 ACTTCAGGGAGATAAGATTTGTGGCTTTAATC-TGCTCTACTGTAACTTCA-ATAAGATAAGATT
1 ACTTCAGGGAGATAAGATTTGTAGCTTTAATCTTGCTCTACTGTAACTTCAGA-AAGATAAGATT
* * *
88640163 TACTATCTTCAATCTGCTCAATTACTACTTCAGGGAGATTAGATTTATAGCTTTAATCTGCTCTA
65 TACTATCTTCAATCTGCTCAATTACAACTTCAGGGAGATGAGATTTATAGCTTTAATCTACTCTA
** * *
88640228 CTGCAACTTCAGAAAGATAAGATTTGCTATATTCAATCTGCTCTACTACA
130 CTGCAACTTCAGAAAGATAAGATTCACTATATTCAATCTACTCCACTACA
* * * *
88640278 ACTTCAGGGA-ATATGATTTGTAGC-TTCATCTTGCTCCACTGTATCTTCAG
1 ACTTCAGGGAGATAAGATTTGTAGCTTTAATCTTGCTCTACTGTAACTTCAG
88640328 GGGTATAGGA
Statistics
Matches: 194, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
176 5 0.03
177 32 0.16
178 154 0.79
179 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (179 bp):
ACTTCAGGGAGATAAGATTTGTAGCTTTAATCTTGCTCTACTGTAACTTCAGAAAGATAAGATTT
ACTATCTTCAATCTGCTCAATTACAACTTCAGGGAGATGAGATTTATAGCTTTAATCTACTCTAC
TGCAACTTCAGAAAGATAAGATTCACTATATTCAATCTACTCCACTACA
Found at i:88648855 original size:38 final size:38
Alignment explanation
Indices: 88648787--88648860 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
88648777 GCACAGCTTG
**
88648787 CGTTTCTACTTCATTATTTCTTGGCCGTGAAATAATTA
1 CGTTTCTACTTCATTATTTCTCAGCCGTGAAATAATTA
**
88648825 CGTTTCTACTTCATTATTTCTCAGTGGTGAAATAAT
1 CGTTTCTACTTCATTATTTCTCAGCCGTGAAATAAT
88648861 CACCATCGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.45
Consensus pattern (38 bp):
CGTTTCTACTTCATTATTTCTCAGCCGTGAAATAATTA
Found at i:88660483 original size:18 final size:19
Alignment explanation
Indices: 88660434--88660485 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
88660424 ATTCTATTAG
* *
88660434 AATAACTTTACTAGAAAACA
1 AATATCTTTAC-ATAAAACA
*
88660454 AATCTCTTTACATAAAACA
1 AATATCTTTACATAAAACA
88660473 AATAT-TTTACATA
1 AATATCTTTACATA
88660486 TACGGCGTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 8 0.29
19 11 0.39
20 9 0.32
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.33
Consensus pattern (19 bp):
AATATCTTTACATAAAACA
Found at i:88664117 original size:3 final size:3
Alignment explanation
Indices: 88664109--88664156 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
88664099 TTAACATGAG
88664109 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
88664157 GGATGAATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:88666851 original size:12 final size:12
Alignment explanation
Indices: 88666830--88666864 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
88666820 AGAAAAATAT
*
88666830 TAAAATTTATAA
1 TAAAAATTATAA
88666842 TAAAAATTATAA
1 TAAAAATTATAA
*
88666854 AAAAAATTATA
1 TAAAAATTATA
88666865 CAATTAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
TAAAAATTATAA
Found at i:88671271 original size:24 final size:23
Alignment explanation
Indices: 88671213--88671291 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
88671203 CTCGTTACAT
* *
88671213 GGCTCTTTGTGAGCTTCCTGATA
1 GGCTCTTTGTGAACTTCCCGATA
* * *
88671236 GGCTCTTCGTGATCTTCCCGATGT
1 GGCTCTTTGTGAACTTCCCGAT-A
*
88671260 GGTTCTTTGTGAACTTCCCGATTA
1 GGCTCTTTGTGAACTTCCCGA-TA
88671284 TGGCTCTT
1 -GGCTCTT
88671292 ATGAGGTTCC
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
23 19 0.43
24 18 0.41
25 7 0.16
ACGTcount: A:0.11, C:0.24, G:0.24, T:0.41
Consensus pattern (23 bp):
GGCTCTTTGTGAACTTCCCGATA
Found at i:88671350 original size:23 final size:23
Alignment explanation
Indices: 88671322--88671366 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
88671312 CCCGAATAAG
* *
88671322 CTTCCCGATAGGCTCTTTGTGAT
1 CTTCCCGAAAGGCTCTGTGTGAT
*
88671345 CTTCCCGAAATGCTCTGTGTGA
1 CTTCCCGAAAGGCTCTGTGTGA
88671367 GTTTTCTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.36
Consensus pattern (23 bp):
CTTCCCGAAAGGCTCTGTGTGAT
Found at i:88674015 original size:35 final size:35
Alignment explanation
Indices: 88673886--88674015 Score: 111
Period size: 35 Copynumber: 3.6 Consensus size: 35
88673876 GCAAAGTGTG
* *
88673886 AAATGTAGGTATGGTATCAT-CCATACTGAGTTGTG
1 AAATGTAGGTATGGTAT-TTCCCATACTGAGTTGTA
* *
88673921 AAATATAGGTATGGTATTATCAAATCCATACTGAGTT-AA
1 AAATGTAGGTATGGTATT-TC----CCATACTGAGTTGTA
* ** *
88673960 GAAACGTAGGTATGCCATTTCCCATACCGAGTTGTA
1 -AAATGTAGGTATGGTATTTCCCATACTGAGTTGTA
88673996 AAATGTAGGTATGGTATTTC
1 AAATGTAGGTATGGTATTTC
88674016 AATGAGGAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 16
0.72 0.13 0.16
Matches are distributed among these distances:
35 45 0.61
36 1 0.01
39 2 0.03
40 26 0.35
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (35 bp):
AAATGTAGGTATGGTATTTCCCATACTGAGTTGTA
Found at i:88678453 original size:18 final size:18
Alignment explanation
Indices: 88678430--88678464 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
88678420 CGAACTTCTA
88678430 AGTTTATATGGCTAAATG
1 AGTTTATATGGCTAAATG
88678448 AGTTTATATGGCTAAAT
1 AGTTTATATGGCTAAAT
88678465 TTTAGTGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (18 bp):
AGTTTATATGGCTAAATG
Found at i:88678713 original size:50 final size:50
Alignment explanation
Indices: 88678638--88678814 Score: 264
Period size: 50 Copynumber: 3.5 Consensus size: 50
88678628 CCATGGCAAC
88678638 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * * *
88678688 AAGTGATAAGTAATAACTTCGGCTACACTTACCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
