Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold150
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: 1465027
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.31
Warning! 98465 characters in sequence are not A, C, G, or T
File 6 of 9
Found at i:787137 original size:21 final size:20
Alignment explanation
Indices: 787089--787143 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
787079 TACATATTTG
**
787089 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATAAAA
* *
787109 TCTGTATCGATACATTTAAAA
1 TGTGTATCGATAC-TATAAAA
787130 TGTGTATCGATACT
1 TGTGTATCGATACT
787144 TTTCAGGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (20 bp):
TGTGTATCGATACTATAAAA
Found at i:787676 original size:14 final size:13
Alignment explanation
Indices: 787659--787701 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
787649 AAACTTGGAC
*
787659 AAAAAAATGAGAG
1 AAAAAAAAGAGAG
787672 AAAAAAAA-AGA-
1 AAAAAAAAGAGAG
*
787683 AAGAAAAAGAGAG
1 AAAAAAAAGAGAG
787696 AAAAAA
1 AAAAAA
787702 GAAAAACTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 7 0.28
12 6 0.24
13 12 0.48
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (13 bp):
AAAAAAAAGAGAG
Found at i:797584 original size:52 final size:50
Alignment explanation
Indices: 797513--797682 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 50
797503 AGAAATAACA
*
797513 GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCG
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGGTG-TTTTGGAAATAAAA-CG
* * *
797565 GAGTTGGAGTATCCTCGATTAT-AGAAAATTGGTGTTTTGAAAATAAAACTG
1 GGGTTGGAGTATCCCCGATTATGA-AAAATTGGTGTTTTGGAAATAAAAC-G
* ** * * *
797616 GGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAGCCG
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAA-ACG
797667 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
797683 TCGGAAATAA
Statistics
Matches: 101, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
50 1 0.01
51 69 0.68
52 31 0.31
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.31
Consensus pattern (50 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACG
Found at i:797643 original size:177 final size:175
Alignment explanation
Indices: 797437--797756 Score: 439
Period size: 177 Copynumber: 1.8 Consensus size: 175
797427 ATGAAAATAA
*
797437 TGGGGTTGGAGTATCCCAAATTATGAGAAATCAATATTTTAGGAAT-AA-GGGTTGGAGTATCCC
1 TGGGGTTGGAGTATCCCAAATTATGAGAAATCAATATTTTAGAAATAAACGGGTTGGAGTATCCC
* * *
797500 CTCAGAAATAAC-AGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATC
66 CTCAGAAATAACGA-GGTTGGAGTATCCCCGA---TGAAAAATTGATG-TTTGGGAAATAAAACC
797564 GGAGTTGGAGTATCCTCGATTATAGAAAATTGGTGTTTTGAAAATAAAAC
126 GGAGTTGGAGTATCCTCGATTATAGAAAATTGGTGTTTTGAAAATAAAAC
** *
797614 TGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 TGGGGTTGGAGTATCCCAAATTATGAGAAATCAATATTTTAGAAATAAA--C-GGGTTGGAGTAT
* * **
797679 CCCCTCGGAAATAACGAGGTTGGAGTATCCCTGATGAAAAATTGATGTTTGGGAAATGGAACCGG
63 CCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATGAAAAATTGATGTTTGGGAAATAAAACCGG
*
797744 GGTTGGAGTATCC
128 AGTTGGAGTATCC
797757 CCGAGATAAA
Statistics
Matches: 125, Mismatches: 12, Indels: 11
0.84 0.08 0.07
Matches are distributed among these distances:
177 42 0.34
178 28 0.22
179 12 0.10
182 42 0.34
183 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (175 bp):
TGGGGTTGGAGTATCCCAAATTATGAGAAATCAATATTTTAGAAATAAACGGGTTGGAGTATCCC
CTCAGAAATAACGAGGTTGGAGTATCCCCGATGAAAAATTGATGTTTGGGAAATAAAACCGGAGT
TGGAGTATCCTCGATTATAGAAAATTGGTGTTTTGAAAATAAAAC
Found at i:800201 original size:19 final size:19
Alignment explanation
Indices: 800177--800223 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
800167 GATATATTGT
800177 ATCGATACAAAACTTATGC
1 ATCGATACAAAACTTATGC
* *
800196 ATCGATACAACACTTATGT
1 ATCGATACAAAACTTATGC
800215 ATCGATACA
1 ATCGATACA
800224 TTTACTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (19 bp):
ATCGATACAAAACTTATGC
Found at i:801491 original size:13 final size:13
Alignment explanation
Indices: 801473--801497 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
801463 CATAAAGTGT
801473 TGTATCGATACAA
1 TGTATCGATACAA
801486 TGTATCGATACA
1 TGTATCGATACA
801498 TAAGTGTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:801508 original size:32 final size:33
Alignment explanation
Indices: 801453--801518 Score: 125
Period size: 32 Copynumber: 2.0 Consensus size: 33
801443 TTCAACGATT
801453 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
801486 TGTATCGATACAT-AAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
801518 T
1 T
801519 ATAAGCTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 20 0.61
33 13 0.39
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:801578 original size:13 final size:13
Alignment explanation
Indices: 801560--801584 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
801550 ATTACTCAAA
801560 TGTATCGATACAT
1 TGTATCGATACAT
801573 TGTATCGATACA
1 TGTATCGATACA
801585 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:801637 original size:52 final size:50
Alignment explanation
Indices: 801573--801721 Score: 199
Period size: 52 Copynumber: 2.9 Consensus size: 50
801563 ATCGATACAT
801573 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-AT-TTTGTATCGATACATGCAGGCAAATTTGCCCAGA
** *
801625 TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCTAGA
1 TGTATCGATACACTAT--TTTGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
801677 TATATCGATACACTATTAATTGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACACTATT--TTGTATCGATACATGCAGGCAAATTT
801722 TCATATTTCG
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
51 2 0.02
52 84 0.98
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (50 bp):
TGTATCGATACACTATTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:806747 original size:14 final size:15
Alignment explanation
Indices: 806716--806757 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
806706 TGGTCTTTTC
* *
806716 AAAACAAAAAAAT-C
1 AAAATAAAAAAATAA
806730 AAAATAAAAAAATAA
1 AAAATAAAAAAATAA
806745 AAAATAAAGAAAA
1 AAAATAAA-AAAA
806758 AAATCGAACG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.50
15 8 0.33
16 4 0.17
ACGTcount: A:0.83, C:0.05, G:0.02, T:0.10
Consensus pattern (15 bp):
AAAATAAAAAAATAA
Found at i:808006 original size:13 final size:13
Alignment explanation
Indices: 807988--808013 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
807978 CAATTTTTTG
807988 TGTATCGATACAT
1 TGTATCGATACAT
808001 TGTATCGATACAT
1 TGTATCGATACAT
808014 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:808086 original size:86 final size:86
Alignment explanation
Indices: 807966--808174 Score: 368
Period size: 86 Copynumber: 2.4 Consensus size: 86
807956 GTTACAAGCC
807966 AATGTATCGATACAAT-TTTTT-GTGTATCGATACATTGTATCGATACATACTTGCTGTATCGAT
1 AATGTATCGATAC-ATCTTTTTCGTGTATCGATACATTGTATCGATACATACTTGCTGTATCGAT
* *
808029 ACAAGTTTGGCTACTGCTAAGA
65 ACAAGTTGGGCTACTGCCAAGA
808051 AATGTATCGATACATCTTTTTCGTGTATCGATACATTGTATCGATACATACTTGCTGTATCGATA
1 AATGTATCGATACATCTTTTTCGTGTATCGATACATTGTATCGATACATACTTGCTGTATCGATA
808116 CAAGTTGGGCTACTGCCAAGA
66 CAAGTTGGGCTACTGCCAAGA
*
808137 AATGTATCGATACATCTTTTTCATGTATCGATACATTG
1 AATGTATCGATACATCTTTTTCGTGTATCGATACATTG
808175 CAACATGTAT
Statistics
Matches: 119, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
84 2 0.02
85 18 0.15
86 99 0.83
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (86 bp):
AATGTATCGATACATCTTTTTCGTGTATCGATACATTGTATCGATACATACTTGCTGTATCGATA
CAAGTTGGGCTACTGCCAAGA
Found at i:808092 original size:13 final size:13
Alignment explanation
Indices: 808074--808099 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
808064 ATCTTTTTCG
808074 TGTATCGATACAT
1 TGTATCGATACAT
808087 TGTATCGATACAT
1 TGTATCGATACAT
808100 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:810663 original size:13 final size:13
Alignment explanation
Indices: 810645--810670 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
810635 ATAATCACCC
810645 TGTATCGATACAA
1 TGTATCGATACAA
810658 TGTATCGATACAA
1 TGTATCGATACAA
810671 AGGAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:814618 original size:21 final size:21
Alignment explanation
Indices: 814572--814616 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
814562 AAGTTTTCAT
814572 TTTTC-TTAGCTAACTCATTA
1 TTTTCATTAGCTAACTCATTA
*
814592 TTTTCATTAGCTAACTTCTTTA
1 TTTTCATTAGCTAAC-TCATTA
814614 TTT
1 TTT
814617 CAACTTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCATTAGCTAACTCATTA
Found at i:816933 original size:86 final size:86
Alignment explanation
Indices: 816809--817017 Score: 377
Period size: 86 Copynumber: 2.4 Consensus size: 86
816799 GTTACAAGCC
*
816809 AATGTATCGATACAAT-TTTTT-GTGAATCGATACATTGTATCGATACATACTTGCTGTATCGAT
1 AATGTATCGATAC-ATCTTTTTCGTGTATCGATACATTGTATCGATACATACTTGCTGTATCGAT
816872 ACAAGTTTGGCTACTGCCAAGA
65 ACAAGTTTGGCTACTGCCAAGA
816894 AATGTATCGATACATCTTTTTCGTGTATCGATACATTGTATCGATACATACTTGCTGTATCGATA
1 AATGTATCGATACATCTTTTTCGTGTATCGATACATTGTATCGATACATACTTGCTGTATCGATA
816959 CAAGTTTGGCTACTGCCAAGA
66 CAAGTTTGGCTACTGCCAAGA
*
816980 AATGTATCGATACATCTTTTTCATGTATCGATACATTG
1 AATGTATCGATACATCTTTTTCGTGTATCGATACATTG
817018 CAACATGTAT
Statistics
Matches: 120, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
84 2 0.02
85 18 0.15
86 100 0.83
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (86 bp):
AATGTATCGATACATCTTTTTCGTGTATCGATACATTGTATCGATACATACTTGCTGTATCGATA
CAAGTTTGGCTACTGCCAAGA
Found at i:816935 original size:13 final size:13
Alignment explanation
Indices: 816917--816942 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
816907 ATCTTTTTCG
816917 TGTATCGATACAT
1 TGTATCGATACAT
816930 TGTATCGATACAT
1 TGTATCGATACAT
816943 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:817662 original size:92 final size:91
Alignment explanation
Indices: 817500--817780 Score: 341
Period size: 92 Copynumber: 3.1 Consensus size: 91
817490 TTTAAGCATG
* * ** * *
817500 ATTTCCTTAGGGCAA-TA-ATGCAGACCACACACATTCCCAATCATATCTTCTTCATTCATTTAC
1 ATTTCCTTAGGGCAAGGATATCCAGA-C-CACACATTCCCAATCATATCCCCTTCATCCA-ATAC
* *
817563 TAGATGGTATTAATGTATCACAAAGCCTA
63 TAGATGGTATTGATGCATCACAAAGCCTA
* * * *
817592 ATTTTCTTAGGGCAGGGATATCCAGACCACATATTCCCAATCATGTCCCCTTCATCCAACTACTA
1 ATTTCCTTAGGGCAAGGATATCCAGACCACACATTCCCAATCATATCCCCTTCATCCAA-TACTA
* *
817657 GATGGTATTGTTGCATCACAAAGCCTG
65 GATGGTATTGATGCATCACAAAGCCTA
* * *
817684 ATTTCCTTAGGGTAAGGATATCCAGACCACACATTCCTAATCATATCCCCTTCATCCAATAATTA
1 ATTTCCTTAGGGCAAGGATATCCAGACCACACATTCCCAATCATATCCCCTTCATCCAAT-ACTA
*
817749 GATGGTATTGATGCATCACAAAGTCTA
65 GATGGTATTGATGCATCACAAAGCCTA
817776 ATTTC
1 ATTTC
817781 TTTGGGGTAA
Statistics
Matches: 161, Mismatches: 24, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
91 1 0.01
92 152 0.94
93 2 0.01
94 6 0.04
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (91 bp):
ATTTCCTTAGGGCAAGGATATCCAGACCACACATTCCCAATCATATCCCCTTCATCCAATACTAG
ATGGTATTGATGCATCACAAAGCCTA
Found at i:817860 original size:92 final size:92
Alignment explanation
Indices: 817527--817820 Score: 331
Period size: 92 Copynumber: 3.2 Consensus size: 92
817517 ATGCAGACCA
* ** * * * * *
817527 CACACATTCCCAATCATATCTTCTTCATTCATTTACTAGATGGTATTAATGTATCACAAAGCCTA
1 CACACATTCCTAATCATATCCCCTTCATCCAATAACTAGATGGTATTGATGCATCACAAAGCCTA
* * **
817592 ATTTTCTTAGGGCAGGGATATCCAGAC
66 ATTTCCTTAGGGTAAAGATATCCAGAC
* * * *
817619 CACATATTCCCAATCATGTCCCCTTCATCCAACT-ACTAGATGGTATTGTTGCATCACAAAGCCT
1 CACACATTCCTAATCATATCCCCTTCATCCAA-TAACTAGATGGTATTGATGCATCACAAAGCCT
* *
817683 GATTTCCTTAGGGTAAGGATATCCAGAC
65 AATTTCCTTAGGGTAAAGATATCCAGAC
* *
817711 CACACATTCCTAATCATATCCCCTTCATCCAATAATTAGATGGTATTGATGCATCACAAAGTCTA
1 CACACATTCCTAATCATATCCCCTTCATCCAATAACTAGATGGTATTGATGCATCACAAAGCCTA
* * **
817776 ATTTCTTTGGGGTAAA-AGTATCTTGAC
66 ATTTCCTTAGGGTAAAGA-TATCCAGAC
