Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold457.1
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: 1064702
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 62777 characters in sequence are not A, C, G, or T
File 3 of 4
Found at i:672639 original size:41 final size:41
Alignment explanation
Indices: 672594--672695 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
672584 TGATTCAGTA
672594 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATATTT
* *
672635 CACCGGTATTAAGCCTGCTAGACATATAGTCTGAAATGTTT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATATTT
* *
672676 CACCGGCAATAAGCTTGCTA
1 CACCGGCATTAAGCCTGCTA
672696 AGCGCTATGC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 2 0.04
41 53 0.96
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:688476 original size:4 final size:4
Alignment explanation
Indices: 688467--688497 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
688457 CTACTAGTAA
688467 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
688498 CAAGGCTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:689413 original size:21 final size:21
Alignment explanation
Indices: 689385--689458 Score: 89
Period size: 21 Copynumber: 3.5 Consensus size: 21
689375 ATGGAAGGGA
689385 TGGAGCAGTGGAAGGA-TCAAT
1 TGGAGCAGTGGAA-GATTCAAT
* *
689406 TAGAGCAGTTGAAGATTCAAT
1 TGGAGCAGTGGAAGATTCAAT
*
689427 TGGAGCCA-TGGAAGATTCAAC
1 TGGAG-CAGTGGAAGATTCAAT
689448 TGGAGCAGTGG
1 TGGAGCAGTGG
689459 TTGCATCAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
20 4 0.09
21 39 0.87
22 2 0.04
ACGTcount: A:0.32, C:0.12, G:0.34, T:0.22
Consensus pattern (21 bp):
TGGAGCAGTGGAAGATTCAAT
Found at i:690097 original size:32 final size:32
Alignment explanation
Indices: 690061--690121 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
690051 ACTTACCTTT
690061 TCCTCACTCTTTGTTTTGCAGTCCGCTTGAAC
1 TCCTCACTCTTTGTTTTGCAGTCCGCTTGAAC
*
690093 TCCTCACTCTTTGTTTTGCAGTCTGCTTG
1 TCCTCACTCTTTGTTTTGCAGTCCGCTTG
690122 TTCAAGCGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.10, C:0.30, G:0.16, T:0.44
Consensus pattern (32 bp):
TCCTCACTCTTTGTTTTGCAGTCCGCTTGAAC
Found at i:694704 original size:96 final size:98
Alignment explanation
Indices: 694521--694713 Score: 309
Period size: 96 Copynumber: 2.0 Consensus size: 98
694511 GTACAGGAGG
* * *
694521 ACGTGAGTTTGAGTGCGCTGAAGTGTATTATCTTCCTATTTAAGAGTTGGGAAGGGACTATGAAT
1 ACGTGAGTTTGAGTGCGCTAAAGTGTATTATCCTCC--TTTAAGAATTGGGAAGGGACTATGAAT
*
694586 AATTCTAGATATTGTATAAAAAAGAACAAATAAAA
64 AAATCTAGATATTGTATAAAAAAGAACAAATAAAA
*
694621 ACGTGAGTTTGAGTGCGCTAAAGTGTATTATCCTCC-TTAAGAATTGGG-AGGGACTATGAGTAA
1 ACGTGAGTTTGAGTGCGCTAAAGTGTATTATCCTCCTTTAAGAATTGGGAAGGGACTATGAATAA
694684 ATCTAGATATTGTATAAAAAAGAACAAATA
66 ATCTAGATATTGTATAAAAAAGAACAAATA
694714 TGATGAGAAT
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
96 43 0.49
97 11 0.12
100 34 0.39
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (98 bp):
ACGTGAGTTTGAGTGCGCTAAAGTGTATTATCCTCCTTTAAGAATTGGGAAGGGACTATGAATAA
ATCTAGATATTGTATAAAAAAGAACAAATAAAA
Found at i:701767 original size:124 final size:124
Alignment explanation
Indices: 701413--701788 Score: 585
Period size: 124 Copynumber: 3.0 Consensus size: 124
701403 TTAGGGTTTT
* * ** *
701413 TAGGTCCTGGAAGAAATAATTTTGAGTTGA-TGTTTCTGAACAAATAGTATAAAATCGCTTTTAG
1 TAGGTCATGTAAGAAATAATTTT-TTTTGACT-TTTCTGAACAAATAGTATAAAATCACTTTTAG
*
701477 CAAGATTGCTATTTGAGAAGAATTTGTGAAATTGCGGCCTCGTGGGCGCGCTTTTGCTACAG
64 CAGGA-TGCTATTTGAGAAGAATTTGTGAAATTGCGGCCTCGTGGGCGCGCTTTTGCTACAG
* * *
701539 TAGGTCATGTAAGAAATAATTTTTTTT-ACTTTTCTGAGCAAATAGCATAAAATCCCTTTTAGCA
1 TAGGTCATGTAAGAAATAATTTTTTTTGACTTTTCTGAACAAATAGTATAAAATCACTTTTAGCA
*
701603 GGATGCTATTTGAGAAGAATTTGTGAAATTGCGGCCTCGTGGACGCGCTTTTGCTACAG
66 GGATGCTATTTGAGAAGAATTTGTGAAATTGCGGCCTCGTGGGCGCGCTTTTGCTACAG
* *
701662 TAGGTCATGTAAGAAATAATTTTTTTTGACTTTTCTGACCAAATAGTATAAAATCACTTCTAGCA
1 TAGGTCATGTAAGAAATAATTTTTTTTGACTTTTCTGAACAAATAGTATAAAATCACTTTTAGCA
**
701727 GGATGCTATTTGAGAAGAATTTGTGAAATCCCGGCCTCGTGGGCGCGCTTTTGCTACAG
66 GGATGCTATTTGAGAAGAATTTGTGAAATTGCGGCCTCGTGGGCGCGCTTTTGCTACAG
701786 TAG
1 TAG
701789 CATGTTTGGG
Statistics
Matches: 232, Mismatches: 16, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
123 82 0.35
124 126 0.54
125 3 0.01
126 21 0.09
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.34
Consensus pattern (124 bp):
TAGGTCATGTAAGAAATAATTTTTTTTGACTTTTCTGAACAAATAGTATAAAATCACTTTTAGCA
GGATGCTATTTGAGAAGAATTTGTGAAATTGCGGCCTCGTGGGCGCGCTTTTGCTACAG
Found at i:705050 original size:86 final size:87
Alignment explanation
Indices: 704762--705151 Score: 660
Period size: 86 Copynumber: 4.5 Consensus size: 87
704752 TATCAATTGA
* * *
704762 GTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTATGTTAGGG
1 GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGG
* *
704827 TTAGGGTTTTTAATTGAGTTAG
66 TTAGGGTTTTTAATTAAGTTTG
* *
704849 GTTAGGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTAGGGTTTTTAA-TAGGTTAGGGTTAGG
1 GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTA-GGTTAGG
704913 GTTAGGGTTTTTAATTAAGTTTG
65 GTTAGGGTTTTTAATTAAGTTTG
704936 GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGG
1 GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGG
705001 -TAGGGTTTTTAATTAAGTTTG
66 TTAGGGTTTTTAATTAAGTTTG
705022 GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGG
1 GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGG
705087 -TAGGGTTTTTAATTAAGTTTG
66 TTAGGGTTTTTAATTAAGTTTG
* * *
705108 GTTAGGGTTAGTGTTTTTAATAAAATTTGGTTAGGGTTAGGGTT
1 GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTT
705152 AGGAATAAAC
Statistics
Matches: 289, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
86 153 0.53
87 130 0.45
88 6 0.02
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.46
Consensus pattern (87 bp):
GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGG
TTAGGGTTTTTAATTAAGTTTG
Found at i:705160 original size:29 final size:29
Alignment explanation
Indices: 704762--705151 Score: 615
Period size: 29 Copynumber: 13.5 Consensus size: 29
704752 TATCAATTGA
704762 GTTAGGGTTAGGGTTTTTAATTAAGTTAG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAG
* *
704791 GTTAGGGTTAGGGTTTTTAATTAAATTAT
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAG
*
704820 GTTAGGGTTAGGGTTTTTAATTGAGTTAG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAG
* *
704849 GTTAGGGTTAGGGTTTTTAATTAAATTAT
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAG
*
704878 GTTAGGGTTAGGGTTTTTAA-TAGGTTAGG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTA-G
*
704907 GTTAGGGTTAGGGTTTTTAATTAAGTTTG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAG
*
704936 GTTAGGGTTAGGGTTTTTAATTAAATTAG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAG
704965 GTTAGGGTTAGGGTTTTTAATTAAGTTAG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAG
*
704994 GTTAGGG-TAGGGTTTTTAATTAAGTTTG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAG
*
705022 GTTAGGGTTAGGGTTTTTAATTAAATTAG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAG
705051 GTTAGGGTTAGGGTTTTTAATTAAGTTAG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAG
*
705080 GTTAGGG-TAGGGTTTTTAATTAAGTTTG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAG
* * * *
705108 GTTAGGGTTAGTGTTTTTAATAAAATTTG
1 GTTAGGGTTAGGGTTTTTAATTAAGTTAG
705137 GTTAGGGTTAGGGTT
1 GTTAGGGTTAGGGTT
705152 AGGAATAAAC
Statistics
Matches: 332, Mismatches: 25, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
28 59 0.18
29 268 0.81
30 5 0.02
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.46
Consensus pattern (29 bp):
GTTAGGGTTAGGGTTTTTAATTAAGTTAG
Found at i:707570 original size:22 final size:22
Alignment explanation
Indices: 707539--707616 Score: 120
Period size: 22 Copynumber: 3.5 Consensus size: 22
707529 AAATATGGAT
707539 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
*
707561 TTAAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
* *
707583 TTGAGATAATTTTGGAAAGAAA
1 TTGAGAGAATTTTGGAAGGAAA
707605 TTGAGAGGAATT
1 TTGAGA-GAATT
707617 GAGAGGAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 46 0.92
23 4 0.08
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:707632 original size:44 final size:43
Alignment explanation
Indices: 707539--707634 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 43
707529 AAATATGGAT
*
707539 TTGAGAGAATTTTGGAAGGAAATTAAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAAGAAATTAAGAGAA-TTTGGAAGGAAA
* *
707583 TTGAGATAATTTTGGAAAGAAATTGAGAGGAA-TT-GAGAGGAAA
1 TTGAGAGAATTTTGGAAAGAAATTAAGA-GAATTTGGA-AGGAAA
707626 TATGAGAGA
1 T-TGAGAGA
707635 GGATTTGTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
42 2 0.04
43 9 0.20
44 31 0.69
45 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (43 bp):
TTGAGAGAATTTTGGAAAGAAATTAAGAGAATTTGGAAGGAAA
Found at i:707633 original size:12 final size:11
Alignment explanation
Indices: 707601--707633 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
707591 ATTTTGGAAA
707601 GAAATTGAGAG
1 GAAATTGAGAG
707612 G-AATTGAGAG
1 GAAATTGAGAG
707622 GAAATATGAGAG
1 GAAAT-TGAGAG
707634 AGGATTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 4 0.20
12 6 0.30
ACGTcount: A:0.45, C:0.00, G:0.36, T:0.18
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:723192 original size:23 final size:23
Alignment explanation
Indices: 723166--723210 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
723156 AAGAGATTTG
* *
723166 AAATCAATAATATACAAATCAAT
1 AAATAAATAATACACAAATCAAT
* *
723189 AAATAAATTATACATAAATCAA
1 AAATAAATAATACACAAATCAA
723211 CAAAATAAGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.27
Consensus pattern (23 bp):
AAATAAATAATACACAAATCAAT
Found at i:723455 original size:24 final size:22
Alignment explanation
Indices: 723427--723478 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
723417 ATATTACAAA
723427 ATCATATCTTCTAAGATTGCAT
1 ATCATATCTTCTAAGATTGCAT
*
723449 AT-ATCAT-ATCTAAGATTGCAT
1 ATCAT-ATCTTCTAAGATTGCAT
723470 ATCATATCT
1 ATCATATCT
723479 AAGATTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (22 bp):
ATCATATCTTCTAAGATTGCAT
Found at i:723462 original size:21 final size:21
Alignment explanation
Indices: 723436--723490 Score: 87
Period size: 19 Copynumber: 2.7 Consensus size: 21
723426 AATCATATCT
723436 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
723457 TCTAAGATTGC--ATATCATA
1 TCTAAGATTGCATATATCATA
*
723476 TCTAAGATTGAATAT