88678738 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATAA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
88678788 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
88678815 CTGATCAGTG
Statistics
Matches: 112, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 88 0.79
51 24 0.21
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:88678828 original size:31 final size:31
Alignment explanation
Indices: 88678790--88678938 Score: 219
Period size: 31 Copynumber: 4.8 Consensus size: 31
88678780 ACAAATAACA
88678790 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* ** *
88678821 AGTGAAAAGTGATAGCTTCTACTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
88678852 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
88678883 AGTGAAAAATGGTAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
*
88678914 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
88678939 AAGTGACAAG
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
30 1 0.01
31 100 0.97
32 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:88679061 original size:49 final size:47
Alignment explanation
Indices: 88678960--88679124 Score: 182
Period size: 49 Copynumber: 3.6 Consensus size: 47
88678950 GATTTCCGTA
* * * *
88678960 TAAGACCATATCTGGGATATGGCATCA-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCGTG
*
88679006 TAAGACCATAGCTGAGCTATGGCATCAATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATT-CGTG
*
88679055 TAAGACCATAGCTGGGCTATGGCATCGTTATGTGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATTCGTG
* *
88679097 TAAGACCATAGTTGGGTTATGGCATCAT
1 TAAGACCATAGCTGGGCTATGGCATCAT
88679125 TATCTGAAGA
Statistics
Matches: 105, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
41 1 0.01
42 27 0.26
44 1 0.01
45 1 0.01
46 24 0.23
47 1 0.01
48 14 0.13
49 36 0.34
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (47 bp):
TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCGTG
Found at i:88679100 original size:42 final size:42
Alignment explanation
Indices: 88679041--88679165 Score: 169
Period size: 42 Copynumber: 3.0 Consensus size: 42
88679031 CAATATGTGA
* * *
88679041 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGT
1 TATGTGAATATGTGTAAGACCATAGTTGGGCTATGGCATCGT
* *
88679083 TATGTGAATATGTGTAAGACCATAGTTGGGTTATGGCATCAT
1 TATGTGAATATGTGTAAGACCATAGTTGGGCTATGGCATCGT
* * **
88679125 TATCTGAAGATGTGTAAGACCATAGTTGAACTATGGCATCG
1 TATGTGAATATGTGTAAGACCATAGTTGGGCTATGGCATCG
88679166 AGAAAACGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (42 bp):
TATGTGAATATGTGTAAGACCATAGTTGGGCTATGGCATCGT
Found at i:88680900 original size:47 final size:50
Alignment explanation
Indices: 88680824--88680959 Score: 180
Period size: 47 Copynumber: 2.9 Consensus size: 50
88680814 TGTAACCTGC
88680824 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA-TTCACAT
* *
88680874 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATTCACAT
*
88680917 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA
88680960 AACATCCTAG
Statistics
Matches: 74, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
42 2 0.03
43 4 0.05
44 2 0.03
45 2 0.03
46 29 0.39
47 30 0.41
48 2 0.03
49 2 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (50 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATTCACAT
Found at i:88686635 original size:50 final size:50
Alignment explanation
Indices: 88686569--88686745 Score: 264
Period size: 50 Copynumber: 3.5 Consensus size: 50
88686559 CCATGACAAC
* *
88686569 AAGTGATAAATGATAGCTTCGGCTACACTTATCTAATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
88686619 AAGTGATAAGTAATAGCTTCGGCTACACTTACCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
88686669 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATAA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
88686719 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
88686746 CTGATCAGTG
Statistics
Matches: 114, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 90 0.79
51 24 0.21
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:88686759 original size:31 final size:31
Alignment explanation
Indices: 88686721--88686900 Score: 272
Period size: 31 Copynumber: 5.8 Consensus size: 31
88686711 ACAAATAACA
88686721 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* **
88686752 AGTGAAAAGCGGTAGCTTCTACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
88686783 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
88686814 AGTGAAAAGTGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
88686845 AGTGAAAAATGGTAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
*
88686876 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
88686901 AAGTGACAAG
Statistics
Matches: 134, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
30 1 0.01
31 131 0.98
32 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:88687023 original size:49 final size:48
Alignment explanation
Indices: 88686922--88687083 Score: 178
Period size: 49 Copynumber: 3.5 Consensus size: 48
88686912 GATTTCCGTA
* * * * *
88686922 TAAGACCATATCTGGGATATGACATCAGT-GA-GATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCAATATATGATATGTGATTCGTG
* *
88686968 TAAGACCATCGCTGGGCTATGGCATCAATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCAATATATGATATGTGATT-CGTG
* *
88687017 TAAGACCATAGTTGGGCTATGGCATCGATATATGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATCAATATATGATATGTGATTCGTG
88687059 TAAGACCATAGCTGGGCTATGGCAT
1 TAAGACCATAGCTGGGCTATGGCAT
88687084 TATTATCTGA
Statistics
Matches: 101, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
42 27 0.27
44 1 0.01
45 1 0.01
46 25 0.25
48 12 0.12
49 35 0.35
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCAATATATGATATGTGATTCGTG
Found at i:88687060 original size:42 final size:43
Alignment explanation
Indices: 88687014--88687126 Score: 158
Period size: 42 Copynumber: 2.7 Consensus size: 43
88687004 ATGTGATTAC
*
88687014 GTGTAAGACCATAGTTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
* * *
88687056 GTGTAAGACCATAGCTGGGCTATGGCAT-TATTATCTGAAGAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
**
88687098 GTGTAAGACCATAGTTGAACTATGGCATC
1 GTGTAAGACCATAGTTGGGCTATGGCATC
88687127 AAGAAAACGA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.02
42 61 0.98
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
Found at i:88688896 original size:23 final size:20
Alignment explanation
Indices: 88688846--88688885 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
88688836 AAGTAGTGAG
*
88688846 AATT-TATTTTCTATGAATA
1 AATTCTATTTTCTAAGAATA
88688865 AATTCTATTTTCTAAGAATA
1 AATTCTATTTTCTAAGAATA
88688885 A
1 A
88688886 TAATTTCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (20 bp):
AATTCTATTTTCTAAGAATA
Found at i:88692845 original size:38 final size:38
Alignment explanation
Indices: 88692776--88692885 Score: 98
Period size: 38 Copynumber: 2.9 Consensus size: 38
88692766 GATCTTCAAT
* * * ** **
88692776 CACCTCGAAGCTTTGAAATATTAAACAAATCTTCCCTT
1 CACCTTGAAGCTTTGAAGTGTTAAAGGAATCTTCCCAC
*
88692814 CACCTT-AACGCTTTGAAGTGTTAAAGGAATCTTGCCAC
1 CACCTTGAA-GCTTTGAAGTGTTAAAGGAATCTTCCCAC
* *
88692852 CATCTTGAAGTTTTGAAGTGTT-AAGCGAATCTTC
1 CACCTTGAAGCTTTGAAGTGTTAAAG-GAATCTTC
88692886 GCATCATTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
37 5 0.09
38 51 0.88
39 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (38 bp):
CACCTTGAAGCTTTGAAGTGTTAAAGGAATCTTCCCAC
Found at i:88693315 original size:29 final size:29
Alignment explanation
Indices: 88693279--88693348 Score: 113
Period size: 29 Copynumber: 2.4 Consensus size: 29
88693269 AGCCCTTTTC
*
88693279 TCACCATGTTGAAATTGTAGGGGTTCTTT
1 TCACCATGTTGAAATTGTAAGGGTTCTTT
*
88693308 TCACCATGTTGAAGTTGTAAGGGTTCTTT
1 TCACCATGTTGAAATTGTAAGGGTTCTTT
*
88693337 TCGCCATGTTGA
1 TCACCATGTTGA
88693349 TGTCACAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (29 bp):
TCACCATGTTGAAATTGTAAGGGTTCTTT
Found at i:88693492 original size:70 final size:67
Alignment explanation
Indices: 88693308--88693529 Score: 212
Period size: 70 Copynumber: 3.2 Consensus size: 67
88693298 GGGGTTCTTT
* * *
88693308 TCACCATGTTGAAGTTGTAAGGGTTCTTTTCGCCATGTTGATGTCACAAAGTTTGGAATGGGAG-
1 TCACCATGTTAAAGTTGTAA-GGTTCTTTT-GCCATGTTGATGTTACAAAGTTCGGAA-GGG-GC
88693372 CTCCTC
62 CTCCTC
* * *** *
88693378 GCACCATGTTGAAGTTGTAAGGTTTCTTCCCACCATTTTGATGTTACAAAGTTCGGAAGGGGCCA
1 TCACCATGTTAAAGTTGTAAGG-TTCTT-TTGCCATGTTGATGTTACAAAGTTCGGAAGGGGCC-
88693443 TCCTC
63 TCCTC
* * * * *
88693448 TCACCATGTTAAAGTTGCAAGCGTTCTTTATGCCATGTTAATGTTACAAAGTTGGGAATGAGCCC
1 TCACCATGTTAAAGTTGTAAG-GTTCTTT-TGCCATGTTGATGTTACAAAGTTCGGAA-GGGGCC
*
88693513 TCGTC
63 TCCTC
88693518 TCACCATGTTAA
1 TCACCATGTTAA
88693530 CCGGTCATTA
Statistics
Matches: 126, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
68 1 0.01
69 6 0.05
70 114 0.90
71 5 0.04
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (67 bp):
TCACCATGTTAAAGTTGTAAGGTTCTTTTGCCATGTTGATGTTACAAAGTTCGGAAGGGGCCTCC
TC
Found at i:88694760 original size:23 final size:21
Alignment explanation
Indices: 88694709--88694760 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 21
88694699 GTTTGTGTTT
*
88694709 TATTTTT-GTTTATTTATTTC
1 TATTTTTAGTTTATATATTTC
*
88694729 AATTCTTTAGTTTATGATATTATC
1 TATT-TTTAGTTTAT-ATATT-TC
88694753 TATTTTTA
1 TATTTTTA
88694761 TTGTTTGTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.12
21 3 0.12
22 6 0.24
23 8 0.32
24 5 0.20
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (21 bp):
TATTTTTAGTTTATATATTTC
Found at i:88695087 original size:70 final size:70
Alignment explanation
Indices: 88695028--88695339 Score: 297
Period size: 70 Copynumber: 4.5 Consensus size: 70
88695018 AACTTTTTCC
* * **
88695028 CACCATATTGATGTTGCAAAGTTCGAAATGGGCCTTCCTTTTGCCATGTTGAAGTTGCAAGGGTT
1 CACCATGTTGATGTTGCAAAGTTCGAAATGGGCCTTCCTCTCACCATGTTGAAGTTGCAAGGGTT
88695093 CTTCT
66 CTTCT
* * * *
88695098 CACCATGTTGATGTTGCGAAGTTTGAAATGGTTCC-TCCTCTCACCATGTTAAAGTTGCAAGGGT
1 CACCATGTTGATGTTGCAAAGTTCGAAATGG-GCCTTCCTCTCACCATGTTGAAGTTGCAAGGGT
88695162 TCTTCT
65 TCTTCT
* * * * * * *
88695168 CACCATGTTGATGTTACAAAGTTC-AGAATAGGCCTTCGTCCCACCATGTTAAAGTTGTAAAGGT
1 CACCATGTTGATGTTGCAAAGTTCGA-AATGGGCCTTCCTCTCACCATGTTGAAGTTGCAAGGGT
88695232 TCTT-T
65 TCTTCT
* * * * * * * * *
88695237 CCGCCATGTTAATGATGCAAGGTTTGAAATGGGCCCTCCTCTCGCCATTTTGAAGTTGTAAGGGT
1 -CACCATGTTGATGTTGCAAAGTTCGAAATGGGCCTTCCTCTCACCATGTTGAAGTTGCAAGGGT
* *
88695302 TTTTCC
65 TCTTCT
* * * * *
88695308 CACCATGTTAAAGATGCAGAGTTCAAAATGGG
1 CACCATGTTGATGTTGCAAAGTTCGAAATGGG
