Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 255 of 349
Found at i:84816139 original size:38 final size:38
Alignment explanation
Indices: 84816087--84816168 Score: 155
Period size: 38 Copynumber: 2.1 Consensus size: 38
84816077 TACCAACAGG
84816087 AGTACCGATTCAGGTAATGGTTTTGAACCGATTAGATCA
1 AGTA-CGATTCAGGTAATGGTTTTGAACCGATTAGATCA
84816126 AGTACGATTCAGGTAATGGTTTTGAACCGATTAGATCA
1 AGTACGATTCAGGTAATGGTTTTGAACCGATTAGATCA
84816164 AGTAC
1 AGTAC
84816169 CATTAAACTA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 39 0.91
39 4 0.09
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (38 bp):
AGTACGATTCAGGTAATGGTTTTGAACCGATTAGATCA
Found at i:84816410 original size:29 final size:29
Alignment explanation
Indices: 84816371--84816427 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
84816361 TTATAGACTT
*
84816371 AAAATTTTCTTGATCTCTCTCATATTTTA
1 AAAATTTTCTTGAACTCTCTCATATTTTA
84816400 AAAATTTTCTTGAACTCTCTCATATTTT
1 AAAATTTTCTTGAACTCTCTCATATTTT
84816428 TTGAAAACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.18, G:0.04, T:0.51
Consensus pattern (29 bp):
AAAATTTTCTTGAACTCTCTCATATTTTA
Found at i:84821585 original size:18 final size:18
Alignment explanation
Indices: 84821562--84821602 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
84821552 CAGGAATGGA
84821562 AGAGAAAGAAGC-AGAGAT
1 AGAGAAAGAAGCAAGA-AT
*
84821580 AGAGAAAGTAGCAAGAAT
1 AGAGAAAGAAGCAAGAAT
84821598 AGAGA
1 AGAGA
84821603 GCATGAAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.56, C:0.05, G:0.32, T:0.07
Consensus pattern (18 bp):
AGAGAAAGAAGCAAGAAT
Found at i:84822354 original size:21 final size:22
Alignment explanation
Indices: 84822325--84822365 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
84822315 TATGAGTATT
* *
84822325 TTTTTAAAAATAT-TTATTTCA
1 TTTTAAAAAAGATATTATTTCA
84822346 TTTTAAAAAAGATATTATTT
1 TTTTAAAAAAGATATTATTT
84822366 TGTGATAAAT
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:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
TTTTAAAAAAGATATTATTTCA
Found at i:84823643 original size:23 final size:23
Alignment explanation
Indices: 84823600--84823643 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
84823590 AAGTAAACAA
* *
84823600 AAATAATCAATGCAAATTAAATC
1 AAATAAACAATGCAAAGTAAATC
84823623 AAATAAACAAT-CAATAGTAAA
1 AAATAAACAATGCAA-AGTAAA
84823644 ATCCTAGGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.23
Consensus pattern (23 bp):
AAATAAACAATGCAAAGTAAATC
Found at i:84825598 original size:49 final size:49
Alignment explanation
Indices: 84825539--84825713 Score: 251
Period size: 49 Copynumber: 3.5 Consensus size: 49
84825529 CTGGTATGCA
*
84825539 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
* * * * * *
84825588 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCTGGTACACG
*
84825639 TAGTAGCCTGCACTTAGTACAACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
*
84825688 TAGTAGCCTGCATTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
84825714 CGTGACCTCA
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
49 64 0.59
50 6 0.06
51 38 0.35
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
Found at i:84825650 original size:51 final size:49
Alignment explanation
Indices: 84825526--84825720 Score: 246
Period size: 49 Copynumber: 3.9 Consensus size: 49
84825516 TAGCCGAAGC
** *
84825526 TATCTGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
84825575 TATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * *
84825626 TATCAGGTACGCATAGTAGCCTGCACTTAGTACAACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
84825675 TATCTGGTACACGTAGTAGCCTGCATTTAGTACTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
84825721 TCACAATAGC
Statistics
Matches: 122, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 78 0.64
50 6 0.05
51 38 0.31
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:84825693 original size:100 final size:100
Alignment explanation
Indices: 84825520--84825718 Score: 344
Period size: 100 Copynumber: 2.0 Consensus size: 100
84825510 CACTTGTAGC
* * *
84825520 CGAAGCTATCTGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATAC
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACAACACATGCGACCAATTATCTGATAC
84825585 ACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
66 ACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
* *
84825620 CGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACAACACATGCGACCAATTATCTGGTAC
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACAACACATGCGACCAATTATCTGATAC
*
84825685 ACGTAGTAGCCTGCATTTAGTACTACACACGTGA
66 ACGTAGTAGCCTGCACTTAGTACTACACACGTGA