1 TCTAAGATTGCATAT
723491 CCTTGAAGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 18 0.58
21 13 0.42
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:724737 original size:46 final size:46
Alignment explanation
Indices: 724632--725530 Score: 1752
Period size: 46 Copynumber: 19.6 Consensus size: 46
724622 CTTACGTATG
* *
724632 ACCACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
724675 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
724721 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
724767 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
724813 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
724859 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
724905 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
724951 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
724997 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
725043 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
725089 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
725135 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
725181 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
725227 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
725273 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
725319 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
725365 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
725411 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
725457 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
725503 ACCACTTATCACTTTGTCAC-TGATCAGA
1 ACCACTTATCACTTTGTCACTTGATCAGA
725531 AGTACTCAAA
Statistics
Matches: 851, Mismatches: 2, Indels: 4
0.99 0.00 0.00
Matches are distributed among these distances:
43 12 0.01
44 5 0.01
45 28 0.03
46 806 0.95
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.32
Consensus pattern (46 bp):
ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
Found at i:732512 original size:24 final size:24
Alignment explanation
Indices: 732480--732530 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
732470 GGATGAGTTA
*
732480 TCGACCTTTTCATTGCTATCCTTT
1 TCGACCTTTTCATTGATATCCTTT
* *
732504 TCGATCTTTTCATTTATATCCTTT
1 TCGACCTTTTCATTGATATCCTTT
732528 TCG
1 TCG
732531 GATAATATCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.14, C:0.25, G:0.08, T:0.53
Consensus pattern (24 bp):
TCGACCTTTTCATTGATATCCTTT
Found at i:732576 original size:41 final size:39
Alignment explanation
Indices: 732496--732598 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 39
732486 TTTTCATTGC
* *
732496 TATCCTTTTCGATCTTTTCATTTATATCCTTTTCGGATAA
1 TATCCTTTTC-AACTTTTCATTTATATCCTTTTCAGATAA
732536 TATCCTTTTCAACTTTCTCATTTGATATCCTTTTCAGATAA
1 TATCCTTTTCAACTTT-TCATTT-ATATCCTTTTCAGATAA
*
732577 CATCCTTTTCAACTTTTTCATT
1 TATCCTTTTCAAC-TTTTCATT
732599 GATTCGGAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
39 5 0.09
40 16 0.28
41 33 0.58
42 3 0.05
ACGTcount: A:0.21, C:0.22, G:0.05, T:0.51
Consensus pattern (39 bp):
TATCCTTTTCAACTTTTCATTTATATCCTTTTCAGATAA
Found at i:734276 original size:6 final size:7
Alignment explanation
Indices: 734264--734290 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
734254 ATTATTTATT
734264 ATAAAAA
1 ATAAAAA
734271 ATAAAAA
1 ATAAAAA
734278 ATAAAAA
1 ATAAAAA
734285 ATAAAA
1 ATAAAA
734291 TTGAAATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
ATAAAAA
Found at i:740289 original size:104 final size:105
Alignment explanation
Indices: 740101--740290 Score: 249
Period size: 105 Copynumber: 1.8 Consensus size: 105
740091 TATACGCCAT
* * * *
740101 ACGGCCTGGGTACACGCCCATGTCCTTGCCCGTGTGGTTTTAAAGCATAAATCAGAGAGTTACAC
1 ACGGCCTGGGCACACGCCCATGTCCTTGCCCATGTGGTCTTAAAGCACAAATCAGAGAGTTACAC
*
740166 GGCCTGGACACACGACTATGTCCTTGCTCGTGTGACTCAC
66 GGCCTAGACACACGACTATGTCCTTGCTCGTGTGACTCAC
* * * * *
740206 ACGGCCTGGGCACATGCCCATGTGCTTGCTCATGTTGTCTT-AAGTCACAAA-CAGTGAGTTACA
1 ACGGCCTGGGCACACGCCCATGTCCTTGCCCATGTGGTCTTAAAG-CACAAATCAGAGAGTTACA
* *
740269 CGGCTTAGACACACGCCTATGT
65 CGGCCTAGACACACGACTATGT
740291 GAACCTTACA
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
104 33 0.46
105 39 0.54
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (105 bp):
ACGGCCTGGGCACACGCCCATGTCCTTGCCCATGTGGTCTTAAAGCACAAATCAGAGAGTTACAC
GGCCTAGACACACGACTATGTCCTTGCTCGTGTGACTCAC
Found at i:740443 original size:29 final size:29
Alignment explanation
Indices: 740398--740456 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
740388 TTACATGGCT
* *
740398 TGTCACATGACCGTGTGGCTCACACGGCC
1 TGTCACACGACCATGTGGCTCACACGGCC
*
740427 TGTCACACGACCATGTGGCTTACACGGCC
1 TGTCACACGACCATGTGGCTCACACGGCC
740456 T
1 T
740457 ATGCTCGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.19, C:0.34, G:0.25, T:0.22
Consensus pattern (29 bp):
TGTCACACGACCATGTGGCTCACACGGCC
Found at i:742665 original size:93 final size:93
Alignment explanation
Indices: 742558--742728 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
742548 GCCCCTAAGT
* * * * *
742558 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCAACCATAAGTGAACTCGGACTCAACTCAA
*
742623 TGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
742651 GAACTCGGACTCAACTCAACAAGTTCGGACATTCGCAACCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCAACCATAAGTGAACTCGGACTCAACTCAA
742716 CGAGTTCGGATGC
66 CGAGTTCGGATGC
742729 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCAACCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:742725 original size:46 final size:45
Alignment explanation
Indices: 742553--742725 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 45
742543 AACGCGCCCC
* * *
742553 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-TTCGTAACCA
* * * *
742599 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTA-CA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CTTCGTAACCA
* * * *
742645 TTTCA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCAACCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-TTCGTAACCA
742692 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
742726 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
45 3 0.03
46 64 0.63
47 32 0.31
48 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACTTCGTAACCA
Found at i:743690 original size:107 final size:107
Alignment explanation
Indices: 743504--743716 Score: 381
Period size: 107 Copynumber: 2.0 Consensus size: 107
743494 ATCGAGCTAC
743504 CGGGACTCCAAAAACGTAAAAATCATTAAAAACGAGGCTAGAACGGACTTACAATCGAGCTTGGA
1 CGGGACTCCAAAAACGTAAAAATCATTAAAAACGAGGCTAGAACGGACTTACAATCGAGCTTGGA
743569 AGCTTGAAAAACCCTAGCCATGGTTTCTCATTGCTATATTCT
66 AGCTTGAAAAACCCTAGCCATGGTTTCTCATTGCTATATTCT
*
743611 CGGGACTCCAAAAATGTAAAAATCATTAAAAACGAGGCTAGAACGGACTTACAATCGAGCTTGGA
1 CGGGACTCCAAAAACGTAAAAATCATTAAAAACGAGGCTAGAACGGACTTACAATCGAGCTTGGA
* * * *
743676 AGTTTGGAAAACCCTAGCTATGGTTTCTCCTTGCTATATTC
66 AGCTTGAAAAACCCTAGCCATGGTTTCTCATTGCTATATTC
743717 GGCCATGGGG
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 101 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (107 bp):
CGGGACTCCAAAAACGTAAAAATCATTAAAAACGAGGCTAGAACGGACTTACAATCGAGCTTGGA
AGCTTGAAAAACCCTAGCCATGGTTTCTCATTGCTATATTCT
Found at i:745274 original size:30 final size:30
Alignment explanation
Indices: 745222--745318 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
745212 TTATGGAGCA
745222 AAGATAAGAAGAAAACC-GAATAAAGAAATCC
1 AAGAT-AG-AGAAAACCAGAATAAAGAAATCC
*
745253 AAGATAGAGAAACCCAGAATAAAGAAATCC
1 AAGATAGAGAAAACCAGAATAAAGAAATCC
* * * * *
745283 -AGAATAAAGAGATCCAGGATAAAGAAACCC
1 AAG-ATAGAGAAAACCAGAATAAAGAAATCC
745313 AAGATA
1 AAGATA
745319 CGATACTATG
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
29 9 0.16
30 41 0.72
31 7 0.12
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGATAGAGAAAACCAGAATAAAGAAATCC
Found at i:745278 original size:15 final size:15
Alignment explanation
Indices: 745230--745309 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
745220 CAAAGATAAG
*
745230 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
745244 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
745259 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
745274 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
745289 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
745304 AAGAAA
1 AAGAAA
745310 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:745318 original size:15 final size:15
Alignment explanation
Indices: 745241--745318 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
745231 AGAAAACCGA
745241 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
745256 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
745270 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
745285 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
745301 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
745316 ATA
1 ATA
745319 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:753292 original size:55 final size:55
Alignment explanation
Indices: 753208--753313 Score: 203
Period size: 55 Copynumber: 1.9 Consensus size: 55
753198 CACTCAATAA
753208 CCATATCATAAGACCATATATACAAAATGATTATAATGCTATACATGCCATACTT
1 CCATATCATAAGACCATATATACAAAATGATTATAATGCTATACATGCCATACTT
*
753263 CCATATCATAAGGCCATATATACAAAATGATTATAATGCTATACATGCCAT
1 CCATATCATAAGACCATATATACAAAATGATTATAATGCTATACATGCCAT
753314 GCTCAAAATA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (55 bp):
CCATATCATAAGACCATATATACAAAATGATTATAATGCTATACATGCCATACTT
Found at i:757774 original size:42 final size:42
Alignment explanation
Indices: 757692--757829 Score: 145
Period size: 43 Copynumber: 3.2 Consensus size: 42
757682 ACCTAGACGT
* * * *
757692 GGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACAG
1 GGTCTTACAAGAAATCAAATAT-GATGCCAATGTCCCAGACAG
* *
757735 GGTCTTACAGGAAATCAAATATGATGCCAATGTCCCAGACAT
1 GGTCTTACAAGAAATCAAATATGATGCCAATGTCCCAGACAG
* *
757777 GGTCTTACAAATAAATCATAAGT-CGATGCCAATGTCCCAGAC-G
1 GGTCTTAC-AAGAAATCA-AA-TATGATGCCAATGTCCCAGACAG
757820 TGGTCTTACA
1 -GGTCTTACA
757830 TGATAACACA
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
42 25 0.30
43 28 0.34
44 28 0.34
45 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (42 bp):
GGTCTTACAAGAAATCAAATATGATGCCAATGTCCCAGACAG
Found at i:757817 original size:44 final size:42
Alignment explanation
Indices: 757686--757829 Score: 139
Period size: 44 Copynumber: 3.4 Consensus size: 42
757676 CCAACGACCT
* * * * *
757686 AGACGTGGTCTTAC-ATGTAATCAAATATCGATGCCACTATCCC
