Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 70 of 187
Found at i:20689269 original size:19 final size:18
Alignment explanation
Indices: 20689234--20689279 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
20689224 GATTGTTTAA
20689234 AATTTTAAAGCCTAAATTC
1 AATTTTAAAGCCTAAA-TC
20689253 AATTTTAAAGCAC-AAATC
1 AATTTTAAAGC-CTAAATC
*
20689271 ACTTTTAAA
1 AATTTTAAA
20689280 AAACATGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 10 0.40
19 14 0.56
20 1 0.04
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (18 bp):
AATTTTAAAGCCTAAATC
Found at i:20692629 original size:19 final size:19
Alignment explanation
Indices: 20692597--20692636 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
20692587 TTTAGTTTAG
20692597 TAGGTCTATGTTTTTAGTT
1 TAGGTCTATGTTTTTAGTT
* * *
20692616 TAGGTTTATTTTTTTATTT
1 TAGGTCTATGTTTTTAGTT
20692635 TA
1 TA
20692637 AAACAGTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.17, C:0.03, G:0.15, T:0.65
Consensus pattern (19 bp):
TAGGTCTATGTTTTTAGTT
Found at i:20693141 original size:32 final size:32
Alignment explanation
Indices: 20693100--20693163 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
20693090 AGGTTCAAAG
20693100 ATAGGCGTGTACTAGTTGATTAGTTAATTAGT
1 ATAGGCGTGTACTAGTTGATTAGTTAATTAGT
20693132 ATAGGCGTGTACTAGTTGATTAGTTAATTAGT
1 ATAGGCGTGTACTAGTTGATTAGTTAATTAGT
20693164 GGAGGCTGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (32 bp):
ATAGGCGTGTACTAGTTGATTAGTTAATTAGT
Found at i:20701408 original size:12 final size:12
Alignment explanation
Indices: 20701391--20701417 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
20701381 TGTTTAGGAG
20701391 TGGTGTTGGCAC
1 TGGTGTTGGCAC
20701403 TGGTGTTGGCAC
1 TGGTGTTGGCAC
20701415 TGG
1 TGG
20701418 CATTGACCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.44, T:0.33
Consensus pattern (12 bp):
TGGTGTTGGCAC
Found at i:20709487 original size:21 final size:23
Alignment explanation
Indices: 20709444--20709487 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
20709434 ATTGCTGGGG
*
20709444 TTGTTGTTTGTTTGATGTTTGTTT
1 TTGTTGTTTGTTT-ATGTGTGTTT
20709468 TTGTT-TTTGTTT-TGTGTGTT
1 TTGTTGTTTGTTTATGTGTGTT
20709488 CTTGCACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.02, C:0.00, G:0.25, T:0.73
Consensus pattern (23 bp):
TTGTTGTTTGTTTATGTGTGTTT
Found at i:20710664 original size:93 final size:94
Alignment explanation
Indices: 20710510--20711192 Score: 845
Period size: 93 Copynumber: 7.3 Consensus size: 94
20710500 AGCAACATAT
** *
20710510 ATATATATACAAAATTGGACAATATTTATACACCAAAATTTGACAGCATATATATACAAAATTGG
1 ATATATATACAAAATTGGACAGCACTTATACACCAAAATTTGACAGCATATATATACAAAATTGG
* *
20710575 ATAGCATTTATTCACCAAAATTGGGCAGC
66 ACAGCATTTATACACCAAAATTGGGCAGC
* * * *
20710604 ATATATATACCAATTTGGACAGCACTTATACA-CAAAATTTGACAGCACATATATATAAAATTGG
1 ATATATATACAAAATTGGACAGCACTTATACACCAAAATTTGACAGCATATATATACAAAATTGG
20710668 ACAGCATTTATACACCAAAATTGGGCAGC
66 ACAGCATTTATACACCAAAATTGGGCAGC
* * * *
20710697 ATATATACACCAATTTGGACAACACTTATACA-CAAAATTTGACAGCATATATATACAAAATTGG
1 ATATATATACAAAATTGGACAGCACTTATACACCAAAATTTGACAGCATATATATACAAAATTGG
* *
20710761 GCAGCATTTATACACCAAAATTAGGCAGC
66 ACAGCATTTATACACCAAAATTGGGCAGC
* * * * * * *
20710790 ATATATATACAAAATTGGACAACATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGG
1 ATATATATACAAAATTGGACAGCACTTATACACCAAAATTTGACAGCATATATATACAAAATTGG
* * * * *
20710855 ACAGCACTTACACA-CAAAATTTGACAGT
66 ACAGCATTTATACACCAAAATTGGGCAGC
* * * * * * *
20710883 ATGTATATACAAAATTGGACAGCATTTATACACCAAAATTGGGCAGCATATATACACCAATTTGG
1 ATATATATACAAAATTGGACAGCACTTATACACCAAAATTTGACAGCATATATATACAAAATTGG
* * *
20710948 ACAGCACTTATACA-CAAAATTTGACAGC
66 ACAGCATTTATACACCAAAATTGGGCAGC
* * * *
20710976 ATATATATACAAAATTGGGCAGCATTTATACACCAAAATTAGGCAGCATATATATACAAAATTGG
1 ATATATATACAAAATTGGACAGCACTTATACACCAAAATTTGACAGCATATATATACAAAATTGG
* *
20711041 ACAACATTTATTCACCAAAATTGGGCAGC
66 ACAGCATTTATACACCAAAATTGGGCAGC
* * *
20711070 ATATATATACCAAATTGGGCAGCACTTATACA-CAAAATTTGACAGCATGTATATACAAAATTGG
1 ATATATATACAAAATTGGACAGCACTTATACACCAAAATTTGACAGCATATATATACAAAATTGG
* * *
20711134 ACAACATTTATACACCAAAATTAGGCAGT
66 ACAGCATTTATACACCAAAATTGGGCAGC
* * * **
20711163 ATATATACACCAATTTTAACAGCACTTATA
1 ATATATATACAAAATTGGACAGCACTTATA
20711193 TATATATATA
Statistics
Matches: 527, Mismatches: 60, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
93 419 0.80
94 108 0.20
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.27
Consensus pattern (94 bp):
ATATATATACAAAATTGGACAGCACTTATACACCAAAATTTGACAGCATATATATACAAAATTGG
ACAGCATTTATACACCAAAATTGGGCAGC
Found at i:20710670 original size:140 final size:141
Alignment explanation
Indices: 20710510--20711169 Score: 853
Period size: 140 Copynumber: 4.7 Consensus size: 141
20710500 AGCAACATAT
**
20710510 ATATATATACAAAATTGGACAATATTTATACACCAAAATTTGACAGCATATATATACAAAATTGG
1 ATATATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATATATATACAAAATTGG
* * * * * *
20710575 ATAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACA-CAA
66 ACAGCATTTATACACCAAAATTAGGCAGCATATATATACAAAATTGGACAGCATTTATACACCAA
* *
20710639 AATTTGACAGC
131 AATTGGGCAGC
* * * * * * *
20710650 ACATATATATAAAATTGGACAGCATTTATACACCAAAATTGGGCAGCATATATACACCAATTTGG
1 ATATATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATATATATACAAAATTGG
* * * * *
20710715 ACAACACTTATACA-CAAAATTTGACAGCATATATATACAAAATTGGGCAGCATTTATACACCAA
66 ACAGCATTTATACACCAAAATTAGGCAGCATATATATACAAAATTGGACAGCATTTATACACCAA
*
20710779 AATTAGGCAGC
131 AATTGGGCAGC
* * * * * *
20710790 ATATATATACAAAATTGGACAACATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGG
1 ATATATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATATATATACAAAATTGG
* * * * * *
20710855 ACAGCACTTACACA-CAAAATTTGACAGTATGTATATACAAAATTGGACAGCATTTATACACCAA
66 ACAGCATTTATACACCAAAATTAGGCAGCATATATATACAAAATTGGACAGCATTTATACACCAA
20710919 AATTGGGCAGC
131 AATTGGGCAGC
* * * *
20710930 ATATATACACCAATTTGGACAGCACTTATACA-CAAAATTTGACAGCATATATATACAAAATTGG
1 ATATATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATATATATACAAAATTGG
* * *
20710994 GCAGCATTTATACACCAAAATTAGGCAGCATATATATACAAAATTGGACAACATTTATTCACCAA
66 ACAGCATTTATACACCAAAATTAGGCAGCATATATATACAAAATTGGACAGCATTTATACACCAA
20711059 AATTGGGCAGC
131 AATTGGGCAGC
* * * *
20711070 ATATATATACCAAATTGGGCAGCACTTATACA-CAAAATTTGACAGCATGTATATACAAAATTGG
1 ATATATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATATATATACAAAATTGG
* *
20711134 ACAACATTTATACACCAAAATTAGGCAGTATATATA
66 ACAGCATTTATACACCAAAATTAGGCAGCATATATA
20711170 CACCAATTTT
Statistics
Matches: 460, Mismatches: 58, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
139 79 0.17
140 381 0.83
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.27
Consensus pattern (141 bp):
ATATATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATATATATACAAAATTGG
ACAGCATTTATACACCAAAATTAGGCAGCATATATATACAAAATTGGACAGCATTTATACACCAA
AATTGGGCAGC
Found at i:20711238 original size:233 final size:233
Alignment explanation
Indices: 20710510--20711192 Score: 1186
Period size: 233 Copynumber: 2.9 Consensus size: 233
20710500 AGCAACATAT
* ** * *
20710510 ATATATATACAAAATTGGACAATATTTATACACCAAAATTTGACAGCATATATATACAAAATTGG
1 ATATATATACAAAATTGGGCAGCATTTATACACCAAAATTAGGCAGCATATATATACAAAATTGG
* *
20710575 ATAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACACAAA
66 ACAACATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACACAAA
** *
20710640 ATTTGACAGCACATATATATAAAATTGGACAGCATTTATACACCAAAATTGGGCAGCATATATAC
131 ATTTGACAGCATGTATATACAAAATTGGACAGCATTTATACACCAAAATTGGGCAGCATATATAC
*
20710705 ACCAATTTGGACAACACTTATACACAAAATTTGACAGC
196 ACCAATTTGGACAGCACTTATACACAAAATTTGACAGC
20710743 ATATATATACAAAATTGGGCAGCATTTATACACCAAAATTAGGCAGCATATATATACAAAATTGG
1 ATATATATACAAAATTGGGCAGCATTTATACACCAAAATTAGGCAGCATATATATACAAAATTGG
*
20710808 ACAACATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTACACACAAA
66 ACAACATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACACAAA
*
20710873 ATTTGACAGTATGTATATACAAAATTGGACAGCATTTATACACCAAAATTGGGCAGCATATATAC
131 ATTTGACAGCATGTATATACAAAATTGGACAGCATTTATACACCAAAATTGGGCAGCATATATAC
20710938 ACCAATTTGGACAGCACTTATACACAAAATTTGACAGC
196 ACCAATTTGGACAGCACTTATACACAAAATTTGACAGC
20710976 ATATATATACAAAATTGGGCAGCATTTATACACCAAAATTAGGCAGCATATATATACAAAATTGG
1 ATATATATACAAAATTGGGCAGCATTTATACACCAAAATTAGGCAGCATATATATACAAAATTGG
* *
20711041 ACAACATTTATTCACCAAAATTGGGCAGCATATATATACCAAATTGGGCAGCACTTATACACAAA
66 ACAACATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACACAAA
* * *
20711106 ATTTGACAGCATGTATATACAAAATTGGACAACATTTATACACCAAAATTAGGCAGTATATATAC
131 ATTTGACAGCATGTATATACAAAATTGGACAGCATTTATACACCAAAATTGGGCAGCATATATAC
**
20711171 ACCAATTTTAACAGCACTTATA
196 ACCAATTTGGACAGCACTTATA
20711193 TATATATATA
Statistics
Matches: 428, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
233 428 1.00
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.27
Consensus pattern (233 bp):
ATATATATACAAAATTGGGCAGCATTTATACACCAAAATTAGGCAGCATATATATACAAAATTGG
ACAACATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACACAAA
ATTTGACAGCATGTATATACAAAATTGGACAGCATTTATACACCAAAATTGGGCAGCATATATAC
ACCAATTTGGACAGCACTTATACACAAAATTTGACAGC
Found at i:20711992 original size:41 final size:41
Alignment explanation
Indices: 20711935--20712094 Score: 216
Period size: 41 Copynumber: 3.9 Consensus size: 41
20711925 CCCGATACAT
20711935 TTCACCGGCA-CAAAGCCTGCTAGACATAAAGTCTGAAGTAA
1 TTCACCGGCATC-AAGCCTGCTAGACATAAAGTCTGAAGTAA
*
20711976 TTCACCGGCATCAAGCCTGCTAGACATAAAGTCTTAAGTAA
1 TTCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAGTAA
* * *
20712017 TTCACCGGCATCAAGCCTG-TCAGACATAGAGTCTAAAATAA
1 TTCACCGGCATCAAGCCTGCT-AGACATAAAGTCTGAAGTAA
* * * *
20712058 TTCACCAGCATCAAGCCTGCTAGGCATTAAGCCTGAA
1 TTCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAA
20712095 ACCAATTATA
Statistics
Matches: 106, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
40 1 0.01
41 103 0.97
42 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (41 bp):
TTCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAGTAA
Found at i:20713527 original size:14 final size:15
Alignment explanation
Indices: 20713508--20713536 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
20713498 TCACGAAACT
20713508 TTCACACAT-ATAAA
1 TTCACACATAATAAA
20713522 TTCACACATAATAAA
1 TTCACACATAATAAA
20713537 ACAGAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:20718793 original size:47 final size:47
Alignment explanation
Indices: 20718719--20719050 Score: 429
Period size: 47 Copynumber: 7.1 Consensus size: 47
20718709 GCATATATAT
** **
20718719 ATATATATACAAAATTGGACAATATTTATACACCAAAATTTGATAGC
1 ATATATATACAAAATTGGACAGCATTTATACACCAAAATTTGGCAGC
*
20718766 ATATATATACAAAATTGGACAGCATTTATACACCAAAATTGGGCAGC