88695340 TTCTCCATTC
Statistics
Matches: 197, Mismatches: 39, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
69 4 0.02
70 190 0.96
71 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (70 bp):
CACCATGTTGATGTTGCAAAGTTCGAAATGGGCCTTCCTCTCACCATGTTGAAGTTGCAAGGGTT
CTTCT
Found at i:88695183 original size:35 final size:35
Alignment explanation
Indices: 88695073--88695183 Score: 90
Period size: 35 Copynumber: 3.2 Consensus size: 35
88695063 TCCTTTTGCC
*
88695073 ATGTTGAAGTTGCAAGGGTTCTTCTCACCATGTTG
1 ATGTTAAAGTTGCAAGGGTTCTTCTCACCATGTTG
* * *
88695108 ATGTTGCGAAGTTTGAAATGGTTCCTCCTCTCACC------
1 ATGTT--AAAG-TTGCAAGGGTT-CT--TCTCACCATGTTG
88695143 ATGTTAAAGTTGCAAGGGTTCTTCTCACCATGTTG
1 ATGTTAAAGTTGCAAGGGTTCTTCTCACCATGTTG
88695178 ATGTTA
1 ATGTTA
88695184 CAAAGTTCAG
Statistics
Matches: 59, Mismatches: 5, Indels: 24
0.67 0.06 0.27
Matches are distributed among these distances:
29 7 0.12
31 2 0.03
32 9 0.15
33 3 0.05
35 16 0.27
37 4 0.07
38 9 0.15
39 2 0.03
41 7 0.12
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.37
Consensus pattern (35 bp):
ATGTTAAAGTTGCAAGGGTTCTTCTCACCATGTTG
Found at i:88707280 original size:23 final size:23
Alignment explanation
Indices: 88707253--88707324 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 23
88707243 AATATAATTT
88707253 AACTTATAGAAATTAACTTTTGC
1 AACTTATAGAAATTAACTTTTGC
* * * * **
88707276 AACTTTTACAATTTAGTCTTTTTT
1 AACTTATAGAAATTA-ACTTTTGC
* *
88707300 TACTTATAGAAATTAACTTTGGC
1 AACTTATAGAAATTAACTTTTGC
88707323 AA
1 AA
88707325 ACATTTTGAT
Statistics
Matches: 33, Mismatches: 15, Indels: 2
0.66 0.30 0.04
Matches are distributed among these distances:
23 17 0.52
24 16 0.48
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.44
Consensus pattern (23 bp):
AACTTATAGAAATTAACTTTTGC
Found at i:88709126 original size:42 final size:42
Alignment explanation
Indices: 88709067--88709154 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
88709057 TTCATAATCC
*
88709067 ATTAAATAGTTCAGGTTTTACCATACTTAGATCAAATTGAAT
1 ATTAAATAGTTCAGGTTTTACCATACTTAAATCAAATTGAAT
*
88709109 ATTAAATAGTTCAGGTTTTACCATACTTAAATTAAATTGAAT
1 ATTAAATAGTTCAGGTTTTACCATACTTAAATCAAATTGAAT
88709151 -TTAA
1 ATTAA
88709155 TTAATATTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 4 0.09
42 40 0.91
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (42 bp):
ATTAAATAGTTCAGGTTTTACCATACTTAAATCAAATTGAAT
Found at i:88713646 original size:46 final size:47
Alignment explanation
Indices: 88713551--88713649 Score: 121
Period size: 50 Copynumber: 2.1 Consensus size: 47
88713541 TAATATAAGC
88713551 AAATATTTATATTTATGTAAAACACCATATTTAAATATAAAAAATTAAAT
1 AAATATTTATATTTATGTAAAACACCATATTTAAATAT---AAATTAAAT
* * *
88713601 AAATATTTGTATTTATTTAAAACATCATATTTGAAA-AT-AATTAAAT
1 AAATATTTATATTTATGTAAAACACCATATTT-AAATATAAATTAAAT
88713647 AAA
1 AAA
88713650 CAAGATTTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
46 11 0.24
50 31 0.69
51 3 0.07
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (47 bp):
AAATATTTATATTTATGTAAAACACCATATTTAAATATAAATTAAAT
Found at i:88716592 original size:130 final size:130
Alignment explanation
Indices: 88716359--88716622 Score: 528
Period size: 130 Copynumber: 2.0 Consensus size: 130
88716349 GGTGATAAGT
88716359 ATATATTTCGTGGTCTAAGTGGGAGATTGTTGGATAATACCAACATCACATATATGTGTAGAGAC
1 ATATATTTCGTGGTCTAAGTGGGAGATTGTTGGATAATACCAACATCACATATATGTGTAGAGAC
88716424 TCAAGTAACTAATTTTTAATTAACGATCAACTAAATATAAATTAATGTTAAAGTGCAAAAGTTAC
66 TCAAGTAACTAATTTTTAATTAACGATCAACTAAATATAAATTAATGTTAAAGTGCAAAAGTTAC
88716489 ATATATTTCGTGGTCTAAGTGGGAGATTGTTGGATAATACCAACATCACATATATGTGTAGAGAC
1 ATATATTTCGTGGTCTAAGTGGGAGATTGTTGGATAATACCAACATCACATATATGTGTAGAGAC
88716554 TCAAGTAACTAATTTTTAATTAACGATCAACTAAATATAAATTAATGTTAAAGTGCAAAAGTTAC
66 TCAAGTAACTAATTTTTAATTAACGATCAACTAAATATAAATTAATGTTAAAGTGCAAAAGTTAC
88716619 ATAT
1 ATAT
88716623 TAGGGTTATG
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 134 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.33
Consensus pattern (130 bp):
ATATATTTCGTGGTCTAAGTGGGAGATTGTTGGATAATACCAACATCACATATATGTGTAGAGAC
TCAAGTAACTAATTTTTAATTAACGATCAACTAAATATAAATTAATGTTAAAGTGCAAAAGTTAC
Found at i:88731866 original size:30 final size:30
Alignment explanation
Indices: 88731832--88731891 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
88731822 AAATTTTTTT
* * *
88731832 AAAAGACTAAAAGTCAAATTAAACAAAATA
1 AAAAGAATAAAAATCAAATTAAAAAAAATA
88731862 AAAAGAATAAAAATCAAATTAAAAAAAATA
1 AAAAGAATAAAAATCAAATTAAAAAAAATA
88731892 TAAACATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.17
Consensus pattern (30 bp):
AAAAGAATAAAAATCAAATTAAAAAAAATA
Found at i:88742872 original size:35 final size:35
Alignment explanation
Indices: 88742825--88742892 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
88742815 ATAATGGTGT
* *
88742825 GCCCAACACTAGTCAGATAAACTGACGAAGATTAC
1 GCCCAACACTAGTCAGATAAACCGACAAAGATTAC
* *
88742860 GCCCAACGCTAGTCGGATAAACCGACAAAGATT
1 GCCCAACACTAGTCAGATAAACCGACAAAGATT
88742893 TGATACAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.16
Consensus pattern (35 bp):
GCCCAACACTAGTCAGATAAACCGACAAAGATTAC
Found at i:88752777 original size:57 final size:57
Alignment explanation
Indices: 88752707--88752818 Score: 206
Period size: 57 Copynumber: 2.0 Consensus size: 57