1 AGACATGGTCTTACAAAGAAATC-AA-ATCGATGCCAATGTCCC
* * *
757729 AGACAGGGTCTTAC-AGGAAATCAAATATGATGCCAATGTCCC
1 AGACATGGTCTTACAAAGAAATCAAAT-CGATGCCAATGTCCC
*
757771 AGACATGGTCTTACAAATAAATCATAAGTCGATGCCAATGTCCC
1 AGACATGGTCTTACAAAGAAATCA-AA-TCGATGCCAATGTCCC
*
757815 AGACGTGGTCTTACA
1 AGACATGGTCTTACA
757830 TGATAACACA
Statistics
Matches: 85, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
41 2 0.02
42 27 0.32
43 25 0.29
44 30 0.35
45 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (42 bp):
AGACATGGTCTTACAAAGAAATCAAATCGATGCCAATGTCCC
Found at i:766547 original size:47 final size:47
Alignment explanation
Indices: 766481--766655 Score: 164
Period size: 47 Copynumber: 3.7 Consensus size: 47
766471 ACAACGCTTA
* * * *
766481 GCCGATGCGTGTCCTAGACACGTCTTACACTGGCTATCTC-TGTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-ATCTCATATCGAG
* *
766528 GCCGATGCATGTCCCAGACATGTCTTACTCTGGCA-CTCATTTCTGTA-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCATCTCATATC-G-AG
* * *
766575 -CAGATGCCATGTCCCAAACATGGTCTTACACTGGC-TCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCATCTCAT-ATCGAG
*
766622 GCCGAAGCATGTCCCAGACATGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
766656 GCACAAATCA
Statistics
Matches: 106, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
45 3 0.03
46 22 0.21
47 58 0.55
48 22 0.21
49 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCATCTCATATCGAG
Found at i:766632 original size:94 final size:92
Alignment explanation
Indices: 766390--766655 Score: 272
Period size: 94 Copynumber: 2.9 Consensus size: 92
766380 ATAAATTGCC
* * * *
766390 GATGCCATGTCCTAGACATGGTCTTGCATTGGCTCTCATACATGTGTGCTGATGCATGTCCTAGA
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATA-ATGTG-GCCGATGCATGTCCCAGA
* *
766455 CATGTCTTACACTAGCACAACGCTTAGCC
64 CATGTCTTACACTGGCACAACGCTTAGCA
* * * *
766484 GATG-CGTGTCCTAGACA-CGTCTTACACTGGCTATCTC-T-GTCGAGGCCGATGCATGTCCCAG
1 GATGCCATGTCCTAGACATGGTCTTACACTGGC--TCTCATAAT-GTGGCCGATGCATGTCCCAG
* ***
766545 ACATGTCTTACTCTGGCACTCATTTCTGTA-CA
63 ACATGTCTTACACTGGCA--CAACGCT-TAGCA
* * *
766577 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCCAGACA
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACA
766642 TGTCTTACACTGGC
66 TGTCTTACACTGGC
766656 GCACAAATCA
Statistics
Matches: 140, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
91 32 0.23
92 13 0.09
93 26 0.19
94 55 0.39
95 14 0.10
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (92 bp):
GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACA
TGTCTTACACTGGCACAACGCTTAGCA
Found at i:776027 original size:27 final size:27
Alignment explanation
Indices: 775997--776103 Score: 137
Period size: 27 Copynumber: 3.9 Consensus size: 27
775987 GGCTGCTAGA
* *
775997 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
776024 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
*
776051 ACAGAAATATGTGGCAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
*
776079 -CAGATAATTGTGGCATAGCCACCAG
1 ACAGATAA-TGTGGCAGAGCCACCAG
776104 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
26 1 0.01
27 53 0.75
28 17 0.24
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.16
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:776086 original size:54 final size:54
Alignment explanation
Indices: 775994--776103 Score: 159
Period size: 54 Copynumber: 2.0 Consensus size: 54
775984 CATGGCTGCT
* *
775994 AGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACC
1 AGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACC
* * *
776048 AGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACC
1 AGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACC
776102 AG
1 AG
776104 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.38, C:0.22, G:0.25, T:0.15
Consensus pattern (54 bp):
AGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACC
Found at i:776651 original size:236 final size:236
Alignment explanation
Indices: 776236--776706 Score: 854
Period size: 236 Copynumber: 2.0 Consensus size: 236
776226 TTTACACCTA
* *
776236 GGGGTATCATGGTAATTTTCCATACATAAGGGTATTGTAGTGATTTAGCTACTTCTAGGGTTTTC
1 GGGGTATCATAGTAAGTTTCCATACATAAGGGTATTGTAGTGATTTAGCTACTTCTAGGGTTTTC
776301 ATGCATATCCTATCCATTTACGTACTATCAGAATACTTACCGCGCATACTTACCAAATTGAGCCC
66 ATGCATATCCTATCCATTTACGTACTATCAGAATACTTACCGCGCATACTTACCAAATTGAGCCC
* ** *
776366 GTTGGCCCATGAACCCGATTTTTGGTTCATTAAGCCCAAGTTCTCAAAATGCACGAAATCACACG
131 GTTGGCCCAAGAACCCGATTTTTGGCCCATTAAGCCCAAGTTATCAAAATGCACGAAATCACACG
776431 TACTGCAGTTTATTACCTTCAGAATACCAAACATACAAACG
196 TACTGCAGTTTATTACCTTCAGAATACCAAACATACAAACG
776472 GGGGTATCATAGTAAGTTTCCATACATAAGGGTATTGTAGTGATTTAGCTACTTCTAGGGTTTTC
1 GGGGTATCATAGTAAGTTTCCATACATAAGGGTATTGTAGTGATTTAGCTACTTCTAGGGTTTTC
776537 ATGCATATCCTATCCATTTACGTACTATCAGAATACTTACCGCGCATACTTACCAAATTGAGCCC
66 ATGCATATCCTATCCATTTACGTACTATCAGAATACTTACCGCGCATACTTACCAAATTGAGCCC
* *
776602 GTTGGCCCAAGAACCCGATTTTTGGCCCATTAAGCCCACA-TTATCAAAATGTACGAAATCGCAC
131 GTTGGCCCAAGAACCCGATTTTTGGCCCATTAAGCCCA-AGTTATCAAAATGCACGAAATCACAC
776666 GTACTGCAGTTTATTACCTTCAGAATACCAAACATACAAAC
195 GTACTGCAGTTTATTACCTTCAGAATACCAAACATACAAAC
776707 CCAACTATCT
Statistics
Matches: 226, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
236 225 1.00
237 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (236 bp):
GGGGTATCATAGTAAGTTTCCATACATAAGGGTATTGTAGTGATTTAGCTACTTCTAGGGTTTTC
ATGCATATCCTATCCATTTACGTACTATCAGAATACTTACCGCGCATACTTACCAAATTGAGCCC
GTTGGCCCAAGAACCCGATTTTTGGCCCATTAAGCCCAAGTTATCAAAATGCACGAAATCACACG
TACTGCAGTTTATTACCTTCAGAATACCAAACATACAAACG
Found at i:777433 original size:24 final size:24
Alignment explanation
Indices: 777406--777481 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
777396 CTAGATTTCC
**
777406 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
777430 TCCCTTATCAAATCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
777454 TCCCTTATCAACTCCTAAATCCTC
1 TCCCTTATCAACTCCTAAATCCTA
777478 TCCC
1 TCCC
777482 GACAGACTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.25, C:0.39, G:0.01, T:0.34
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:783736 original size:27 final size:26
Alignment explanation
Indices: 783701--783795 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 26
783691 AACATGGCTG
* *
783701 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
783727 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
783755 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
**
783782 CCAGATTAGATAAT
1 CCAGAACAGATAAT
783796 TGAGGCATGC
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.12
27 35 0.60
28 16 0.28
ACGTcount: A:0.41, C:0.21, G:0.22, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:783802 original size:27 final size:27
Alignment explanation
Indices: 783701--783811 Score: 102
Period size: 27 Copynumber: 4.1 Consensus size: 27
783691 AACATGGCTG
* * *
783701 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
* *
783727 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAT-CAGATAATTGTGGCAGAGCCA
*
783755 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGATCAGATAAT-TGTGGCAGAGCCA
* * *
783782 CCAGATTAGATAATTGAGGCA-TGCCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
783808 CCAG
1 CCAG
783812 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
26 16 0.23
27 36 0.52
28 17 0.25
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (27 bp):
CCAGATCAGATAATTGTGGCAGAGCCA
Found at i:784630 original size:24 final size:24
Alignment explanation
Indices: 784603--784649 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
784593 CTAGATTTCC
**
784603 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
784627 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
784650 CTCCTGACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:788143 original size:45 final size:44
Alignment explanation
Indices: 788079--788212 Score: 134
Period size: 45 Copynumber: 3.1 Consensus size: 44
788069 TAGGATTTTT
* *
788079 TATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGA
1 TATATGTG-ATTCGTGTAAGACCACGTCTGGGACGTTGGCATCGA
* * * *
788124 TATATGTGGTTACGTGTAAGACCATGTCTGTGACATTGGCATCG-
1 TATATGTGATT-CGTGTAAGACCACGTCTGGGACGTTGGCATCGA
*
788168 TAT-T-TAATTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGA
1 TATATGTGATTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGA
788210 TAT
1 TAT
788213 GAGGCATCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
41 27 0.36
42 6 0.08
43 1 0.01
44 5 0.07
45 36 0.48
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (44 bp):
TATATGTGATTCGTGTAAGACCACGTCTGGGACGTTGGCATCGA
Found at i:791121 original size:30 final size:30
Alignment explanation
Indices: 791087--791147 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
791077 TCCTTAACTC
791087 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
791117 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
791147 A
1 A
791148 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:795568 original size:30 final size:30
Alignment explanation
Indices: 795534--795594 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
795524 TCCTTAACTC
795534 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
795564 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
795594 A
1 A
795595 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:799620 original size:28 final size:28
Alignment explanation
Indices: 799588--799657 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
799578 TATGGTACTC
*
799588 AGTGTACGAAATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
799616 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
799644 AGTGTGCAAAATAT
1 AGTGTGCGAAATAT
799658 CGAATGATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:801542 original size:28 final size:28
Alignment explanation
Indices: 801511--801665 Score: 98
Period size: 28 Copynumber: 5.5 Consensus size: 28
801501 GTGAACATAG
*
801511 GCACTGTGTGTGTGAGTTTCGTAACCGA
1 GCACTGTGTGTGCGAGTTTCGTAACCGA
* * ****
801539 GCACTCTGTGTGCGAG-ATCAGTTGTTGA
1 GCACTGTGTGTGCGAGTTTC-GTAACCGA
*
801567 GGCACTGTGTGTGCGAGTTCCGTAACCGA
1 -GCACTGTGTGTGCGAGTTTCGTAACCGA
* * * ****
801596 GCACTGTATGTGTGAG-ATCGATTGTTGA
1 GCACTGTGTGTGCGAGTTTCG-TAACCGA
* * *
801624 GGCACTGTGTATGCGAGTTCCGTAACCAA
1 -GCACTGTGTGTGCGAGTTTCGTAACCGA
801653 GCACTGTGTGTGC
1 GCACTGTGTGTGC
801666 AAGATCGGTT
Statistics
Matches: 88, Mismatches: 33, Indels: 12
0.66 0.25 0.09
Matches are distributed among these distances:
27 4 0.05
28 47 0.53
29 34 0.39
30 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.30
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTTCGTAACCGA
Found at i:801577 original size:29 final size:28
Alignment explanation
Indices: 801539--801640 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 28
801529 TCGTAACCGA
*
801539 GCACTCTGTGTGCGAGATCAGTTGTTGAG
1 GCACTGTGTGTGCGAGATC-GTTGTTGAG
* ****
801568 GCACTGTGTGTGCGAGTTCCGTAACCGA-
1 GCACTGTGTGTGCGAGAT-CGTTGTTGAG
* *
801596 GCACTGTATGTGTGAGATCGATTGTTGAG
1 GCACTGTGTGTGCGAGATCG-TTGTTGAG
*
801625 GCACTGTGTATGCGAG
1 GCACTGTGTGTGCGAG
801641 TTCCGTAACC
Statistics
Matches: 54, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
27 2 0.04
28 18 0.33
29 33 0.61
30 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGATCGTTGTTGAG
Found at i:801578 original size:57 final size:56
Alignment explanation
Indices: 801509--801679 Score: 243
Period size: 57 Copynumber: 3.0 Consensus size: 56
801499 AAGTGAACAT
* * *
801509 AGGCACTGTGTGTGTGAGTTTCGTAACCGAGCACTCTGTGTGCGAGATCAGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATC-GTTGTTG
* *
801566 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTATGTGTGAGATCGATTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCG-TTGTTG
* * *
801623 AGGCACTGTGTATGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATC-GTTGTTG
801680 GGGGCACTAA
Statistics
Matches: 102, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
56 1 0.01
57 100 0.98
58 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (56 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGTTGTTG
Found at i:806291 original size:28 final size:28
Alignment explanation
Indices: 806251--806304 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
806241 ATGTACGAAA
806251 TATTGAGAATGACACTTAGTGTGCGAGG
1 TATTGAGAATGACACTTAGTGTGCGAGG
806279 TATTGAGAATGACACTTAGTGTGCGA
1 TATTGAGAATGACACTTAGTGTGCGA
806305 AATATCGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (28 bp):
TATTGAGAATGACACTTAGTGTGCGAGG
Found at i:813063 original size:15 final size:15
Alignment explanation
Indices: 813031--813059 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
813021 ATTTTCTGTG
813031 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
813046 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
813060 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:813344 original size:14 final size:14
Alignment explanation
Indices: 813325--813352 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
813315 TAATTAAAAG
813325 CCAATATTCATACT
1 CCAATATTCATACT
813339 CCAATATTCATACT
1 CCAATATTCATACT
813353 TTCTCTTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (14 bp):
CCAATATTCATACT
Found at i:814276 original size:45 final size:45
Alignment explanation
Indices: 814193--814278 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 45
814183 ACGATTTTCG
* * ** *
814193 ATGTGTTTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGATAT
1 ATGTGGTTACGTGTAAGACCACGTCTGGGACATCGGCATCGATAT
* *
814238 ATGTGGTTACGTGTAATACCATGTCTGGGACATCGGCATCG
1 ATGTGGTTACGTGTAAGACCACGTCTGGGACATCGGCATCG
814279 TATTTAATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (45 bp):
ATGTGGTTACGTGTAAGACCACGTCTGGGACATCGGCATCGATAT
Found at i:819848 original size:68 final size:67
Alignment explanation
Indices: 819776--819925 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
819766 CATCATGTGT
* * * *
819776 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
819838 ATGTAG
62 ATGTAG
** * *
819844 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
819909 AG
66 AG
819911 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
819926 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:819881 original size:64 final size:64
Alignment explanation
Indices: 819800--819983 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
819790 AGACATTATG
* *
819800 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
819864 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
819929 AA
63 AA
* * * *
819931 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
819984 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:821807 original size:15 final size:15
Alignment explanation
Indices: 821775--821803 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
821765 ATTTTCACTG
821775 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
821790 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
821804 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:829893 original size:14 final size:13
Alignment explanation
Indices: 829872--829903 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
829862 GGAATATCAA
829872 AACAAGAATTAAG
1 AACAAGAATTAAG
829885 AACACAGAATTAAG
1 AACA-AGAATTAAG
829899 AACAA
1 AACAA
829904 CTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.12, T:0.12
Consensus pattern (13 bp):
AACAAGAATTAAG
Found at i:832369 original size:6 final size:6
Alignment explanation
Indices: 832347--832385 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
832337 AGGTAAAATT
*
832347 AATAAA AACATAA AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATA-AA AATAAA AATAAA AATAAA AATAAA AA
832386 ATTAAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:832396 original size:13 final size:13
Alignment explanation
Indices: 832347--832387 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
832337 AGGTAAAATT
* *
832347 AATAAAAACATAA
1 AATAAAAATAAAA
832360 AATAAAAAT-AAA
1 AATAAAAATAAAA
832372 AATAAAAATAAAA
1 AATAAAAATAAAA
832385 AAT
1 AAT
832388 TAAATTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (13 bp):
AATAAAAATAAAA
Found at i:834590 original size:14 final size:14
Alignment explanation
Indices: 834556--834605 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
834546 AGGACTTACG
*
834556 GATTAATGCATAAAA
1 GATTAAT-CACAAAA
834571 GATTAATCACAAAA
1 GATTAATCACAAAA
* *
834585 GGTTAATCTCAAAA
1 GATTAATCACAAAA
834599 GATTAAT
1 GATTAAT
834606 GTAATTATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 24 0.77
15 7 0.23
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (14 bp):
GATTAATCACAAAA
Found at i:845751 original size:29 final size:30
Alignment explanation
Indices: 845717--845777 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
845707 TAAGTAGTCG
845717 AAGCTAG-TTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
*
845746 AAGCTAGTTTATATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
845776 AA
1 AA
845778 ACTTCCTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.26
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCA
Found at i:850088 original size:192 final size:192
Alignment explanation
Indices: 849761--850144 Score: 750
Period size: 192 Copynumber: 2.0 Consensus size: 192
849751 ATTTCACAAA
849761 CATCATAGCATCATAGTTAAATATCAACATAAGTCCCTTTCTTAGGTCAATGAGACCTTAAACAT
1 CATCATAGCATCATAGTTAAATATCAACATAAGTCCCTTTCTTAGGTCAATGAGACCTTAAACAT
*
849826 GCATTAGGGACAGGTCAGAACTAAACCAAACATATTCACAACTGTCAACACTTAGGAAAATTTTC
66 GCATTAGGGACAGGTCAGAACTAAACCAAACATATGCACAACTGTCAACACTTAGGAAAATTTTC
849891 TATTTTGTTAAGGTCACACGCCCGTGTGACCAGGCCGTGTGCCTTACACGGGCATCAAACAC
131 TATTTTGTTAAGGTCACACGCCCGTGTGACCAGGCCGTGTGCCTTACACGGGCATCAAACAC
849953 CATCATAGCATCATAGTTAAATATCAACATAAGTCCCTTTCTTAGGTCAATGAGACCTTAAACAT
1 CATCATAGCATCATAGTTAAATATCAACATAAGTCCCTTTCTTAGGTCAATGAGACCTTAAACAT
*
850018 GCATTATGGACAGGTCAGAACTAAACCAAACATATGCACAACTGTCAACACTTAGGAAAATTTTC
66 GCATTAGGGACAGGTCAGAACTAAACCAAACATATGCACAACTGTCAACACTTAGGAAAATTTTC
850083 TATTTTGTTAAGGTCACACGCCCGTGTGACCAGGCCGTGTGCCTTACACGGGCATCAAACAC
131 TATTTTGTTAAGGTCACACGCCCGTGTGACCAGGCCGTGTGCCTTACACGGGCATCAAACAC
850145 ACCCATGTGA
Statistics
Matches: 190, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
192 190 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (192 bp):
CATCATAGCATCATAGTTAAATATCAACATAAGTCCCTTTCTTAGGTCAATGAGACCTTAAACAT
GCATTAGGGACAGGTCAGAACTAAACCAAACATATGCACAACTGTCAACACTTAGGAAAATTTTC
TATTTTGTTAAGGTCACACGCCCGTGTGACCAGGCCGTGTGCCTTACACGGGCATCAAACAC
Found at i:851478 original size:13 final size:13
Alignment explanation
Indices: 851462--851494 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
851452 TTTAATTAAA
*
851462 TTAGTTAATTAGT
1 TTAGATAATTAGT
851475 TTAGATAATTAGT
1 TTAGATAATTAGT
851488 TTA-ATAA
1 TTAGATAA
851495 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:853227 original size:42 final size:40
Alignment explanation
Indices: 853172--853460 Score: 463
Period size: 40 Copynumber: 7.2 Consensus size: 40
853162 CTAAGTCCGG
* * *
853172 ATATAGTACCAGCACTAAGCCTGCGGAATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG--AT
* *
853214 ATATATTACCAGCACGAAACCTGTGGGATTTAACCCGGAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
853254 ATTTATATTACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
1 A--TATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
853296 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
853336 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCTGGAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
853376 ATATATTACCA-TACGAAGCCTGCGGGATTTAACCCGGAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
853415 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
853455 ATATAT
1 ATATAT
853461 ATTATATCGA
Statistics
Matches: 231, Mismatches: 13, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
39 37 0.16
40 124 0.54
42 70 0.30
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (40 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:853428 original size:119 final size:121
Alignment explanation
Indices: 853172--853460 Score: 465
Period size: 119 Copynumber: 2.4 Consensus size: 121
853162 CTAAGTCCGG
* * *
853172 ATATAGTACCAGCACTAAGCCTGCGGAATTTAACCCGGATATATATATTACCAGCACGAAACCTG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG--ATATATATTACCAGCACGAAACCTG
*
853237 TGGGATTTAACCCGGATATTTATATTACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
64 CGGGATTTAACCCGGATA-TTATATTACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
*
853296 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATATTACCAGCACGAAGCCTGCG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATATTACCAGCACGAAACCTGCG
* * *
853361 GGATTTAACCTGGATA-TATATTACCA-TACGAAGCCTGCGGGATTTAACCCGGAT
66 GGATTTAACCCGGATATTATATTACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
853415 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATAT
853461 ATTATATCGA
Statistics