1 ATATATATACAAAATTGGACAGCATTTATACACCAAAATTTGGCAGC
* * * * *
20718813 ATATATACACCAATTTGGACAGCACTTATACA-CAAAATTTGACAGC
1 ATATATATACAAAATTGGACAGCATTTATACACCAAAATTTGGCAGC
* *
20718859 ATATATATACAAAATTGGGCAGCATTTATACACCAAAATTAGGCAGC
1 ATATATATACAAAATTGGACAGCATTTATACACCAAAATTTGGCAGC
* * * * *
20718906 ATATATATACAAAATTGGAGAACATTTATTCACTAAAATTGGGCAGC
1 ATATATATACAAAATTGGACAGCATTTATACACCAAAATTTGGCAGC
* * * *
20718953 ATATATATACCAATTTGGACAGCACTTATACA-CAAAATTTGACAGC
1 ATATATATACAAAATTGGACAGCATTTATACACCAAAATTTGGCAGC
* *
20718999 --ATGTATACAAAATTGGACAGCATTTATACACCAAAATTAGGCAGC
1 ATATATATACAAAATTGGACAGCATTTATACACCAAAATTTGGCAGC
20719044 ATATATA
1 ATATATA
20719051 CACCAATTTT
Statistics
Matches: 241, Mismatches: 40, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
44 26 0.11
45 12 0.05
46 50 0.21
47 153 0.63
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.28
Consensus pattern (47 bp):
ATATATATACAAAATTGGACAGCATTTATACACCAAAATTTGGCAGC
Found at i:20718882 original size:93 final size:93
Alignment explanation
Indices: 20718721--20719050 Score: 416
Period size: 93 Copynumber: 3.6 Consensus size: 93
20718711 ATATATATAT
** *
20718721 ATATATACA-AAATTGGACAATATTTATACACCAAAATTTGATAGCATATATATACAAAATTGGA
1 ATATATACACAAATTGGACAGCATTTATACACCAAAATTTGACAGCATATATATACAAAATTGGA
*
20718785 CAGCATTTATACACCAAAATTGGGCAGC
66 CAGCATTTATACACCAAAATTAGGCAGC
* *
20718813 ATATATACACCAATTTGGACAGCACTTATACA-CAAAATTTGACAGCATATATATACAAAATTGG
1 ATATATACA-CAAATTGGACAGCATTTATACACCAAAATTTGACAGCATATATATACAAAATTGG
*
20718877 GCAGCATTTATACACCAAAATTAGGCAGC
65 ACAGCATTTATACACCAAAATTAGGCAGC
* * * * * * * * *
20718906 ATATATATACAAAATTGGAGAACATTTATTCACTAAAATTGGGCAGCATATATATACCAATTTGG
1 ATATATACAC-AAATTGGACAGCATTTATACACCAAAATTTGACAGCATATATATACAAAATTGG
* * *
20718971 ACAGCACTTATACA-CAAAATTTGACAGC
65 ACAGCATTTATACACCAAAATTAGGCAGC
* * *
20718999 ATGTATACA-AAATTGGACAGCATTTATACACCAAAATTAGGCAGCATATATA
1 ATATATACACAAATTGGACAGCATTTATACACCAAAATTTGACAGCATATATA
20719051 CACCAATTTT
Statistics
Matches: 205, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
91 38 0.19
92 10 0.05
93 101 0.49
94 56 0.27
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.28
Consensus pattern (93 bp):
ATATATACACAAATTGGACAGCATTTATACACCAAAATTTGACAGCATATATATACAAAATTGGA
CAGCATTTATACACCAAAATTAGGCAGC
Found at i:20718971 original size:140 final size:140
Alignment explanation
Indices: 20718719--20719050 Score: 542
Period size: 140 Copynumber: 2.4 Consensus size: 140
20718709 GCATATATAT
** * **
20718719 ATATATATACAAAATTGGACAATATTTATACACCAAAATTTGATAGCATATATATACAAAATTGG
1 ATATATATACAAAATTGGACAGCATTTATACACCAAAATTAGGCAGCATATATATACAAAATTGG
*
20718784 ACAGCATTTATACACCAAAATTGGGCAGCATATATACACCAATTTGGACAGCACTTATACACAAA
66 ACAACATTTATACACCAAAATTGGGCAGCATATATACACCAATTTGGACAGCACTTATACACAAA
20718849 ATTTGACAGC
131 ATTTGACAGC
*
20718859 ATATATATACAAAATTGGGCAGCATTTATACACCAAAATTAGGCAGCATATATATACAAAATTGG
1 ATATATATACAAAATTGGACAGCATTTATACACCAAAATTAGGCAGCATATATATACAAAATTGG
* * * *
20718924 AGAACATTTATTCACTAAAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACACAAA
66 ACAACATTTATACACCAAAATTGGGCAGCATATATACACCAATTTGGACAGCACTTATACACAAA
20718989 ATTTGACAGC
131 ATTTGACAGC
*
20718999 --ATGTATACAAAATTGGACAGCATTTATACACCAAAATTAGGCAGCATATATA
1 ATATATATACAAAATTGGACAGCATTTATACACCAAAATTAGGCAGCATATATA
20719051 CACCAATTTT
Statistics
Matches: 179, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
138 50 0.28
140 129 0.72
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.28
Consensus pattern (140 bp):
ATATATATACAAAATTGGACAGCATTTATACACCAAAATTAGGCAGCATATATATACAAAATTGG
ACAACATTTATACACCAAAATTGGGCAGCATATATACACCAATTTGGACAGCACTTATACACAAA
ATTTGACAGC
Found at i:20719859 original size:41 final size:41
Alignment explanation
Indices: 20719826--20719973 Score: 242
Period size: 41 Copynumber: 3.6 Consensus size: 41
20719816 CACCAGCACA
20719826 AAGCCTGCTAGACATAAAGTCTGAAGTAATTCACCGGCATC
1 AAGCCTGCTAGACATAAAGTCTGAAGTAATTCACCGGCATC
20719867 AAGCCTGCTAGACATAAAGTCTGAAGTAATTCACCGGCATC
1 AAGCCTGCTAGACATAAAGTCTGAAGTAATTCACCGGCATC
* * *
20719908 AAGCCTGCTAGACATAAAGTCTAAAATAATTCACCGACATC
1 AAGCCTGCTAGACATAAAGTCTGAAGTAATTCACCGGCATC
* * *
20719949 AAGCCTGCTAGGCATTAAGCCTGAA
1 AAGCCTGCTAGACATAAAGTCTGAA
20719974 AACCAATTAT
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 100 1.00
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (41 bp):
AAGCCTGCTAGACATAAAGTCTGAAGTAATTCACCGGCATC
Found at i:20719900 original size:82 final size:82
Alignment explanation
Indices: 20719775--20719973 Score: 253
Period size: 82 Copynumber: 2.4 Consensus size: 82
20719765 TTACATAAAA
* *
20719775 CACCGACAT-AATGCCTGCTAGGCATAAAGCCCG-A-TACATTTCACCAGCA-CAAAGCCTGCTA
1 CACCGACATCAA-GCCTGCTAGACATAAAGCCTGAAGTA-A-TTCACCAGCATC-AAGCCTGCTA
* *
20719836 GACATAAAGTCTGAAGTAATT
62 GACATAAAGTCTAAAATAATT
* * *
20719857 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAGTAATTCACCGGCATCAAGCCTGCTAGACA
1 CACCGACATCAAGCCTGCTAGACATAAAGCCTGAAGTAATTCACCAGCATCAAGCCTGCTAGACA
20719922 TAAAGTCTAAAATAATT
66 TAAAGTCTAAAATAATT
* *
20719939 CACCGACATCAAGCCTGCTAGGCATTAAGCCTGAA
1 CACCGACATCAAGCCTGCTAGACATAAAGCCTGAA
20719974 AACCAATTAT
Statistics
Matches: 102, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
82 95 0.93
83 5 0.05
84 2 0.02
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.21
Consensus pattern (82 bp):
CACCGACATCAAGCCTGCTAGACATAAAGCCTGAAGTAATTCACCAGCATCAAGCCTGCTAGACA
TAAAGTCTAAAATAATT
Found at i:20721391 original size:14 final size:15
Alignment explanation
Indices: 20721372--20721400 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
20721362 TCACGAAATT
20721372 TTCACACAT-ATAAA
1 TTCACACATAATAAA
20721386 TTCACACATAATAAA
1 TTCACACATAATAAA
20721401 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:20726455 original size:18 final size:19
Alignment explanation
Indices: 20726432--20726467 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
20726422 TTTAAACATA
20726432 ATTTAATTA-TTTTATAAT
1 ATTTAATTATTTTTATAAT
20726450 ATTTAATTATTTTTATAA
1 ATTTAATTATTTTTATAA
20726468 GAATTTAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTAATTATTTTTATAAT
Found at i:20730176 original size:21 final size:21
Alignment explanation
Indices: 20730152--20730205 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
20730142 GAGGTTAAGA
* *
20730152 AGGAATTTGCTGCTACAAAAG
1 AGGAAGTTGCTGCTAAAAAAG
* *
20730173 AGGAAGTTGTTTCTAAAAAAG
1 AGGAAGTTGCTGCTAAAAAAG
*
20730194 AAGAAGTTGCTG
1 AGGAAGTTGCTG
20730206 ACACTGAGAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.09, G:0.26, T:0.26
Consensus pattern (21 bp):
AGGAAGTTGCTGCTAAAAAAG
Found at i:20730686 original size:17 final size:17
Alignment explanation
Indices: 20730654--20730687 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20730644 GATAAGTATA
*
20730654 TATTGTCATTGCATTTT
1 TATTGTCATTACATTTT
*
20730671 TATTGTCATTATATTTT
1 TATTGTCATTACATTTT
20730688 CATGTAAGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.62
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:20738426 original size:14 final size:15
Alignment explanation
Indices: 20738398--20738427 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20738388 TTATAGGCGG
20738398 TTTAATTTCCTTTTT
1 TTTAATTTCCTTTTT
20738413 TTTAATTT-CTTTTT
1 TTTAATTTCCTTTTT
20738427 T
1 T
20738428 ATTTTTTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTAATTTCCTTTTT
Found at i:20741858 original size:15 final size:15
Alignment explanation
Indices: 20741838--20741894 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
20741828 TTGTACATAC
20741838 TTAAATATTTTTATT
1 TTAAATATTTTTATT
*
20741853 TTAAAT-TTTAGTTA-A
1 TTAAATATTT--TTATT
20741868 TTAAATATTTTTATT
1 TTAAATATTTTTATT
*
20741883 TTTAATATTTTT
1 TTAAATATTTTT
20741895 TACATTGTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
14 6 0.17
15 23 0.66
16 6 0.17
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TTAAATATTTTTATT
Found at i:20752459 original size:20 final size:20
Alignment explanation
Indices: 20752421--20752459 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20752411 CTTAATCTAG
** *
20752421 GATAATTAGTTATTTAATTA
1 GATAATTAGGGATTCAATTA
20752441 GATAATTAGGGATTCAATT
1 GATAATTAGGGATTCAATT
20752460 GGTCATAGGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (20 bp):
GATAATTAGGGATTCAATTA
Found at i:20753549 original size:14 final size:15
Alignment explanation
Indices: 20753525--20753557 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
20753515 TTCAATTAAC
20753525 AATATTAAAGAAAAG
1 AATATTAAAGAAAAG
*
20753540 AATA-TAAAGAATAG
1 AATATTAAAGAAAAG
20753554 AATA
1 AATA
20753558 AAGGAAGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (15 bp):
AATATTAAAGAAAAG
Found at i:20762478 original size:18 final size:19
Alignment explanation
Indices: 20762447--20762482 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
20762437 TTCCATTAGG
20762447 TTAATTTAGGTTAATTAAT
1 TTAATTTAGGTTAATTAAT
*
20762466 TTAA-TTAGTTTAATTAA
1 TTAATTTAGGTTAATTAA
20762483 AATATTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (19 bp):
TTAATTTAGGTTAATTAAT
Found at i:20767050 original size:21 final size:21
Alignment explanation
Indices: 20767020--20767063 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
20767010 GTCCTCCCCC
20767020 TCATCATCATCTTC-TTCTTCT
1 TCATCATCATCTTCATTC-TCT
*
20767041 TCATCCTCATCTTCATTCTCT
1 TCATCATCATCTTCATTCTCT
20767062 TC
1 TC
20767064 CTCTTCAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.14, C:0.36, G:0.00, T:0.50
Consensus pattern (21 bp):
TCATCATCATCTTCATTCTCT
Found at i:20767056 original size:27 final size:27
Alignment explanation
Indices: 20767018--20767075 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
20767008 TTGTCCTCCC
* *
20767018 CCTCATCATCA-TCTTCTTCTTCTTCAT
1 CCTCATCATCATTC-TCTTCCTCTTCAA
*
20767045 CCTCATCTTCATTCTCTTCCTCTTCAA
1 CCTCATCATCATTCTCTTCCTCTTCAA
20767072 CCTC
1 CCTC
20767076 TTTTTCCTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.14, C:0.41, G:0.00, T:0.45
Consensus pattern (27 bp):
CCTCATCATCATTCTCTTCCTCTTCAA
Found at i:20773660 original size:18 final size:18
Alignment explanation
Indices: 20773627--20773726 Score: 85
Period size: 18 Copynumber: 5.5 Consensus size: 18
20773617 GTGAACCTAT
*
20773627 TATGTTATTA-GCGAACC
1 TATGTTGTTAGGCGAACC
20773644 TATGTTGTTAGGCGAACC
1 TATGTTGTTAGGCGAACC
* * *
20773662 TATATTGTTATGCAAACC
1 TATGTTGTTAGGCGAACC
* * *
20773680 CATGTTATTATGCGAACC
1 TATGTTGTTAGGCGAACC
** *
20773698 TATAATGTTATGTGCAAACC
1 TATGTTGTTA-G-GCGAACC
20773718 TATGTTGTT
1 TATGTTGTT
20773727 GTCCAAACCT
Statistics
Matches: 64, Mismatches: 16, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
17 9 0.14
18 42 0.66
20 13 0.20