88752697 TGGTGTAGCA
*
88752707 GATTAAATTAGTTTTCACATTTAAGGAGCTTGAATACAAGAATTTTAGTTATATTTT
1 GATTAAACTAGTTTTCACATTTAAGGAGCTTGAATACAAGAATTTTAGTTATATTTT
*
88752764 GATTAAACTAGTTTTCACATTTAAGGAGCTTGAATACAAGAATTTTCGTTATATT
1 GATTAAACTAGTTTTCACATTTAAGGAGCTTGAATACAAGAATTTTAGTTATATT
88752819 CTAATTCAGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (57 bp):
GATTAAACTAGTTTTCACATTTAAGGAGCTTGAATACAAGAATTTTAGTTATATTTT
Found at i:88758669 original size:35 final size:35
Alignment explanation
Indices: 88758630--88758806 Score: 223
Period size: 35 Copynumber: 5.1 Consensus size: 35
88758620 CATGAAAAAA
* *
88758630 TTATGACATGTAGGTATGGTATTATCCGTACTGAG
1 TTATGACACGTAGGTATGGTATTATCCATACTGAG
*
88758665 TTATGACACGTAAGTATGGTATTATCCATACTGAG
1 TTATGACACGTAGGTATGGTATTATCCATACTGAG
*
88758700 TTATGATACGTAGGTATGGTATTATCCATACTGA-
1 TTATGACACGTAGGTATGGTATTATCCATACTGAG
* * * *
88758734 TCTATAATACGTAGGTATGGTATT-TCCCATTCCGAG
1 T-TATGACACGTAGGTATGGTATTAT-CCATACTGAG
* * *
88758770 TTGTGAAACGTAGGTATGGTATTAACCATACTGAG
1 TTATGACACGTAGGTATGGTATTATCCATACTGAG
88758805 TT
1 TT
88758807 GTGAATTGTG
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
34 2 0.02
35 121 0.98
36 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (35 bp):
TTATGACACGTAGGTATGGTATTATCCATACTGAG
Found at i:88763023 original size:26 final size:26
Alignment explanation
Indices: 88762972--88763024 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
88762962 TATTGGGCAT
* * *
88762972 ATACTTTCTTCCTTAACATCAGGCGA
1 ATACTTTCATCCTTAACACCAAGCGA
88762998 ATACTTTCATCCTT-ACACCAAAGCGA
1 ATACTTTCATCCTTAACACC-AAGCGA
88763024 A
1 A
88763025 CTTTAACCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.30
Consensus pattern (26 bp):
ATACTTTCATCCTTAACACCAAGCGA
Found at i:88769104 original size:49 final size:49
Alignment explanation
Indices: 88768993--88769127 Score: 146
Period size: 49 Copynumber: 2.7 Consensus size: 49
88768983 ATACACACCA
* * *
88768993 ATCTGGTTAGCAACTACCATGCCCTACTAGTGGCCTATCATATTCTTCC
1 ATCTGGTTAGCAACTAACATGCCCTACTAGTGGCCTAGCATATTCTGCC
* * * *
88769042 ATCTAGCTAGCAACTAGCATGCCCTACTAGTGGTCTAGCATA-TCTGCC
1 ATCTGGTTAGCAACTAACATGCCCTACTAGTGGCCTAGCATATTCTGCC
* * * *
88769090 ATTTTGGTTTGCAACTAACATCCCCTATTAGTGTGCCT
1 A-TCTGGTTAGCAACTAACATGCCCTACTAGTG-GCCT
88769128 TCATATCTGG
Statistics
Matches: 70, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
48 6 0.09
49 61 0.87
50 3 0.04
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (49 bp):
ATCTGGTTAGCAACTAACATGCCCTACTAGTGGCCTAGCATATTCTGCC
Found at i:88780391 original size:20 final size:20
Alignment explanation
Indices: 88780347--88780391 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
88780337 CTATACTTTT
88780347 GTACCTTTATCAAAATATCA
1 GTACCTTTATCAAAATATCA
* * **
88780367 ATACCTTTATCCAGGTATCA
1 GTACCTTTATCAAAATATCA
88780387 GTACC
1 GTACC
88780392 ATTTTACTGT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.33
Consensus pattern (20 bp):
GTACCTTTATCAAAATATCA
Found at i:88793523 original size:21 final size:23
Alignment explanation
Indices: 88793497--88793540 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
88793487 TTAATTATAG
88793497 AATAAA-TTATTAATTT-TTATT
1 AATAAATTTATTAATTTATTATT
*
88793518 AATAAATTTATTTATTTATTATT
1 AATAAATTTATTAATTTATTATT
88793541 GGGAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 9 0.45
23 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
AATAAATTTATTAATTTATTATT
Found at i:88793548 original size:26 final size:23
Alignment explanation
Indices: 88793491--88793541 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
88793481 TATTTCTTAA
*
88793491 TTATAGAATAAA-TTATTAATTT
1 TTATTGAATAAATTTATTAATTT
*
88793513 TTATT-AATAAATTTATTTATTT
1 TTATTGAATAAATTTATTAATTT
88793535 ATTATTG
1 -TTATTG
88793542 GGAATAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 6 0.25
22 13 0.54
23 5 0.21
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (23 bp):
TTATTGAATAAATTTATTAATTT
Found at i:88796239 original size:21 final size:21
Alignment explanation
Indices: 88796196--88796239 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
88796186 ACATCAAAAC
* * * *
88796196 AGGCTTTTAGCGGCGTTTTTT
1 AGGCCTTTAGCAGCGCTTCTT
88796217 AGGCCTTTAGCAGCGCTTCTT
1 AGGCCTTTAGCAGCGCTTCTT
88796238 AG
1 AG
88796240 TGCCGCTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (21 bp):
AGGCCTTTAGCAGCGCTTCTT
Found at i:88796379 original size:43 final size:43
Alignment explanation
Indices: 88796331--88796538 Score: 319
Period size: 43 Copynumber: 4.9 Consensus size: 43
88796321 TTATGAGGCA
* * *
88796331 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
* *
88796374 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCCTTACCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
* *
88796417 AAACGCTGCTAAAGAACATGATCTTTAGCGGCGCTTTAAACAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
* *
88796460 AAATGCCGCTAAAGAACATGATCTTTAGCGACGCTTTAACCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
*
88796503 AAACGCCGCTAAA-AACATGATCTTTAGCGACGCTTT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTT
88796539 TGATAAAAGC
Statistics
Matches: 153, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 23 0.15
43 130 0.85