Matches: 157, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
119 72 0.46
120 10 0.06
122 40 0.25
124 35 0.22
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (121 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATATTACCAGCACGAAACCTGCG
GGATTTAACCCGGATATTATATTACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
Found at i:855560 original size:46 final size:46
Alignment explanation
Indices: 855506--855678 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
855496 TGGTTGAGCA
*
855506 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
855552 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGCAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
855599 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
855645 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
855679 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 7 0.06
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 6 0.06
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:855662 original size:93 final size:93
Alignment explanation
Indices: 855503--855673 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
855493 GGATGGTTGA
* *
855503 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCAAACTCGTTGAGT
855568 TGAGTCCGAGTTCGTGAGATGCAACTAG
66 TGAGTCCGAGTTCGTGAGATGCAACTAG
* * *
855596 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCAAACTCGTTGAGT
855661 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
855674 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGCAACTAG
Found at i:861136 original size:12 final size:11
Alignment explanation
Indices: 861113--861150 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
861103 CTTTTTATTC
861113 TTATTT-TTTA
1 TTATTTATTTA
861123 TTATTTATTATA
1 TTATTTATT-TA
861135 TTATTTATTT-
1 TTATTTATTTA
861145 TTATTT
1 TTATTT
861151 TCATTTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 12 0.46
11 3 0.12
12 11 0.42
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:861149 original size:6 final size:6
Alignment explanation
Indices: 861104--861168 Score: 51
Period size: 6 Copynumber: 10.5 Consensus size: 6
861094 TCCTCCTATC
* * *
861104 TTTTTA TTCTTA TTTTTTA TTATTTA -TTATA TTATTTA TTTTTA TTTTCA
1 TTTTTA TTTTTA -TTTTTA TT-TTTA TTTTTA TT-TTTA TTTTTA TTTTTA
* *
861154 TTTTCA TTTTCA TTT
1 TTTTTA TTTTTA TTT
861169 CAATTTTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
5 3 0.06
6 33 0.66
7 14 0.28
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:865151 original size:13 final size:13
Alignment explanation
Indices: 865133--865157 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
865123 GGTTTGTTTA
865133 TTAAACTAATTAT
1 TTAAACTAATTAT
865146 TTAAACTAATTA
1 TTAAACTAATTA
865158 ACTGATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:867965 original size:5 final size:5
Alignment explanation
Indices: 867955--868022 Score: 50
Period size: 6 Copynumber: 12.8 Consensus size: 5
867945 TATGTCTTGC
* *
867955 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAAT CAAAAGA AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAA-T AAAAT
868003 AAAAAT AAAAT AAAAT AAAA
1 -AAAAT AAAAT AAAAT AAAA
868023 ATAAGACTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
3 3 0.06
5 22 0.43
6 26 0.51
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:867984 original size:6 final size:6
Alignment explanation
Indices: 867975--868026 Score: 63
Period size: 6 Copynumber: 9.0 Consensus size: 6
867965 AATAAAATTG
* * *
867975 AAATGA AAATAA AAATCA AAAGAA AAATAA AAAT-A AAAT-A AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
868021 AAATAA
1 AAATAA
868027 GACTAAATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
5 10 0.25
6 30 0.75
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:867987 original size:17 final size:17
Alignment explanation
Indices: 867965--868026 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 17
867955 AAAATAAAAT
* *
867965 AATAAAATTGAAATGAA
1 AATAAAAATAAAATGAA
867982 AATAAAAATCAAAA-GAAA
1 AATAAAAAT-AAAATG-AA
868000 AATAAAAATAAAAT-AA
1 AATAAAAATAAAATGAA
868016 AATAAAAATAA
1 AATAAAAATAA
868027 GACTAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
16 13 0.32
17 13 0.32
18 14 0.35
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.18
Consensus pattern (17 bp):
AATAAAAATAAAATGAA
Found at i:868006 original size:11 final size:11
Alignment explanation
Indices: 867955--868026 Score: 65
Period size: 11 Copynumber: 6.2 Consensus size: 11
867945 TATGTCTTGC
867955 AAAATAAAATAAT
1 AAAAT-AAA-AAT
**
867968 AAAATTGAAAT
1 AAAATAAAAAT
867979 GAAAATAAAAAT
1 -AAAATAAAAAT
*
867991 CAAAAGAAAAAT
1 -AAAATAAAAAT
868003 AAAA-ATAAAAT
1 AAAATA-AAAAT
868014 AAAATAAAAAT
1 AAAATAAAAAT
868025 AA
1 AA
868027 GACTAAATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
10 1 0.02
11 23 0.46
12 21 0.42
13 5 0.10
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:868019 original size:16 final size:16
Alignment explanation
Indices: 867955--868039 Score: 77
Period size: 16 Copynumber: 5.2 Consensus size: 16
867945 TATGTCTTGC
867955 AAAATAAAAT--AATA
1 AAAATAAAATAAAATA
* *
867969 AAATTGAAATGAAAATA
1 AAAATAAAAT-AAAATA
*
867986 AAAATCAAAAGAAAAATA
1 AAAAT-AAAA-TAAAATA
868004 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
*
868020 AAAATAAGACT-AAATA
1 AAAATAA-AATAAAATA
868036 AAAA
1 AAAA
868040 AATAGGAGGA
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
14 8 0.14
16 22 0.38
17 14 0.24
18 14 0.24
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:869184 original size:228 final size:228
Alignment explanation
Indices: 868787--869244 Score: 882
Period size: 228 Copynumber: 2.0 Consensus size: 228
868777 CTTCCAGCAC
868787 AAGGAGGGGGAGATGTGGATATTGCATGGTAGTGCATTCATGTCCTCCTCCTCCACAAACTCATC
1 AAGGAGGGGGAGATGTGGATATTGCATGGTAGTGCATTCATGTCCTCCTCCTCCACAAACTCATC
*
868852 GGTGTAAATCCCAGAGCAACTCCAAACTCTGGGACACTCATCGCACGAACTAGAGCGCCTAATCG
66 GGTGTAAATCCCAGAGCAAATCCAAACTCTGGGACACTCATCGCACGAACTAGAGCGCCTAATCG
*
868917 AAAGTGAATGGTGCCTAGGTCATCATTGTTCGTCACATCACCTGTAAATGAAAAGTAGATCATAA
131 AAAGTGAATGGGGCCTAGGTCATCATTGTTCGTCACATCACCTGTAAATGAAAAGTAGATCATAA
868982 TTCTAAAGTTAGCTCTAAATAA-TATGGCTCGGT
196 TTCTAAAGTTAGCTCTAAATAAGT-TGGCTCGGT
869015 AAGGAGGGGGAGATGTGGATATTGCATGGTAGTGCATTCATGTCCTCCTCCTCCACAAACTCATC
1 AAGGAGGGGGAGATGTGGATATTGCATGGTAGTGCATTCATGTCCTCCTCCTCCACAAACTCATC
869080 GGTGTAAATCCCAGAGCAAATCCAAACTCTGGGACACTCATCGCACGAACTAGAGCGCCTAATCG
66 GGTGTAAATCCCAGAGCAAATCCAAACTCTGGGACACTCATCGCACGAACTAGAGCGCCTAATCG
869145 AAAGTGAATGGGGCCTAGGTCATCATTGTTCGTCACATCACCTGTAAATGAAAAGTAGATCATAA
131 AAAGTGAATGGGGCCTAGGTCATCATTGTTCGTCACATCACCTGTAAATGAAAAGTAGATCATAA
869210 TTCTAAAGTTAGCTCTAAATAAGTTGGCTCGGT
196 TTCTAAAGTTAGCTCTAAATAAGTTGGCTCGGT
869243 AA
1 AA
869245 TAGCGAAGAG
Statistics
Matches: 227, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
228 226 1.00
229 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (228 bp):
AAGGAGGGGGAGATGTGGATATTGCATGGTAGTGCATTCATGTCCTCCTCCTCCACAAACTCATC
GGTGTAAATCCCAGAGCAAATCCAAACTCTGGGACACTCATCGCACGAACTAGAGCGCCTAATCG
AAAGTGAATGGGGCCTAGGTCATCATTGTTCGTCACATCACCTGTAAATGAAAAGTAGATCATAA
TTCTAAAGTTAGCTCTAAATAAGTTGGCTCGGT
Found at i:875190 original size:28 final size:30
Alignment explanation
Indices: 875158--875217 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
875148 CAAATAGTCG
*
875158 AAGCTAG-TT-AATCGTACACTTAGTGCCA
1 AAGCTAGTTTGAATCGCACACTTAGTGCCA
875186 AAGCTAGTTTGAATCGCACACTTAGTGCCA
1 AAGCTAGTTTGAATCGCACACTTAGTGCCA
875216 AA
1 AA
875218 ACTTCCTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 7 0.24
29 2 0.07
30 20 0.69
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (30 bp):
AAGCTAGTTTGAATCGCACACTTAGTGCCA
Found at i:883053 original size:46 final size:46
Alignment explanation
Indices: 882986--883207 Score: 274
Period size: 46 Copynumber: 4.8 Consensus size: 46
882976 TGTAACCCGC
* * * * *
882986 CCATAAGCGAACTCAGACTCAACTCAATGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
* *
883032 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
883082 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
883125 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
883171 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
883208 TGCTCAACCA
Statistics
Matches: 155, Mismatches: 11, Indels: 20
0.83 0.06 0.11
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 2 0.01
45 4 0.03
46 106 0.68
47 28 0.18
48 2 0.01
49 2 0.01
50 3 0.02
51 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:883122 original size:93 final size:93
Alignment explanation
Indices: 882993--883161 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
882983 CGCCCATAAG
* * *
882993 CGAACTCAGACTCAACTCAATGAGCTTGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
883058 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
883086 CGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCAGACTCAACTCAACGAGCTT-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTC
883150 AACGAGTTCGGA
65 AACGAGTTCGGA
883162 CATTCGCATC
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:885694 original size:40 final size:40
Alignment explanation
Indices: 885639--885834 Score: 232
Period size: 40 Copynumber: 4.9 Consensus size: 40
885629 GGATATAGCT
* * * *
885639 ACTCGCTCGAATGCCTTCGGGACATAGCCCGGTTATGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
885679 ACTCGCACAAATGCCTTCGGGGCTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * * *
885719 ACTCGCACGAATGCTTTCGGGACATAGCCCGATTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * * *
885759 ACTCACACAAATGCCTTCGGGGCTTAGCCCGG-AATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* *
885799 ACTAGCACAAATGCCTTCGGGACTTAGCCCAGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
885835 CATCCGAATA
Statistics
Matches: 129, Mismatches: 25, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 127 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:885760 original size:80 final size:79
Alignment explanation
Indices: 885627--885828 Score: 289
Period size: 80 Copynumber: 2.5 Consensus size: 79
885617 TGGAATTTAA
* * * *
885627 CCGGATATAGCTACTCGCTCGAATGCCTTCGGGACATAGCCCGGTTATGGTAACTCGCACAAATG
1 CCGGATATAG-TACTCGCACGAATGCCTTCGGGACATAGCCCGATTATAGTAACTCACACAAATG
885692 CCTTCGGGGCTTAGC
65 CCTTCGGGGCTTAGC
*
885707 CCGGATATAGTAACTCGCACGAATGCTTTCGGGACATAGCCCGATTATAGTAACTCACACAAATG
1 CCGGATATAGT-ACTCGCACGAATGCCTTCGGGACATAGCCCGATTATAGTAACTCACACAAATG