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (18 bp):
TATGTTGTTAGGCGAACC
Found at i:20773664 original size:38 final size:37
Alignment explanation
Indices: 20773613--20773726 Score: 133
Period size: 38 Copynumber: 3.1 Consensus size: 37
20773603 ACTTATCCCC
* *
20773613 TTAGGTGAACCTATTATGTTATTAGCGAACCTATGTTG
1 TTAGGCGAACCTATTATGTTATT-GCAAACCTATGTTG
* *
20773651 TTAGGCGAACCTA-TATTGTTA-TGCAAACCCATGTTA
1 TTAGGCGAACCTATTA-TGTTATTGCAAACCTATGTTG
* *
20773687 TTATGCGAACCTATAATGTTATGTGCAAACCTATGTTG
1 TTAGGCGAACCTATTATGTTAT-TGCAAACCTATGTTG
20773725 TT
1 TT
20773727 GTCCAAACCT
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
36 28 0.44
37 4 0.06
38 32 0.50
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (37 bp):
TTAGGCGAACCTATTATGTTATTGCAAACCTATGTTG
Found at i:20773736 original size:38 final size:37
Alignment explanation
Indices: 20773619--20773728 Score: 125
Period size: 36 Copynumber: 2.9 Consensus size: 37
20773609 CCCCTTAGGT
* *
20773619 GAACCTATTATGTTATTAGCGAACCTATGTTGTTAG-GC
1 GAACCTATAATGTTATT-GCAAACCTATGTTGTT-GTGC
* * * *
20773657 GAACCTATATTGTTA-TGCAAACCCATGTTATTATGC
1 GAACCTATAATGTTATTGCAAACCTATGTTGTTGTGC
20773693 GAACCTATAATGTTATGTGCAAACCTATGTTGTTGT
1 GAACCTATAATGTTAT-TGCAAACCTATGTTGTTGT
20773729 CCAAACCTTA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
36 29 0.49
37 1 0.02
38 29 0.49
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (37 bp):
GAACCTATAATGTTATTGCAAACCTATGTTGTTGTGC
Found at i:20774751 original size:6 final size:6
Alignment explanation
Indices: 20774742--20774787 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
20774732 ATCATTTCTT
* * *
20774742 ATTTTC ATTTTC ATTTCC ATTTCC ATTTCC ATTTCC ATTTCT ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
20774788 TGAGAAACCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (6 bp):
ATTTCC
Found at i:20780114 original size:11 final size:11
Alignment explanation
Indices: 20780085--20780201 Score: 81
Period size: 11 Copynumber: 10.6 Consensus size: 11
20780075 TATTGTTTAG
*
20780085 TGTTGTTTTGC
1 TGTTATTTTGC
* *
20780096 TGTCATTTTGA
1 TGTTATTTTGC
*
20780107 TGTTATTTTGT
1 TGTTATTTTGC
*
20780118 TGTCATTTTGC
1 TGTTATTTTGC
* * *
20780129 TATTGTATTGC
1 TGTTATTTTGC
* *
20780140 TATTATTTTGT
1 TGTTATTTTGC
*
20780151 TGTTATTTTGT
1 TGTTATTTTGC
*
20780162 TGTCATTTTGC
1 TGTTATTTTGC
* * *
20780173 TATTGTATTGC
1 TGTTATTTTGC
* *
20780184 TATTATTTTGT
1 TGTTATTTTGC
20780195 TGTTATT
1 TGTTATT
20780202 GTTTGGATAT
Statistics
Matches: 81, Mismatches: 25, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 81 1.00
ACGTcount: A:0.13, C:0.07, G:0.17, T:0.63
Consensus pattern (11 bp):
TGTTATTTTGC
Found at i:20780148 original size:44 final size:44
Alignment explanation
Indices: 20780100--20780201 Score: 195
Period size: 44 Copynumber: 2.3 Consensus size: 44
20780090 TTTTGCTGTC
*
20780100 ATTTTGATGTTATTTTGTTGTCATTTTGCTATTGTATTGCTATT
1 ATTTTGTTGTTATTTTGTTGTCATTTTGCTATTGTATTGCTATT
20780144 ATTTTGTTGTTATTTTGTTGTCATTTTGCTATTGTATTGCTATT
1 ATTTTGTTGTTATTTTGTTGTCATTTTGCTATTGTATTGCTATT
20780188 ATTTTGTTGTTATT
1 ATTTTGTTGTTATT
20780202 GTTTGGATAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.15, C:0.06, G:0.16, T:0.64
Consensus pattern (44 bp):
ATTTTGTTGTTATTTTGTTGTCATTTTGCTATTGTATTGCTATT
Found at i:20780173 original size:33 final size:33
Alignment explanation
Indices: 20780085--20780176 Score: 103
Period size: 33 Copynumber: 2.8 Consensus size: 33
20780075 TATTGTTTAG
* * *
20780085 TGTTGTTTTGCTGTCATTTTGATGTTATTTTGT
1 TGTTATTTTGCTGTCATTTTGCTATTATTTTGT
* * ** *
20780118 TGTCATTTTGCTATTGTATTGCTATTATTTTGT
1 TGTTATTTTGCTGTCATTTTGCTATTATTTTGT
*
20780151 TGTTATTTTGTTGTCATTTTGCTATT
1 TGTTATTTTGCTGTCATTTTGCTATT
20780177 GTATTGCTAT
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.12, C:0.08, G:0.17, T:0.63
Consensus pattern (33 bp):
TGTTATTTTGCTGTCATTTTGCTATTATTTTGT
Found at i:20780226 original size:36 final size:33
Alignment explanation
Indices: 20780153--20780228 Score: 80
Period size: 36 Copynumber: 2.2 Consensus size: 33
20780143 TATTTTGTTG
* **
20780153 TTATTTTGTTGTCATTTTGCTATTGTATTGCTA
1 TTATTTTGTTGTCATTTTGATATTGTATAACTA
* *
20780186 TTATTTTGTTGTTATTGTTTGGATATTGTATAACTC
1 TTATTTTGTTGTCA-T-TTT-GATATTGTATAACTA
20780222 TTATTTT
1 TTATTTT
20780229 ATTATTAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
33 13 0.37
34 1 0.03
35 3 0.09
36 18 0.51
ACGTcount: A:0.17, C:0.07, G:0.14, T:0.62
Consensus pattern (33 bp):
TTATTTTGTTGTCATTTTGATATTGTATAACTA
Found at i:20783906 original size:26 final size:25
Alignment explanation
Indices: 20783873--20783922 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
20783863 ATCTTATGCA
20783873 TCATCATTAAA-TAATAATATGATATG
1 TCATCATTAAATTAA-AATAT-ATATG
20783899 TCATCATTAAATTAAAATATATAT
1 TCATCATTAAATTAAAATATATAT
20783923 ATAATCCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 4 0.17
26 16 0.70
27 3 0.13
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (25 bp):
TCATCATTAAATTAAAATATATATG
Found at i:20795617 original size:14 final size:14
Alignment explanation
Indices: 20795577--20795625 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
20795567 AAATAAACAC
20795577 ATAATTATTCATTTAA
1 ATAA-TATT-ATTTAA
*
20795593 TATTATAATTATTTAA
1 -ATAAT-ATTATTTAA
20795609 ATAATATTATTTAA
1 ATAATATTATTTAA
20795623 ATA
1 ATA
20795626 GTTATAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 12 0.41
15 4 0.14
16 7 0.24
17 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (14 bp):
ATAATATTATTTAA
Found at i:20797809 original size:14 final size:15
Alignment explanation
Indices: 20797782--20797815 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
20797772 CTTGACTTTG
20797782 TAAAAAGACATTTTC
1 TAAAAAGACATTTTC
*
20797797 TAAAAAG-CTTTTTC
1 TAAAAAGACATTTTC
20797811 TAAAA
1 TAAAA
20797816 TGTTGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (15 bp):
TAAAAAGACATTTTC
Found at i:20798117 original size:78 final size:78
Alignment explanation
Indices: 20797988--20798148 Score: 322
Period size: 78 Copynumber: 2.1 Consensus size: 78
20797978 TTAAACCGAG
20797988 ACCAATCCAACACAACCAATCCATTTCAACATATTTTCAAGATAGATTTAACGTATTCATAAGAT
1 ACCAATCCAACACAACCAATCCATTTCAACATATTTTCAAGATAGATTTAACGTATTCATAAGAT
20798053 AACCTCATCACAT
66 AACCTCATCACAT
20798066 ACCAATCCAACACAACCAATCCATTTCAACATATTTTCAAGATAGATTTAACGTATTCATAAGAT
1 ACCAATCCAACACAACCAATCCATTTCAACATATTTTCAAGATAGATTTAACGTATTCATAAGAT
20798131 AACCTCATCACAT
66 AACCTCATCACAT
20798144 ACCAA
1 ACCAA
20798149 AACCAAAATT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 83 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.27
Consensus pattern (78 bp):
ACCAATCCAACACAACCAATCCATTTCAACATATTTTCAAGATAGATTTAACGTATTCATAAGAT
AACCTCATCACAT
Found at i:20802180 original size:22 final size:21
Alignment explanation
Indices: 20802140--20802180 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
20802130 TAAATAAAAA
**
20802140 TTTTTTCTTTTAATCTTAACG
1 TTTTTTCTTTTAAAATTAACG
20802161 TTTTTTCTTTTCAAAATTAA
1 TTTTTTCTTTT-AAAATTAA
20802181 TAATCTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.24, C:0.12, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTTTCTTTTAAAATTAACG
Found at i:20806342 original size:49 final size:49
Alignment explanation
Indices: 20806243--20806467 Score: 229
Period size: 49 Copynumber: 4.6 Consensus size: 49
20806233 ATCACTAGGT
* * * * * *
20806243 TGGTTAACAACTAACATGCCCTACAAGAGACCCAGCACTTA--CACCAATC
1 TGGTTAGCAACTAACATACCCTACCAGTGGCCCA-C-CTTATTCACCCATC
* * * * ** * * *
20806292 TGGTTAGCAATTAATATGCCCTACTAGTATCCCAACTTATTCGCACATC
1 TGGTTAGCAACTAACATACCCTACCAGTGGCCCACCTTATTCACCCATC
* *
20806341 TGGTTAGCAACTAGCATACCTTACCAGTGGCCCACCTTATTCACCCATC
1 TGGTTAGCAACTAACATACCCTACCAGTGGCCCACCTTATTCACCCATC
* *
20806390 TGGTTAGCAACTAGCATACCTTACCAGTGGCCCACCTTATTCACCCATC
1 TGGTTAGCAACTAACATACCCTACCAGTGGCCCACCTTATTCACCCATC
* *
20806439 TGGTTAGCAACTAACATGCCCTGCCAGTG
1 TGGTTAGCAACTAACATACCCTACCAGTG
20806468 ATCTATCTTA
Statistics
Matches: 148, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
47 4 0.03
49 144 0.97
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.26
Consensus pattern (49 bp):
TGGTTAGCAACTAACATACCCTACCAGTGGCCCACCTTATTCACCCATC
Found at i:20810233 original size:76 final size:74
Alignment explanation
Indices: 20810107--20810330 Score: 268
Period size: 76 Copynumber: 2.9 Consensus size: 74
20810097 AAGGAGTGAT
** * *
20810107 TGATATCGTCGGTTTATCCGACTAGCGCCGGGCGCAAATCTTCGTTGGTATATCCAACTAATGCT
1 TGATATCGTCGGTTTATCCGACTAGCG--ATGCACAAATCTTCGTTGGTATATCCAACTAGTGCT
*
20810172 GGGTACATATC
64 GGGCACATATC
* *
20810183 TGATATTGTCGGTTTATCCGACTAGCTGTATGCACAAATCTTCGTTGGTATATCCAACTAGTGTT
1 TGATATCGTCGGTTTATCCGACTAGC-G-ATGCACAAATCTTCGTTGGTATATCCAACTAGTGCT
* * *
20810248 GGACACATGTT
64 GGGCACATATC
* * * *
20810259 TTATATCGTCAGTTTATCCGACTAGCGATGGGAGCAAATCTTCGTTGGTATATCTAACTAGTGCT
1 TGATATCGTCGGTTTATCCGACTAGCGAT-GCA-CAAATCTTCGTTGGTATATCCAACTAGTGCT
20810324 GGGCACA
64 GGGCACA
20810331 AATCATTGTC
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
74 2 0.02
75 3 0.02
76 121 0.95
77 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (74 bp):
TGATATCGTCGGTTTATCCGACTAGCGATGCACAAATCTTCGTTGGTATATCCAACTAGTGCTGG
GCACATATC
Found at i:20816505 original size:26 final size:26
Alignment explanation
Indices: 20816451--20816629 Score: 157
Period size: 26 Copynumber: 6.8 Consensus size: 26
20816441 TATCAGGCCT
* * * *
20816451 TGAGCCGATGATTTTTTTAGCAGGTTA
1 TGAGCCGGTGA-TTATTTAGCAAGCTA
*
20816478 TGAGCCAGTGATTATTTAGCAAGCTA
1 TGAGCCGGTGATTATTTAGCAAGCTA
* * *
20816504 TGAGTCGTTGATTATTTAGCAGGCTA
1 TGAGCCGGTGATTATTTAGCAAGCTA
* * *
20816530 TGAGCTGGTGTTTATTTAGCTAA-CTT
1 TGAGCCGGTGATTATTTAGC-AAGCTA
*
20816556 TGAGCCGGTGATTATTTAGCAGGCCT-
1 TGAGCCGGTGATTATTTAGCAAG-CTA
* *
20816582 TGAGCTGGTGATTATTTCAGCAAGCTT
1 TGAGCCGGTGATTATTT-AGCAAGCTA
*
20816609 TGAGCTGGTGAATTA-TTAGCA
1 TGAGCCGGTG-ATTATTTAGCA
20816630 GGTATTGTGT
Statistics
Matches: 126, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
25 1 0.01
26 92 0.73
27 29 0.23
28 4 0.03
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.37
Consensus pattern (26 bp):
TGAGCCGGTGATTATTTAGCAAGCTA
Found at i:20816532 original size:52 final size:52
Alignment explanation
Indices: 20816435--20816631 Score: 211
Period size: 52 Copynumber: 3.8 Consensus size: 52
20816425 ACGTGAAGAA
* * * * * * **
20816435 ATTATTTATCAGGCCTTGAGCCGATGATTTTTTTAGCAGGTTATGAGCCAGTG
1 ATTATTTAGCAAGCTTTGAGCCGGTGA-TTATTTAGCAGGCTATGAGCTGGTG
* * *
20816488 ATTATTTAGCAAGCTATGAGTCGTTGATTATTTAGCAGGCTATGAGCTGGTG
1 ATTATTTAGCAAGCTTTGAGCCGGTGATTATTTAGCAGGCTATGAGCTGGTG
*
20816540 TTTATTTAGCTAA-CTTTGAGCCGGTGATTATTTAGCAGGCCT-TGAGCTGGTG
1 ATTATTTAGC-AAGCTTTGAGCCGGTGATTATTTAGCAGG-CTATGAGCTGGTG
*