*
817803 CACTCATTCCTAATCATA
1 CACACATTCCTAATCATA
817821 CCATTCTTTT
Statistics
Matches: 173, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
91 2 0.01
92 170 0.98
93 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.32
Consensus pattern (92 bp):
CACACATTCCTAATCATATCCCCTTCATCCAATAACTAGATGGTATTGATGCATCACAAAGCCTA
ATTTCCTTAGGGTAAAGATATCCAGAC
Found at i:818695 original size:46 final size:46
Alignment explanation
Indices: 818565--818905 Score: 308
Period size: 46 Copynumber: 7.4 Consensus size: 46
818555 CTTTACCAAA
* ** * * * **
818565 CAAACCCTTTTCATCCTCATTTGACTATATCGATTATCACCCTAAT
1 CAAACCCTTTTCATTCTTGTTTGACTATATCGGTTACCACCTTGGT
* * ** *
818611 CAAACCTTTTTTCATTTTTAATTGACTATATCGATTACCACCTTGGT
1 CAAACC-CTTTTCATTCTTGTTTGACTATATCGGTTACCACCTTGGT
* * * *
818658 CAAACCCTTATCTTTTTTGTTTGACCATATCGGTTACCA-CTCTGGT
1 CAAACCCTTTTCATTCTTGTTTGACTATATCGGTTACCACCT-TGGT
* * * * * * *
818704 CAAACCTTTTTCGTTCTTATTTGACTATGTCAGTTACCACCGTAGT
1 CAAACCCTTTTCATTCTTGTTTGACTATATCGGTTACCACCTTGGT
* *
818750 CAAATCTTTTTCATTCTTGTTTGACTATATCGGTTACCA-CTCTGGT
1 CAAACCCTTTTCATTCTTGTTTGACTATATCGGTTACCACCT-TGGT
* * * *
818796 CAAACCCTTTTAATTTTTGTTTGACTGTATCGGTTACCACTTTGGTT
1 CAAACCCTTTTCATTCTTGTTTGACTATATCGGTTACCACCTTGG-T
* * * * * *
818843 AAAACCTTTTTCGTTCTTGTTTGACTGTATCGGTTATCACCTTGAT
1 CAAACCCTTTTCATTCTTGTTTGACTATATCGGTTACCACCTTGGT
818889 CAAACCCTTTTCATTCT
1 CAAACCCTTTTCATTCT
818906 CATTTATCTT
Statistics
Matches: 239, Mismatches: 50, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
45 3 0.01
46 159 0.67
47 77 0.32
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (46 bp):
CAAACCCTTTTCATTCTTGTTTGACTATATCGGTTACCACCTTGGT
Found at i:818814 original size:138 final size:140
Alignment explanation
Indices: 818565--818905 Score: 386
Period size: 139 Copynumber: 2.5 Consensus size: 140
818555 CTTTACCAAA
* * * * * *
818565 CAAACCCTTTTCATCCTCATTTGACTATATCGATTATCACCCTAATCAAACCTTTTTTCATTTTT
1 CAAACCTTTTTCGTTCTTATTTGACTATATCGATTACCACCCTAATCAAACCTTTTTTCATTCTT
**
818630 AATTGACTATATCGATTACCACCTTGGTCAAACCCTTATCTTTTTTGTTTGACCATATCGGTTAC
66 AATTGACTATATCGATTACCACCTTGGTCAAACCCTTATAATTTTTGTTTGACCATATCGGTTAC
818695 CACTCTGG-T
131 CACTCTGGTT
* * * *
818704 CAAACCTTTTTCGTTCTTATTTGACTATGTC-AGTTACCACCGTAGTCAAATC-TTTTTCATTCT
1 CAAACCTTTTTCGTTCTTATTTGACTATATCGA-TTACCACCCTAATCAAACCTTTTTTCATTCT
** * * **
818767 TGTTTGACTATATCGGTTACCA-CTCTGGTCAAACCCTTTTAATTTTTGTTTGACTGTATCGGTT
65 TAATTGACTATATCGATTACCACCT-TGGTCAAACCCTTATAATTTTTGTTTGACCATATCGGTT
*
818831 ACCACTTTGGTT
129 ACCACTCTGGTT
* * * * * * * *
818843 AAAACCTTTTTCGTTCTTGTTTGACTGTATCGGTTATCACCTTGATCAAACC-CTTTTCATTCT
1 CAAACCTTTTTCGTTCTTATTTGACTATATCGATTACCACCCTAATCAAACCTTTTTTCATTCT
818906 CATTTATCTT
Statistics
Matches: 168, Mismatches: 30, Indels: 8
0.82 0.15 0.04
Matches are distributed among these distances:
137 2 0.01
138 73 0.43
139 93 0.55
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (140 bp):
CAAACCTTTTTCGTTCTTATTTGACTATATCGATTACCACCCTAATCAAACCTTTTTTCATTCTT
AATTGACTATATCGATTACCACCTTGGTCAAACCCTTATAATTTTTGTTTGACCATATCGGTTAC
CACTCTGGTT
Found at i:820134 original size:25 final size:24
Alignment explanation
Indices: 820106--820161 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
820096 TTAATAATTC
820106 AAATGAAAAATTAAGATTTTAAAGA
1 AAAT-AAAAATTAAGATTTTAAAGA
* *
820131 AAATAAGAATTAAGGTTTTAAAGA
1 AAATAAAAATTAAGATTTTAAAGA
820155 AAATAAA
1 AAATAAA
820162 TTTTGATTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (24 bp):
AAATAAAAATTAAGATTTTAAAGA
Found at i:823563 original size:32 final size:33
Alignment explanation
Indices: 823506--823567 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
823496 ACCCAGATGT
*
823506 ATCGATACATTATGCTTTGTATCGATACATTGC
1 ATCGATACATTATGCATTGTATCGATACATTGC
*
823539 ATCGATACA-TATTCATTGTATCGATACAT
1 ATCGATACATTATGCATTGTATCGATACAT
823568 GGACAATTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 18 0.67
33 9 0.33
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.39
Consensus pattern (33 bp):
ATCGATACATTATGCATTGTATCGATACATTGC
Found at i:823645 original size:20 final size:20
Alignment explanation
Indices: 823617--823703 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
823607 CTATCACTAC
* *
823617 TTGTGTCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
823637 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
823657 TTGTATCGATAC-------A
1 TTGTATCGATACATGATGAA
823670 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
*
823690 TTGTATTGATACAT
1 TTGTATCGATACAT
823704 TGCTTGTAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
13 13 0.23
20 42 0.75
21 1 0.02
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:823674 original size:13 final size:13
Alignment explanation
Indices: 823633--823683 Score: 60
Period size: 13 Copynumber: 4.4 Consensus size: 13
823623 CGATACATGG
823633 TACATTGTATCGA
1 TACATTGTATCGA
823646 TACA-TG-AT-G-
1 TACATTGTATCGA
823655 -A-ATTGTATCGA
1 TACATTGTATCGA
823666 TACATTGTATCGA
1 TACATTGTATCGA
823679 TACAT
1 TACAT
823684 GATGAATTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 19 0.59
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:823675 original size:33 final size:33
Alignment explanation
Indices: 823633--823705 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
823623 CGATACATGG
823633 TACATTGTATCGATACATGATGAATTGTATCGA
1 TACATTGTATCGATACATGATGAATTGTATCGA
*
823666 TACATTGTATCGATACATGATGAATTGTATTGA
1 TACATTGTATCGATACATGATGAATTGTATCGA
823699 TACATTG
1 TACATTG
823706 CTTGTAATAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (33 bp):
TACATTGTATCGATACATGATGAATTGTATCGA
Found at i:826978 original size:19 final size:19
Alignment explanation
Indices: 826954--827053 Score: 107
Period size: 19 Copynumber: 5.9 Consensus size: 19
826944 AATTCAACAA
826954 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
826973 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
826988 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
827005 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
827020 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
827037 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
827054 TTAGCTACTG
Statistics
Matches: 69, Mismatches: 0, Indels: 24
0.74 0.00 0.26
Matches are distributed among these distances:
13 22 0.32
15 4 0.06
17 4 0.06
19 39 0.57
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:826993 original size:13 final size:13
Alignment explanation
Indices: 826975--827031 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
826965 ACATAAGTTT
826975 TGTATCGATACAA
1 TGTATCGATACAA
826988 TGTATCGATACATAA
1 TGTATCGATAC--AA
827003 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
827020 TGTATCGATACA
1 TGTATCGATACA
827032 TAAGTATTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:826997 original size:32 final size:32
Alignment explanation
Indices: 826956--827050 Score: 181
Period size: 32 Copynumber: 3.0 Consensus size: 32
826946 TTCAACAATT
826956 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
826988 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
*
827020 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTTTTGTATCGATACA
827051 TAATTAGCTA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTTTTGTATCGATACAA
Found at i:827111 original size:13 final size:13
Alignment explanation
Indices: 827093--827118 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
827083 CATTTTTCTG
827093 TGTATCGATACAT
1 TGTATCGATACAT
827106 TGTATCGATACAT
1 TGTATCGATACAT
827119 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:827130 original size:33 final size:33
Alignment explanation
Indices: 827073--827139 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
827063 GCCAAGGAAA
***
827073 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
* *
827106 TGTATCGATACATGGATCTTTGTATTGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
827139 T
1 T
827140 TGGAAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:829590 original size:52 final size:51
Alignment explanation
Indices: 829465--829597 Score: 158
Period size: 52 Copynumber: 2.6 Consensus size: 51
829455 TTGAGTTTCT
* * *
829465 CAATTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
* ** *
829516 TAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATAC
1 CAATTTTCC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACAC
* * *
829569 CAATTTTTCACAGTCGAGGATACTCCAAC
1 CAATTTTCCACAATCGGGGATACTCCAAC
829598 CTTGTTATTT
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
51 7 0.10
52 47 0.70
53 13 0.19
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.33
Consensus pattern (51 bp):
CAATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
Found at i:829618 original size:28 final size:28
Alignment explanation
Indices: 829586--829657 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
829576 TCACAGTCGA
** * **
829586 GGATACTCCAACCTTGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
829614 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
829642 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
829658 GCTTTATTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.25
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:829735 original size:28 final size:28
Alignment explanation
Indices: 829691--829769 Score: 122
Period size: 28 Copynumber: 2.8 Consensus size: 28
829681 TCTCATAATT
*
829691 GGGGATACTCCAACCCCGTTATTTTCGA
1 GGGGATACTCCAACCCCGTTATTTTCAA
*
829719 GGGGATACTCCAGCCCCGTTATTTTCAA
1 GGGGATACTCCAACCCCGTTATTTTCAA
* *
829747 GGGAACACTCCAACCCCGTTATT
1 GGGGATACTCCAACCCCGTTATT
829770 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTTCAA
Found at i:829778 original size:107 final size:107
Alignment explanation
Indices: 829586--829794 Score: 246
Period size: 107 Copynumber: 1.9 Consensus size: 107
829576 TCACAGTCGA
** * * *
829586 GGATACTCCAACCTTGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCC
1 GGATACTCCAACCCCGTTATTTCA-CGGGGATACTCCAACCCCGTTACTTCCAAGGGAACACTCC
* *
829651 AACCCCGGCTTTATTCCCAAAATATT-GATTTCTCATAATTGG
65 AACCCCGGCTTTATTCCCAAAACATTAAATTTCTCATAATTGG
* * *
829693 GGATACTCCAACCCCGTTATTTTCGA-GGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTC
1 GGATACTCCAACCCCGTTA-TTTC-ACGGGGATACTCCAACCCCGTTACTTCCAAGGGAACACTC
*
829757 CAACCCC-GTTATTA-TCTCCAAAACATTAAATTTCTCAT
64 CAACCCCGGCT-TTATTC-CCAAAACATTAAATTTCTCAT
829795 CGGGAAATAT
Statistics
Matches: 86, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
106 4 0.05
107 68 0.79
108 13 0.15
109 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (107 bp):
GGATACTCCAACCCCGTTATTTCACGGGGATACTCCAACCCCGTTACTTCCAAGGGAACACTCCA
ACCCCGGCTTTATTCCCAAAACATTAAATTTCTCATAATTGG
Found at i:831857 original size:19 final size:19
Alignment explanation
Indices: 831833--831870 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
831823 AGATGTATCG
831833 ATACATTATATCGATACAT
1 ATACATTATATCGATACAT
*
831852 ATACATTGTATCGATACAT
1 ATACATTATATCGATACAT
831871 GAAACTGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
ATACATTATATCGATACAT
Found at i:839702 original size:52 final size:53
Alignment explanation
Indices: 839624--839726 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 53
839614 ACAACTCAAG
** *
839624 AAACACATTAGGGAAGTTCAAATATCG-AAAAAATTTCTCTCTTTTAATGCAA
1 AAACACATTAAAGAAGTTCAAATATCGAAAAAAATTTCTCCCTTTTAATGCAA
839676 AAACACATTAAAGAAGTTCAAATATCGAAAAAAATTTCTCCCTTTTAATGC
1 AAACACATTAAAGAAGTTCAAATATCGAAAAAAATTTCTCCCTTTTAATGC
839727 CAAAGTTTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 25 0.53
53 22 0.47
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.30
Consensus pattern (53 bp):
AAACACATTAAAGAAGTTCAAATATCGAAAAAAATTTCTCCCTTTTAATGCAA
Found at i:842097 original size:13 final size:12
Alignment explanation
Indices: 842045--842103 Score: 54