885772 CCTTCGGGGCTTAGC
65 CCTTCGGGGCTTAGC
* * *
885787 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
1 CCGGATA-TAGT-ACTCGCACGAATGCCTTCGGGACATAGCCC
885829 AGTTATCATC
Statistics
Matches: 110, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
79 2 0.02
80 108 0.98
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (79 bp):
CCGGATATAGTACTCGCACGAATGCCTTCGGGACATAGCCCGATTATAGTAACTCACACAAATGC
CTTCGGGGCTTAGC
Found at i:893731 original size:40 final size:40
Alignment explanation
Indices: 893687--893882 Score: 225
Period size: 40 Copynumber: 4.9 Consensus size: 40
893677 GGATATAGCT
* * *
893687 ACTCGCTCGAATGCCTTCGGGACATAGCCCGGTTATGGTA
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGTTATAGTA
* * *
893727 ACTCGCACAAATACCTTCGAGG-CTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCG-GGACATAGCCCGGTTATAGTA
*
893767 ACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGTTATAGTA
* * ** *
893807 ACTCGCACAAATGCCTTCGGGGCTTAGCCC-GAAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGTTA-TAGTA
* * *
893847 ACTAGCACAAATGCCTTCGGGACGTAGCCCGATTAT
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGTTAT
893883 CATCCGAATA
Statistics
Matches: 130, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 4 0.03
40 123 0.95
41 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACATAGCCCGGTTATAGTA
Found at i:893808 original size:80 final size:79
Alignment explanation
Indices: 893675--893882 Score: 292
Period size: 80 Copynumber: 2.6 Consensus size: 79
893665 CAGAATTTAA
* *
893675 CCGGATATAGCTACTCGCTCGAATGCCTTCGGGACATAGCCCGGTTATGGTAACTCGCACAAATA
1 CCGGATATAG-TACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATA
893740 CCTTCGAGGCTTAGC
65 CCTTCGAGGCTTAGC
*
893755 CCGGATATAGTAACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATG
1 CCGGATATAGT-ACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATA
*
893820 CCTTCGGGGCTTAGC
65 CCTTCGAGGCTTAGC
* * * * *
893835 CC-GAAATTAGTCACTAGCACAAATGCCTTCGGGACGTAGCCCGATTAT
1 CCGGATA-TAGT-ACTCGCACGAATGCCTTCGGGACATAGCCCGGTTAT
893883 CATCCGAATA
Statistics
Matches: 116, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
79 4 0.03
80 112 0.97
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (79 bp):
CCGGATATAGTACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATAC
CTTCGAGGCTTAGC
Found at i:899582 original size:50 final size:50
Alignment explanation
Indices: 899452--899693 Score: 238
Period size: 50 Copynumber: 4.8 Consensus size: 50
899442 AGCCGAAGCT
* * * * *
899452 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * * *
899501 ATCCGGTACACGTAGTATCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * * *
899551 ATCTGATACACGCAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CC
* * * * * *
899602 AT-TGAGTACGCATAGTAGCCTGCACTTACTACTACACATGCGACTTAA-C
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * *
899651 AGTATGGTACAAGTAGTAGCCTGCACTTAGTACTACACACGTG
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
899694 TACTCACAAT
Statistics
Matches: 155, Mismatches: 33, Indels: 9
0.79 0.17 0.05
Matches are distributed among these distances:
49 40 0.26
50 77 0.50
51 38 0.25
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (50 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:906762 original size:50 final size:49
Alignment explanation
Indices: 906645--906874 Score: 221
Period size: 50 Copynumber: 4.6 Consensus size: 49
906635 CTGATACGCA
* * * * ***
906645 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTAACCATATAATACACG
*
906694 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATATAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTAACCATATAATACACG
* * * * *
906744 TAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTCAT-TGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACT-AA-CCATAT-AATACACG
* * * **
906795 TAGTAGCCTGCACTTACTACTACACATGCGACTTAA-CAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC-TAACCA-TATAATACACG
*
906845 TAGTAGCCTGCACTTAGTACTACATACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
906875 TACTCACAAT
Statistics
Matches: 149, Mismatches: 25, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
49 32 0.21
50 77 0.52
51 39 0.26
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTAACCATATAATACACG
Found at i:912194 original size:40 final size:40
Alignment explanation
Indices: 912139--912276 Score: 138
Period size: 40 Copynumber: 3.5 Consensus size: 40
912129 GGGTGTTACA
**
912139 GGCACATATACGCATTCAAGGGTACTGAAGTACAAACAAG
1 GGCACATATGTGCATTCAAGGGTACTGAAGTACAAACAAG
* * * * * *
912179 GGTACGTATGTGCATTTAGGGGTAGTGAAGTACAAA-TAG
1 GGCACATATGTGCATTCAAGGGTACTGAAGTACAAACAAG
* *
912218 GAGCACATATGTGCGATT--AGAGGTACCGAAGTACAAACAGG
1 G-GCACATATGTGC-ATTCAAG-GGTACTGAAGTACAAACAAG
912259 GGCACATATGTGCATTCA
1 GGCACATATGTGCATTCA
912277 TACAATAATT
Statistics
Matches: 77, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
39 7 0.09
40 65 0.84
41 5 0.06
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.22
Consensus pattern (40 bp):
GGCACATATGTGCATTCAAGGGTACTGAAGTACAAACAAG
Found at i:916954 original size:36 final size:36
Alignment explanation
Indices: 916914--916982 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
916904 ATCAACTTTA
*
916914 ATACACATTTCTTCTTCATTTGACACAATATTATGT
1 ATACACATTTCTTCATCATTTGACACAATATTATGT
* *
916950 ATACATATTTCTTCATCATTTGACACTATATTA
1 ATACACATTTCTTCATCATTTGACACAATATTA
916983 CGTGCATACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (36 bp):
ATACACATTTCTTCATCATTTGACACAATATTATGT
Found at i:918764 original size:72 final size:72
Alignment explanation
Indices: 918678--918826 Score: 228
Period size: 72 Copynumber: 2.1 Consensus size: 72
918668 CAACGATTAT
*
918678 CTACAAAACAATCCAAAAAAACTCATGAGCTTAAAAAGCTTAGTAAAGACATAGTAAAACATTTA
1 CTACAAAACAATCCAAAAAAACTCATAAGCTTAAAAAGCTTAGTAAAGACATAGTAAAACATTTA
918743 ATCTAAA
66 ATCTAAA
* * * * * *
918750 CTACAAAATAATCCACAAAAACTCATAAGCTTACATAGCTTAGTAAGGACATAGTATAACATTTA
1 CTACAAAACAATCCAAAAAAACTCATAAGCTTAAAAAGCTTAGTAAAGACATAGTAAAACATTTA
918815 ATCTAAA
66 ATCTAAA
918822 -TACAA
1 CTACAA
918827 TTAGAAATGG
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
71 5 0.07
72 65 0.93
ACGTcount: A:0.50, C:0.17, G:0.08, T:0.24
Consensus pattern (72 bp):
CTACAAAACAATCCAAAAAAACTCATAAGCTTAAAAAGCTTAGTAAAGACATAGTAAAACATTTA
ATCTAAA
Found at i:921822 original size:40 final size:40
Alignment explanation
Indices: 921757--921968 Score: 221
Period size: 40 Copynumber: 5.3 Consensus size: 40
921747 CAATGGCACG
* * *
921757 TATGTGCATTCAGGGATACCGAAGTATAAATAGGGACACA
1 TATGTGCATTCAGGGGTACCAAAGTACAAATAGGGACACA
* * *
921797 TATGCGCATTCAGGGGTACCAAAGTACAAACAGGGGCACA
1 TATGTGCATTCAGGGGTACCAAAGTACAAATAGGGACACA
* * *
921837 TATGTGCATTCAGGGGTACCAAAGTACAAAT-TGGAGGACG
1 TATGTGCATTCAGGGGTACCAAAGTACAAATAGGGA-CACA
* *
921877 TCTATGCATTCAGGGGTACCAAAGTACAAATAGAGG-CACA
1 TATGTGCATTCAGGGGTACCAAAGTACAAATAG-GGACACA
* ** * * * **
921917 TATATGCATTCAAAGGTACCGAAGTACAAACAGGGGCATG
1 TATGTGCATTCAGGGGTACCAAAGTACAAATAGGGACACA
921957 TATGTGCATTCA
1 TATGTGCATTCA
921969 TACAATAATT
Statistics
Matches: 143, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 4 0.03
40 137 0.96
42 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.21
Consensus pattern (40 bp):
TATGTGCATTCAGGGGTACCAAAGTACAAATAGGGACACA
Found at i:921830 original size:20 final size:20
Alignment explanation
Indices: 921807--921866 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
921797 TATGCGCATT
921807 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
* * * **
921827 CAGGGGCA-CATATGTGCATT
1 CAGGGGTACCA-AAGTACAAA
921847 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
921867 TTGGAGGACG
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.38, C:0.20, G:0.27, T:0.15
Consensus pattern (20 bp):
CAGGGGTACCAAAGTACAAA
Found at i:921965 original size:80 final size:80
Alignment explanation
Indices: 921741--921968 Score: 264
Period size: 80 Copynumber: 2.9 Consensus size: 80
921731 AGTATTAAAT
* * * * *
921741 TACAAACA-ATGGCACGTATGTGCATTC-AGGGATACCGAAGTATAAATAGGGACACATATGCGC
1 TACAAACAGA-GGCACATATGTGCATTCAAGGG-TACCGAAGTACAAATAGGGGCACGTATGTGC
921804 ATTCAGGGGTACCAAAG
64 ATTCAGGGGTACCAAAG
* * * * * *
921821 TACAAACAGGGGCACATATGTGCATTCAGGGGTACCAAAGTACAAATTGGAGG-ACGTCTATGCA
1 TACAAACAGAGGCACATATGTGCATTCAAGGGTACCGAAGTACAAATAGG-GGCACGTATGTGCA
921885 TTCAGGGGTACCAAAG
65 TTCAGGGGTACCAAAG
* * * * *
921901 TACAAATAGAGGCACATATATGCATTCAAAGGTACCGAAGTACAAACAGGGGCATGTATGTGCAT
1 TACAAACAGAGGCACATATGTGCATTCAAGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAT
921966 TCA
66 TCA
921969 TACAATAATT
Statistics
Matches: 122, Mismatches: 22, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
79 2 0.02
80 116 0.95
81 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (80 bp):
TACAAACAGAGGCACATATGTGCATTCAAGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAT
TCAGGGGTACCAAAG
Found at i:923148 original size:11 final size:12
Alignment explanation
Indices: 923122--923153 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
923112 AATTCCAACC
923122 AAAATTAAATTA
1 AAAATTAAATTA
923134 AAAATTAAATT-
1 AAAATTAAATTA
923145 AAAATTAAA
1 AAAATTAAA
923154 AATTAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTAAATTA
Found at i:923151 original size:18 final size:17
Alignment explanation
Indices: 923123--923161 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
923113 ATTCCAACCA
923123 AAATTAAATTAAAAATT
1 AAATTAAATTAAAAATT
923140 AAATTAAAATTAAAAATT
1 AAATT-AAATTAAAAATT
923158 AAAT
1 AAAT
923162 AAGTCCAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATTAAATTAAAAATT
Found at i:935686 original size:24 final size:24
Alignment explanation
Indices: 935632--935697 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
935622 AAGCTTATGC
* * *
935632 GAGCCAATAACAGGTAGCTCTAAA
1 GAGCCATTAACGGGAAGCTCTAAA
*
935656 GAGCCATTAACGGGAAGCTCTGAA
1 GAGCCATTAACGGGAAGCTCTAAA
* *
935680 TAGCCATATATCGGGAAG
1 GAGCCAT-TAACGGGAAG
935698 TCCAAGCAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
24 26 0.74
25 9 0.26
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.18
Consensus pattern (24 bp):
GAGCCATTAACGGGAAGCTCTAAA
Found at i:935744 original size:25 final size:26
Alignment explanation
Indices: 935716--935769 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
935706 AGTCATATTG
*
935716 GGAAGCTC-CAGAGAGCCAT-TAATTA
1 GGAAGCTCACAAAGAGCCATATAA-TA
935741 GGAAGCTCACAAAGAGCCATATAATA