20816592 ATTATTTCAGCAAGCTTTGAGCTGGTGAATTA-TTAGCAGG
1 ATTATTT-AGCAAGCTTTGAGCCGGTG-ATTATTTAGCAGG
20816632 TATTGTGTAC
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
52 71 0.58
53 48 0.39
54 4 0.03
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (52 bp):
ATTATTTAGCAAGCTTTGAGCCGGTGATTATTTAGCAGGCTATGAGCTGGTG
Found at i:20820838 original size:18 final size:18
Alignment explanation
Indices: 20820815--20820851 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
20820805 GGAGTGCATT
20820815 ATATGAA-TGTGATAAGTG
1 ATATGAACT-TGATAAGTG
20820833 ATATGAACTTGATAAGTG
1 ATATGAACTTGATAAGTG
20820851 A
1 A
20820852 AAGTGTGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.32
Consensus pattern (18 bp):
ATATGAACTTGATAAGTG
Found at i:20827711 original size:25 final size:25
Alignment explanation
Indices: 20827674--20827724 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
20827664 TTGGGGGTAA
*
20827674 TAGGTCAATTGTTGGAAATCGCCAT
1 TAGGTCAACTGTTGGAAATCGCCAT
*
20827699 TAGGTCAACTGTTGGAAATCGTCAT
1 TAGGTCAACTGTTGGAAATCGCCAT
20827724 T
1 T
20827725 TTAAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (25 bp):
TAGGTCAACTGTTGGAAATCGCCAT
Found at i:20850529 original size:20 final size:19
Alignment explanation
Indices: 20850496--20850534 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
20850486 TAATTTTTCT
20850496 TTTTATACGAATTTTTATAA
1 TTTTATACGAA-TTTTATAA
* *
20850516 TTTTATATGTATTTTATAA
1 TTTTATACGAATTTTATAA
20850535 AATATTATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTATACGAATTTTATAA
Found at i:20851350 original size:39 final size:40
Alignment explanation
Indices: 20851274--20851360 Score: 97
Period size: 39 Copynumber: 2.2 Consensus size: 40
20851264 AAAATATATT
* ** *
20851274 TAATACAATAAATTATTTATTATATTTATTTGTG-TTTTG
1 TAATATAATAAAACATTTATTATATTTATTGGTGTTTTTG
* *
20851313 TAATATAATAAAACATTTATTGTATTTA-TGGTAGTTTTTT
1 TAATATAATAAAACATTTATTATATTTATTGGT-GTTTTTG
20851353 TAATATAA
1 TAATATAA
20851361 ATATTTTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
38 3 0.08
39 25 0.62
40 12 0.30
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (40 bp):
TAATATAATAAAACATTTATTATATTTATTGGTGTTTTTG
Found at i:20852203 original size:56 final size:56
Alignment explanation
Indices: 20852112--20852229 Score: 209
Period size: 56 Copynumber: 2.1 Consensus size: 56
20852102 TACTCTACAA
* *
20852112 AAATGCGACGATTAGTGGAAGTTGTAATGACTTATTTGTATGAGTTATTAGATAATG
1 AAAT-CGACGATTAATGAAAGTTGTAATGACTTATTTGTATGAGTTATTAGATAATG
20852169 AAATCGACGATTAATGAAAGTTGTAATGACTTATTTGTATGAGTTATTAGATAATG
1 AAATCGACGATTAATGAAAGTTGTAATGACTTATTTGTATGAGTTATTAGATAATG
20852225 AAATC
1 AAATC
20852230 TACATAAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 55 0.93
57 4 0.07
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (56 bp):
AAATCGACGATTAATGAAAGTTGTAATGACTTATTTGTATGAGTTATTAGATAATG
Found at i:20853186 original size:26 final size:26
Alignment explanation
Indices: 20853157--20853206 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
20853147 AATTAGAGTA
20853157 AGAGTTAGAGAATTCCTCGATTTTCT
1 AGAGTTAGAGAATTCCTCGATTTTCT
20853183 AGAGTTAGAGAATTCCTCGATTTT
1 AGAGTTAGAGAATTCCTCGATTTT
20853207 GCTAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (26 bp):
AGAGTTAGAGAATTCCTCGATTTTCT
Found at i:20854291 original size:10 final size:9
Alignment explanation
Indices: 20854265--20854300 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
20854255 AAGTGTTAAG
20854265 TATATATAT
1 TATATATAT
20854274 TATATATAT
1 TATATATAT
20854283 TATTATATAT
1 TA-TATATAT
20854293 TA-ATATAT
1 TATATATAT
20854301 AATAAAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 6 0.23
9 11 0.42
10 9 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TATATATAT
Found at i:20854301 original size:10 final size:10
Alignment explanation
Indices: 20854266--20854301 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
20854256 AGTGTTAAGT
20854266 ATATATATT-
1 ATATATATTA
20854275 ATATATATTA
1 ATATATATTA
*
20854285 TTATATATTA
1 ATATATATTA
20854295 ATATATA
1 ATATATA
20854302 ATAAAACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
ATATATATTA
Found at i:20854361 original size:16 final size:16
Alignment explanation
Indices: 20854337--20854376 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
20854327 ATAAAGAATT
20854337 AAAAAGAAACA-AAGC
1 AAAAAGAAACAGAAGC
*
20854352 AAAAACGAAACAGAAGG
1 AAAAA-GAAACAGAAGC
20854369 AAAAAGAA
1 AAAAAGAA
20854377 GGAAAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 5 0.23
16 9 0.41
17 8 0.36
ACGTcount: A:0.72, C:0.10, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAGAAACAGAAGC
Found at i:20854376 original size:10 final size:10
Alignment explanation
Indices: 20854358--20854394 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
20854348 AAGCAAAAAC
*
20854358 GAAACAGAAG
1 GAAAAAGAAG
20854368 GAAAAAGAAG
1 GAAAAAGAAG
20854378 GAAAAA-AA-
1 GAAAAAGAAG
20854386 GAAAAAGAA
1 GAAAAAGAA
20854395 AAAGGAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
8 6 0.24
9 4 0.16
10 15 0.60
ACGTcount: A:0.73, C:0.03, G:0.24, T:0.00
Consensus pattern (10 bp):
GAAAAAGAAG
Found at i:20855488 original size:48 final size:49
Alignment explanation
Indices: 20855409--20855527 Score: 125
Period size: 48 Copynumber: 2.4 Consensus size: 49
20855399 TGGCTCTTTG
* * ** **
20855409 GAGCTTCCCGATATTGGCTCGCTTGAACTTCCCGATAT-TGGCTCGTAT
1 GAGCTTCCCGTTAATGGCTCGCTTGAACTTCCCGATATACAGCTCACAT
* * *
20855457 GAGCTTCCCGTTAATGGCTC-TTTGGAGCTTCCCGTTATACAGCTCACAT
1 GAGCTTCCCGTTAATGGCTCGCTT-GAACTTCCCGATATACAGCTCACAT
20855506 GAGCTTCCCGTTATATGGCTCG
1 GAGCTTCCCGTTA-ATGGCTCG
20855528 AAAGAGCTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
47 2 0.03
48 30 0.52
49 19 0.33
50 7 0.12
ACGTcount: A:0.17, C:0.28, G:0.23, T:0.33
Consensus pattern (49 bp):
GAGCTTCCCGTTAATGGCTCGCTTGAACTTCCCGATATACAGCTCACAT
Found at i:20855493 original size:24 final size:24
Alignment explanation
Indices: 20855384--20855490 Score: 101
Period size: 24 Copynumber: 4.4 Consensus size: 24
20855374 GCACTTTCAC
* *
20855384 GAGCTTCCTGAAATATGGCTC-TTT
1 GAGCTTCCCGATA-ATGGCTCGTTT
* *
20855408 GGAGCTTCCCGATATTGGCTCGCTT
1 -GAGCTTCCCGATAATGGCTCGTTT
* * *
20855433 GAACTTCCCGATATTGGCTCGTAT
1 GAGCTTCCCGATAATGGCTCGTTT
*
20855457 GAGCTTCCCGTTAATGGCTC-TTT
1 GAGCTTCCCGATAATGGCTCGTTT
20855480 GGAGCTTCCCG
1 -GAGCTTCCCG
20855491 TTATACAGCT
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
23 2 0.03
24 54 0.78
25 13 0.19
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.34
Consensus pattern (24 bp):
GAGCTTCCCGATAATGGCTCGTTT
Found at i:20855526 original size:25 final size:25
Alignment explanation
Indices: 20855409--20855539 Score: 101
Period size: 24 Copynumber: 5.4 Consensus size: 25
20855399 TGGCTCTTTG
* * *
20855409 GAGCTTCCCGATAT-TGGCTCGCTT
1 GAGCTTCCCGTTATATGGCTCACAT
* * **
20855433 GAACTTCCCGATAT-TGGCTCGTAT
1 GAGCTTCCCGTTATATGGCTCACAT
**
20855457 GAGCTTCCCGTTA-ATGGCTC-TTT
1 GAGCTTCCCGTTATATGGCTCACAT
**
20855480 GGAGCTTCCCGTTATACAGCTCACAT
1 -GAGCTTCCCGTTATATGGCTCACAT
*
20855506 GAGCTTCCCGTTATATGGCTCGA-AA
1 GAGCTTCCCGTTATATGGCTC-ACAT
20855531 GAGCTTCCC
1 GAGCTTCCC
20855540 ATTTATGTGT
Statistics
Matches: 89, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
23 2 0.02
24 51 0.57
25 34 0.38
26 2 0.02
ACGTcount: A:0.18, C:0.28, G:0.22, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCACAT
Found at i:20855559 original size:25 final size:25
Alignment explanation
Indices: 20855409--20855565 Score: 78
Period size: 24 Copynumber: 6.4 Consensus size: 25
20855399 TGGCTCTTTG
**
20855409 GAGCTTCCCGA-TAT-TGGCTCGCTT
1 GAGCTTCCC-ATTATATGGCTCGAAT
* *
20855433 GAACTTCCCGA-TAT-TGGCTCGTAT
1 GAGCTTCCC-ATTATATGGCTCGAAT
* **
20855457 GAGCTTCCCGTTA-ATGGCTC-TTT
1 GAGCTTCCCATTATATGGCTCGAAT
* **
20855480 GGAGCTTCCCGTTATACAGCTC-ACAT
1 -GAGCTTCCCATTATATGGCTCGA-AT
* *
20855506 GAGCTTCCCGTTATATGGCTCGAAA
1 GAGCTTCCCATTATATGGCTCGAAT
* *
20855531 GAGCTTCCCATT-TATGTGTTCGTAT
1 GAGCTTCCCATTATATG-GCTCGAAT
20855556 GAGCATTCCC
1 GAGC-TTCCC
20855566 GAATATAAAT
Statistics
Matches: 108, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
23 2 0.02
24 54 0.50
25 45 0.42
26 7 0.06
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.33
Consensus pattern (25 bp):
GAGCTTCCCATTATATGGCTCGAAT
Found at i:20858946 original size:21 final size:22
Alignment explanation
Indices: 20858922--20858970 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
20858912 TTATTTTGTC
*
20858922 TTTTTAAAAATTAATTTTA-AT
1 TTTTTAAAAATTAACTTTAGAT
* *
20858943 TTTTTTAGAATTAACTTTAGAT
1 TTTTTAAAAATTAACTTTAGAT
20858965 TTTTTA
1 TTTTTA
20858971 GTAAAAGGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (22 bp):
TTTTTAAAAATTAACTTTAGAT
Found at i:20866328 original size:21 final size:21
Alignment explanation
Indices: 20866299--20866339 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
20866289 AGTCGTTGGT
*
20866299 AGGCTATGTCTCGAGACATGC
1 AGGCCATGTCTCGAGACATGC
20866320 AGGCCATGTCTCGAGACATG
1 AGGCCATGTCTCGAGACATG
20866340 TAGCCTCTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.22
Consensus pattern (21 bp):
AGGCCATGTCTCGAGACATGC
Found at i:20867998 original size:18 final size:19
Alignment explanation
Indices: 20867975--20868011 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
20867965 GTAAAACCCA
20867975 TGAAATAGA-GTTGATGAT
1 TGAAATAGATGTTGATGAT
*
20867993 TGAAATAGATGTTGGTGAT
1 TGAAATAGATGTTGATGAT
20868012 AATTTTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.35, C:0.00, G:0.30, T:0.35
Consensus pattern (19 bp):
TGAAATAGATGTTGATGAT
Found at i:20868458 original size:13 final size:13
Alignment explanation
Indices: 20868442--20868483 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
20868432 AAATCTCAAA
20868442 ATTTACTTATAAT
1 ATTTACTTATAAT
20868455 ATTTA---ATAAGT
1 ATTTACTTATAA-T
20868466 ATTTACTTATAAT
1 ATTTACTTATAAT
20868479 ATTTA
1 ATTTA
20868484 AAAAATTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
10 4 0.16
11 6 0.24
13 11 0.44
14 4 0.16
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (13 bp):
ATTTACTTATAAT
Found at i:20873882 original size:4 final size:4
Alignment explanation
Indices: 20873873--20873899 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
20873863 AAATTAAACC
20873873 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
20873900 GCAATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:20880986 original size:14 final size:14
Alignment explanation
Indices: 20880967--20880997 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
20880957 AACATTTTAA
*
20880967 TGGAATGTAATTTT
1 TGGAATGTAATTGT
20880981 TGGAATGTAATTGT
1 TGGAATGTAATTGT
20880995 TGG
1 TGG
20880998 GGGAAAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (14 bp):