84825719 CCTCACAATA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 93 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (100 bp):
CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACAACACATGCGACCAATTATCTGATAC
ACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
Found at i:84826402 original size:30 final size:30
Alignment explanation
Indices: 84826368--84826427 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
84826358 CTTTAATATG
84826368 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
84826398 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
84826428 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:84829124 original size:46 final size:46
Alignment explanation
Indices: 84829074--84829246 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
84829064 TGGTTGAGCA
84829074 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
84829120 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
84829165 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
84829213 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
84829247 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:84829230 original size:93 final size:93
Alignment explanation
Indices: 84829071--84829241 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
84829061 GGATGGTTGA
* *
84829071 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
84829136 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
84829164 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
84829229 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
84829242 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:84838116 original size:46 final size:45
Alignment explanation
Indices: 84838066--84838240 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
84838056 TGGTTGAGCA
84838066 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
* * * *
84838112 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G
*
84838157 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
* * *
84838205 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
84838241 GGCGGGTTAC
Statistics
Matches: 108, Mismatches: 12, Indels: 19
0.78 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 60 0.56
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATG
Found at i:84838222 original size:93 final size:93
Alignment explanation
Indices: 84838063--84838233 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
84838053 GGATGGTTGA
* * *
84838063 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
84838128 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
84838156 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
*
84838221 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
84838234 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:84841444 original size:15 final size:16
Alignment explanation
Indices: 84841424--84841456 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
84841414 ATATATATTT
84841424 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
84841439 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
84841456 T
1 T
84841457 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:84841541 original size:22 final size:22
Alignment explanation
Indices: 84841502--84841560 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
84841492 GTTTTAAGAA
*
84841502 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
84841523 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
84841545 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
84841561 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:84841577 original size:26 final size:24
Alignment explanation
Indices: 84841531--84841590 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
84841521 ATTTGTTTTA
*
84841531 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
84841555 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
84841581 TTTTTTATTT
1 ATATTTATTT
84841591 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:84845826 original size:27 final size:27
Alignment explanation
Indices: 84845788--84845918 Score: 160
Period size: 27 Copynumber: 4.9 Consensus size: 27
84845778 CAGTAGATAT
84845788 AGATAT-TGTGGCAGAGCCACCAGAAC
1 AGATATATGTGGCAGAGCCACCAGAAC
*
84845814 AGATATATGTGGCAGAGCCACCAGATC
1 AGATATATGTGGCAGAGCCACCAGAAC
* * *
84845841 AGATA-ATTGTGGCATAACCACCAGGAC
1 AGATATA-TGTGGCAGAGCCACCAGAAC
* *
84845868 AGATATATATGGCAGAGCCACCAGATC
1 AGATATATGTGGCAGAGCCACCAGAAC
*
84845895 AGATA-ATTGTGGCATAGCCACCAG
1 AGATATA-TGTGGCAGAGCCACCAG
84845919 GACGCTTCCT
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
26 8 0.09
27 80 0.90