1 GGAAGCTCACAAAGAGCCATATAATA
935767 GGA
1 GGA
935770 CTTTCATAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 8 0.31
26 15 0.58
27 3 0.12
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.17
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCATATAATA
Found at i:935859 original size:24 final size:24
Alignment explanation
Indices: 935823--935905 Score: 105
Period size: 24 Copynumber: 3.4 Consensus size: 24
935813 CGATCGATCT
*
935823 GGAAGCTCAAAGGAGCTATTAACG
1 GGAAGCTCGAAGGAGCTATTAACG
935847 GGAAGCTCGAAGGAGCTATTAACG
1 GGAAGCTCGAAGGAGCTATTAACG
* * *
935871 GGAAGCTCGCAA-GAACCATATAATG
1 GGAAGCTCG-AAGGAGCTAT-TAACG
935896 GGAAGCTCGA
1 GGAAGCTCGA
935906 GAGGGCCAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
24 38 0.72
25 15 0.28
ACGTcount: A:0.36, C:0.18, G:0.30, T:0.16
Consensus pattern (24 bp):
GGAAGCTCGAAGGAGCTATTAACG
Found at i:936784 original size:26 final size:26
Alignment explanation
Indices: 936735--936784 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
936725 TTAATGAATT
*
936735 ATACTAAGGTTAAATTGGTAAAAAAC
1 ATACTAAGGTTAAATTAGTAAAAAAC
* * *
936761 ATACTAATGTTATATTAGTTAAAA
1 ATACTAAGGTTAAATTAGTAAAAA
936785 CCAAAGTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.34
Consensus pattern (26 bp):
ATACTAAGGTTAAATTAGTAAAAAAC
Found at i:942444 original size:13 final size:13
Alignment explanation
Indices: 942422--942454 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
942412 AAAGGTTTGT
942422 TTAT-TAAACTAA
1 TTATCTAAACTAA
942434 TTATCTAAACTAA
1 TTATCTAAACTAA
*
942447 TTAACTAA
1 TTATCTAA
942455 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:945035 original size:18 final size:18
Alignment explanation
Indices: 945006--945040 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
944996 ATTAAGTCTG
945006 AGATTCATCGAGCCGTATA
1 AGATTCATCGAG-CGTATA
945025 AGATT-ATCGAGCGTAT
1 AGATTCATCGAGCGTAT
945041 TGGGTAGTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 6 0.38
19 5 0.31
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (18 bp):
AGATTCATCGAGCGTATA
Found at i:950039 original size:32 final size:32
Alignment explanation
Indices: 950003--950066 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
949993 CCAAATGTGT
950003 TGGCTTGCTTTAATATTTGACTCATTTTGTAC
1 TGGCTTGCTTTAATATTTGACTCATTTTGTAC
950035 TGGCTTGCTTTAATATTTGACTCATTTTGTAC
1 TGGCTTGCTTTAATATTTGACTCATTTTGTAC
950067 AAGGCTATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.50
Consensus pattern (32 bp):
TGGCTTGCTTTAATATTTGACTCATTTTGTAC
Found at i:960567 original size:47 final size:48
Alignment explanation
Indices: 960449--960580 Score: 151
Period size: 47 Copynumber: 2.8 Consensus size: 48
960439 AGATATGTGA
* ** *
960449 GAGCTAGTGTAAGACCATGTCCAGAACATGGCATCGGCCTCGATTTCGAT
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATC-GACTCGA-TTCGAT
* * * *
960499 -AGTCACTGTAAGACCATGTCTGGAACATGGCATCGACTTGA-TGGAT
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACTCGATTCGAT
*
960545 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCG
960581 GCATTATACC
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
46 4 0.06
47 32 0.46
48 5 0.07
49 29 0.41
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACTCGATTCGAT
Found at i:966379 original size:48 final size:48
Alignment explanation
Indices: 966318--966410 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
966308 TTTCCACTCC
* *
966318 GGTATCGTGACTGGTTGTAATAATCCTAAAGATGCCTGATGTTCATTT
1 GGTATCGTCACTGGTTGTAATAATCCTAAAGATACCTGATGTTCATTT
* * * *
966366 GGTATTGTCACTGGTTGTAATAATCTTGAAGGTACCTGATGTTCA
1 GGTATCGTCACTGGTTGTAATAATCCTAAAGATACCTGATGTTCA
966411 GCTTTAACTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.38
Consensus pattern (48 bp):
GGTATCGTCACTGGTTGTAATAATCCTAAAGATACCTGATGTTCATTT
Found at i:971499 original size:25 final size:25
Alignment explanation
Indices: 971464--971535 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 25
971454 CCCTCTCTCC
* *
971464 AGCCATATAACTGGAAGCTCATGTG
1 AGCCGTATAACTGGAAGCTCATCTG
* * *
971489 AGCCGTGTAACGGGAAGCTTATCTG
1 AGCCGTATAACTGGAAGCTCATCTG
**
971514 AGTTGTATAACTGGAAGCTCAT
1 AGCCGTATAACTGGAAGCTCAT
971536 AAGAGCCATA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (25 bp):
AGCCGTATAACTGGAAGCTCATCTG
Found at i:971650 original size:23 final size:23
Alignment explanation
Indices: 971599--971664 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
971589 CCATTAACAG
* * *
971599 GAAGCTTCGGATAGCCATATATCGG
1 GAAGCTTCAGAGAGCC--ATATCGA
*
971624 GAAG-TTCAAGTGAGCCATATCGA
1 GAAGCTTC-AGAGAGCCATATCGA
971647 GAAGCTTCAGAGAGCCAT
1 GAAGCTTCAGAGAGCCAT
971665 TAATCAGGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
23 19 0.56
24 6 0.18
25 9 0.26
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (23 bp):
GAAGCTTCAGAGAGCCATATCGA
Found at i:972198 original size:21 final size:21
Alignment explanation
Indices: 972174--972216 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
972164 AAATTTAGCT
* *
972174 CAATTTAATACAATTCACATC
1 CAATTCAATACAATTCAAATC
*
972195 CAATTCAATTCAATTCAAATC
1 CAATTCAATACAATTCAAATC
972216 C
1 C
972217 TAGGAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.33
Consensus pattern (21 bp):
CAATTCAATACAATTCAAATC
Found at i:974540 original size:40 final size:40
Alignment explanation
Indices: 974457--974719 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
974447 TTGAATGCTG
* * * * * *
974457 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
974497 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
974537 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
974577 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
974617 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
974657 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
974696 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
974720 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:974739 original size:79 final size:80
Alignment explanation
Indices: 974496--974754 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
974486 AAGTGAATAT
* * * * * *
974496 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
974560 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
974576 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
974641 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
974656 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
974720 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
974735 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
974755 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:982527 original size:40 final size:40
Alignment explanation
Indices: 982444--982706 Score: 334
Period size: 40 Copynumber: 6.6 Consensus size: 40
982434 TTGAATGCTG
* * * * * *
982444 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
982484 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
982524 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
982564 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
982604 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
982644 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
982683 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
982707 TGAACGAGGA
Statistics
Matches: 203, Mismatches: 17, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
39 36 0.18
40 159 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:982726 original size:79 final size:80
Alignment explanation
Indices: 982445--982741 Score: 271
Period size: 80 Copynumber: 3.7 Consensus size: 80
982435 TGAATGCTGT
* ** * * * * *
982445 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCTT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
982508 TGTGCGAGATACTAAAT
64 CGTGCGAGTTACTAAAA
* ** * *
982525 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
* *
982590 TGCGAGTTATTAAAT
66 TGCGAGTTACTAAAA
* ** * * *
982605 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
982669 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
982684 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
982742 TACGTGATTT
Statistics
Matches: 189, Mismatches: 25, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
78 15 0.08
79 46 0.24
80 122 0.65
81 6 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:986664 original size:27 final size:27
Alignment explanation
Indices: 986631--986830 Score: 154
Period size: 27 Copynumber: 7.4 Consensus size: 27
986621 CACCAAAAAG
* * *
986631 ATGGAAGCTTTTTTGGCGATATAAGAT
1 ATGGAAGCCTTTATGGCGATCTAAGAT
986658 ATGGAAGCCTTTATGGCGATCTAAGAT
1 ATGGAAGCCTTTATGGCGATCTAAGAT
* *
986685 ATGGAAGCCTTTATGGTGATCTAAGAG
1 ATGGAAGCCTTTATGGCGATCTAAGAT
* * *
986712 ATGAAAGCCTAGT-TGGCGA-CTTAAGAG
1 ATGGAAGCCT-TTATGGCGATC-TAAGAT
* * ** *
986739 ATGAAAGCCTTTGTGGAAATCTAAGAG
1 ATGGAAGCCTTTATGGCGATCTAAGAT
* * * *
986766 ATGGAAGCCTTTCTGGCTATCTATGAA
1 ATGGAAGCCTTTATGGCGATCTAAGAT
** * * *
986793 AACGAAGCCTTTGTGGCGATTTATGA-
1 ATGGAAGCCTTTATGGCGATCTAAGAT
*
986819 ATGGATGCCTTT
1 ATGGAAGCCTTT
986831 GTGGGGCACT
Statistics
Matches: 144, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
26 11 0.08
27 131 0.91
28 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (27 bp):
ATGGAAGCCTTTATGGCGATCTAAGAT
Found at i:986801 original size:81 final size:81
Alignment explanation
Indices: 986643--986802 Score: 182
Period size: 81 Copynumber: 2.0 Consensus size: 81
986633 GGAAGCTTTT
* * ** *
986643 TTGGCGATATAAGATATGGAAGCCTTTATGGCGATCTAAGATATGGAAGCCTTTATGGTGATCTA
1 TTGGCGATATAAGAGATGAAAGCCTTTATGGAAATCTAAGAGATGGAAGCCTTTATGGTGATCTA
* *
986708 AGAGATGAAAGCCTAG
66 AGAAACGAAAGCCTAG
* *
986724 TTGGCGACT-TAAGAGATGAAAGCCTTTGTGGAAATCTAAGAGATGGAAGCCTTTCTGGCT-ATC
1 TTGGCGA-TATAAGAGATGAAAGCCTTTATGGAAATCTAAGAGATGGAAGCCTTTATGG-TGATC
*
986787 TATGAAAACG-AAGCCT
64 TAAG-AAACGAAAGCCT
986803 TTGTGGCGAT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
81 61 0.92
82 5 0.08
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (81 bp):
TTGGCGATATAAGAGATGAAAGCCTTTATGGAAATCTAAGAGATGGAAGCCTTTATGGTGATCTA
AGAAACGAAAGCCTAG
Found at i:986810 original size:81 final size:78
Alignment explanation
Indices: 986634--986834 Score: 181
Period size: 81 Copynumber: 2.5 Consensus size: 78
986624 CAAAAAGATG
* * * ** *
986634 GAAGCTTTTTTGGCGATATAAGATATGGAAGCCTTTATGGCGATCTAAGATATGGAAGCCTTTAT
1 GAAGCCTTTGTGGCGAT-TAAGA-ATGGAAGCCTTTGTGGAAATCTAAGAGATGGAAGCCTTTAT
* *
986699 GGTGATCTAAGAGAT
64 GGTGATCTAAGAAAC
* *