TGGAATGTAATTGT
Found at i:20889978 original size:27 final size:27
Alignment explanation
Indices: 20889947--20890033 Score: 131
Period size: 27 Copynumber: 3.2 Consensus size: 27
20889937 CTAAAATATA
*
20889947 TAAAATGACCAAAATACCCTCATAGGG
1 TAAAATGACCGAAATACCCTCATAGGG
20889974 TAAAATGACCGAAATACCCTCATAGGG
1 TAAAATGACCGAAATACCCTCATAGGG
* *
20890001 TAAGATGACCGAAATACCC-CTACAGGG
1 TAAAATGACCGAAATACCCTC-ATAGGG
20890028 TAAAAT
1 TAAAAT
20890034 ACCCTATAGG
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
26 1 0.02
27 54 0.98
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCATAGGG
Found at i:20890010 original size:54 final size:54
Alignment explanation
Indices: 20889947--20890161 Score: 220
Period size: 54 Copynumber: 4.2 Consensus size: 54
20889937 CTAAAATATA
20889947 TAAAATGACCAAAATACCCTCATAGGGTAAAATGACCGAAATACCCTCATAGGG
1 TAAAATGACCAAAATACCCTCATAGGGTAAAATGACCGAAATACCCTCATAGGG
* * *
20890001 TAAGATGACCGAAATACCC-CTACAGGG-----T-A---AAATACCCT-ATAGGG
1 TAAAATGACCAAAATACCCTC-ATAGGGTAAAATGACCGAAATACCCTCATAGGG
* * * * * *
20890045 TAAAATAATCGAAATACCCTCGTAGGGTAAAATGACTGAAATACCCCCATAGGG
1 TAAAATGACCAAAATACCCTCATAGGGTAAAATGACCGAAATACCCTCATAGGG
* * *
20890099 TAAAATGACCAAAATACCCCCATAGGATAAAATAACCGAAATACCC-CTATAGGG
1 TAAAATGACCAAAATACCCTCATAGGGTAAAATGACCGAAATACCCTC-ATAGGG
20890153 TAAAATGAC
1 TAAAATGAC
20890162 TATTATACCC
Statistics
Matches: 131, Mismatches: 17, Indels: 26
0.75 0.10 0.15
Matches are distributed among these distances:
44 26 0.20
45 10 0.08
48 1 0.01
49 2 0.02
50 1 0.01
53 10 0.08
54 81 0.62
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.19
Consensus pattern (54 bp):
TAAAATGACCAAAATACCCTCATAGGGTAAAATGACCGAAATACCCTCATAGGG
Found at i:20890044 original size:17 final size:18
Alignment explanation
Indices: 20890012--20890051 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
20890002 AAGATGACCG
20890012 AAATACCCCTACAGGGTA
1 AAATACCCCTACAGGGTA
*
20890030 AAATA-CCCTATAGGGTA
1 AAATACCCCTACAGGGTA
20890047 AAATA
1 AAATA
20890052 ATCGAAATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (18 bp):
AAATACCCCTACAGGGTA
Found at i:20890058 original size:71 final size:72
Alignment explanation
Indices: 20889957--20890104 Score: 226
Period size: 71 Copynumber: 2.1 Consensus size: 72
20889947 TAAAATGACC
* * *
20889957 AAAATACCCTCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAGATGACCGAAATACCCCT
1 AAAATACCCTCATAGGGTAAAATAACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCC
20890022 ACAGGGT
66 ACAGGGT
* * *
20890029 AAAATACCCT-ATAGGGTAAAATAATCGAAATACCCTCGTAGGGTAAAATGACTGAAATACCCCC
1 AAAATACCCTCATAGGGTAAAATAACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCC
*
20890093 ATAGGGT
66 ACAGGGT
20890100 AAAAT
1 AAAAT
20890105 GACCAAAATA
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
71 59 0.86
72 10 0.14
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (72 bp):
AAAATACCCTCATAGGGTAAAATAACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCC
ACAGGGT
Found at i:20890072 original size:44 final size:44
Alignment explanation
Indices: 20889985--20890077 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
20889975 AAAATGACCG
* *
20889985 AAATACCCTCATAGGGTAAGATGACCGAAATACCCCTACAGGGTA
1 AAATACCCTCATAGGGTAAAATAACCGAAATACCCCTA-AGGGTA
*
20890030 AAATACCCT-ATAGGGTAAAATAATCGAAATACCCTCGT-AGGGTA
1 AAATACCCTCATAGGGTAAAATAACCGAAATACCC-C-TAAGGGTA
20890074 AAAT
1 AAAT
20890078 GACTGAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
44 32 0.74
45 10 0.23
46 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.20
Consensus pattern (44 bp):
AAATACCCTCATAGGGTAAAATAACCGAAATACCCCTAAGGGTA
Found at i:20890075 original size:27 final size:27
Alignment explanation
Indices: 20890030--20890158 Score: 161
Period size: 27 Copynumber: 4.8 Consensus size: 27
20890020 CTACAGGGTA
* *
20890030 AAATA-CCCTATAGGGTAAAATAATCG
1 AAATACCCCCATAGGGTAAAATAACCG
* * * *
20890056 AAATACCCTCGTAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATAACCG
* *
20890083 AAATACCCCCATAGGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATAACCG
*
20890110 AAATACCCCCATAGGATAAAATAACCG
1 AAATACCCCCATAGGGTAAAATAACCG
*
20890137 AAATACCCCTATAGGGTAAAAT
1 AAATACCCCCATAGGGTAAAAT
20890159 GACTATTATA
Statistics
Matches: 87, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 5 0.06
27 82 0.94
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATAACCG
Found at i:20890710 original size:34 final size:33
Alignment explanation
Indices: 20890637--20890702 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 33
20890627 TGTTACTGTT
* *
20890637 ATGGGCCAAGGCCCCACTGATACTATTATTGAA
1 ATGGGCAAAGGCCCCACTGATACTAGTATTGAA
* *
20890670 ATTGGGCAAAGGCCCTACTGATTACTGGTATTG
1 A-TGGGCAAAGGCCCCACTGA-TACTAGTATTG
20890703 TGATGGGCTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 1 0.04
34 17 0.63
35 9 0.33
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (33 bp):
ATGGGCAAAGGCCCCACTGATACTAGTATTGAA
Found at i:20893747 original size:14 final size:14
Alignment explanation
Indices: 20893725--20893757 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
20893715 AACTTGAATT
*
20893725 TGAAGGAAAAATAA
1 TGAAAGAAAAATAA
20893739 TGAAAGAAAAATAA
1 TGAAAGAAAAATAA
20893753 TGAAA
1 TGAAA
20893758 TTTTTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.15
Consensus pattern (14 bp):
TGAAAGAAAAATAA
Found at i:20896902 original size:18 final size:19
Alignment explanation
Indices: 20896869--20896907 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
20896859 TAAGGTATGG
* *
20896869 ATTTTGTTAGGTTTTTGAT
1 ATTTTGTTACGTTTTTAAT
20896888 ATTTT-TTACGTTTTTAAT
1 ATTTTGTTACGTTTTTAAT
20896906 AT
1 AT
20896908 AGTTGCTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.21, C:0.03, G:0.13, T:0.64
Consensus pattern (19 bp):
ATTTTGTTACGTTTTTAAT
Found at i:20902165 original size:47 final size:47
Alignment explanation
Indices: 20902111--20902205 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
20902101 ATATGCGAAG
* *
20902111 TTCAGTAAATGTGGGTTCTGGTTATGAGAAGTTAGTTTTCTTGAACA
1 TTCAGTAAATGTGGGTTCTGGTTATGAGAAGTCAGTTTTCTCGAACA
20902158 TTCAGTAAATGTGGGTTCTGGTTATGAGAAGTCAGTTTTCTCGAACA
1 TTCAGTAAATGTGGGTTCTGGTTATGAGAAGTCAGTTTTCTCGAACA
20902205 T
1 T
20902206 GTTGTATCGG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.39
Consensus pattern (47 bp):
TTCAGTAAATGTGGGTTCTGGTTATGAGAAGTCAGTTTTCTCGAACA
Found at i:20905241 original size:16 final size:17
Alignment explanation
Indices: 20905212--20905244 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20905202 ATCACAATAA
20905212 AATAAAATTCTAATATT
1 AATAAAATTCTAATATT
*
20905229 AATAAACTT-TAATATT
1 AATAAAATTCTAATATT
20905245 TTCATATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
AATAAAATTCTAATATT
Found at i:20907615 original size:2 final size:2
Alignment explanation
Indices: 20907608--20907669 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
20907598 GACATGTGCG
20907608 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
20907650 TA TA TA TA AA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
20907670 AAATATTCAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:20907955 original size:23 final size:22
Alignment explanation
Indices: 20907912--20908026 Score: 70
Period size: 19 Copynumber: 5.6 Consensus size: 22
20907902 AAAAGGTATC
* *
20907912 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
20907933 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* * *
20907956 TGCATATCATA---TCTAATAT
1 TACAAATCATATCTTCTAAGAT
*
20907975 TACATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
* *
20907994 TGCATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
*
20908013 TACATATCATATCT
1 TACAAATCATATCT
20908027 AAGATTGCAT
Statistics
Matches: 80, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
19 52 0.65
21 3 0.04
22 15 0.19
23 10 0.12
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:20907980 original size:19 final size:19
Alignment explanation
Indices: 20907948--20908038 Score: 155
Period size: 19 Copynumber: 4.8 Consensus size: 19
20907938 AATCATATCT
20907948 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
20907967 TCTAATATTACATATCATA
1 TCTAAGATTGCATATCATA
20907986 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
20908005 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
20908024 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
20908039 TCTTGAAGAT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 66 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:20907996 original size:38 final size:38
Alignment explanation
Indices: 20907925--20908038 Score: 174
Period size: 38 Copynumber: 2.9 Consensus size: 38
20907915 AAATTAAATC
*
20907925 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTGCATATCATA
*
20907967 TCTAATATTACATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
20908005 TCTAAGATTACATATCATATCTAAGATTGCATAT
1 TCTAAGATTACATATCATATCTAAGATTGCATAT
20908039 TCTTGAAGAT
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 52 0.75
41 7 0.10
42 10 0.14
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:20908430 original size:18 final size:18
Alignment explanation
Indices: 20908399--20908448 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
20908389 TATATTATAA
20908399 TATTAATTAATAAAATAT
1 TATTAATTAATAAAATAT
* *
20908417 TATTACTTATTAAAATAT
1 TATTAATTAATAAAATAT
20908435 TATTAA-TAATAAAA
1 TATTAATTAATAAAA
20908449 ACATCATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 7 0.25
18 21 0.75
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTAATTAATAAAATAT
Found at i:20909829 original size:27 final size:27
Alignment explanation
Indices: 20909791--20909846 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
20909781 TGGTATATAA
20909791 TAAAGGAGAGTTCAGCCATAATACTTC
1 TAAAGGAGAGTTCAGCCATAATACTTC
* *
20909818 TAAAGGAGAGTTTAGTCATAATACTTC
1 TAAAGGAGAGTTCAGCCATAATACTTC
20909845 TA
1 TA
20909847 GTGGGGTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (27 bp):
TAAAGGAGAGTTCAGCCATAATACTTC
Found at i:20910135 original size:21 final size:21
Alignment explanation
Indices: 20910096--20910135 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
20910086 TTAAGAATTA
*
20910096 ATTTAATTTCATTGGATTATT
1 ATTTAATTTCATTGAATTATT
20910117 ATTTAATTT-ATTGTAATTA
1 ATTTAATTTCATTG-AATTA
20910136 AATAATTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (21 bp):
ATTTAATTTCATTGAATTATT
Found at i:20913224 original size:11 final size:11
Alignment explanation
Indices: 20913195--20913259 Score: 69
Period size: 11 Copynumber: 5.8 Consensus size: 11
20913185 AACTAATGCT
20913195 CTCTCAAATTTC
1 CTCTCAAA-TTC
20913207 CTCTCAAATTC
1 CTCTCAAATTC
* * *
20913218 CTTTCAATTTG
1 CTCTCAAATTC