Period size: 13 Copynumber: 5.0 Consensus size: 12
842035 ACATAAGTGT
842045 TGTATCGATACAA
1 TGTATCGATAC-A
*
842058 TGAATCGATACA
1 TGTATCGATACA
842070 T-TACTC-A-A-A
1 TGTA-TCGATACA
842079 TGTATCGATACA
1 TGTATCGATACA
842091 TTGTATCGATACA
1 -TGTATCGATACA
842104 CTGATCTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
9 4 0.11
10 4 0.11
11 3 0.08
12 5 0.13
13 22 0.58
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (12 bp):
TGTATCGATACA
Found at i:842150 original size:52 final size:52
Alignment explanation
Indices: 842112--842240 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
842102 CACTGATCTT
*
842112 TGTATCGATAAATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
842164 TGTATCGATACATGCAGGCAAATTTGCCCATATGTATTGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
842216 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
842241 TCATATTTTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:856098 original size:24 final size:23
Alignment explanation
Indices: 856066--856149 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 23
856056 CGTCCTCCAC
*
856066 AAAAAA-AAACAAAAAAACCAAA
1 AAAAAACAAAAAAAAAAACCAAA
* *
856088 AGAAAACAAAAAACAAAAAACAAA
1 AAAAAACAAAAAA-AAAAACCAAA
*
856112 AAAAAACAAAGAAAAAAAAACAACA
1 AAAAAACAAA-AAAAAAAACCAA-A
*
856137 ACAACAACAAAAA
1 A-AAAAACAAAAA
856150 GGGTCTGGAT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
22 5 0.10
23 5 0.10
24 27 0.52
25 7 0.13
26 8 0.15
ACGTcount: A:0.83, C:0.14, G:0.02, T:0.00
Consensus pattern (23 bp):
AAAAAACAAAAAAAAAAACCAAA
Found at i:856114 original size:34 final size:34
Alignment explanation
Indices: 856064--856149 Score: 104
Period size: 33 Copynumber: 2.5 Consensus size: 34
856054 GGCGTCCTCC
* * *
856064 ACAAAAAAAAAC-AAAAAAACCAAAAGAAAACAAA
1 ACAACAAAAAACAAAAAAAAAC-AAAGAAAAAAAA
856098 A-AACAAAAAACAAAAAAAAACAAAGAAAAAAAA
1 ACAACAAAAAACAAAAAAAAACAAAGAAAAAAAA
856131 ACAACAACAACAACAAAAA
1 ACAACAA-AA-AACAAAAA
856150 GGGTCTGGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
33 21 0.47
34 14 0.31
35 2 0.04
36 8 0.18
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (34 bp):
ACAACAAAAAACAAAAAAAAACAAAGAAAAAAAA
Found at i:856148 original size:17 final size:15
Alignment explanation
Indices: 856064--856148 Score: 59
Period size: 14 Copynumber: 5.5 Consensus size: 15
856054 GGCGTCCTCC
*
856064 ACAAAAAAAAACAAA
1 ACAAAAAACAACAAA
* *
856079 A-AAACCAA-AAGAAA
1 ACAAA-AAACAACAAA
856093 ACAAAAAACAA-AAA
1 ACAAAAAACAACAAA
*
856107 ACAAAAAAAAACAAAGA
1 ACAAAAAACAAC-AA-A
*
856124 AAAAAAAACAACAACA
1 ACAAAAAACAACAA-A
856140 ACAACAAAA
1 ACAA-AAAA
856149 AGGGTCTGGA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
14 24 0.44
15 8 0.15
16 8 0.15
17 15 0.27
ACGTcount: A:0.82, C:0.15, G:0.02, T:0.00
Consensus pattern (15 bp):
ACAAAAAACAACAAA
Found at i:856149 original size:1 final size:1
Alignment explanation
Indices: 856066--856131 Score: 51
Period size: 1 Copynumber: 66.0 Consensus size: 1
856056 CGTCCTCCAC
* ** * * * * * *
856066 AAAAAAAAACAAAAAAACCAAAAGAAAACAAAAAACAAAAAACAAAAAAAAACAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
856131 A
1 A
856132 CAACAACAAC
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:857624 original size:28 final size:29
Alignment explanation
Indices: 857586--858003 Score: 487
Period size: 28 Copynumber: 14.5 Consensus size: 29
857576 TTCCTCACCT
*
857586 TTTCCAAAGCCCACAAGTCAGTGGCAACC
1 TTTCAAAAGCCCACAAGTCAGTGGCAACC
*
857615 -TTCAAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAAGCCCACAAGTCAGTGGCAACC
*
857643 TTTTCCAAAGCCCACAAGTCAGTGGCAACC
1 -TTTCAAAAGCCCACAAGTCAGTGGCAACC
* * *
857673 -TTCCAAAGCCTACAAGTCAGTAGCAACC
1 TTTCAAAAGCCCACAAGTCAGTGGCAACC
857701 -TTCAAAAGCCCACAAGTCAGTGGC-ACC
1 TTTCAAAAGCCCACAAGTCAGTGGCAACC
* * *
857728 TTTTCCAAAGCCCATAAATCAGTGGCAACC
1 -TTTCAAAAGCCCACAAGTCAGTGGCAACC
**
857758 -TTCAAAAGCCCACAAGTCAGTGGCGCCC
1 TTTCAAAAGCCCACAAGTCAGTGGCAACC
*
857786 TTTTTC-AAAGCCCACAAGTCAGTGGCACCC
1 --TTTCAAAAGCCCACAAGTCAGTGGCAACC
*
857816 TTTTCCAAAGCCCACAAGTCAGTGGCAACC
1 -TTTCAAAAGCCCACAAGTCAGTGGCAACC
*
857846 -TTCAAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAAGCCCACAAGTCAGTGGCAACC
* *
857874 TTTTCCAAAGCCCACAAGTCAGTAGCAACC
1 -TTTCAAAAGCCCACAAGTCAGTGGCAACC
* * *
857904 TTTC-AAAGCCTACAAGTCAGTAGAAACC
1 TTTCAAAAGCCCACAAGTCAGTGGCAACC
* *
857932 -TTCAAAAGCCCACAAGTCAGTAGCACCC
1 TTTCAAAAGCCCACAAGTCAGTGGCAACC
* *
857960 TTTTCCAAAGCCCATAAGTCAGTGGCAACC
1 -TTTCAAAAGCCCACAAGTCAGTGGCAACC
*
857990 TTT-AAAAACCCACA
1 TTTCAAAAGCCCACA
858004 CAAGTTGGTG
Statistics
Matches: 339, Mismatches: 36, Indels: 29
0.84 0.09 0.07
Matches are distributed among these distances:
27 6 0.02
28 173 0.51
29 33 0.10
30 124 0.37
31 3 0.01
ACGTcount: A:0.33, C:0.33, G:0.16, T:0.19
Consensus pattern (29 bp):
TTTCAAAAGCCCACAAGTCAGTGGCAACC
Found at i:857673 original size:58 final size:59
Alignment explanation
Indices: 857582--857992 Score: 520
Period size: 58 Copynumber: 7.1 Consensus size: 59
857572 GACATTCCTC
*
857582 ACCTTTTCCAAAGCCCACAAGTCAGTGGCAACC-TTCAAAAGCCCACAAGTCAGTGGCA
1 ACCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTTCCAAAGCCCACAAGTCAGTGGCA
* * *
857640 CCCTTTTCCAAAGCCCACAAGTCAGTGGCAACC-TTCCAAAGCCTACAAGTCAGTAGCA
1 ACCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTTCCAAAGCCCACAAGTCAGTGGCA
* * *
857698 ACC--TTCAAAAGCCCACAAGTCAGTGGC-ACCTTTTCCAAAGCCCATAAATCAGTGGCA
1 ACCTTTTCCAAAGCCCACAAGTCAGTGGCAACC-TTTCCAAAGCCCACAAGTCAGTGGCA
* ** *
857755 ACC--TTCAAAAGCCCACAAGTCAGTGGCGCCCTTTTTCAAAGCCCACAAGTCAGTGGCA
1 ACCTTTTCCAAAGCCCACAAGTCAGTGGCAACC-TTTCCAAAGCCCACAAGTCAGTGGCA
* *
857813 CCCTTTTCCAAAGCCCACAAGTCAGTGGCAACC-TTCAAAAGCCCACAAGTCAGTGGCA
1 ACCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTTCCAAAGCCCACAAGTCAGTGGCA
* * * * *
857871 CCCTTTTCCAAAGCCCACAAGTCAGTAGCAACCTTT-CAAAGCCTACAAGTCAGTAGAA
1 ACCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTTCCAAAGCCCACAAGTCAGTGGCA
* * * *
857929 ACC--TTCAAAAGCCCACAAGTCAGTAGCACCCTTTTCCAAAGCCCATAAGTCAGTGGCA
1 ACCTTTTCCAAAGCCCACAAGTCAGTGGCAACC-TTTCCAAAGCCCACAAGTCAGTGGCA
857987 ACCTTT
1 ACCTTT
857993 AAAAACCCAC
Statistics
Matches: 311, Mismatches: 32, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
55 3 0.01
56 49 0.16
57 51 0.16
58 180 0.58
59 2 0.01
60 26 0.08
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.19
Consensus pattern (59 bp):
ACCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTTCCAAAGCCCACAAGTCAGTGGCA
Found at i:858079 original size:49 final size:49
Alignment explanation
Indices: 858020--858391 Score: 437
Period size: 49 Copynumber: 7.8 Consensus size: 49
858010 GGTGGCATCT
* *
858020 TCTTCTAAGTCCAATATCGCTAGCCGTGAATCAGCATATTGGCACCGTCA
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCA
* *
858070 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C-
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCA
* *
858114 -CTTTAAGTCCAATATCACTGGCCTTGAATCAACATATTGGCACCGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCA
* * *
858162 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCA----C-
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCA
* *
858206 -CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACTGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCA
* * * *
858254 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCA
** * *
858303 TCTTTAAGTCCGGTAGCGCTGGCTTTGAATCAGCATATTGGCACCGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCA
* * *
858352 TCTTTAAGAT-CAATGTCGCTGGCCATGAATCAGCACATTG
1 TCTTTAAG-TCCAATATCGCTGGCCTTGAATCAGCATATTG
858392 TCATTCTTCG
Statistics
Matches: 273, Mismatches: 36, Indels: 27
0.81 0.11 0.08
Matches are distributed among these distances:
43 76 0.28
45 2 0.01
47 2 0.01
49 188 0.69
50 5 0.02
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (49 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCA
Found at i:858182 original size:92 final size:92
Alignment explanation
Indices: 858025--858391 Score: 538
Period size: 92 Copynumber: 3.9 Consensus size: 92
858015 CATCTTCTTC
* *
858025 TAAGTCCAATATCGCTAGCCGTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGTCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGTCGCT
858090 GGCCTTGAATCAGCACATTGGCACCTT
66 GGCCTTGAATCAGCACATTGGCACCTT
* *
858117 TAAGTCCAATATCACTGGCCTTGAATCAACATATTGGCACCGTCATCTTTAAGTCCAATGTCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGTCGCT
*
858182 GGCCTTGAATCAACACATTGGCACCTT
66 GGCCTTGAATCAGCACATTGGCACCTT
* * *
858209 TAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACTGTCATCTTTAAGACCAATGTCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGTCGCT
*
858274 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCACATTGGCA----C--CTT
** * *
858307 TAAGTCCGGTAGCGCTGGCTTTGAATCAGCATATTGGCACCGTCATCTTTAAGAT-CAATGTCGC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAG-TCCAATGTCGC
*
858371 TGGCCATGAATCAGCACATTG
65 TGGCCTTGAATCAGCACATTG
858392 TCATTCTTCG
Statistics
Matches: 247, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
92 168 0.68
96 1 0.00
98 78 0.32
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (92 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGTCGCT
GGCCTTGAATCAGCACATTGGCACCTT
Found at i:858394 original size:141 final size:141
Alignment explanation
Indices: 858020--858395 Score: 435
Period size: 141 Copynumber: 2.7 Consensus size: 141
858010 GGTGGCATCT
* * *
858020 TCTTCTAAGTCCAATATCGCTAGCCGTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATG
1 TCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATG
* * *
858085 TCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCACTGGCCTTGAATCAACATA
65 TCGCTGGCCTTGAATCAGCACATTGTCATCTTTAAGACCAATATCACTGGCCTTGAATCAACATA
858150 TTGGCACCGTCA
130 TTGGCACCGTCA
* * *
858162 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCA----C--CTTTAAGTCCAATAT
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGT
* * * *
858221 TGCTGGCCTTGAATCAGCATATTGGCACTGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCA
66 CGCTGGCCTTGAATCAGC--A----CATTGTCATCTTTAAGACCAATATCACTGGCCTTGAATCA
* * *
858286 GCATATTGGCATCTTCA
125 ACATATTGGCACCGTCA
** *
858303 TCTTTAAGTCCGGTAG-CGCTGGCTTTGAATCAGCATATTGGCACCGTCATCTTTAAGAT-CAAT
1 TCTTTAAGTCCAAT-GTCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAG-TCCAAT
*
858366 GTCGCTGGCCATGAATCAGCACATTGTCAT
64 GTCGCTGGCCTTGAATCAGCACATTGTCAT
858396 TCTTCGCATC
Statistics
Matches: 195, Mismatches: 25, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
135 31 0.16
137 2 0.01
141 126 0.65
142 5 0.03
145 2 0.01
147 28 0.14
148 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (141 bp):
TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGT
CGCTGGCCTTGAATCAGCACATTGTCATCTTTAAGACCAATATCACTGGCCTTGAATCAACATAT
TGGCACCGTCA
Found at i:859159 original size:13 final size:13
Alignment explanation
Indices: 859141--859199 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
859131 ACATAAGTGT
859141 TGTATCGATACAA
1 TGTATCGATACAA
859154 TGTATCGATAC-A
1 TGTATCGATACAA
859166 T-TA-C--T-CAAA
1 TGTATCGATAC-AA
*
859175 TGTATCGATACAT
1 TGTATCGATACAA
859188 TGTATCGATACA
1 TGTATCGATACA
859200 CTGATTTTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 2 0.05
10 3 0.08
11 3 0.08
12 2 0.05
13 25 0.66
14 1 0.03
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:866666 original size:79 final size:79
Alignment explanation
Indices: 866535--866716 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 79
866525 AACAAGGCTG
* * * * * * *
866535 GAGTATCTCCGATTATGGAAAATCGGTGTTCCGGAAATAAAATTGAGGTTGGAGTACCCCCTC-A
1 GAGTATCCCCGATTATGAAAAATCAGTATTCTGAAAATAAAATCGAGGTTGGAGTACCCCCTCGA
866599 GAAATAACAGGGTTA
66 -AAATAACAGGGTTA
* *
866614 GAGTATCCCTGATTAT-ATAAAATCAGTATTCTGAAAATAAAATCG-GGATTGGAGTATCCCCTC
1 GAGTATCCCCGATTATGA-AAAATCAGTATTCTGAAAATAAAATCGAGG-TTGGAGTACCCCCTC
* *
866677 GAAAATAACGGGGTTG