986714 GAAAGCC-TAGTTGGCGACTTAAGAGATGAAAGCCTTTGTGGAAATCTAAGAGATGGAAGCCTTT
1 G-AAGCCTTTG-TGGCGA-TTAAGA-ATGGAAGCCTTTGTGGAAATCTAAGAGATGGAAGCCTTT
* *
986778 CTGGCT-ATCTATGAAAAC
62 ATGG-TGATCTAAG-AAAC
* *
986796 GAAGCCTTTGTGGCGATTTATGAATGGATGCCTTTGTGG
1 GAAGCCTTTGTGGCGA-TTAAGAATGGAAGCCTTTGTGG
986835 GGCACTCTAA
Statistics
Matches: 97, Mismatches: 18, Indels: 12
0.76 0.14 0.09
Matches are distributed among these distances:
80 16 0.16
81 74 0.76
82 7 0.07
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.30
Consensus pattern (78 bp):
GAAGCCTTTGTGGCGATTAAGAATGGAAGCCTTTGTGGAAATCTAAGAGATGGAAGCCTTTATGG
TGATCTAAGAAAC
Found at i:989761 original size:27 final size:27
Alignment explanation
Indices: 989691--989767 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
989681 TAGAGCAAAT
* *
989691 CAGTCATTTTACCTTGTAGGGGTATTA
1 CAGTCATTTTACCTTATGGGGGTATTA
* *
989718 CAGTCA-TTTACCTTATGGGGGTGTTT
1 CAGTCATTTTACCTTATGGGGGTATTA
*
989744 CTA-TCATTTTACCTTATGAGGGTA
1 C-AGTCATTTTACCTTATGGGGGTA
989768 AAATCGTCAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
26 20 0.48
27 22 0.52
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.42
Consensus pattern (27 bp):
CAGTCATTTTACCTTATGGGGGTATTA
Found at i:989804 original size:27 final size:27
Alignment explanation
Indices: 989770--989900 Score: 235
Period size: 27 Copynumber: 4.9 Consensus size: 27
989760 TGAGGGTAAA
*
989770 ATCGTCATTTTATCACATAAGGACAAT
1 ATCGTCATTTTATCACATAAGGGCAAT
*
989797 ATCATCATTTTATCACATAAGGGCAAT
1 ATCGTCATTTTATCACATAAGGGCAAT
989824 ATCGTCATTTTATCACATAAGGGCAAT
1 ATCGTCATTTTATCACATAAGGGCAAT
*
989851 ATTGTCATTTTATCACATAAGGGCAAT
1 ATCGTCATTTTATCACATAAGGGCAAT
989878 ATCGTCATTTTATCACATAAGGG
1 ATCGTCATTTTATCACATAAGGG
989901 TTCAGGTACG
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (27 bp):
ATCGTCATTTTATCACATAAGGGCAAT
Found at i:993522 original size:27 final size:27
Alignment explanation
Indices: 993454--993528 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
993444 AGCAAATCAT
*
993454 TCATTTTACCTTACAGGGGTATTACAG
1 TCATTTTACCTTATAGGGGTATTACAG
993481 TCATTTTACCTTATAGGGGTACTT-CAG
1 TCATTTTACCTTATAGGGGTA-TTACAG
* *
993508 TCATTTTACCCTATAAGGGTA
1 TCATTTTACCTTATAGGGGTA
993529 AAATCGTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 42 0.95
28 2 0.05
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (27 bp):
TCATTTTACCTTATAGGGGTATTACAG
Found at i:993550 original size:27 final size:27
Alignment explanation
Indices: 993507--993689 Score: 219
Period size: 27 Copynumber: 6.8 Consensus size: 27
993497 GGGTACTTCA
*
993507 GTCATTTTA-CCCTATAAGGGTAAAATC
1 GTCATTTTATCAC-ATAAGGGTAAAATC
* * * *
993534 GTTATTTTATCACATAAGGATAATATT
1 GTCATTTTATCACATAAGGGTAAAATC
993561 GTCATTTTATCACATAAGGG-AAATATC
1 GTCATTTTATCACATAAGGGTAAA-ATC
* * *
993588 GTCATCTTATCACATAAGGGCAATATC
1 GTCATTTTATCACATAAGGGTAAAATC
* * *
993615 ATCATTTTATCACATAAGGGCAATATC
1 GTCATTTTATCACATAAGGGTAAAATC
993642 GTCATTTTATCACATAAGGG-AAATATC
1 GTCATTTTATCACATAAGGGTAAA-ATC
993669 GTCATTTTATCACATAAGGGT
1 GTCATTTTATCACATAAGGGT
993690 TTAGGTACAC
Statistics
Matches: 136, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
26 4 0.03
27 128 0.94
28 4 0.03
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGTAAAATC
Found at i:993605 original size:81 final size:81
Alignment explanation
Indices: 993520--993689 Score: 268
Period size: 81 Copynumber: 2.1 Consensus size: 81
993510 ATTTTACCCT
* * * *
993520 ATAAGGGTAAAATCGTTATTTTATCACATAAGGATAATATTGTCATTTTATCACATAAGGGAAAT
1 ATAAGGGTAAAATCATCATTTTATCACATAAGGACAATATCGTCATTTTATCACATAAGGGAAAT
993585 ATCGTCATCTTATCAC
66 ATCGTCATCTTATCAC
* * *
993601 ATAAGGGCAATATCATCATTTTATCACATAAGGGCAATATCGTCATTTTATCACATAAGGGAAAT
1 ATAAGGGTAAAATCATCATTTTATCACATAAGGACAATATCGTCATTTTATCACATAAGGGAAAT
*
993666 ATCGTCATTTTATCAC
66 ATCGTCATCTTATCAC
993682 ATAAGGGT
1 ATAAGGGT
993690 TTAGGTACAC
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (81 bp):
ATAAGGGTAAAATCATCATTTTATCACATAAGGACAATATCGTCATTTTATCACATAAGGGAAAT
ATCGTCATCTTATCAC
Found at i:1000336 original size:275 final size:275
Alignment explanation
Indices: 999845--1000394 Score: 1091
Period size: 275 Copynumber: 2.0 Consensus size: 275
999835 TGGCTCGGCA
999845 AACACTGCCAGAAGCACATAACCAAGAAGCAATTTGAAGTATCGAGGCGAATTAATTTCCACCCT
1 AACACTGCCAGAAGCACATAACCAAGAAGCAATTTGAAGTATCGAGGCGAATTAATTTCCACCCT
999910 AGGATGGTCCAATTATGTATATTTATTCATAATATAATTAATTTTAATTTATACCCAATTTAATT
66 AGGATGGTCCAATTATGTATATTTATTCATAATATAATTAATTTTAATTTATACCCAATTTAATT
999975 TGGGCTAAATAAATTATTATTAATTAATTATGGAAAAAGTGGTCCAGTTGAACCGAACGGATTGA
131 TGGGCTAAATAAATTATTATTAATTAATTATGGAAAAAGTGGTCCAGTTGAACCGAACGGATTGA
*
1000040 ACTGAACTGGCGAAGGATTGGGCAGCCCAAAACCGTCCATATGCTGACCCAAATCAGCTTATTAG
196 ACTGAACTGGCCAAGGATTGGGCAGCCCAAAACCGTCCATATGCTGACCCAAATCAGCTTATTAG
1000105 CTGATTAATTAAGCT
261 CTGATTAATTAAGCT
1000120 AACACTGCCAGAAGCACATAACCAAGAAGCAATTTGAAGTATCGAGGCGAATTAATTTCCACCCT
1 AACACTGCCAGAAGCACATAACCAAGAAGCAATTTGAAGTATCGAGGCGAATTAATTTCCACCCT
1000185 AGGATGGTCCAATTATGTATATTTATTCATAATATAATTAATTTTAATTTATACCCAATTTAATT
66 AGGATGGTCCAATTATGTATATTTATTCATAATATAATTAATTTTAATTTATACCCAATTTAATT
1000250 TGGGCTAAATAAATTATTATTAATTAATTATGGAAAAAGTGGTCCAGTTGAACCGAACGGATTGA
131 TGGGCTAAATAAATTATTATTAATTAATTATGGAAAAAGTGGTCCAGTTGAACCGAACGGATTGA
1000315 ACTGAACTGGCCAAGGATTGGGCAGCCCAAAACCGTCCATATGCTGACCCAAATCAGCTTATTAG
196 ACTGAACTGGCCAAGGATTGGGCAGCCCAAAACCGTCCATATGCTGACCCAAATCAGCTTATTAG
1000380 CTGATTAATTAAGCT
261 CTGATTAATTAAGCT
1000395 TGCAAAGAAG
Statistics
Matches: 274, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
275 274 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (275 bp):
AACACTGCCAGAAGCACATAACCAAGAAGCAATTTGAAGTATCGAGGCGAATTAATTTCCACCCT
AGGATGGTCCAATTATGTATATTTATTCATAATATAATTAATTTTAATTTATACCCAATTTAATT
TGGGCTAAATAAATTATTATTAATTAATTATGGAAAAAGTGGTCCAGTTGAACCGAACGGATTGA
ACTGAACTGGCCAAGGATTGGGCAGCCCAAAACCGTCCATATGCTGACCCAAATCAGCTTATTAG
CTGATTAATTAAGCT
Found at i:1002714 original size:13 final size:13
Alignment explanation
Indices: 1002696--1002730 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
1002686 GGTCAGACGC
1002696 CCGTGTCTCCTAG
1 CCGTGTCTCCTAG
1002709 CCGTGTCTCCTAG
1 CCGTGTCTCCTAG
1002722 CCGTGTCTC
1 CCGTGTCTC
1002731 AACCCGTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.06, C:0.40, G:0.23, T:0.31
Consensus pattern (13 bp):
CCGTGTCTCCTAG
Found at i:1003565 original size:42 final size:42
Alignment explanation
Indices: 1003505--1003711 Score: 200
Period size: 42 Copynumber: 4.6 Consensus size: 42
1003495 TGTTTTCTCA
** *
1003505 ATGCCATAGTTCAACTATGGTCTTATACATCTTCACATAAT-G
1 ATGCCATAGCCCAACTATGGTCTTACACATCTTCACAT-ATCG
* *
1003547 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATCG
1 ATGCCATAGCCCAACTATGGTCTTACACATCTTCACATATCG
*
1003589 ATGCCATAGCCCAGCTATGGTCTTACACATAATCACATATCACATATCG
1 ATGCCATAGCCCAACTATGGTCTTACAC---AT--C-T-TCACATATCG
* *
1003638 ATGCCATAGCCCAACTATGGTCTTACACGGATAACATATCATATATCA
1 ATGCCATAGCCCAACTATGGTCTTACAC--AT--C-T-TCACATATCG
*
1003686 ATGCCATAGCCCAGCTATGGTCTTAC
1 ATGCCATAGCCCAACTATGGTCTTAC
1003712 CCGAATCACA
Statistics
Matches: 144, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
41 2 0.01
42 62 0.43
45 2 0.01
48 41 0.28
49 37 0.26
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.29
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATCTTCACATATCG
Found at i:1003694 original size:48 final size:48
Alignment explanation
Indices: 1003572--1003876 Score: 235
Period size: 48 Copynumber: 6.2 Consensus size: 48
1003562 TATGGTCTTA
*
1003572 CACATATTCACATATCGATGCCATAGCCCAGCTATGGTCTTACACATAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC-GAAT
* *
1003622 CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACACGGAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * * *
1003670 AACATATCATATATCAATGCCATAGCCCAGCTATGGTCTTACCCGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * * * * * * *
1003718 CACATATCTCA-CT-GATGTCATATCCTAGATATGGTCTTATAC-AGT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * ** ** *
1003763 -AGCATAT-ATCATACCGATGCCATATCCCAAATATGGTCTTTTACGAAAG
1 CA-CATATCA-CATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
* * * *
1003812 CACGTAATCACATCTCTTCGATG-CATAGCCTAGCTATGGTCTTATACGGAATT
1 CACAT-ATCACA--T-ATCGATGCCATAGCCCAGCTATGGTCTTACAC-GAA-T
1003865 CACATATCACAT
1 CACATATCACAT
1003877 GTTGCCATGG
Statistics
Matches: 201, Mismatches: 40, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
44 1 0.00
45 9 0.04
46 22 0.11
47 26 0.13
48 52 0.26
49 40 0.20
50 12 0.06
51 1 0.00
52 28 0.14
53 10 0.05
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.29
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:1005522 original size:21 final size:21
Alignment explanation
Indices: 1005498--1005543 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1005488 CACCCAAGCG
* *
1005498 TTAAAATTTTCTGACGAAATT
1 TTAAAACTTTCTGACAAAATT
*
1005519 TTAATACTTTCTGACAAAATT
1 TTAAAACTTTCTGACAAAATT
1005540 TTAA
1 TTAA
1005544 TACTACCTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (21 bp):
TTAAAACTTTCTGACAAAATT
Found at i:1005544 original size:21 final size:21
Alignment explanation
Indices: 1005505--1005547 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1005495 GCGTTAAAAT
*
1005505 TTTCTGACGAAATTTTAATAC
1 TTTCTGACAAAATTTTAATAC
1005526 TTTCTGACAAAATTTTAATAC
1 TTTCTGACAAAATTTTAATAC
1005547 T
1 T
1005548 ACCTTATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (21 bp):
TTTCTGACAAAATTTTAATAC
Found at i:1007999 original size:113 final size:113
Alignment explanation
Indices: 1007799--1008026 Score: 402
Period size: 113 Copynumber: 2.0 Consensus size: 113
1007789 TGCCCAACCA
*
1007799 AAAGCGTCAATCGAGGAGCGACCTAAATTAGAACTCAAGGTACTACCTTCACATCTGAAATATGT
1 AAAGCGTCAATCGAGGAGCCACCTAAATTAGAACTCAAGGTACTACCTTCACATCTGAAATATGT
1007864 TTATTTAGGTAACTATTCTACTTTGCCTGTGATTGTTTCAATAGAATT
66 TTATTTAGGTAACTATTCTACTTTGCCTGTGATTGTTTCAATAGAATT
*
1007912 AAAGCGTCAATCGAGGAGCCACCTAAATTAGAACTCAAGGTACTACCTTTACATCTGAAATATGT
1 AAAGCGTCAATCGAGGAGCCACCTAAATTAGAACTCAAGGTACTACCTTCACATCTGAAATATGT
* * * *
1007977 TTATTTAGGTAACTCTTTTACTTTGCCTGTGATTGTTTTAGTAGAATT
66 TTATTTAGGTAACTATTCTACTTTGCCTGTGATTGTTTCAATAGAATT
1008025 AA
1 AA
1008027 CTAGTAAGCA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 109 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (113 bp):
AAAGCGTCAATCGAGGAGCCACCTAAATTAGAACTCAAGGTACTACCTTCACATCTGAAATATGT
TTATTTAGGTAACTATTCTACTTTGCCTGTGATTGTTTCAATAGAATT
Done.