20913229 CTCTCAAATTC
1 CTCTCAAATTC
*
20913240 CT-TCCAAATTT
1 CTCT-CAAATTC
20913251 CTCTCAAAT
1 CTCTCAAAT
20913260 CCATATTTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
10 1 0.02
11 34 0.77
12 9 0.20
ACGTcount: A:0.26, C:0.31, G:0.02, T:0.42
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:20913226 original size:22 final size:22
Alignment explanation
Indices: 20913199--20913259 Score: 88
Period size: 22 Copynumber: 2.7 Consensus size: 22
20913189 AATGCTCTCT
*
20913199 CAAATTTCCTCTCAAATTCCTTT
1 CAAATTT-CTCTCAAATTCCTTC
20913222 C-AATTTGCTCTCAAATTCCTTC
1 CAAATTT-CTCTCAAATTCCTTC
20913244 CAAATTTCTCTCAAAT
1 CAAATTTCTCTCAAAT
20913260 CCATATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
22 29 0.83
23 6 0.17
ACGTcount: A:0.28, C:0.30, G:0.02, T:0.41
Consensus pattern (22 bp):
CAAATTTCTCTCAAATTCCTTC
Found at i:20913292 original size:51 final size:51
Alignment explanation
Indices: 20913221--20913318 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
20913211 CAAATTCCTT
*
20913221 TCAATTTGCTCTCAAATTCCT-TCCAAATTTCTCTCAAATCCATATTTAATC
1 TCAATTTACTCTCAAATTCCTCT-CAAATTTCTCTCAAATCCATATTTAATC
* * * * *
20913272 TCAATTTACTCTTAATTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCAATTTACTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTT
20913319 TTAAATAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
51 39 0.98
52 1 0.03
ACGTcount: A:0.28, C:0.26, G:0.01, T:0.46
Consensus pattern (51 bp):
TCAATTTACTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTTAATC
Found at i:20913309 original size:11 final size:12
Alignment explanation
Indices: 20913274--20913310 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
20913264 ATTTAATCTC
20913274 AATTTACTCTT-
1 AATTTACTCTTA
*
20913285 AATTTCCTCTTA
1 AATTTACTCTTA
20913297 AATTT-CTCTTA
1 AATTTACTCTTA
20913308 AAT
1 AAT
20913311 CCCTATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (12 bp):
AATTTACTCTTA
Found at i:20914477 original size:7 final size:7
Alignment explanation
Indices: 20914465--20914496 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
20914455 AGTCGATTGT
20914465 TATTTAG
1 TATTTAG
20914472 TATTTAG
1 TATTTAG
20914479 TATTTAG
1 TATTTAG
20914486 TATTTAG
1 TATTTAG
20914493 TATT
1 TATT
20914497 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:20915698 original size:9 final size:8
Alignment explanation
Indices: 20915676--20915700 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
20915666 AATTAGTTTA
20915676 TTAAAAAT
1 TTAAAAAT
20915684 TTAAAAAT
1 TTAAAAAT
20915692 TTAAAAAT
1 TTAAAAAT
20915700 T
1 T
20915701 ATAATTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TTAAAAAT
Found at i:20915743 original size:7 final size:7
Alignment explanation
Indices: 20915727--20915776 Score: 75
Period size: 7 Copynumber: 7.3 Consensus size: 7
20915717 TTTAATTGAC
20915727 AAACCCT
1 AAACCCT
*
20915734 AAACCTT
1 AAACCCT
20915741 AAACCCT
1 AAACCCT
20915748 AAACCCT
1 AAACCCT
*
20915755 -AACCGT
1 AAACCCT
20915761 AAACCCT
1 AAACCCT
20915768 AAACCCT
1 AAACCCT
20915775 AA
1 AA
20915777 CCATTAACTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
6 5 0.13
7 33 0.87
ACGTcount: A:0.44, C:0.38, G:0.02, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:20915763 original size:20 final size:20
Alignment explanation
Indices: 20915727--20915778 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
20915717 TTTAATTGAC
*
20915727 AAACCCTAAACCTTAAACCCT
1 AAACCCT-AACCGTAAACCCT
20915748 AAACCCTAACCGTAAACCCT
1 AAACCCTAACCGTAAACCCT
20915768 AAACCCTAACC
1 AAACCCTAACC
20915779 ATTAACTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 23 0.77
21 7 0.23
ACGTcount: A:0.42, C:0.40, G:0.02, T:0.15
Consensus pattern (20 bp):
AAACCCTAACCGTAAACCCT
Found at i:20915794 original size:21 final size:22
Alignment explanation
Indices: 20915768--20915810 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
20915758 CGTAAACCCT
20915768 AAACCCT-AACCATTAACTTAA
1 AAACCCTAAACCATTAACTTAA
*
20915789 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCATTAACTTAA
20915811 CTTAAAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (22 bp):
AAACCCTAAACCATTAACTTAA
Found at i:20915801 original size:28 final size:26
Alignment explanation
Indices: 20915761--20915832 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 26
20915751 CCCTAACCGT
20915761 AAACCCTAAACCCTAACCATTAACTTAA
1 AAACCCTAAACCCTAA-C-TTAACTTAA
20915789 AAACCCTAAACCCTTAACTTAACTTAA
1 AAACCCTAAACCC-TAACTTAACTTAA
*
20915816 AAACCCCTTAACCCTAA
1 AAA-CCCTAAACCCTAA
20915833 ACCCTAACCC
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 15 0.37
28 23 0.56
29 3 0.07
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (26 bp):
AAACCCTAAACCCTAACTTAACTTAA
Found at i:20915829 original size:83 final size:84
Alignment explanation
Indices: 20915737--20915893 Score: 230
Period size: 83 Copynumber: 1.9 Consensus size: 84
20915727 AAACCCTAAA
*
20915737 CCTTAAACCCTAAACCCTAACCGTAAACCCT-AAACCCTAA-CCATTAACTTAAAAACCCTAAAC
1 CCTTAAACCCTAAACCCTAACCCTAAA-CCTAAAACCCTAATCC-TTAACTTAAAAACCCTAAAC
20915800 CCTTAACTTAACTTAAAAACC
64 CCTTAACTTAACTTAAAAACC
* * * *
20915821 CCTT-AACCCTAAACCCTAACCCTTAACTTAAAACCCTAATCCTTAACTTAAAAATCGTAAACCC
1 CCTTAAACCCTAAACCCTAACCCTAAACCTAAAACCCTAATCCTTAACTTAAAAACCCTAAACCC
20915885 TTAACTTAA
66 TTAACTTAA
20915894 AAACCCTAAC
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
82 2 0.03
83 58 0.88
84 6 0.09
ACGTcount: A:0.41, C:0.33, G:0.01, T:0.24
Consensus pattern (84 bp):
CCTTAAACCCTAAACCCTAACCCTAAACCTAAAACCCTAATCCTTAACTTAAAAACCCTAAACCC
TTAACTTAACTTAAAAACC
Found at i:20915845 original size:20 final size:20
Alignment explanation
Indices: 20915727--20915867 Score: 85
Period size: 20 Copynumber: 6.8 Consensus size: 20
20915717 TTTAATTGAC
*
20915727 AAACCCTAAACCTTAAACCCT
1 AAACCCTAACCCTT-AACCCT
* *
20915748 AAACCCTAACCGTAAACCCT
1 AAACCCTAACCCTTAACCCT
* *
20915768 AAACCCTAACCATTAA-CTT
1 AAACCCTAACCCTTAACCCT
20915787 AAAAACCCTAAACCCTTAA--CT
1 --AAACCCT-AACCCTTAACCCT
* *
20915808 TAA-CTTAAAAACCCCTTAACCCT
1 AAACCCT---AA-CCCTTAACCCT
*
20915831 AAACCCTAACCCTTAA-CTT
1 AAACCCTAACCCTTAACCCT
*
20915850 AAAACCCTAATCCTTAAC
1 -AAACCCTAACCCTTAAC
20915868 TTAAAAATCG
Statistics
Matches: 95, Mismatches: 14, Indels: 22
0.73 0.11 0.17
Matches are distributed among these distances:
18 2 0.02
19 6 0.06
20 45 0.47
21 28 0.29
22 8 0.08
23 4 0.04
24 2 0.02
ACGTcount: A:0.42, C:0.35, G:0.01, T:0.22
Consensus pattern (20 bp):
AAACCCTAACCCTTAACCCT
Found at i:20915889 original size:22 final size:21
Alignment explanation
Indices: 20915831--20915906 Score: 109
Period size: 20 Copynumber: 3.6 Consensus size: 21
20915821 CCTTAACCCT
20915831 AAACCCTAACCCTTAACTT-A
1 AAACCCTAACCCTTAACTTAA
*
20915851 AAACCCTAATCCTTAACTTAA
1 AAACCCTAACCCTTAACTTAA
* *
20915872 AAATCGTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
20915894 AAACCCTAACCCT
1 AAACCCTAACCCT
20915907 AACCCTAACC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
20 18 0.38
21 12 0.25
22 18 0.38
ACGTcount: A:0.42, C:0.32, G:0.01, T:0.25
Consensus pattern (21 bp):
AAACCCTAACCCTTAACTTAA
Found at i:20919189 original size:126 final size:126
Alignment explanation
Indices: 20918961--20919405 Score: 624
Period size: 126 Copynumber: 3.5 Consensus size: 126
20918951 CCCAAACATG
* * ** ***
20918961 CTACTGTAGCAAAAGCGTGTCCACGTGGGCGTAATTTCACAAATTCTTCTCAATGTCGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTC-ATAAAGCATCCTG
* * * *
20919026 CTTGAAGCATTTTTAT-ACTATTTGCTTAGAAATGTCAAGTCGAAATTATTTTTTCCAGGAC
65 CTTGAAGCATTTTTTTAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
* *
20919087 CTACTGTAGCAAAAGCGTGTCCACGAGGGCGTGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
** * *
20919152 TAAAAGCATTTTTTTAACTATTTGCTCAAAAACGTCAAGTCAAAATTATTTCTTCCAGGAC
66 TTGAAGCATTTTTTTAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
*
20919213 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* *
20919278 TTGAAGCA-TTTTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTTCTTCTAGGAC
66 TTGAAGCATTTTTTTA-ACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
* * * * * *
20919339 CAACTGTAGCAAAAGCGCGTACACGTGGGCGCGACTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
20919404 TT
66 TT
20919406 TGATTTTTAT
Statistics
Matches: 288, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
125 30 0.10
126 258 0.90
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCATTTTTTTAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
Found at i:20919575 original size:21 final size:22
Alignment explanation
Indices: 20919535--20919577 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
20919525 CCCTAAAAAT
* *
20919535 CCTAAAAACCCTAAACCCTAAC
1 CCTAAAAACCCAAAAACCTAAC
20919557 CCTAAAAA-CCAAAAACCTAAC
1 CCTAAAAACCCAAAAACCTAAC
20919578 GGGAAAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.37, G:0.00, T:0.12
Consensus pattern (22 bp):
CCTAAAAACCCAAAAACCTAAC
Found at i:20920698 original size:16 final size:16
Alignment explanation
Indices: 20920673--20920703 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20920663 GTCCAGTCCC
*
20920673 ATGTGTTGTCAATCCG
1 ATGTGCTGTCAATCCG
20920689 ATGTGCTGTCAATCC
1 ATGTGCTGTCAATCC
20920704 ATTCAATCAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (16 bp):
ATGTGCTGTCAATCCG
Found at i:20921533 original size:21 final size:21
Alignment explanation
Indices: 20921492--20921535 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
20921482 AGATGCTAAC
*
20921492 AAGGTAGCTCATGTACTTGCA
1 AAGGTAGCTCATGTACATGCA
*
20921513 AAGGTAGCCTTAT-TACATGCA
1 AAGGTAG-CTCATGTACATGCA
20921534 AA
1 AA
20921536 CCACACTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (21 bp):
AAGGTAGCTCATGTACATGCA
Found at i:20922990 original size:9 final size:9
Alignment explanation
Indices: 20922978--20923004 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
20922968 GTTAGTTAGG
20922978 TTAATTAAT
1 TTAATTAAT
20922987 TTAATTAAT
1 TTAATTAAT
20922996 TTAATTAAT
1 TTAATTAAT
20923005 AATTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTAATTAAT
Found at i:20923413 original size:84 final size:85
Alignment explanation
Indices: 20923325--20923484 Score: 229
Period size: 84 Copynumber: 1.9 Consensus size: 85
20923315 CATTCAAGTA
* *
20923325 GGTACTTGAACTTTTAAAATGCA-TAAAAAAGGCCCTCATAC-TTTTC-AAAAAAA-CAATTAAG
1 GGTACTTGAACTTTCAAAATGCATTAAAAAA-GCCCTCAAACTTTTTCAAAAAAAATCAATTAAG
20923386 CCCTGCTTTTTTTTACTTAATTT
65 CCC--CTTTTTTTTACTTAATTT
*
20923409 GGTACTTGAACTTTCAAAGTGCATTAAAAAAGCCCTCAAACTTTTTCAAAAAAAAATCAATTAAG
1 GGTACTTGAACTTTCAAAATGCATTAAAAAAGCCCTCAAACTTTTTC-AAAAAAAATCAATTAAG
20923474 CCCCTTTTTTT
65 CCCCTTTTTTT
20923485 GCACTGTCAC
Statistics
Matches: 68, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