64 GAAAATAACAGGGTTA
*
866693 GAGTGTCCCCGATTATGAAAAATC
1 GAGTATCCCCGATTATGAAAAATC
866717 GATGATTTAG
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
78 2 0.02
79 82 0.95
80 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.26
Consensus pattern (79 bp):
GAGTATCCCCGATTATGAAAAATCAGTATTCTGAAAATAAAATCGAGGTTGGAGTACCCCCTCGA
AAATAACAGGGTTA
Found at i:866731 original size:79 final size:78
Alignment explanation
Indices: 866533--866753 Score: 202
Period size: 79 Copynumber: 2.8 Consensus size: 78
866523 ACAACAAGGC
* * * * * *
866533 TGGAGTATCTCCGATTATGGAAAATCGGTG-TTCCGGAAATAAAATTGAGGTTGGAGTACCCCCT
1 TGGAGTATCCCCGATTATGAAAAATCGATGATT-CTGAAATAAAATCG-GGTTGGAGTATCCCCT
866597 CAGAAATAACAGGGT
64 CAGAAATAACAGGGT
* *
866612 TAGAGTATCCCTGATTAT-ATAAAATC-A-GTATTCTGAAAATAAAATCGGGATTGGAGTATCCC
1 TGGAGTATCCCCGATTATGA-AAAATCGATG-ATTCTG-AAATAAAATCGGG-TTGGAGTATCCC
*
866674 CTC-GAAAATAACGGGGT
62 CTCAG-AAATAACAGGGT
* ** *
866691 TGGAGTGTCCCCGATTATGAAAAATCGATGATT-TAGAAATAAGGTCGGGGTTGAAGTATCCCC
1 TGGAGTATCCCCGATTATGAAAAATCGATGATTCT-GAAATAAAATC-GGGTTGGAGTATCCCC
866754 GATTGTGAAA
Statistics
Matches: 116, Mismatches: 15, Indels: 22
0.76 0.10 0.14
Matches are distributed among these distances:
77 1 0.01
78 5 0.04
79 100 0.86
80 9 0.08
81 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (78 bp):
TGGAGTATCCCCGATTATGAAAAATCGATGATTCTGAAATAAAATCGGGTTGGAGTATCCCCTCA
GAAATAACAGGGT
Found at i:866753 original size:51 final size:51
Alignment explanation
Indices: 866685--866804 Score: 152
Period size: 51 Copynumber: 2.4 Consensus size: 51
866675 TCGAAAATAA
* * * *
866685 CGGGGTTGGAGTGTCCCCGATTATGAAAAATCGATGA-TTTAGAAATAAGGT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAAT-ATTTTAGAAATAAAGC
* * * *
866736 CGGGGTTGAAGTATCCCCGATTGTGAAAAATCAATATTTTGGAACTAAAGC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAGC
866787 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
866805 TCGGAAATAA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 1 0.02
51 58 0.98
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAGC
Found at i:866842 original size:130 final size:130
Alignment explanation
Indices: 866657--867013 Score: 342
Period size: 130 Copynumber: 2.7 Consensus size: 130
866647 AAAATAAAAT
*
866657 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTGTCCCCGATTATGAAAAATCGA-TG
1 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAAT-GAGTG
** * *
866721 ATTTAGAAATAAGGTCGGGGTTGAAGTATCCCCGATTGTGAAAAATCAATATTTTGGAACTAAAG
65 ATTTAGAAATAAAATCGGAGTTGAAATATCCCCGATTGTGAAAAATCAATATTTTGGAACTAAAG
866786 C
130 C
* * * * * * *
866787 CGGGGTTGGAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGT
1 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATGAGTGA
* * *** * * * **
866852 TTTGGAAATAAAATCGGAGTTGAAATATCCTCGATTGTGAAAAATTGGTGTTTTAGAAATAAATT
66 TTTAGAAATAAAATCGGAGTTGAAATATCCCCGATTGTGAAAAATCAATATTTTGGAACTAAAGC
* * * * * * * *
866917 TGTGG-TTGGAGTATCTCTTCGGAAATGACGGGGTTAGAGTATTCCCAATTATGAAAAACTG-GT
1 CG-GGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAA-TGAGT
* * * * * *
866980 GTTTTGGGAATAAAATCGGGGTTGGAGTATCCCC
64 GATTTAGAAATAAAATCGGAGTTGAAATATCCCC
867014 TCGGAAATAA
Statistics
Matches: 186, Mismatches: 38, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
129 1 0.01
130 182 0.98
131 3 0.02
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (130 bp):
CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATGAGTGA
TTTAGAAATAAAATCGGAGTTGAAATATCCCCGATTGTGAAAAATCAATATTTTGGAACTAAAGC
Found at i:867020 original size:79 final size:79
Alignment explanation
Indices: 866889--867092 Score: 264
Period size: 79 Copynumber: 2.6 Consensus size: 79
866879 TCCTCGATTG
* * * * * * *
866889 TGAAAAATTGGTGTTTTAGAAATAAATTTGTGGTTGGAGTATCTCTTCGGAAATGACGGGGTTAG
1 TGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGATTAG
*
866954 AGTATTCCCAATTA
66 AGTATCCCCAATTA
* * *
866968 TGAAAAACTGGTGTTTTGGGAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGATTAG
1 TGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGATTAG
*
867033 AGTATCCCCGATTA
66 AGTATCCCCAATTA
* * * *
867047 TGAAAAATTGATGTTTTAAAAATAAAACCGGGGTTCGAGTATCCCC
1 TGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
867093 GAGATGAAGA
Statistics
Matches: 106, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
79 106 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (79 bp):
TGAAAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGATTAG
AGTATCCCCAATTA
Found at i:869418 original size:20 final size:19
Alignment explanation
Indices: 869393--869466 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
869383 AAAATGCTTG
* *
869393 AATGTATCAATACATTGTAA
1 AATGTATCGATACAATG-AA
*
869413 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
*
869433 AATATATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
869453 AATGTATCGATACA
1 AATGTATCGATACA
869467 TCTGAGTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 1 0.02
20 44 0.96
21 1 0.02
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:869529 original size:13 final size:13
Alignment explanation
Indices: 869482--869511 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
869472 GTAAACCCAG
869482 AATGTATCCATAC
1 AATGTATCCATAC
*
869495 AATGTATCGATAC
1 AATGTATCCATAC
869508 AATG
1 AATG
869512 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (13 bp):
AATGTATCCATAC
Found at i:869585 original size:22 final size:20
Alignment explanation
Indices: 869555--869600 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
869545 AATTTTTGAC
*
869555 CATTAGGGCCTTGTATCGATA
1 CATTAGGG-CATGTATCGATA
869576 CATTAAGGGCATGTATCGATA
1 CATT-AGGGCATGTATCGATA
869597 CATT
1 CATT
869601 TTGGCAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (20 bp):
CATTAGGGCATGTATCGATA
Found at i:870102 original size:40 final size:41
Alignment explanation
Indices: 870058--870157 Score: 123
Period size: 41 Copynumber: 2.4 Consensus size: 41
870048 GTCCCACTTT
* * *
870058 TTGAGGACAAAGGAAAAGAG-AATGAAATAG-GTCTTGCTCC
1 TTGAGGACAAAGGAAAAAAGAAAAGAAA-AGTGTCCTGCTCC
* *
870098 TTGAGGACAAAGGAAAAAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGGAAAAAAGAAAAGAAAAGTGTCCTGCTCC
870139 TTGAGGACAAAGTGAAAAA
1 TTGAGGACAAAG-GAAAAA
870158 GAGTACATCC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 21 0.40
41 25 0.48
42 6 0.12
ACGTcount: A:0.44, C:0.11, G:0.27, T:0.18
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAAAGAAAAGAAAAGTGTCCTGCTCC
Found at i:870470 original size:60 final size:61
Alignment explanation
Indices: 870318--870714 Score: 414
Period size: 60 Copynumber: 6.5 Consensus size: 61
870308 GGACAAAAGA
* * * * * * * *
870318 GAAAAGGAAAAGACATCCTACTCTTTGAGAATTAAAAAGTGCCACCAACTCCTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTT
* * * * * *
870380 GAAAAG-AAAAGGCATCCTGCTTTTTGAGGACTAGAAGGCGCTAGCAACTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTCGTGTGGGCTTT
* * *
870441 -AAAA-AAAATGGCATCCTGCTCTTTAAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGCTTT
* * *
870501 G--AA-AAAAAGACGTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTATGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGCTTT
* * * *
870560 GAAAAGAAAAAGGTGTCTTGCTCTTTGAGGACTAAAAGATGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTT
* * *
870622 AAAAAAGAAAAA-GCGTCCTACTCTTTGAGGACTAAAGGTGCCATCAACTCGTGTGGGC-TT
1 -GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTT
* * *
870682 AAAAAGAAAAAGGCGTCTTGCTCTTTAAGGACT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACT
870715 GGAAGGGCTA
Statistics
Matches: 284, Mismatches: 41, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
59 66 0.23
60 70 0.25
61 66 0.23
62 69 0.24
63 13 0.05
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (61 bp):
GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTT
Found at i:870497 original size:121 final size:121
Alignment explanation
Indices: 870350--870714 Score: 466
Period size: 121 Copynumber: 3.0 Consensus size: 121
870340 CTTTGAGAAT
* * * * *
870350 TAAAAAGTGCCACCAACTCCTGTGGGCTTTGAAAAGAAAAGGCATCCTGCTTTTTGAGGACTAGA
1 TAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCGTCCTACTCTTTGAGGACTA-A
* * * * * * *
870415 AGGCGCTAGCAACTTGTGTGGGCTTTAAAA-AAAATGGCATCCTGCTCTTTAAGGAC
65 AGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCGTCTTGCTCTTTAAGGAC
* *
870471 TAAAGGGTGCCACCAACTCGTGTGGGCTTTG-AAA-AAAAGACGTCCTACTCTTTGAGGACTAAA
1 TAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCGTCCTACTCTTTGAGGACTAAA
* * *
870534 GGGTGCCACCAACTCGTATGGGCTTTGAAAAGAAAAAGGTGTCTTGCTCTTTGAGGAC
66 -GGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCGTCTTGCTCTTTAAGGAC
* * * *
870592 TAAAAGATGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAAAGCGTCCTACTCTTTGAGGACTAA
1 TAAAAGGTGCCACCAACTCGTGTGGGCTTT-GAAAAGAAAAGGCGTCCTACTCTTTGAGGACTAA
* *
870657 AGGTGCCATCAACTCGTGTGGGCTTAAAAAGAAAAAGGCGTCTTGCTCTTTAAGGAC
65 AGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCGTCTTGCTCTTTAAGGAC
870714 T
1 T
870715 GGAAGGGCTA
Statistics
Matches: 210, Mismatches: 28, Indels: 11
0.84 0.11 0.04
Matches are distributed among these distances:
118 2 0.01
119 43 0.20
120 7 0.03
121 76 0.36
122 30 0.14
123 25 0.12
124 27 0.13
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (121 bp):
TAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCGTCCTACTCTTTGAGGACTAAA
GGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCGTCTTGCTCTTTAAGGAC
Found at i:870603 original size:62 final size:62
Alignment explanation
Indices: 870318--870714 Score: 425
Period size: 62 Copynumber: 6.5 Consensus size: 62
870308 GGACAAAAGA
* * * * * * * *
870318 GAAAAGGAAAAGACATCCTACTCTTTGAGAATTAAAAAGTGCCACCAACTCCTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * * * * *
870380 GAAAAG-AAAAGGCATCCTGCTTTTTGAGGACTAGAAGGCGCTAGCAACTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * *
870441 -AAAA-AAAATGGCATCCTGCTCTTTAAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * *
870501 G--AA-AAAAAGACGTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTATGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * *
870560 GAAAAGAAAAAGGTGTCTTGCTCTTTGAGGACTAAAAGATGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * *
870622 AAAAAAGAAAAA-GCGTCCTACTCTTTGAGGACT-AAAGGTGCCATCAACTCGTGTGGGC-TT
1 -GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * *
870682 AAAAAGAAAAAGGCGTCTTGCTCTTTAAGGACT
1 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACT
870715 GGAAGGGCTA
Statistics
Matches: 283, Mismatches: 45, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
59 64 0.23
60 70 0.25
61 67 0.24
62 72 0.25
63 10 0.04
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (62 bp):
GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
Found at i:880393 original size:19 final size:20
Alignment explanation
Indices: 880369--880426 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
880359 AGCGATATAT
880369 TGTATCGATACAATATT-TA
1 TGTATCGATACAATATTGTA
* *
880388 TGTATCGATACATTTATTGTT
1 TGTATCGATACA-ATATTGTA
880409 TGTATCGATACAA-ATTGT
1 TGTATCGATACAATATTGT
880427 TGAAATTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 17 0.50
20 4 0.12
21 13 0.38
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (20 bp):
TGTATCGATACAATATTGTA
Found at i:881319 original size:49 final size:49
Alignment explanation
Indices: 881158--882247 Score: 767
Period size: 49 Copynumber: 22.8 Consensus size: 49
881148 CGAAGAATAA
* * * ** * *
881158 CAATGTGCTGATTCATGGCCAACGACATTAAACTTGAAGAAGAA--TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * ** * * *
881205 CAATGTGCTGAGAT-AAGGCTAGCGACATTGGGTTTAGGAATGTTAAAGATGC
1 CAATATGCTGA-TTCAAGGCCAGCGACATTGGACTTA--AA-GATGAAGGTGC
* * *
881257 CACTATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * * *
881306 CAATGTGTTGATTCAAGGCTAGCGACATTGGTCTTAAAGATAAAAGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *** *
881355 CAATATGCTAATTCAAGGCCAACGATATCAAACTTAAAGATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
881404 CAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTTAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-G--AAGGTGC
* * * *
881456 CAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
881505 CAATATGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * *
881557 TAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * *
881609 CAATATGTTGATTCAAGGCTAGCGATATTGGAC-------T--A-GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
881648 CAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
881696 CAATATGCTGATTCAAGGCCAGCAATATTGGGC-T-----T----GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
881735 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
881783 CAATATGCTGATTCAAGGCCAACGATATTGGGC-T-----T----GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
881822 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAGGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
881871 CAATGTGCTGATTCAAGGCCAGTGACATTAGACTTGAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * * * *
881923 CAATATGTTGATCCAAGGTCAACGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *** * *
881972 CAATGTGCTGATTCAAGGCCAGCAACATTACTCTTAAAGATAAATGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * * *
882021 TAATATGCTGATTCTAGGCTAGCGATATCGGACTTAAAGATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * * *
882070 CAATGTGCTGATTTAAGGCCAACGACATCGGTCTTCAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
882119 CAATATGCTGATTCAAGGCTAGCGATATTGGGC-T-----T----GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
882158 CAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAATGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
882207 CAATATGCTAATTCAAGGCCAGCAATATTGAACTTAGAAGA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
882248 AGATGCCACC
Statistics
Matches: 820, Mismatches: 164, Indels: 115
0.75 0.15 0.10
Matches are distributed among these distances:
39 131 0.16
40 4 0.00
43 1 0.00
45 3 0.00
47 28 0.03
48 68 0.08
49 381 0.46
50 10 0.01
51 2 0.00
52 192 0.23
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:881334 original size:101 final size:102
Alignment explanation
Indices: 881158--882247 Score: 653
Period size: 101 Copynumber: 11.4 Consensus size: 102
881148 CGAAGAATAA
* * * ** * * * *
881158 CAATGTGCTGATTCATGGCCAACGACATTAAACTTGAAGAAGAA--TGCCAATGTGCTGAGAT-A
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGTTGA-TTCA
* *
881220 AGGCTAGCGACATTGGGT-TT-AGGAATGTTAAAGATGC
65 AGGCTAGCGACATTGGGTCTTAAAG-ATGATAAAGATGC
*
881257 CACTATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGTTGATTCAA
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGTTGATTCAA
881322 GGCTAGCGACATT-GGTCTTAAAGAT-A-AAAG-TGC
66 GGCTAGCGACATTGGGTCTTAAAGATGATAAAGATGC
* *** *
881355 CAATATGCTAATTCAAGGCCAACGATATCAAACTTAAAGATGAAGATGCCAATGTGTTGATTCAA
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGTTGATTCAA
* * * * *
881420 GGCCAGCGACATT-GGACTTAAAGATGGTTAAGGTGC
66 GGCTAGCGACATTGGGTCTTAAAGATGATAAAGATGC
* * * * * *
881456 CAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGTTGATTCAA
* * * **
881521 GGCCAGCAACATT-GGTCTTAAAGATGACAAAGGCGC
66 GGCTAGCGACATTGGGTCTTAAAGATGATAAAGATGC
* * * *
881557 TAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTGCCAATATGTTGATT
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATG---AAGGTGCCAATGTGTTGATT
* *
881622 CAAGGCTAGCGATATT--G-------GA--CT--AG-TGC
63 CAAGGCTAGCGACATTGGGTCTTAAAGATGATAAAGATGC
* * * * * * * *
881648 CAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGTTGATTCAA
* * *
881712 GGCCAGCAATATTGGG-C-------T--T---G-TGC
66 GGCTAGCGACATTGGGTCTTAAAGATGATAAAGATGC
* * * * * *
881735 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGTTGATTCAA
* * *
881799 GGCCAACGATATTGGG-C-------T--T---G-TGC
66 GGCTAGCGACATTGGGTCTTAAAGATGATAAAGATGC
* * * * *
881822 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAGGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGTTGATTCAA
* * * * * * **
881887 GGCCAGTGACATT-AGACTTGAAGATGACAAAGGCGC
66 GGCTAGCGACATTGGGTCTTAAAGATGATAAAGATGC
* * * *
881923 CAATATGTTGATCCAAGGTCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGTTGATTCAA
* * ** *
881988 GGCCAGCAACATT-ACTCTTAAAGAT-A-AATG-TGC
66 GGCTAGCGACATTGGGTCTTAAAGATGATAAAGATGC
* * * * * * * *
882021 TAATATGCTGATTCTAGGCTAGCGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATTTAA
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGTTGATTCAA
* * * * *
882086 GGCCAACGACA-TCGGTCTTCAAGATG---AAGGTGC
66 GGCTAGCGACATTGGGTCTTAAAGATGATAAAGATGC
* * *
882119 CAATATGCTGATTCAAGGCTAGCGATATTGGGC-T-----T----GTGCCAATGTGTTGATTCAA
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGTTGATTCAA
* *
882174 GGCCAGCGACATT-GGTCTTAAAGAT-A-AATG-TGC
66 GGCTAGCGACATTGGGTCTTAAAGATGATAAAGATGC
* * * *
882207 CAATATGCTAATTCAAGGCCAGCAATATTGAACTTAGAAGA
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTA-AAGA
882248 AGATGCCACC
Statistics
Matches: 829, Mismatches: 119, Indels: 90
0.80 0.11 0.09
Matches are distributed among these distances:
87 160 0.19
88 103 0.12
89 5 0.01
91 36 0.04
92 3 0.00
95 1 0.00
96 2 0.00
97 4 0.00
98 192 0.23
99 43 0.05
100 9 0.01
101 236 0.28
102 2 0.00
103 1 0.00
104 32 0.04
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (102 bp):
CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGTTGATTCAA
GGCTAGCGACATTGGGTCTTAAAGATGATAAAGATGC
Found at i:881660 original size:39 final size:39
Alignment explanation
Indices: 881605--881852 Score: 163
Period size: 39 Copynumber: 5.9 Consensus size: 39
881595 GATGACAAAG
* *
881605 GTGCCAATATGTTGATTCAAGGCTAGCGATATTGGACTA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTA
* * * *
881644 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATT-G-------GACTA
* * *
881691 GGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTT
1 -GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTA
* * * *
881731 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATT-G-------GACTA
* * *
881778 GGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT
1 -GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTA
* * *
881818 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
881853 TCTTAAGGAT
Statistics
Matches: 166, Mismatches: 25, Indels: 36
0.73 0.11 0.16
Matches are distributed among these distances:
39 92 0.55
40 6 0.04
47 8 0.05
48 60 0.36
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTA
Found at i:881724 original size:87 final size:87
Alignment explanation
Indices: 881562--881892 Score: 482
Period size: 87 Copynumber: 3.7 Consensus size: 87
881552 GGCGCTAATA
* * * * *
881562 TGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTGCCAATATGTTGATTCAAGG
1 TGCTGATTCAAGGCCAACGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATATGCTGATTCAAGG
* * *
881627 CTAGCGATATTGGACTAGTGCCAATG
62 CCAGCGATATTGGGCTTGTGCCAATG
* *
881653 TGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAG
1 TGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAG
*
881718 CAATATTGGGCTTGTGCCAATG
66 CGATATTGGGCTTGTGCCAATG
*
881740 TGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAA
1 TGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAG
881805 CGATATTGGGCTTGTGCCAATG
66 CGATATTGGGCTTGTGCCAATG
* * *
881827 TGCTGATTCAAGGCCAACGACATTGGTCTTAAGGATGAAGGTGCCAATGTGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCCA
881892 G
65 G
881893 TGACATTAGA
Statistics
Matches: 222, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
87 163 0.73
88 30 0.14
89 1 0.00
90 2 0.01
91 26 0.12
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (87 bp):
TGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAG
CGATATTGGGCTTGTGCCAATG
Found at i:882221 original size:88 final size:88
Alignment explanation
Indices: 882067--882236 Score: 250
Period size: 88 Copynumber: 1.9 Consensus size: 88
882057 AAGATGAAGA
* * * *
882067 TGCCAATGTGCTGATTTAAGGCCAACGACATCGGTCTTCAAGATGAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATAAAGGTGCCAATATGCTAATT
* *
882132 CAAGGCTAGCGATATTGGGCTTG
66 CAAGGCCAGCAATATTGGGCTTG
* * * *
882155 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAATGTGCCAATATGCTAATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATAAAGGTGCCAATATGCTAATT
882220 CAAGGCCAGCAATATTG
66 CAAGGCCAGCAATATTG
882237 AACTTAGAAG
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 72 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (88 bp):
TGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATAAAGGTGCCAATATGCTAATT
CAAGGCCAGCAATATTGGGCTTG
Found at i:882401 original size:28 final size:26
Alignment explanation
Indices: 882361--882461 Score: 130
Period size: 28 Copynumber: 3.7 Consensus size: 26
882351 GAACTAAAGC
882361 CGGGGTTGGAGTATCCCCTCGAAAATAA
1 CGGGGTTGGAGTATCCCCT-G-AAATAA
*
882389 CGGGGTTGGAGTATCTCCAATGAAATAA
1 CGGGGTTGGAGTATC-CC-CTGAAATAA
*
882417 CGAGGTTGGAGTATCCCCAATGAAATAA
1 CGGGGTTGGAGTATCCCC--TGAAATAA
882445 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
882462 TGATTGTGAA
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
27 2 0.03
28 59 0.91
29 3 0.05
30 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (26 bp):
CGGGGTTGGAGTATCCCCTGAAATAA
Found at i:883210 original size:20 final size:19
Alignment explanation
Indices: 883159--883253 Score: 102
Period size: 20 Copynumber: 4.8 Consensus size: 19
883149 AAAATGCCTG
* *
883159 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AC
* *
883179 AATATATTGATACAATGAGC
1 AATGTATCGATACAATGA-C
883199 AATGTATCGATACAAT-AC
1 AATGTATCGATACAATGAC
883217 AAAATGTATCGATACAATGAAC
1 --AATGTATCGATACAATG-AC
883239 AATGTATCGATACAA
1 AATGTATCGATACAA
883254 ATTGTGAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.02
19 2 0.03
20 59 0.92
22 2 0.03
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAC
Found at i:883221 original size:40 final size:40
Alignment explanation
Indices: 883159--883253 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
883149 AAAATGCCTG
* ** * *
883159 AATGTATCGATACATTGTAAAATATATTGATACAATGAGC
1 AATGTATCGATACAATACAAAATATATCGATACAATGAAC
*
883199 AATGTATCGATACAATACAAAATGTATCGATACAATGAAC
1 AATGTATCGATACAATACAAAATATATCGATACAATGAAC
883239 AATGTATCGATACAA
1 AATGTATCGATACAA
883254 ATTGTGAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (40 bp):
AATGTATCGATACAATACAAAATATATCGATACAATGAAC
Found at i:886461 original size:33 final size:33
Alignment explanation
Indices: 886417--886482 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
886407 CGTTGGGCAT
* *
886417 ATGTATCGATACAAT-TCTTCGTGTATCGATACA
1 ATGTATCGATACAATATC-CCATGTATCGATACA
*
886450 ATGTATGGATACAATATCCCATGTATCGATACA
1 ATGTATCGATACAATATCCCATGTATCGATACA
886483 TTTCACTTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACAATATCCCATGTATCGATACA
Found at i:886551 original size:19 final size:20
Alignment explanation
Indices: 886511--886563 Score: 90
Period size: 19 Copynumber: 2.7 Consensus size: 20
886501 CTGCCGGTTT
886511 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAG
886531 CATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAG
*
886550 CATGTATTGATACA
1 CATGTATCGATACA
886564 TTGTATCGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:886569 original size:32 final size:33
Alignment explanation
Indices: 886533--886597 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
886523 CAATTGAGCA
* *
886533 TGTATCGATACAATG-AGCATGTATTGATACAT
1 TGTATCGATACAAAGCAGAATGTATTGATACAT
*
886565 TGTATCGATACAAAGCATAATGTATTGATACAT
1 TGTATCGATACAAAGCAGAATGTATTGATACAT
886598 ATGGGTGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAAAGCAGAATGTATTGATACAT
Found at i:887473 original size:37 final size:37