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
Found at i:88800932 original size:16 final size:16
Alignment explanation
Indices: 88800899--88800938 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
88800889 TTTCGGGTAT
88800899 GGGAA-AAA-TTGAAG
1 GGGAATAAATTTGAAG
*
88800913 GGGAATAAATTTGGAG
1 GGGAATAAATTTGAAG
88800929 GGGAATAAAT
1 GGGAATAAAT
88800939 ATTTCAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.22
15 3 0.13
16 15 0.65
ACGTcount: A:0.45, C:0.00, G:0.35, T:0.20
Consensus pattern (16 bp):
GGGAATAAATTTGAAG
Found at i:88801316 original size:47 final size:48
Alignment explanation
Indices: 88801258--88801356 Score: 182
Period size: 47 Copynumber: 2.1 Consensus size: 48
88801248 CATAGTTTTG
*
88801258 TTTAAGTAATATTTATAAAAATTAGATAAAATTATAAATTTTAGT-TT
1 TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
88801305 TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
1 TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
88801353 TTTA
1 TTTA
88801357 TTTCATTTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 44 0.88
48 6 0.12
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (48 bp):
TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
Found at i:88801370 original size:25 final size:26
Alignment explanation
Indices: 88801342--88801394 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
88801332 AAAATTAAAA
* *
88801342 ATTTTAGTGTTTTTATTTCATTT-TT
1 ATTTTAGTATTTTAATTTCATTTCTT
* *
88801367 ATTTTTGTATTTTAATTTTATTTCTT
1 ATTTTAGTATTTTAATTTCATTTCTT
88801393 AT
1 AT
88801395 AATTTGGTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.72
Consensus pattern (26 bp):
ATTTTAGTATTTTAATTTCATTTCTT
Found at i:88801377 original size:19 final size:18
Alignment explanation
Indices: 88801341--88801394 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
88801331 TAAAATTAAA
88801341 AATTTTAGTGTTTTTATTTC
1 AATTTTA-T-TTTTTATTTC
* *
88801361 ATTTTTATTTTTGTATTTT
1 AATTTTATTTTT-TATTTC
*
88801380 AATTTTATTTCTTAT
1 AATTTTATTTTTTAT
88801395 AATTTGGTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.24
19 16 0.55
20 6 0.21
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.70
Consensus pattern (18 bp):
AATTTTATTTTTTATTTC
Found at i:88801746 original size:7 final size:7
Alignment explanation
Indices: 88801712--88801766 Score: 65
Period size: 7 Copynumber: 7.7 Consensus size: 7
88801702 ATCCTTAAGT
88801712 CCTAACC
1 CCTAACC
*
88801719 CCTAAATC
1 CCT-AACC
*
88801727 CCTAACT
1 CCTAACC
*
88801734 CTTAACC
1 CCTAACC
88801741 CCTAACC
1 CCTAACC
88801748 CCTAACC
1 CCTAACC
*
88801755 ACTAACC
1 CCTAACC
88801762 CCTAA
1 CCTAA
88801767 ACCTTAAATC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 33 0.85
8 6 0.15
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (7 bp):
CCTAACC
Found at i:88801780 original size:21 final size:21
Alignment explanation
Indices: 88801711--88801791 Score: 74
Period size: 21 Copynumber: 3.8 Consensus size: 21
88801701 AATCCTTAAG
*
88801711 TCCTAACCCCTAAATCCCTAAC
1 TCCTAACCCCTAAA-CCCTAAA
* *
88801733 TCTTAACCCCTAACCCCT-AA
1 TCCTAACCCCTAAACCCTAAA
* *
88801753 CCACTAACCCCTAAACCTTAAA
1 TC-CTAACCCCTAAACCCTAAA
**
88801775 TCCTAACCTTTAAACCC
1 TCCTAACCCCTAAACCC
88801792 ATAATCCATA
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
20 2 0.04
21 29 0.63
22 15 0.33
ACGTcount: A:0.33, C:0.43, G:0.00, T:0.23
Consensus pattern (21 bp):
TCCTAACCCCTAAACCCTAAA
Found at i:88802094 original size:14 final size:14
Alignment explanation
Indices: 88802044--88802110 Score: 57
Period size: 14 Copynumber: 4.9 Consensus size: 14
88802034 AGCCCTAAAT
*
88802044 CCCTAACTCTTAAC
1 CCCTAACCCTTAAC
** *
88802058 ATCTAACCCCTAA-
1 CCCTAACCCTTAAC
*
88802071 -CCTGACCCTTAAC
1 CCCTAACCCTTAAC
88802084 CCCTAACCCTTAAC
1 CCCTAACCCTTAAC
* *
88802098 CCATAAACCTTAA
1 CCCTAACCCTTAA
88802111 ATCACATTAA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
12 9 0.22
14 32 0.78
ACGTcount: A:0.33, C:0.42, G:0.01, T:0.24
Consensus pattern (14 bp):
CCCTAACCCTTAAC
Found at i:88802152 original size:14 final size:15
Alignment explanation
Indices: 88802133--88802165 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
88802123 CTTAAATTAG
88802133 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
88802147 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
88802162 AATC
1 AATC
88802166 TATAAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:88803116 original size:145 final size:145
Alignment explanation
Indices: 88802731--88803530 Score: 1381
Period size: 145 Copynumber: 5.5 Consensus size: 145
88802721 ATTTGGGAAA
*
88802731 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTA
1 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
* *
88802796 GCGGCGCTTCTTATAAAGCGCCGCAAATTTTTTTCATTTTGAACAAAACAACGCCGTTTTGCTAT
66 GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
*
88802861 TCTAATTTTTTTTTTAT
131 TCTAA--ATTTTTTTAT
*
88802878 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTATATAGGAAACGCCGCTATTGCTTACCTTTA
1 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
*
88802943 GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAAAAAAACGACGCCGTTTTGCTAT
66 GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
*
88803008 TCTAACAATTTTTTA-
131 TCTAA-ATTTTTTTAT
* *