84 30 0.44
85 12 0.18
86 8 0.12
87 7 0.10
88 11 0.16
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (85 bp):
GGTACTTGAACTTTCAAAATGCATTAAAAAAGCCCTCAAACTTTTTCAAAAAAAATCAATTAAGC
CCCTTTTTTTTACTTAATTT
Found at i:20927026 original size:22 final size:22
Alignment explanation
Indices: 20926982--20927043 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
20926972 ATCTTCAAGG
*
20926982 ATATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATA
20927001 ATATGCAATCTTAGAAGATATA
1 ATATGCAATCTTAGAAGATATA
*
20927023 ATATGCAATCTTAGAAAATAT
1 ATATGCAATCTTAGAAGATAT
20927044 GATTTTGTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 12 0.32
22 26 0.68
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.34
Consensus pattern (22 bp):
ATATGCAATCTTAGAAGATATA
Found at i:20927308 original size:23 final size:23
Alignment explanation
Indices: 20927264--20927308 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
20927254 TCTTATTTTG
* *
20927264 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
20927287 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
20927309 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:20927986 original size:3 final size:3
Alignment explanation
Indices: 20927978--20928007 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
20927968 TTATCTTTTC
20927978 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
20928008 GTTCTTGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:20930240 original size:19 final size:18
Alignment explanation
Indices: 20930201--20930245 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 18
20930191 TCTCTCTTCT
20930201 TTTGCATTCATGGCATTC
1 TTTGCATTCATGGCATTC
20930219 TTTGCATTCAT-GCATTAGC
1 TTTGCATTCATGGCATT--C
20930238 TTTGCATT
1 TTTGCATT
20930246 GCATCATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.20
18 11 0.44
19 9 0.36
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.47
Consensus pattern (18 bp):
TTTGCATTCATGGCATTC
Found at i:20931638 original size:14 final size:15
Alignment explanation
Indices: 20931612--20931644 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
20931602 TCCCAAGCTG
20931612 GGAAGGACCTTATAT
1 GGAAGGACCTTATAT
*
20931627 GGAAGG-CCTTATCT
1 GGAAGGACCTTATAT
20931641 GGAA
1 GGAA
20931645 AAGCGTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.24
Consensus pattern (15 bp):
GGAAGGACCTTATAT
Found at i:20933061 original size:45 final size:45
Alignment explanation
Indices: 20932996--20934281 Score: 848
Period size: 45 Copynumber: 28.9 Consensus size: 45
20932986 GTGAAAACAA
* ** *
20932996 CAGATCTTGTCTTCCTGTATTAGCAGCGAAGTAGATAAAAAATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
20933041 TAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * * *
20933086 TAGATCTTGTCTTCCTATACTGACAGCGAAGTAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * *
20933131 CAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATTGAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
20933176 CAGATCTTGTCTTCCTCTATCGGCAGCGAAGTAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * *
20933221 CAGAACTTGTCTTCCTATATTGGTAGCAAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
20933266 CAGATCTTGTCTTCTTATATTGGCAGCGAATTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
*
20933311 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAAATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
20933356 CAAATCTTGTCTTCCTGTATTGGCAGAGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
20933401 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
20933446 CAGATCTTGTCTTCCTATATTGACAGCAAAGTAGATCGAAGATA-
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * * * * * * ** *
20933490 CA-AGCCTTGTCTCCCTG-AGTAGTAGTGGAGTAGGTTAAAAATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
*
20933534 CAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA-
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *** * * * * * *
20933578 CA-AGCCTTGTCTCCCTG-AGCAGTAGTGGAGTAGGTTGAAAATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
*
20933622 CAAATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA-
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * * * * * ** *
20933666 CA-AGCCTTGTC-T-CTCTA-AGCAGTAGTGGAGTAGGTTAAAAATAG
1 CAGA-TCTTGTCTTCCTGTATTG--GCAGCGAAGTAGATCGAAGATAG
* * * * * ***
20933710 CCGATCTTATCTTCCTATATTGACAGCGAAGTAGATCGGAGACCT
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *** * * * * * *
20933755 CAG-CCTTGTC-TCCT-TGAGCAGCAGTGGAGTAGGTTGAAAATAA
1 CAGATCTTGTCTTCCTGT-ATTGGCAGCGAAGTAGATCGAAGATAG
* * *
20933798 CAGATATTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAC
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * * * * * * * *
20933843 CAG-CCTTATCTTTCT-AAGTAGCAGTAGAA-TAGGTTGAAAATAG
1 CAGATCTTGTCTTCCTGTATTGGCAG-CGAAGTAGATCGAAGATAG
* * *
20933886 CAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATTGAAGATAT
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * * *** * * * * * *
20933931 CAG-CCTTATCTCCCT-AAGCAGCAGTGGAGTAGGTTGAAAATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * **
20933974 TAGATATTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-CC
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * ** * * * * * * *
20934018 CTAG-CCTTATCTCCCTG-GGTAGTAGTGGAGTATG-TTGAAAATAA
1 C-AGATCTTGTCTTCCTGTATTGGCAGCGAAGTA-GATCGAAGATAG
*
20934062 CAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
*** * * * * * * * * * *
20934107 CA-AGTCCCATCTCCCTG-AGTAGCAGTGGAGTAGGTTGAAAAGAA
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * *
20934151 CAGATATTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * * *
20934196 CA-AGTCTTATCTCCCTG-AGTT-GTAGCGGAGCAGA-CTGAAGATAG
1 CAGA-TCTTGTCTTCCTGTA-TTGGCAGCGAAGTAGATC-GAAGATAG
* * * *
20934240 TAGATCTTGTCTTCCTGTATTGGTAGTGAAGCAGATCGAAGA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA
20934282 CACCAGCCTT
Statistics
Matches: 932, Mismatches: 267, Indels: 84
0.73 0.21 0.07
Matches are distributed among these distances:
41 1 0.00
42 5 0.01
43 130 0.14
44 199 0.21
45 590 0.63
46 6 0.01
47 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (45 bp):
CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
Found at i:20933555 original size:88 final size:88
Alignment explanation
Indices: 20932987--20934431 Score: 1119
Period size: 88 Copynumber: 16.3 Consensus size: 88
20932977 AACAGATCAG
* * * ** * ** *
20932987 TGAAAACAACAGATCTTGTCTTCCTGTATTAGCAGCGAAGTAGATAAAAAATAGTAGATCTTGTC
1 TGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACAAG-CCTTGTC
* * * * *
20933052 TTCCTGTATTGGCAGTGAAGTAGAT
65 TCCCTG-AGTAGCAGTGGAGTAGGT
* * * * * * * *
20933077 CGAAGATAGTAGATCTTGTCTTCCTATACTGACAGCGAAGTAGATCAAAGATAGC-AGATCTTGT
1 TGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA-CAAG-CCTTGT
* * * * * * * *
20933141 CTTCCTATATTGGTAGCGAAGTAGAT
64 CTCCCT-GAGTAGCAGTGGAGTAGGT
* * * * * *
20933167 TGAAGATAACAGATCTTGTCTTCCTCTATCGGCAGCGAAGTAGATCAAAGATAGC-AGAACTTGT
1 TGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA-CAAG-CCTTGT
* * * * * *** *
20933231 CTTCCTATATTGGTAGCAAAGTAGAT
64 CTCCCT-GAGTAGCAGTGGAGTAGGT
* * * * * *
20933257 CGAAGATAGCAGATCTTGTCTTCTTATATTGGCAGCGAATTAGATCGAAGATAGC-AGATCTTGT
1 TGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA-CAAG-CCTTGT
* * * * * **
20933321 CTTCCTGTATTGGCAGCGAAGTAAAT
64 CTCCCTG-AGTAGCAGTGGAGTAGGT
* * * * *
20933347 CGAAGATAGCAAATCTTGTCTTCCTGTATTGGCAGAGAAGTAGATCGAAGATAGC-AGATCTTGT
1 TGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA-CAAG-CCTTGT
* * * * * *
20933411 CTTCCTGTATTGGCAGCGAAGTAGAT
64 CTCCCTG-AGTAGCAGTGGAGTAGGT
* * * * *
20933437 CGAAGATAGCAGATCTTGTCTTCCTATATTGACAGCAAAGTAGATCGAAGATACAAGCCTTGTCT
1 TGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACAAGCCTTGTCT
*
20933502 CCCTGAGTAGTAGTGGAGTAGGT
66 CCCTGAGTAGCAGTGGAGTAGGT
* *
20933525 TAAAAATAGCAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACAAGCCTTGTCT
1 TGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACAAGCCTTGTCT
* *
20933590 CCCTGAGCAGTAGTGGAGTAGGT
66 CCCTGAGTAGCAGTGGAGTAGGT
*
20933613 TGAAAATAGCAAATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACAAGCCTTGTCT
1 TGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACAAGCCTTGTCT
* * * *
20933678 CTCTAAGCAGTAGTGGAGTAGGT
66 CCCTGAGTAGCAGTGGAGTAGGT
* * * * * *
20933701 TAAAAATAGCCGATCTTATCTTCCTATATTGACAGCGAAGTAGATCGGAGACCT-C-AGCCTTGT
1 TGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA--TACAAGCCTTGT
* *
20933764 CTCCTTGAGCAGCAGTGGAGTAGGT
64 CTCCCTGAGTAGCAGTGGAGTAGGT
* * * * *
20933789 TGAAAATAACAGATATTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGATACCAGCCTTATCT
1 TGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACAAGCCTTGTCT
** * * *
20933854 TTCTAAGTAGCAGTAGAATAGGT
66 CCCTGAGTAGCAGTGGAGTAGGT
* * *
20933877 TGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATTGAAGATATC-AGCCTTATC
1 TGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA-CAAGCCTTGTC
* *
20933941 TCCCTAAGCAGCAGTGGAGTAGGT
65 TCCCTGAGTAGCAGTGGAGTAGGT
** * * ** * *
20933965 TGAAAATAATAGATATTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACCCTAGCCTTATCT
1 TGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACAAGCCTTGTCT
* * *
20934030 CCCTGGGTAGTAGTGGAGTATGT
66 CCCTGAGTAGCAGTGGAGTAGGT
* * **
20934053 TGAAAATAACAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAGCAAGTCC-CAT
1 TGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA-CAAG-CCTTGT
20934117 CTCCCTGAGTAGCAGTGGAGTAGGT
64 CTCCCTGAGTAGCAGTGGAGTAGGT
* * * * * * * *
20934142 TGAAAAGAACAGATATTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAGATAGCAAGTCTTATC
1 TGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA-CAAGCCTTGTC
* * * * **
20934207 TCCCTGAGTTGTAGCGGAGCAGAC
65 TCCCTGAGTAGCAGTGGAGTAGGT
* * * * * * * *
20934231 TGAAGATAGTAGATCTTGTCTTCCTGTATTGGTAGTGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACAAGCCTTGTCT
* ** * **
20934296 CCCTGAGTTTGCAGCAGAGCAGAC
66 CCCTGAG-TAGCAGTGGAGTAGGT
* * * * * * * * * * *
20934320 TAAAAACAGCAGATCTTATCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAG-TTCTATC
1 TGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACAAGCCT-TGTC
* * *
20934384 TCCCTGAGCAGTAGTGGAGT-GAT
65 TCCCTGAGTAGCAGTGGAGTAGGT
* * *
20934407 TGAAAATTGTAGATCCTGTCTTCCT
1 TGAAAATAGCAGATCTTGTCTTCCT
20934432 AAGCAGTAGT
Statistics
Matches: 1158, Mismatches: 182, Indels: 33
0.84 0.13 0.02
Matches are distributed among these distances:
86 1 0.00
87 23 0.02
88 536 0.46
89 230 0.20
90 368 0.32
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (88 bp):
TGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACAAGCCTTGTCT
CCCTGAGTAGCAGTGGAGTAGGT
Found at i:20933633 original size:44 final size:44