Alignment explanation
Indices: 887426--887508 Score: 166
Period size: 37 Copynumber: 2.2 Consensus size: 37
887416 AACAAAAATT
887426 ATAATAATGTCATTTGAATGGTATTAAGCTACGAATA
1 ATAATAATGTCATTTGAATGGTATTAAGCTACGAATA
887463 ATAATAATGTCATTTGAATGGTATTAAGCTACGAATA
1 ATAATAATGTCATTTGAATGGTATTAAGCTACGAATA
887500 ATAATAATG
1 ATAATAATG
887509 ATAGTGGACA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (37 bp):
ATAATAATGTCATTTGAATGGTATTAAGCTACGAATA
Found at i:902808 original size:16 final size:16
Alignment explanation
Indices: 902771--902802 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
902761 CCAAAAATAC
902771 CCTTTTGCATCCCATG
1 CCTTTTGCATCCCATG
902787 CCTTTTGCATCCCATG
1 CCTTTTGCATCCCATG
902803 GGTTTTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.38, G:0.12, T:0.38
Consensus pattern (16 bp):
CCTTTTGCATCCCATG
Found at i:908981 original size:23 final size:23
Alignment explanation
Indices: 908951--908994 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
908941 TAGCTTCGGT
*
908951 ATAAAATCATCTGCTAGGCAAGA
1 ATAAAATCATCAGCTAGGCAAGA
908974 ATAAAATCATCAGCTAGGCAA
1 ATAAAATCATCAGCTAGGCAA
908995 AGTTCTTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.20
Consensus pattern (23 bp):
ATAAAATCATCAGCTAGGCAAGA
Found at i:909825 original size:18 final size:18
Alignment explanation
Indices: 909802--909838 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
909792 CCTCCCTGAT
909802 ACGGAGGATTCTCCAGTG
1 ACGGAGGATTCTCCAGTG
909820 ACGGAGGATTCTCCAGTG
1 ACGGAGGATTCTCCAGTG
909838 A
1 A
909839 TTCCAGAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (18 bp):
ACGGAGGATTCTCCAGTG
Found at i:916962 original size:20 final size:19
Alignment explanation
Indices: 916939--916991 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
916929 TTCATGTGTC
*
916939 GATACAATTATGCATGTATT
1 GATACAATGAT-CATGTATT
*
916959 GATACAATGATCATGTATC
1 GATACAATGATCATGTATT
*
916978 GATGCAATGTATCA
1 GATACAATG-ATCA
916992 ATACAAAGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (19 bp):
GATACAATGATCATGTATT
Found at i:916975 original size:19 final size:19
Alignment explanation
Indices: 916930--916991 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 19
916920 ACTGCCAGTT
* *
916930 TCATGTGTCGATACAATTA
1 TCATGTATCGATACAATGA
*
916949 TGCATGTATTGATACAATGA
1 T-CATGTATCGATACAATGA
*
916969 TCATGTATCGATGCAATGTA
1 TCATGTATCGATACAATG-A
916989 TCA
1 TCA
916992 ATACAAAGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.44
20 20 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:917700 original size:80 final size:82
Alignment explanation
Indices: 917603--917768 Score: 273
Period size: 80 Copynumber: 2.0 Consensus size: 82
917593 TTATTGTTAT
* * *
917603 AAATTTTTTTTATTTCTTTCCCTTTGTCAAATGTTAAAAATTTATTTTC-AAAAAAAATTTCT-C
1 AAATTCTTTTTATTTCTTCCCCTTTGTCAAATGTCAAAAATTTATTTTCAAAAAAAAATTTCTCC
917666 ACTTTTTGTTATAGCAA
66 ACTTTTTGTTATAGCAA
917683 AAATTCTTTTTATTTCTTCCCCTTTGTCAAATGTCAAAAATTTATTTTCAAAAAAAAATTTCTCC
1 AAATTCTTTTTATTTCTTCCCCTTTGTCAAATGTCAAAAATTTATTTTCAAAAAAAAATTTCT-C
*
917748 CCCTTTTTGTTATAGCAA
65 CACTTTTTGTTATAGCAA
917766 AAA
1 AAA
917769 CGCAACCAAT
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
80 46 0.58
81 13 0.16
83 20 0.25
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.46
Consensus pattern (82 bp):
AAATTCTTTTTATTTCTTCCCCTTTGTCAAATGTCAAAAATTTATTTTCAAAAAAAAATTTCTCC
ACTTTTTGTTATAGCAA
Found at i:921091 original size:23 final size:23
Alignment explanation
Indices: 921043--921091 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
921033 ACTTATCAAT
* *
921043 AAAGTCAAAAGTCAACTAAAATC
1 AAAGTCAAAAGTCAAATAAAAAC
921066 AAAGTC-AAAGTCAAATATAAAAC
1 AAAGTCAAAAGTCAAATA-AAAAC
921089 AAA
1 AAA
921092 ATCTAAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.61, C:0.14, G:0.08, T:0.16
Consensus pattern (23 bp):
AAAGTCAAAAGTCAAATAAAAAC
Found at i:924700 original size:20 final size:21
Alignment explanation
Indices: 924675--924724 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 21
924665 TTAGGCATGC
924675 ATCGATACATT-CACTTA-TGT
1 ATCGATACATTGC-CTTATTGT
924695 ATCGATACATTGCCTTATTGT
1 ATCGATACATTGCCTTATTGT
924716 ATCGATACA
1 ATCGATACA
924725 AATTGTTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (21 bp):
ATCGATACATTGCCTTATTGT
Found at i:927095 original size:19 final size:19
Alignment explanation
Indices: 927067--927108 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
927057 ACTCATATTA
*
927067 AATTAGTTTT-TGAAATTTT
1 AATTAATTTTGTG-AATTTT
*
927086 AATTAATTTTGTGAGTTTT
1 AATTAATTTTGTGAATTTT
927105 AATT
1 AATT
927109 TTTTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (19 bp):
AATTAATTTTGTGAATTTT
Found at i:927257 original size:23 final size:23
Alignment explanation
Indices: 927210--927271 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 23
927200 TCATTTCCAA
*
927210 AATTTTGTTTATGATTATTAATTTT
1 AATTTTATTTAT--TTATTAATTTT
*
927235 AATTTTATTTATTTATTACTTTT
1 AATTTTATTTATTTATTAATTTT
927258 -ATTTTATTTTATTT
1 AATTTTA-TTTATTT
927272 TAATTGTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 6 0.18
23 17 0.50
25 11 0.32
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (23 bp):
AATTTTATTTATTTATTAATTTT
Found at i:928271 original size:17 final size:18
Alignment explanation
Indices: 928240--928282 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
928230 TGATATATTA
*
928240 CTATTTTTTGAATTTT-T
1 CTATTTTTTCAATTTTCT
*
928257 CTATTTTTTCTATTTTCT
1 CTATTTTTTCAATTTTCT
*
928275 CAATTTTT
1 CTATTTTT
928283 ATGGGCTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.16, C:0.12, G:0.02, T:0.70
Consensus pattern (18 bp):
CTATTTTTTCAATTTTCT
Found at i:929427 original size:156 final size:155
Alignment explanation
Indices: 929152--929639 Score: 608
Period size: 156 Copynumber: 3.1 Consensus size: 155
929142 GTTCTAATGC
** *
929152 AAAATTATCAAAATAT-CCC-TAGGGTATACCTTCGACGTAAAAGTA-CTAGGTAACCCAAATGG
1 AAAATTAT-AAAA-ATGCCCTTAGGGTATACCTTCGATATAAAAGTATCTAGGTAACCCTAATGG
* ** * * *
929214 ACACTAAAATGATCAT-AATGGGACGAACCTATCCTAAATACACACCTTTGGCATAAAAGCATCT
64 ACACTAAAATGATCATAAATAGGATAAACCTATCCTAAATGCACACC-TTAGCATAAAAGCATCA
* * *
929278 TGGTGACAACCTAGAACTCGATTCTAAA
128 TGGTGACAACATAGGACTCGGTTCTAAA
*
929306 AAAATTATAAAAATGCCCTTAGGATATACCTTCGATATAAAAGTATCTAGGTAACCCTAATGGAC
1 AAAATTATAAAAATGCCCTTAGGGTATACCTTCGATATAAAAGTATCTAGGTAACCCTAATGGAC
* *
929371 ACTAAAATAATCATAAATATGATAAACCTATCCTAAATGCACACCTTCAGCATAAAAGCATCATG
66 ACTAAAATGATCATAAATAGGATAAACCTATCCTAAATGCACACCTT-AGCATAAAAGCATCATG
* *
929436 GTGACAACTTAGGACTCGGTTCTAGGA
130 GTGACAACATAGGACTCGGTTCTA-AA
* * * * * *
929463 AAAA-TATGAAAATGCCCTTAGGGTATACCTTCGATATGAAAGTATCTCGGTAACCTTAATAGAT
1 AAAATTATAAAAATGCCCTTAGGGTATACCTTCGATATAAAAGTATCTAGGTAACCCTAATGGAC
* * * * * *
929527 ACTAAAAGGATCATAAATAGGATAAACCAATCCCAAATGCACATCTTTGACATAAAAGCATCCTG
66 ACTAAAATGATCATAAATAGGATAAACCTATCCTAAATGCACACCTTAG-CATAAAAGCATCATG
*
929592 GTGACAACATAGGACTCAGGTTCTAAG
130 GTGACAACATAGGACTC-GGTTCTAAA
929619 AAAATTATAAAAATGCCCTTA
1 AAAATTATAAAAATGCCCTTA
929640 CCTTCAACAT
Statistics
Matches: 290, Mismatches: 35, Indels: 15
0.85 0.10 0.04
Matches are distributed among these distances:
152 2 0.01
153 7 0.02
154 31 0.11
155 34 0.12
156 189 0.65
157 27 0.09
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (155 bp):
AAAATTATAAAAATGCCCTTAGGGTATACCTTCGATATAAAAGTATCTAGGTAACCCTAATGGAC
ACTAAAATGATCATAAATAGGATAAACCTATCCTAAATGCACACCTTAGCATAAAAGCATCATGG
TGACAACATAGGACTCGGTTCTAAA
Found at i:930656 original size:165 final size:163
Alignment explanation
Indices: 930200--930739 Score: 682
Period size: 165 Copynumber: 3.3 Consensus size: 163
930190 AGTCAAAAGG
930200 AAGATTCGGCCAAGTAAC-TTTGGCCTTGGAACAAAATTTTCAATATTTACACTTAAAT-TCTTA
1 AAGATTCGGCCAAGT-ACTTTTGGCCTTGGAACAAAATTTTCAATATTTACACTTAAATCTC-TA
* * * * **
930263 AACTTTCTACAATTACAAATTGGTCCCTATATAATTAAAACACAAAA--ACATA-AAAGATATTG
64 AACTTTCTAAAATTATAAATTGGTCCCTATATAATTAAAACACAAAATTAAATATAAACATATCA
*
930325 AAATCTACACAAAAATTAGATCCAAAAATTACAAA
129 AAATCAACACAAAAATTAGATCCAAAAATTACAAA
* * * *
930360 AAGATTTGGCCAAGTATTTTTGGCCTAGGAACAAAATTTTCAATATTTACATTTAAATCTCTAAA
1 AAGATTCGGCCAAGTACTTTTGGCCTTGGAACAAAATTTTCAATATTTACACTTAAATCTCTAAA
** * * *
930425 CTTT-TAAAATTATAAATTGGTCATTGTATAATTAAGACATAAAATTAAATATCAAACATATCAA
66 CTTTCTAAAATTATAAATTGGTCCCTATATAATTAAAACACAAAATTAAATAT-AAACATATCAA
* *
930489 AATCCATACAAAAATTAGATCCAAAAATTACAATA
130 AATCAACACAAAAATTAGATCCAAAAATTACAA-A
* * * * *
930524 AAGATTCGACCTAGTACTTTTGGCATTGGAATAAAATTTTCAACATTTACACTTAAATCTCTAAA
1 AAGATTCGGCCAAGTACTTTTGGCCTTGGAACAAAATTTTCAATATTTACACTTAAATCTCTAAA
* *
930589 CTTTCTAAAATTATAAATTGATCCCTATATAATTAAAACACAAAATTAAATATTGAACATATCAA
66 CTTTCTAAAATTATAAATTGGTCCCTATATAATTAAAACACAAAATTAAATA-TAAACATATCAA
* * *
930654 AATGAACACAAAAATTTGATCAAAAAATTACAAGA
130 AATCAACACAAAAATTAGATCCAAAAATTACAA-A
* *
930689 AAGATTTGGCCAA-TCACCTTTGGCCTAT-GAACAAAATTTTCAATATTTACA
1 AAGATTCGGCCAAGT-ACTTTTGGCCT-TGGAACAAAATTTTCAATATTTACA
930740 AATTTGCCTT
Statistics
Matches: 323, Mismatches: 46, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
159 34 0.11
160 60 0.19
161 6 0.02
163 39 0.12
164 62 0.19
165 120 0.37
166 2 0.01
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (163 bp):
AAGATTCGGCCAAGTACTTTTGGCCTTGGAACAAAATTTTCAATATTTACACTTAAATCTCTAAA
CTTTCTAAAATTATAAATTGGTCCCTATATAATTAAAACACAAAATTAAATATAAACATATCAAA
ATCAACACAAAAATTAGATCCAAAAATTACAAA
Found at i:932856 original size:13 final size:13
Alignment explanation
Indices: 932838--932863 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
932828 CAATTTTTTG
932838 TGTATCGATACAT
1 TGTATCGATACAT
932851 TGTATCGATACAT
1 TGTATCGATACAT
932864 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:932875 original size:32 final size:33
Alignment explanation
Indices: 932818--932881 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
932808 TACAAGCCAA
**
932818 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
932851 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
932882 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:935446 original size:13 final size:13
Alignment explanation
Indices: 935428--935465 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
935418 ATAATCCCCC
*
935428 TGTATCGATATAG
1 TGTATCGATACAG
*
935441 TGTATCGATACAT
1 TGTATCGATACAG
935454 TGTATCGATACA
1 TGTATCGATACA
935466 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:941648 original size:20 final size:20
Alignment explanation
Indices: 941623--941674 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
941613 TACAAGCCAA
**
941623 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
941643 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
941662 TGTATCGATACAA
1 TGTATCGATACAA
941675 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:944385 original size:28 final size:28
Alignment explanation
Indices: 943980--944375 Score: 452
Period size: 28 Copynumber: 13.7 Consensus size: 28
943970 AGGCTTTGAA
* *
943980 GCCACCGACTTGTATGGGCTTTGAAAGAAT
1 GCCACTGACTTG--TGGGCTTTGAAAGGAT
944010 GCCACTGACTTGTGGGCTTTGAAAGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
*
944038 GCCACTAACTTGTGGGCTTTG-AAGAGAT
1 GCCACTGACTTGTGGGCTTTGAAAG-GAT
*
944066 GCCACTGATTTGTGTGGGCTTTGAGAAGGAT
1 GCCACTGA-CT-TGTGGGCTTTGA-AAGGAT
*
944097 GCCATTGACTTGTGGGCTTTGAAAGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
* *
944125 GCCACTAACTTGTGGGCTTTGAAATGGGTT
1 GCCACTGACTTGTGGGCTTTGAAA--GGAT
** * *
944155 GCTGCTGACTTGTGTGGGCTTAGAAATGAGTT
1 GCCACTGAC-T-TGTGGGCTTTGAAA-G-GAT
* *
944187 GCCACCGACTTGTGTGGGCTTTGAAATGAT
1 GCCACTGAC-T-TGTGGGCTTTGAAAGGAT
* *
944217 GCCACTGACTTGTGGGGTTTGAAATGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
* * *
944245 GCCATTAACTTGTGGGCTTTGAATGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
*