88803023 TTTTTTATAAGTTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTA
1 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
88803088 GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
66 GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
*
88803153 TCTAAAATTTTTTAT
131 TCTAAATTTTTTTAT
88803168 TTTTTTATAAATTGATTTATTTTTTGCGGCG-TTTTATAGGAAACGCCGCTATTGCTTACCTTTA
1 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
* * * *
88803232 GCGGCGCTTCTTATAAAGAGCCACAAAATTTTTTTATTTTGAACAAAACGACGCCTTTTTGCTAT
66 GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
88803297 TCTAAATTTTTTTAT
131 TCTAAATTTTTTTAT
88803312 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
1 TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
* *
88803377 GCGGCGCTTCATATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGCTTTGCTAT
66 GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
*
88803442 TCT-AATTTTTTTTT
131 TCTAAATTTTTTTAT
88803456 ATTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTT
1 -TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTT
*
88803521 AGCGACGCTT
65 AGCGGCGCTT
88803531 TACGAAAAAC
Statistics
Matches: 623, Mismatches: 27, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
144 157 0.25
145 329 0.53
146 7 0.01
147 130 0.21
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (145 bp):
TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTTTA
GCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
TCTAAATTTTTTTAT
Found at i:88803342 original size:289 final size:289
Alignment explanation
Indices: 88802730--88803530 Score: 1390
Period size: 289 Copynumber: 2.8 Consensus size: 289
88802720 AATTTGGGAA
88802730 ATTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTT
1 ATTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTT
* *
88802795 AGCGGCGCTTCTTATAAAGCGCCGCAAATTTTTTTCATTTTGAACAAAACAACGCCGTTTTGCTA
66 AGCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTA
*
88802860 TTCTAATTTTTTTTTTATTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTATATAGGAAACGC
131 TTCTAA--ATTTTTTTATTTTTTTATAAATTGATTTATTTTTTGCGGCGTTT-TATAGGAAACGC
* *
88802925 CGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAAAAAA
193 CGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAGAGCCACAAAATTTTTTCATTTTGAAAAAA
88802990 ACGACGCCGTTTTGCTATTCTAACAATTTTTT
258 ACGACGCCGTTTTGCTATTCTAACAATTTTTT
*
88803022 ATTTTTTATAAGTTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTT
1 ATTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTT
88803087 AGCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTA
66 AGCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTA
*
88803152 TTCTAAAATTTTTTATTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTATAGGAAACGCCGC
131 TTCTAAATTTTTTTATTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTATAGGAAACGCCGC
* *
88803217 TATTGCTTACCTTTAGCGGCGCTTCTTATAAAGAGCCACAAAATTTTTTTATTTTGAACAAAACG
196 TATTGCTTACCTTTAGCGGCGCTTCTTATAAAGAGCCACAAAATTTTTTCATTTTGAAAAAAACG
* *
88803282 ACGCCTTTTTGCTATTCTAA-ATTTTTTT
261 ACGCCGTTTTGCTATTCTAACAATTTTTT
*
88803310 ATTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGCCGCTATTGCTTACCTT
1 A-TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTT
* *
88803375 TAGCGGCGCTTCATATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGCTTTGCT
65 TAGCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCT
*
88803440 ATTCT-AATTTTTTTTTATTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGGAAACGC
130 ATTCTAAATTTTTTTAT-TTTTTTATAAATTGATTTATTTTTTGCGGCG-TTTTATAGGAAACGC
*
88803504 CGCTATTGCTTACCTTTAGCGACGCTT
193 CGCTATTGCTTACCTTTAGCGGCGCTT
88803531 TACGAAAAAC
Statistics
Matches: 488, Mismatches: 18, Indels: 8
0.95 0.04 0.02
Matches are distributed among these distances:
288 17 0.03
289 255 0.52
290 83 0.17
292 133 0.27
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.44
Consensus pattern (289 bp):
ATTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTT
AGCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTA
TTCTAAATTTTTTTATTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTATAGGAAACGCCGC
TATTGCTTACCTTTAGCGGCGCTTCTTATAAAGAGCCACAAAATTTTTTCATTTTGAAAAAAACG
ACGCCGTTTTGCTATTCTAACAATTTTTT
Found at i:88803645 original size:73 final size:72
Alignment explanation
Indices: 88803526--88803694 Score: 230
Period size: 73 Copynumber: 2.3 Consensus size: 72
88803516 CCTTTAGCGA
* * * * *
88803526 CGCTTTACGAAAAACGCCGCTAAATCTCTGAAAGTTCAGAAAACGGCATCGTTGGGCTTGGGTTT
1 CGCTTTACCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGG-TT
*
88803591 TTTTGCGG
65 ATTTGCGG
* *
88803599 CGCTTTACCAAAAACGTCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTA
1 CGCTTTACCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTA
88803664 TTTGCGG
66 TTTGCGG
* *
88803671 TGCTTTGCTCAAAAACGCCGCTAA
1 CGCTTTAC-CAAAAACGCCGCTAA
88803695 TGCTTTTTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
72 15 0.18
73 69 0.82
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (72 bp):
CGCTTTACCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTA
TTTGCGG
Found at i:88803779 original size:12 final size:12
Alignment explanation
Indices: 88803762--88803787 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
88803752 TTTTTTATCC