Alignment explanation
Indices: 20933494--20933710 Score: 132
Period size: 44 Copynumber: 4.9 Consensus size: 44
20933484 AAGATACAAG
* *
20933494 CCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTAAAAATAGCAGA
1 CCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAAA
* * * * * * * * * * * *
20933538 TCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA-CAAG
1 CCTTGTCTCCCTG-AGTAGTAGTGGAGTAGGTTGAAAATAGCAAA
*
20933582 CCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAGCAAA
1 CCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAAA
* * * * * * * * * * *
20933626 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA-CAAG
1 CCTTGTCTCCCTG-AGTAGTAGTGGAGTAGGTTGAAAATAGCAAA
* * * *
20933670 CCTTGTCTCTCTAAGCAGTAGTGGAGTAGGTTAAAAATAGC
1 CCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGC
20933711 CGATCTTATC
Statistics
Matches: 116, Mismatches: 53, Indels: 8
0.66 0.30 0.05
Matches are distributed among these distances:
43 33 0.28
44 49 0.42
45 34 0.29
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
CCTTGTCTCCCTGAGTAGTAGTGGAGTAGGTTGAAAATAGCAAA
Found at i:20934387 original size:89 final size:87
Alignment explanation
Indices: 20933798--20934391 Score: 294
Period size: 89 Copynumber: 6.7 Consensus size: 87
20933788 TTGAAAATAA
* * * * * * * ** * *
20933798 CAGATATTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGATACCAGCCTTATCTTTCTAAGTA
1 CAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAGACACCAGTC-TATCTCCCTGAGTT
* ** ** * *
20933863 GCAGTAGAATAGGTTGAAAATAG
65 GCAGCAGAGCAGACTAAAAACAG
* * * * * * * **
20933886 CAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATTGAAGATATCAGCCTTATCTCCCTAAGCA
1 CAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAGACACCAGTC-TATCTCCCTGAGTT
** * ** * * *
20933951 GCAGTGGAGTAGGTTGAAAATAA
65 GCAGCAGAGCAGACTAAAAACAG
* * * * * * * *
20933974 TAGATATTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAC-CCTAGCCTTATCTCCCTGGGT
1 CAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAGACACC-AGTC-TATCTCCCTGAGT
* * ** * * * * *
20934038 AGTAGTGGAGTATG-TTGAAAATAA
64 TGCAGCAGAGCA-GACTAAAAACAG
* * * * * * *
20934062 CAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAGCAAGTCCCATCTCCCTGAGT
1 CAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAGACA-CCAGT-CTATCTCCCTGAGT
* ** * ** * * *
20934127 AGCAGTGGAGTAGGTTGAAAAGAA
64 TGCAGCAGAGCAGACTAAAAACAG
* * * * *
20934151 CAGATATTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAGATAGCAAGTCTTATCTCCCTGAGT
1 CAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAGACA-CCAGTC-TATCTCCCTGAGT
* * * * *
20934216 TGTAGCGGAGCAGACTGAAGATAG
64 TGCAGCAGAGCAGACTAAAAACAG
* * * *
20934240 TAGATCTTGTCTTCCTGTATTGGTAGTGAAGCAGATCGAAGACACCAGCCT-TGCCTCCCTGAGT
1 CAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAGACACCAGTCTAT--CTCCCTGAG-
20934304 TTGCAGCAGAGCAGACTAAAAACAG
63 TTGCAGCAGAGCAGACTAAAAACAG
* *
20934329 CAGATCTTATCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGTTCTATCTCCCTGAG
1 CAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAGACACCAG-TCTATCTCCCTGAG
20934392 CAGTAGTGGA
Statistics
Matches: 426, Mismatches: 68, Indels: 23
0.82 0.13 0.04
Matches are distributed among these distances:
86 1 0.00
87 2 0.00
88 203 0.48
89 215 0.50
90 4 0.01
91 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (87 bp):
CAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAGACACCAGTCTATCTCCCTGAGTTG
CAGCAGAGCAGACTAAAAACAG
Found at i:20934568 original size:130 final size:131
Alignment explanation
Indices: 20934371--20934766 Score: 586
Period size: 131 Copynumber: 3.0 Consensus size: 131
20934361 AGATCGAAAA
* * * * * *
20934371 CACCAGTTCTATCTCCCTGAGCAGTAGTGGAGT-GATTGAAAATTGTAGATCCTGTCTTCCTAAG
1 CACCAGTCCTATCTCCCTGAACAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAG
*
20934435 CAGTAGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCCG-AGATAGTA-GGAAGAAGATTTA
66 CAGTAGTGGAGCAGATCGAAGACGGC-AATCTTATCTTCCCGAAG-TAGTAGGGAAGAAGATTTA
20934498 AGC
129 AGC
20934501 CACCAGTCCTATCTCCCTGAACAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCT-AG
1 CACCAGTCCTATCTCCCTGAACAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAG
* *
20934565 CAGTAGTAGAGCAGATCGAAGACGGCAAATCTTATCTTCCCAAAGTAGTAGGGAAGAAGATTTAA
66 CAGTAGTGGAGCAGATCGAAGACGGC-AATCTTATCTTCCCGAAGTAGTAGGGAAGAAGATTTAA
20934630 GC
130 GC
*
20934632 CACCAGTCCTATCTCCCT-AAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCTCTAA
1 CACCAGTCCTATCTCCCTGAA-CAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAA
* * *
20934696 GCAGTAGTGGAACAGATCAAAGACGGCAAGTCTTATCTTCCCGAAGTAGTAGGGAAGCAGATTTA
65 GCAGTAGTGGAGCAGATCGAAGACGGCAA-TCTTATCTTCCCGAAGTAGTAGGGAAGAAGATTTA
*
20934761 AAC
129 AGC
20934764 CAC
1 CAC
20934767 TAGCCTTATT
Statistics
Matches: 243, Mismatches: 17, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
130 77 0.32
131 103 0.42
132 63 0.26
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (131 bp):
CACCAGTCCTATCTCCCTGAACAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAG
CAGTAGTGGAGCAGATCGAAGACGGCAATCTTATCTTCCCGAAGTAGTAGGGAAGAAGATTTAAG
C
Found at i:20935274 original size:22 final size:22
Alignment explanation
Indices: 20935233--20935298 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
20935223 AATCTTCAAG
20935233 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
20935252 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
*
20935274 GATATGCAATCTTAGAAAATAT
1 GATATGCAATCTTAGAAGATAT
20935296 GAT
1 GAT
20935299 TTTGTAATCT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
19 13 0.30
22 30 0.70
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:20935560 original size:23 final size:23
Alignment explanation
Indices: 20935516--20935560 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
20935506 TCTTATTTTG
* *
20935516 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
20935539 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
20935561 CAAATCTTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:20935602 original size:15 final size:15
Alignment explanation
Indices: 20935582--20935610 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20935572 TCTCTTATTA
20935582 TTCATTTTCAAATTC
1 TTCATTTTCAAATTC
20935597 TTCATTTTCAAATT
1 TTCATTTTCAAATT
20935611 TGTTTACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.55
Consensus pattern (15 bp):
TTCATTTTCAAATTC
Found at i:20936045 original size:65 final size:66
Alignment explanation
Indices: 20935935--20936058 Score: 153
Period size: 65 Copynumber: 1.9 Consensus size: 66
20935925 AATTTTATAT
* * * * *
20935935 ACATACTTATATATTTTTTTTACATATTAAAATATGTATATTTATATTTTTTTATTTTTTATAAT
1 ACATACATATATATTTTTCTTA-ATATTAAAATATATATATTTATATTTTATAATTTTTTATAAT
20936000 TC
65 TC
* *
20936002 ACATACATATATATTTTTCTT-ATATGT-ACATATATATTTTTATATTTTATAATTTTT
1 ACATACATATATATTTTTCTTAATAT-TAAAATATATATATTTATATTTTATAATTTTT
20936059 ATCTATTTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
65 29 0.59
66 1 0.02
67 19 0.39
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (66 bp):
ACATACATATATATTTTTCTTAATATTAAAATATATATATTTATATTTTATAATTTTTTATAATT
C
Found at i:20938094 original size:12 final size:12
Alignment explanation
Indices: 20938053--20938088 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
20938043 TAAAATATTT
* *
20938053 AAATTTTAATAA
1 AAATTATAAAAA
20938065 AAATTATAAAAA
1 AAATTATAAAAA
20938077 AAATTATAAAAA
1 AAATTATAAAAA
20938089 CCATTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATTATAAAAA
Found at i:20938181 original size:20 final size:20
Alignment explanation
Indices: 20938094--20938186 Score: 50
Period size: 21 Copynumber: 4.7 Consensus size: 20
20938084 AAAAACCATT
* *
20938094 AAAATTGTAAAAAAATTATA
1 AAAAATGTAAGAAAATTATA
* * *
20938114 AAATATAT-AGAAACA-TAGA
1 AAAAATGTAAGAAA-ATTATA
* *
20938133 AAAAAT-TATG-AAATTTTA
1 AAAAATGTAAGAAAATTATA
* *
20938151 TAAAGTCGTAAGAAAATTATA
1 AAAAAT-GTAAGAAAATTATA
20938172 AAAAATGTAAAGAAA
1 AAAAATGT-AAGAAA
20938187 TATAAAATTC
Statistics
Matches: 51, Mismatches: 15, Indels: 13
0.65 0.19 0.16
Matches are distributed among these distances:
17 1 0.02
18 9 0.18
19 13 0.25
20 11 0.22
21 17 0.33
ACGTcount: A:0.61, C:0.02, G:0.10, T:0.27
Consensus pattern (20 bp):
AAAAATGTAAGAAAATTATA
Found at i:20938439 original size:29 final size:29
Alignment explanation
Indices: 20938398--20938462 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
20938388 TTGATGTAAT
*
20938398 TTTTTTATGATTTTT-ATAAAATTTTACAA
1 TTTTTTATAATTTTTAATAAAATTTTA-AA
* *
20938427 TTTTTTCTAATTTTTAATAAATTTTTAAA
1 TTTTTTATAATTTTTAATAAAATTTTAAA
20938456 TTTTTTA
1 TTTTTTA
20938463 ATTAAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 21 0.68
30 10 0.32
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (29 bp):
TTTTTTATAATTTTTAATAAAATTTTAAA
Found at i:20938473 original size:20 final size:20
Alignment explanation
Indices: 20938437--20938474 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20938427 TTTTTTCTAA
*
20938437 TTTTTAATAAATTTTTAAAT
1 TTTTTAATAAATATTTAAAT
20938457 TTTTTAATTAAA-ATTTAA
1 TTTTTAA-TAAATATTTAA
20938475 TCATTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTTAATAAATATTTAAAT
Found at i:20938828 original size:93 final size:93
Alignment explanation
Indices: 20938632--20938819 Score: 245
Period size: 93 Copynumber: 2.0 Consensus size: 93
20938622 CAATTGAGTG
* * * * *
20938632 AAAAAAAGTAGGGGCTTAATAGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTGAA
1 AAAAAAAG-GGGGGCTTAATAGCTTTTTCTGAAAAAGTTTGAGAGCCTTTTTGATACATTTTGAA
*
20938697 AATTTAAGTACCCAAATTGAGTGCAAAAA
65 AATTCAAGTACCCAAATTGAGTGCAAAAA
* *
20938726 AAAAAAAGGGGGGCTTAATTGCTTTTTCTGAAAAAGTTTGAGAGCCTTTTTGATATATTTT-AAA
1 AAAAAAAGGGGGGCTTAATAGCTTTTTCTGAAAAAGTTTGAGAGCCTTTTTGATACATTTTGAAA
* * *
20938790 AGTTCAAGTA-TCTAATTGAGTGCATAAA
66 A-TTCAAGTACCCAAATTGAGTGCAAAAA
20938818 AA
1 AA
20938820 GAGCAAGGGC
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
92 21 0.26
93 53 0.65
94 8 0.10
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.35
Consensus pattern (93 bp):
AAAAAAAGGGGGGCTTAATAGCTTTTTCTGAAAAAGTTTGAGAGCCTTTTTGATACATTTTGAAA
ATTCAAGTACCCAAATTGAGTGCAAAAA
Found at i:20953167 original size:40 final size:39
Alignment explanation
Indices: 20953091--20953167 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
20953081 TAATCAGTTT
**
20953091 GGGCCTTAGCCCATTCAGATACAGTCTCAGAAATACATTG
1 GGGCCTTAGCCCATTCAGATACAGAATCAG-AATACATTG
*
20953131 GGGCCTTAGCCCATATCAGATATAGAATGCAG-ATACA
1 GGGCCTTAGCCCAT-TCAGATACAGAAT-CAGAATACA
20953168 ATAAATCAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 19 0.59
41 10 0.31
42 3 0.09
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (39 bp):
GGGCCTTAGCCCATTCAGATACAGAATCAGAATACATTG
Done.