944273 GCCACTGACTTGTGGGCTTTGAAATGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
* *
944301 GCCACTAACTTGTGGGCTTTGAAGGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
* *
944329 GCCACTAACTTATGGGCTTTGAAAGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
944357 GCCACTGACTTGTGGGCTT
1 GCCACTGACTTGTGGGCTT
944376 CGAAGAGATG
Statistics
Matches: 317, Mismatches: 39, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
27 3 0.01
28 205 0.65
29 14 0.04
30 42 0.13
31 12 0.04
32 41 0.13
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (28 bp):
GCCACTGACTTGTGGGCTTTGAAAGGAT
Found at i:945647 original size:18 final size:18
Alignment explanation
Indices: 945626--945673 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
945616 TCTGGACCCA
*
945626 TTTTTTGTTTGTTTG-TTT
1 TTTTTTGTTT-TTGGTTTT
945644 TTTTTTGTTTTTGGTTTT
1 TTTTTTGTTTTTGGTTTT
945662 TTTTTTGTTTTT
1 TTTTTTGTTTTT
945674 TTTCTTGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 3 0.11
18 25 0.89
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (18 bp):
TTTTTTGTTTTTGGTTTT
Found at i:945663 original size:9 final size:8
Alignment explanation
Indices: 945626--945714 Score: 58
Period size: 8 Copynumber: 10.8 Consensus size: 8
945616 TCTGGACCCA
945626 TTTTTTGT
1 TTTTTTGT
*
945634 TTGTTTGT
1 TTTTTTGT
945642 TTTTTT-T
1 TTTTTTGT
945649 TGTTTTTGGT
1 T-TTTTT-GT
945659 TTTTTT-T
1 TTTTTTGT
945666 TTGTTTT-T
1 TT-TTTTGT
*
945674 TTTCTTGGT
1 TTT-TTTGT
*
945683 TTTTTTAAT
1 TTTTTT-GT
*
945692 TTTTTTAAT
1 TTTTTT-GT
*
945701 TTTTTTAT
1 TTTTTTGT
945709 TTTTTT
1 TTTTTT
945715 TGTACGAAGG
Statistics
Matches: 69, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
7 6 0.09
8 36 0.52
9 25 0.36
10 2 0.03
ACGTcount: A:0.06, C:0.01, G:0.10, T:0.83
Consensus pattern (8 bp):
TTTTTTGT
Found at i:945666 original size:12 final size:12
Alignment explanation
Indices: 945645--945688 Score: 63
Period size: 13 Copynumber: 3.6 Consensus size: 12
945635 TGTTTGTTTT
945645 TTTTTGTTTTTGG
1 TTTTT-TTTTTGG
945658 TTTTTTTTTT-G
1 TTTTTTTTTTGG
945669 TTTTTTTTCTTGG
1 TTTTTTTT-TTGG
945682 TTTTTTT
1 TTTTTTT
945689 AATTTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 9 0.31
12 7 0.24
13 13 0.45
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTTGG
Found at i:945672 original size:24 final size:22
Alignment explanation
Indices: 945626--945715 Score: 74
Period size: 24 Copynumber: 3.7 Consensus size: 22
945616 TCTGGACCCA
945626 TTTTTT-GTTTGTTTGTTTTTTTT
1 TTTTTTGGTTT-TTT-TTTTTTTT
945649 TGTTTTTGGTTTTTTTTTTGTTTT
1 T-TTTTTGGTTTTTTTTTT-TTTT
945673 TTTTCTTGGTTTTTTTAATTTTTTT
1 TTTT-TTGGTTTTTTT--TTTTTTT
**
945698 AATTTTTTTATTTTTTTT
1 --TTTTTTGGTTTTTTTT
945716 GTACGAAGGA
Statistics
Matches: 57, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
23 8 0.14
24 25 0.44
25 8 0.14
26 12 0.21
27 4 0.07
ACGTcount: A:0.06, C:0.01, G:0.10, T:0.83
Consensus pattern (22 bp):
TTTTTTGGTTTTTTTTTTTTTT
Found at i:945687 original size:32 final size:32
Alignment explanation
Indices: 945626--945686 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
945616 TCTGGACCCA
* *
945626 TTTTTTGTTTGTTTGTTTTTTTTTGTTTTTGG
1 TTTTTTGTTTGTTTGTTTTTCTTGGTTTTTGG
*
945658 TTTTTTTTTTGTTT-TTTTTCTTGGTTTTT
1 TTTTTTGTTTGTTTGTTTTTCTTGGTTTTT
945687 TTAATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 13 0.50
32 13 0.50
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.84
Consensus pattern (32 bp):
TTTTTTGTTTGTTTGTTTTTCTTGGTTTTTGG
Found at i:945715 original size:9 final size:9
Alignment explanation
Indices: 945642--945715 Score: 51
Period size: 9 Copynumber: 7.9 Consensus size: 9
945632 GTTTGTTTGT
*
945642 TTTTTTTTG
1 TTTTTTTTA
945651 TTTTTGGTTT-
1 TTTTT--TTTA
*
945661 TTTTTTTGTT
1 TTTTTTT-TA
*
945671 TTTTTTCTTG
1 TTTTTT-TTA
*
945681 GTTTTTTTA
1 TTTTTTTTA
*
945690 ATTTTTTTA
1 TTTTTTTTA
*
945699 ATTTTTTTA
1 TTTTTTTTA
945708 TTTTTTTT
1 TTTTTTTT
945716 GTACGAAGGA
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
8 2 0.04
9 32 0.58
10 17 0.31
11 4 0.07
ACGTcount: A:0.07, C:0.01, G:0.08, T:0.84
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:957100 original size:27 final size:27
Alignment explanation
Indices: 957062--957129 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
957052 TGAAAAACGA
957062 GGTTGGAGTATCCCCTCGGAGGAATAG
1 GGTTGGAGTATCCCCTCGGAGGAATAG
*
957089 GGTTGGAGTATCCCCTCGGAGGAATGG
1 GGTTGGAGTATCCCCTCGGAGGAATAG
957116 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
957130 GACGATGACA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.19, C:0.19, G:0.38, T:0.24
Consensus pattern (27 bp):
GGTTGGAGTATCCCCTCGGAGGAATAG
Found at i:963145 original size:20 final size:20
Alignment explanation
Indices: 963120--963197 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
963110 GTAAAAAGAT
963120 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
963140 AGAATGTATTGATACATTCA
1 AGAATGTATCGATACATTGA
* *
963160 TA-CATGTATCGACACATTGA
1 -AGAATGTATCGATACATTGA
963180 AGAATGTATCGATACATT
1 AGAATGTATCGATACATT
963198 TTGGTAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:964597 original size:154 final size:150
Alignment explanation
Indices: 964385--964969 Score: 461
Period size: 154 Copynumber: 3.8 Consensus size: 150
964375 AAAAAATGTG
* ** * * *
964385 AAACTCATAAAATAAATT-AAAATTTCACAATTAATTTAATATGAATTTAATAAAAATATTTGAT
1 AAACTAATAAAATAAATTGAATTTTTCAAAATTGATTTAATATGAA-TTAA-AAAAATATTTGAA
* *
964449 GAATTTTAAAAATTTTAAATTGAGAAAAATTC-AACGAAAGAAATTTACAAAGTAAAAAACTCTA
64 GAATTTTAAAAATTATAAATT-AGAAAAATCCTAACG--AGAAATTTACAAAGTAAAAAACTCTA
*
964513 TATGTTGGA-AATA-AAAGAAATT-CT
126 TAT-TTCGATAATAGAAA-AAATTCCT
*
964537 AAAACTAATAAAATAAATTGAATTTTTCAAAATTGATTTAACATGAATTAGAAAACAATATTTGA
1 -AAACTAATAAAATAAATTGAATTTTTCAAAATTGATTTAATATGAATTA-AAAA-AATATTTGA
** * * ** *
964602 AGAATTTTGGATATTATAAATTTA-AAAAGTCCTTTCGAGAAATTTACATAGTAAAAAACTCTAT
63 AGAATTTTAAAAATTATAAA-TTAGAAAAATCCTAACGAGAAATTTACAAAGTAAAAAACTCTAT
*
964666 ATTTCGATAATAGGAAAAATTCCT
127 ATTTCGATAATAGAAAAAATTCCT
* * * * * *
964690 ATACTTATCAAATGAATTGAATTTTTTAAAATTGATTTAATATGAATTAAACAATAATATTTAAA
1 AAACTAATAAAATAAATTGAATTTTTCAAAATTGATTTAATATGAATTAAA-AA-AATATTTGAA
* * **
964755 GAATTTTAAAAATTATAAACTTAG-AAAATCCTACCGGAGAAATTTTACGACTTAAAAAACT-TC
64 GAATTTTAAAAATTATAAA-TTAGAAAAATCCTAAC-GAGAAA-TTTACAAAGTAAAAAACTCT-
** * * * *
964818 GCATCTCGATAACA-AGAAAATTTCT
125 ATATTTCGATAATAGAAAAAATTCCT
* * * * * * *
964843 AAAACTTATAAAATAAATTAAAATTTTCTAAACT-ATTCTAATATGAATTAAGCAATAATATTTA
1 -AAACTAATAAAATAAATTGAATTTTTCAAAATTGATT-TAATATGAATTAA--AAAAATATTTG
* * * * * * *
964907 AAGAATTTTGAATATTATAAACTTACAAAAATCTTATCGGAGAAATTTATAAAGTAGAAAACT
62 AAGAATTTTAAAAATTATAAA-TTAGAAAAATCCTAAC-GAGAAATTTACAAAGTAAAAAACT
964970 TCGTATTTTG
Statistics
Matches: 351, Mismatches: 63, Indels: 35
0.78 0.14 0.08
Matches are distributed among these distances:
151 6 0.02
152 118 0.34
153 51 0.15
154 156 0.44
155 19 0.05
156 1 0.00
ACGTcount: A:0.49, C:0.09, G:0.08, T:0.34
Consensus pattern (150 bp):
AAACTAATAAAATAAATTGAATTTTTCAAAATTGATTTAATATGAATTAAAAAAATATTTGAAGA
ATTTTAAAAATTATAAATTAGAAAAATCCTAACGAGAAATTTACAAAGTAAAAAACTCTATATTT
CGATAATAGAAAAAATTCCT
Found at i:964686 original size:152 final size:151
Alignment explanation
Indices: 964487--964969 Score: 494
Period size: 154 Copynumber: 3.2 Consensus size: 151
964477 ATTCAACGAA
* * *
964487 AGAAATTTACAAAGTAAAAAACTCTATATGTTGGA-AATAAAAGAAATTCTAAAACTAATAAAAT
1 AGAAATTTACAAAGTAAAAAACTCTATAT-TTCGATAATAGAA-AAATTCTAAAACTTATAAAAT
* * * *
964551 AAATTGAATTTTTCAAAATTGATTTAACATGAATTAGAAAACAATATTTGAAGAATTTTGGATAT
64 AAATTGAATTTTTCAAAATTGATTTAATATGAATTA-AAAATAATATTTAAAGAATTTTGAATAT
*
964616 TATAAATTTA-AAAAGTCCTTTC-G
128 TATAAACTTACAAAA-TCCTTTCGG
* * *
964639 AGAAATTTACATAGTAAAAAACTCTATATTTCGATAATAGGAAAAATTCCT-ATACTTATCAAAT
1 AGAAATTTACAAAGTAAAAAACTCTATATTTCGATAATA-GAAAAATT-CTAAAACTTATAAAAT
* * * *
964703 GAATTGAATTTTTTAAAATTGATTTAATATGAATTAAACAATAATATTTAAAGAATTTTAAAAAT
64 AAATTGAATTTTTCAAAATTGATTTAATATGAATTAAA-AATAATATTTAAAGAATTTTGAATAT
* **
964768 TATAAACTTAGAAAATCCTACCGG
128 TATAAACTTACAAAATCCTTTCGG
* ** ** * * *
964792 AGAAATTTTACGACTTAAAAAACT-TCGCATCTCGATAACAAGAAAATTTCTAAAACTTATAAAA
1 AGAAA-TTTACAAAGTAAAAAACTCT-ATATTTCGATAA-TAGAAAAATTCTAAAACTTATAAAA
* * * * *
964856 TAAATTAAAATTTTCTAAACT-ATTCTAATATGAATTAAGCAATAATATTTAAAGAATTTTGAAT
63 TAAATTGAATTTTTCAAAATTGATT-TAATATGAATTAA-AAATAATATTTAAAGAATTTTGAAT
964920 ATTATAAACTTACAAAAAT-CTTATCGG
126 ATTATAAACTTAC-AAAATCCTT-TCGG
* *
964947 AGAAATTTATAAAGTAGAAAACT
1 AGAAATTTACAAAGTAAAAAACT
964970 TCGTATTTTG
Statistics
Matches: 272, Mismatches: 45, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
151 6 0.02
152 115 0.42
153 20 0.07
154 117 0.43
155 14 0.05
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (151 bp):
AGAAATTTACAAAGTAAAAAACTCTATATTTCGATAATAGAAAAATTCTAAAACTTATAAAATAA
ATTGAATTTTTCAAAATTGATTTAATATGAATTAAAAATAATATTTAAAGAATTTTGAATATTAT
AAACTTACAAAATCCTTTCGG
Found at i:965010 original size:154 final size:153
Alignment explanation
Indices: 964727--965010 Score: 329
Period size: 154 Copynumber: 1.8 Consensus size: 153
964717 AAAATTGATT
*
964727 TAATATGAATTAAACAATAATATTTAAAGAATTTTAAAAATTATAAACTTAGAAAATCCTACCGG
1 TAATATGAATTAAACAATAATATTTAAAGAATTTTAAAAATTATAAACTTAAAAAATCCTACCGG
** * ** * ** *
964792 AGAAATTTTACGACTTAAAAAACTTCGCATCTCGATAACAAGAAAATTTCTAAAACTTATAAAAT
66 AGAAATTTTAC-AAGTAAAAAACTTCGCATCTCGAAAACAAGAAAAACTCAAAAAAATACAAAAT
964857 AAATTAAAATTTTCTAAACTATTC
130 AAATTAAAATTTTCTAAACTATTC
* * * * *
964881 TAATATGAATTAAGCAATAATATTTAAAGAATTTTGAATATTATAAACTTACAAAAATCTTATCG
1 TAATATGAATTAAACAATAATATTTAAAGAATTTTAAAAATTATAAACTTA-AAAAATCCTACCG
* * * * * *
964946 GAGAAATTTATA-AAGTAGAAAACTTCGTATTTTGAAAATAA-AAAAACTGAAAGAAAATACAAA
65 GAGAAATTT-TACAAGTAAAAAACTTCGCATCTCGAAAACAAGAAAAACTCAAA-AAAATACAAA
965009 AT
128 AT
965011 TTATAAAATA
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
153 7 0.07
154 78 0.74
155 19 0.18
156 2 0.02
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.32
Consensus pattern (153 bp):
TAATATGAATTAAACAATAATATTTAAAGAATTTTAAAAATTATAAACTTAAAAAATCCTACCGG
AGAAATTTTACAAGTAAAAAACTTCGCATCTCGAAAACAAGAAAAACTCAAAAAAATACAAAATA
AATTAAAATTTTCTAAACTATTC
Found at i:966627 original size:154 final size:153
Alignment explanation
Indices: 966337--966663 Score: 373
Period size: 154 Copynumber: 2.1 Consensus size: 153
966327 TATTTCTTAC
*
966337 ACTTTCATGTCAAAGGTATACCCCAAGGGTATTTTGATAATTTTCCTAAAACCTAAGTCCGATGT
1 ACTTTCATGTCAAAGGTATACCCCAAGGATATTTTGATAATTTTCCTAAAACCTAAGTCCGATGT
966402 AGTCATCGAGATGCTTTTATACCAAAGATGTGCATTTAAGATAGGTTAACCCTCTTTATTATTTG
66 AGTCATCGAGATGCTTTTATACCAAAGATGTG-ATTTAAGATAGGTTAACCCTCTTTATTATTTG
*
966467 TTAATCCTTTA-GGCTAACTAAGAT
130 TGAATCCTTTAGGGCTAACT-AGAT
* * * * **
966491 ACTTTCATTTCAAAGGTATACCCCAAGGATATTTTGATAATTTTTCTAGAATCT-AGTCTTA-GA
1 ACTTTCATGTCAAAGGTATACCCCAAGGATATTTTGATAATTTTCCTAAAACCTAAGTCCGATG-
* * *
966554 TAGTCATTGGGATGCTTTTATACCAAATGTATGTG-TTTAGGATAGGGTT-A-CCT-TTTATGTT
65 TAGTCATCGAGATGCTTTTATACCAAA-G-ATGTGATTTAAGATA-GGTTAACCCTCTTTA--TT
* *
966615 CATTT-TGGAATCCTTTAGGGTTACCTAGAT
125 -ATTTGT-GAATCCTTTAGGGCTAACTAGAT
* *
966645 ACTTTCATGTTAAAAGTAT
1 ACTTTCATGTCAAAGGTAT
966664 CTCATAAGGC
Statistics
Matches: 148, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
151 4 0.03
152 4 0.03
153 42 0.28
154 87 0.59
155 11 0.07
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (153 bp):
ACTTTCATGTCAAAGGTATACCCCAAGGATATTTTGATAATTTTCCTAAAACCTAAGTCCGATGT
AGTCATCGAGATGCTTTTATACCAAAGATGTGATTTAAGATAGGTTAACCCTCTTTATTATTTGT
GAATCCTTTAGGGCTAACTAGAT
Found at i:966831 original size:18 final size:17
Alignment explanation
Indices: 966805--966840 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
966795 GGATACCTTT
*
966805 TTAATATTTTTAATAAAA
1 TTAAAATTTTTAA-AAAA
966823 TTAAAATTTTTAAAAAA
1 TTAAAATTTTTAAAAAA
966840 T
1 T