88803762 AAACGCCGCTAA
1 AAACGCCGCTAA
88803774 AAACGCCGCTAA
1 AAACGCCGCTAA
88803786 AA
1 AA
88803788 GCCTGTTTTG
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:88805269 original size:16 final size:14
Alignment explanation
Indices: 88805231--88805261 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
88805221 ATGCATGTAA
*
88805231 TTTAATTTGATATT
1 TTTAATTTTATATT
88805245 TTTAATTTTATATT
1 TTTAATTTTATATT
88805259 TTT
1 TTT
88805262 TTAATTTTTA
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:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (14 bp):
TTTAATTTTATATT
Found at i:88807985 original size:3 final size:3
Alignment explanation
Indices: 88807977--88808019 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
88807967 TATTACATAT
88807977 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
88808020 AGGAACGCAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:88809072 original size:3 final size:3
Alignment explanation
Indices: 88809059--88809101 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
88809049 TTATTGTTCG
*
88809059 TGT TAT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT T
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT T
88809102 ATTATTATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.02, C:0.00, G:0.30, T:0.67
Consensus pattern (3 bp):
TGT
Found at i:88809074 original size:12 final size:12
Alignment explanation
Indices: 88809049--88809098 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
88809039 ACTTGCACAT
88809049 TTATTGTTCG-TG
1 TTATTGTT-GTTG
88809061 TTATTGTTGTTG
1 TTATTGTTGTTG
*
88809073 TTGTTGTTGTTG
1 TTATTGTTGTTG
*
88809085 TTGTTGTTGTTG
1 TTATTGTTGTTG
88809097 TT
1 TT
88809099 GTTATTATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
11 1 0.03
12 35 0.97
ACGTcount: A:0.04, C:0.02, G:0.28, T:0.66
Consensus pattern (12 bp):
TTATTGTTGTTG
Found at i:88824000 original size:50 final size:50
Alignment explanation
Indices: 88823905--88824341 Score: 362
Period size: 50 Copynumber: 8.7 Consensus size: 50
88823895 TGAGAACACA
* * ** * * *
88823905 TGTGTAGTACTATGTGCAGGCTACTATGTGT-TTAAGATGGTTAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAA-ATTGATAGGTCACG
* * * * *
88823955 TGTGTAGTACGAAGTGCAAGCTACTACGTGTATCAAATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCACG
* * ** * * *
88824005 CGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACT--TCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-A-AATTGATAGGTCACG
* * * * * *
88824056 TGTGTAGTACTAAGTGCAGACTACTACGTATATCAGATGGATAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCACG
* * * * * *
88824106 GGTGTAGTACTAAGTGTAGGATACTACGTGTACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCACG
* * * * * * * *
88824156 TGTGTAGTACTACGTGCAGGCTATTATGCGTACCCGATAACT--TCGATCACC
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-A-AATTGATAGGTCACG
* * *
88824207 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATTGATAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCACG
* *
88824257 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCACG
* *
88824307 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
88824342 GAAAGCTTTG
Statistics
Matches: 302, Mismatches: 74, Indels: 22
0.76 0.19 0.06
Matches are distributed among these distances:
48 3 0.01
49 2 0.01
50 219 0.73
51 71 0.24
52 2 0.01
53 5 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCACG
Found at i:88824083 original size:101 final size:100
Alignment explanation
Indices: 88823906--88824343 Score: 359
Period size: 101 Copynumber: 4.4 Consensus size: 100
88823896 GAGAACACAT
* ** *** * * * *
88823906 GTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTAGGTCATGTGTGTAGTACGAAGTG
1 GTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATTGATAGGTCACGTGTGTAGTACTAAGTG
*
88823971 CA-AGCTACTACGTGTATCAAATTGATAGGTCGCAC
66 CAGA-CTACTACGTGTACCAAATTGATAGGTCGCAC
* * * *
88824006 GTGTAGTACTAAGTGCAGGCTACTATGCATACCCGA-TAACTTCGATCACGTGTGTAGTACTAAG
1 GTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATTGA--TAGGTCACGTGTGTAGTACTAAG
* * * * ****
88824070 TGCAGACTACTACGTATATCAGATGGATAGGTCATGG
64 TGCAGACTACTACGTGTACCAAATTGATAGGTCGCAC
* * * ** * * *
88824107 GTGTAGTACTAAGTGTAGGATACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTACGTG
1 GTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATTGATAGGTCACGTGTGTAGTACTAAGTG
* * * * ** **
88824172 CAGGCTATTATGCGTACCCGA-T-A-ACTTCGATCACC
66 CAGACTACTACGTGTACCAAATTGATAGGTCG--CA-C
*
88824207 TGTGTAGTACTAAGTGCAGGCTACTA--CATGTATCAGATTGATAGGTCACGTGTGTAGTACTAA
1 -GTGTAGTACTAAGTGCAGGCTACTATGCA--TACCAGATTGATAGGTCACGTGTGTAGTACTAA
* *
88824270 GTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCAT
63 GTGCAGACTACTACGTGTACCAAATTGATAGGTCGCAC
*
88824308 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GTGTAGTACTAAGTGCAGGCTACTATGCATACCAGA
88824344 AAGCTTTGGT
Statistics
Matches: 258, Mismatches: 65, Indels: 30
0.73 0.18 0.08
Matches are distributed among these distances:
97 3 0.01
98 1 0.00
100 94 0.36
101 148 0.57
102 7 0.03
103 1 0.00
104 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (100 bp):
GTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATTGATAGGTCACGTGTGTAGTACTAAGTG
CAGACTACTACGTGTACCAAATTGATAGGTCGCAC
Done.