966841 CAAAGCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAAAATTTTTAAAAAA
Found at i:968339 original size:18 final size:18
Alignment explanation
Indices: 968316--968350 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
968306 CTTTTTTCCA
* *
968316 TTATTTTTATACTTTTAT
1 TTATTTGTATAATTTTAT
968334 TTATTTGTATAATTTTA
1 TTATTTGTATAATTTTA
968351 ATATCTTGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (18 bp):
TTATTTGTATAATTTTAT
Found at i:970530 original size:31 final size:31
Alignment explanation
Indices: 970493--970577 Score: 161
Period size: 31 Copynumber: 2.7 Consensus size: 31
970483 CATGGATGCA
970493 AATAATCATCACAAGGAAAACATGTTAGTAG
1 AATAATCATCACAAGGAAAACATGTTAGTAG
*
970524 AATAATCATCACAAGGAAAACATGTTCGTAG
1 AATAATCATCACAAGGAAAACATGTTAGTAG
970555 AATAATCATCACAAGGAAAACAT
1 AATAATCATCACAAGGAAAACAT
970578 ACTAGTAAGA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 53 1.00
ACGTcount: A:0.49, C:0.15, G:0.14, T:0.21
Consensus pattern (31 bp):
AATAATCATCACAAGGAAAACATGTTAGTAG
Found at i:973446 original size:52 final size:51
Alignment explanation
Indices: 973379--973492 Score: 138
Period size: 51 Copynumber: 2.2 Consensus size: 51
973369 CGATACATTA
* * * *
973379 AAGAATGTATCGATACATTTGGGTCAAAAACCCAGAATGTGCCAATACGATG
1 AAGAATATATCGATACATTTGGATC-AAAACCCAGAATATACCAATACGATG
* * * *
973431 AAGAATATATTGATACATTTGGATCAAAGCCTAGAATATATCAATACGATG
1 AAGAATATATCGATACATTTGGATCAAAACCCAGAATATACCAATACGATG
*
973482 AAGAATGTATC
1 AAGAATATATC
973493 ATTAAATTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
51 30 0.58
52 22 0.42
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.26
Consensus pattern (51 bp):
AAGAATATATCGATACATTTGGATCAAAACCCAGAATATACCAATACGATG
Found at i:973565 original size:20 final size:21
Alignment explanation
Indices: 973540--973590 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
973530 AAAGGTCCAA
973540 TATCAATACATTCACTT-ATG
1 TATCAATACATTCACTTGATG
*
973560 TATCAATACATTCACTTGTTG
1 TATCAATACATTCACTTGATG
*
973581 TATCGATACA
1 TATCAATACA
973591 AATTGTAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (21 bp):
TATCAATACATTCACTTGATG
Found at i:978615 original size:20 final size:20
Alignment explanation
Indices: 978590--978627 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
978580 GAATGTACAT
978590 AGATTATCAGGACCTAATCA
1 AGATTATCAGGACCTAATCA
978610 AGATTATCAGGACCTAAT
1 AGATTATCAGGACCTAAT
978628 GAAGCGAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (20 bp):
AGATTATCAGGACCTAATCA
Found at i:979670 original size:62 final size:62
Alignment explanation
Indices: 979543--980102 Score: 649
Period size: 62 Copynumber: 9.1 Consensus size: 62
979533 TATGGGCTAA
* * * * * *
979543 TTTTCAAAGCCCATACAAGTTGGTGGCA-TCTTTTGTCCTCAAATAGCAGGACGCCTTTTGC
1 TTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTC
* *
979604 TTTTCAAAACCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCATGATGCCTTTTTC
1 TTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTC
* ** * * *
979666 TTTTCAAGGCCCACATGAGTTAGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCTTTTTTA
1 TTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTC
* * * * * * **
979728 TTTTTAAGGCCCACACGAGTTGGTGGCACCCTTTAGTCCTTAAAAAGTAGGATATCTTTTTC
1 TTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTC
* * * * *
979790 TTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTTGTCCTTAAAGAGCAAGACGCATTTTTC
1 TTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTC
* * * * *
979852 TTTTAAAAGCCCACACGAGTTGGTGGCACTCTTTAGTCCTTAAAGAGTAGGATGCCTTTTTC
1 TTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTC
* * * *
979914 TTTTCAAAGCCCATACAAGTTGATGGCA-CCTTTTGTCCTCAAAGAGCAAGATGCCTTTTTC
1 TTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTC
* * * * * **
979975 TTTTCAAAGCCCAAACGAA-TTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGACGTTTTTTTC
1 TTTTCAAAGCCCACAC-AAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTC
* * * ** *
980037 TTTTCAAAGCCCACACAAGTTGGTGGCATCCTTTTGTCTTCAAAGAGCAGGGCGCCTTCTTC
1 TTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTC
980099 TTTT
1 TTTT
980103 TCTTTTGTCC
Statistics
Matches: 422, Mismatches: 73, Indels: 7
0.84 0.15 0.01
Matches are distributed among these distances:
61 79 0.19
62 343 0.81
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (62 bp):
TTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTC
Found at i:980102 original size:247 final size:247
Alignment explanation
Indices: 979543--980102 Score: 752
Period size: 247 Copynumber: 2.3 Consensus size: 247
979533 TATGGGCTAA
* * *
979543 TTTTCAAAGCCCATACAAGTTGGTGGCAT-CTTTTGTCCTCAAATAGCAGGACGCCTTTTGCTTT
1 TTTTCAAAGCCCACACAAGTTGGTGGCATCCTTTTGTCTTCAAAGAGCAGGACGCCTTTT-CTTT
*
979607 TCAAAACCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCATGATGCCTTTTTCTTTTCA
65 TCAAAACCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCA
* ** * * * *
979672 AGGCCCACATGAGTTAGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCTTTTTTATTTTTAAGG
130 AAGCCCACACAAGTTAGTGGCACCCTTTAGTCCTCAAAGAGCAAGATGCCTTTTTATTTTCAAAG
* * * * * *
979737 CCCACACGAGTTGGTGGCACCCTTTAGTCCTTAAAAAGTAGGATATCTTTTTC
195 CCCAAACGAATTGGTGGCACCCTTTAGTCCTCAAAAAGCAAGACATCTTTTTC
* * *
979790 TTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTTGTCCTT-AAAGAGCAAGACGCATTTTTCTT
1 TTTTCAAAGCCCACACAAGTTGGTGGCATCCTTTTGT-CTTCAAAGAGCAGGACGC-CTTTTCTT
* * * *
979854 TT-AAAAGCCCACACGAGTTGGTGGCACTCTTTAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTT
64 TTCAAAA-CCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTT
* * *
979918 CAAAGCCCATACAAGTT-GATGGCA-CCTTTTGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTCA
128 CAAAGCCCACACAAGTTAG-TGGCACCCTTTAGTCCTCAAAGAGCAAGATGCCTTTTTATTTTCA
* * *
979981 AAGCCCAAACGAATTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGACGTTTTTTTC
192 AAGCCCAAACGAATTGGTGGCACCCTTTAGTCCTCAAAAAGCAAGACATCTTTTTC
*
980037 TTTTCAAAGCCCACACAAGTTGGTGGCATCCTTTTGTCTTCAAAGAGCAGGGCGCCTTCTTCTTT
1 TTTTCAAAGCCCACACAAGTTGGTGGCATCCTTTTGTCTTCAAAGAGCAGGACGCCTT-TTCTTT
980102 T
65 T
980103 TCTTTTGTCC
Statistics
Matches: 272, Mismatches: 34, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
246 5 0.02
247 167 0.61
248 94 0.35
249 6 0.02
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (247 bp):
TTTTCAAAGCCCACACAAGTTGGTGGCATCCTTTTGTCTTCAAAGAGCAGGACGCCTTTTCTTTT
CAAAACCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAA
AGCCCACACAAGTTAGTGGCACCCTTTAGTCCTCAAAGAGCAAGATGCCTTTTTATTTTCAAAGC
CCAAACGAATTGGTGGCACCCTTTAGTCCTCAAAAAGCAAGACATCTTTTTC
Found at i:980383 original size:33 final size:33
Alignment explanation
Indices: 980346--980412 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
980336 TTCAACGATC
980346 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
980379 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
980412 T
1 T
980413 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:980384 original size:13 final size:13
Alignment explanation
Indices: 980366--980390 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
980356 CATAAAATGT
980366 TGTATCGATACAA
1 TGTATCGATACAA
980379 TGTATCGATACA
1 TGTATCGATACA
980391 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:980453 original size:13 final size:13
Alignment explanation
Indices: 980435--980459 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
980425 CAAAAAAAAA
980435 TGTATCGATACAT
1 TGTATCGATACAT
980448 TGTATCGATACA
1 TGTATCGATACA
980460 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:980596 original size:52 final size:52
Alignment explanation
Indices: 980468--980587 Score: 222
Period size: 52 Copynumber: 2.3 Consensus size: 52
980458 CACTGATCTT
*
980468 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
980520 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
980572 TGTATCGATACATGCA
1 TGTATCGATACATGCA
980588 AATAAATTTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:983804 original size:85 final size:84
Alignment explanation
Indices: 983689--983901 Score: 259
Period size: 85 Copynumber: 2.5 Consensus size: 84
983679 GAGTAGGATG
* * *
983689 CACTTTATTTCCTTTTTTTTCCTTTGTCCTCAAAGAGCAGGGCACATTTCA-TTCTCTTTT-TCC
1 CACTTCATTTCC--TTTTTTCCTTTATCCTCAAAGAGCAGGACACATTTCATTTC-CTTTTCTCC
983752 TTTATCCTCAAAAAGCAAGACA
63 TTTATCCTCAAAAAGCAAGACA
* * *
983774 CATTTCATTTCCTTCTTTTCCCTTTATCCTCAAAGAGCAGGACGCATTTTATTTCCTTTTCTCCT
1 CACTTCATTTCCTT-TTTT-CCTTTATCCTCAAAGAGCAGGACACATTTCATTTCCTTTTCTCCT
* * * *
983839 TTGTCCTCAAAGAGTAAGGCA
64 TTATCCTCAAAAAGCAAGACA
* *
983860 CACTTCATTTCCTTTTTTCCTTTATCCTCGAGGAGCAGGACA
1 CACTTCATTTCCTTTTTTCCTTTATCCTCAAAGAGCAGGACA
983902 TACTTTTTTT
Statistics
Matches: 110, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
83 2 0.02
84 25 0.23
85 46 0.42
86 37 0.34
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.40
Consensus pattern (84 bp):
CACTTCATTTCCTTTTTTCCTTTATCCTCAAAGAGCAGGACACATTTCATTTCCTTTTCTCCTTT
ATCCTCAAAAAGCAAGACA
Found at i:983851 original size:42 final size:42
Alignment explanation
Indices: 983703--984020 Score: 239
Period size: 42 Copynumber: 7.7 Consensus size: 42
983693 TTATTTCCTT
* *
983703 TTTTTTCCTTTGTCCTCAAAGAGCAGGGCACATTTCA-TT-C
1 TTTTTTCCTTTATCCTCAAAGAGCAGGACACATTTCATTTCC
* *
983743 TCTTTTTCCTTTATCCTCAAAAAGCAAGACACATTTCATTTCC
1 T-TTTTTCCTTTATCCTCAAAGAGCAGGACACATTTCATTTCC
* *
983786 TTCTTTTCCCTTTATCCTCAAAGAGCAGGACGCATTTTATTTCC
1 TT-TTTT-CCTTTATCCTCAAAGAGCAGGACACATTTCATTTCC
* * * *
983830 TTTTCTCCTTTGTCCTCAAAGAGTAAGG-CACACTTCATTTCC
1 TTTTTTCCTTTATCCTCAAAGAG-CAGGACACATTTCATTTCC
* * *
983872 TTTTTTCCTTTATCCTCGAGGAGCAGG--ACA--T-ACTT--
1 TTTTTTCCTTTATCCTCAAAGAGCAGGACACATTTCATTTCC
* * * * * *
983907 TTTTTCCCTTTATCCAT-AAGGAGCGGGACA-TTTTCCTCTTTCT
1 TTTTTTCCTTTATCC-TCAAAGAGCAGGACACATTT-C-ATTTCC
** * * * *
983950 TTTTTTCCTTCGTCCTCAAGGAGTAAGACCCATTTCATTTTCC
1 TTTTTTCCTTTATCCTCAAAGAGCAGGACACATTTCA-TTTCC
*
983993 -TTTTTCCTTTATCCTCGAAGAGCAGGAC
1 TTTTTTCCTTTATCCTCAAAGAGCAGGAC
984021 GTACTTCTTT
Statistics
Matches: 217, Mismatches: 42, Indels: 36
0.74 0.14 0.12
Matches are distributed among these distances:
35 22 0.10
36 1 0.00
37 4 0.02
38 2 0.01
40 4 0.02
41 37 0.17
42 72 0.33
43 38 0.18
44 37 0.17
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.40
Consensus pattern (42 bp):
TTTTTTCCTTTATCCTCAAAGAGCAGGACACATTTCATTTCC
Found at i:983929 original size:35 final size:34
Alignment explanation
Indices: 983872--983937 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
983862 CTTCATTTCC
*
983872 TTTTTTCCTTTATCCTCGAGGAGCAGGACATACT
1 TTTTTTCCTTTATCCTCAAGGAGCAGGACATACT
*
983906 TTTTTTCCCTTTATCCAT-AAGGAGCGGGACAT
1 TTTTTT-CCTTTATCC-TCAAGGAGCAGGACAT
983938 TTTCCTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 6 0.21
35 21 0.75
36 1 0.04
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (34 bp):
TTTTTTCCTTTATCCTCAAGGAGCAGGACATACT
Found at i:983987 original size:120 final size:119
Alignment explanation
Indices: 983825--984040 Score: 317
Period size: 120 Copynumber: 1.8 Consensus size: 119
983815 ACGCATTTTA
* *
983825 TTTCCTTTTCTCCTTTGTCCTCAAAGAGTAAGGCACACTTCA-TTTCCTTTTTTCCTTTATCCTC
1 TTTCCTTTTCTCCTTCGTCCTCAAAGAGTAAGACACACTTCATTTTCC-TTTTTCCTTTATCCTC
* *
983889 GAGGAGCAGGACATACTTTTTTTCCCTTTATCCATAAGGAGCGGGACATTTTCCTC
65 GAAGAGCAGGACATACTTCTTTT-CCTTTATCCATAAGGAGCGGGACATTTTCCTC
* * * * *
983945 TTTCTTTTTTTCCTTCGTCCTCAAGGAGTAAGACCCATTTCATTTTCCTTTTTCCTTTATCCTCG
1 TTTCCTTTTCTCCTTCGTCCTCAAAGAGTAAGACACACTTCATTTTCCTTTTTCCTTTATCCTCG
*
984010 AAGAGCAGGACGTACTTCTTTTCCTTTATCC
66 AAGAGCAGGACATACTTCTTTTCCTTTATCC
984041 TCAAAGTGCA
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
119 9 0.11
120 71 0.84
121 5 0.06
ACGTcount: A:0.18, C:0.27, G:0.13, T:0.42
Consensus pattern (119 bp):
TTTCCTTTTCTCCTTCGTCCTCAAAGAGTAAGACACACTTCATTTTCCTTTTTCCTTTATCCTCG
AAGAGCAGGACATACTTCTTTTCCTTTATCCATAAGGAGCGGGACATTTTCCTC
Done.