28 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
AGATATATGTGGCAGAGCCACCAGAAC
Found at i:84845919 original size:54 final size:54
Alignment explanation
Indices: 84845788--84845921 Score: 225
Period size: 54 Copynumber: 2.5 Consensus size: 54
84845778 CAGTAGATAT
* * *
84845788 AGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATC
1 AGATAATTGTGGCATAGCCACCAGGACAGATATATATGGCAGAGCCACCAGATC
*
84845841 AGATAATTGTGGCATAACCACCAGGACAGATATATATGGCAGAGCCACCAGATC
1 AGATAATTGTGGCATAGCCACCAGGACAGATATATATGGCAGAGCCACCAGATC
84845895 AGATAATTGTGGCATAGCCACCAGGAC
1 AGATAATTGTGGCATAGCCACCAGGAC
84845922 GCTTCCTCCA
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 4 0.05
54 71 0.95
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (54 bp):
AGATAATTGTGGCATAGCCACCAGGACAGATATATATGGCAGAGCCACCAGATC
Found at i:84847573 original size:26 final size:26
Alignment explanation
Indices: 84847542--84847649 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
84847532 TGAAATGCCC
*
84847542 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
84847568 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
84847594 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAACCCATT
*
84847620 ATCATGGAACGTTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
84847646 ATCA
1 ATCA
84847650 ACTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:84851197 original size:52 final size:51
Alignment explanation
Indices: 84851139--84851256 Score: 141
Period size: 51 Copynumber: 2.3 Consensus size: 51
84851129 ATAAATGATG
* *
84851139 AAATGGAGAAATAGAAAACATTTGGAAATGATTAAGGTTTTCTCTAAAATGA
1 AAATGGAGAAAT-GAAAACATTTGGAAATGAATAAGGTTTTCTCCAAAATGA
** * ** *
84851191 AAATGGAGAAATGAAATTATTTGGACATGAATGTGGTTTTCTCCAAATTGA
1 AAATGGAGAAATGAAAACATTTGGAAATGAATAAGGTTTTCTCCAAAATGA
84851242 AAAT-GA-AAATGAAAA
1 AAATGGAGAAATGAAAA
84851257 TGACTTGAGG
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
49 8 0.14
50 2 0.04
51 35 0.61
52 12 0.21
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.29
Consensus pattern (51 bp):
AAATGGAGAAATGAAAACATTTGGAAATGAATAAGGTTTTCTCCAAAATGA
Found at i:84855551 original size:21 final size:21
Alignment explanation
Indices: 84855525--84855570 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
84855515 TTCTCGGCAG
* *
84855525 GTGGATATCGCAATACGCAAA
1 GTGGATATCACAATACCCAAA
*
84855546 GTGGATATCACGATACCCAAA
1 GTGGATATCACAATACCCAAA
84855567 GTGG
1 GTGG
84855571 CCTCTATTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (21 bp):
GTGGATATCACAATACCCAAA
Found at i:84855643 original size:5 final size:5
Alignment explanation
Indices: 84855633--84855698 Score: 66
Period size: 5 Copynumber: 13.4 Consensus size: 5
84855623 ACCCCAAAGT
* * *
84855633 AAATA AAATA AAATA AAAT- AAAGA AGATA ATA-A AAAT- AAATAA TAAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAAT-A -AAATA
84855682 AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AA
84855699 TTTAATTACC
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
4 10 0.20
5 36 0.71
6 1 0.02
7 4 0.08
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:84855664 original size:22 final size:21
Alignment explanation
Indices: 84855637--84855698 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
84855627 CAAAGTAAAT
84855637 AAAATAAAATAAAATAAAGAAG
1 AAAATAAAATAAAATAAA-AAG
* *
84855659 ATAATAAAA-ATAAATAATAAAT
1 AAAATAAAATA-AAATAA-AAAG
84855681 AAAATAAAATAAAATAAA
1 AAAATAAAATAAAATAAA
84855699 TTTAATTACC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (21 bp):
AAAATAAAATAAAATAAAAAG
Found at i:84855666 original size:17 final size:16
Alignment explanation
Indices: 84855643--84855688 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
84855633 AAATAAAATA
84855643 AAATAAAATAAAGAAG
1 AAATAAAATAAAGAAG
* *
84855659 ATAATAAAAATAAATAAT
1 A-AAT-AAAATAAAGAAG
84855677 AAATAAAATAAA
1 AAATAAAATAAA
84855689 ATAAAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 9 0.35
17 6 0.23
18 11 0.42
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (16 bp):
AAATAAAATAAAGAAG
Found at i:84855957 original size:111 final size:111
Alignment explanation
Indices: 84855787--84856079 Score: 304
Period size: 111 Copynumber: 2.6 Consensus size: 111
84855777 TTCTGCCTCG
* * * * * * * * *
84855787 GTTTTCTCCACTAGAAATAGATTTCATTCCAATAGAAAACTTAGCAAAATTTCTGCCTAGTTTCA
1 GTTTACTCCAATAGAAACAGATTCCATTCCAAAAGAAAACTTAGTAAACTCTCTACCTAGTTTCA
*
84855852 CTCCAAAAGAAACAAATTCCACTCCAATCG-ATAACTAGAAAACTAA
66 CTCCAAAAGAAACAAATTCCACTCCAA-CGTAAAACTAGAAAACTAA
* * * *
84855898 -TTTCACTCCAATAGAAACAGATTCCATTCCAAAAAAAAATTTAATAAACTCTCTACCTAGTTTG
1 GTTT-ACTCCAATAGAAACAGATTCCATTCCAAAAGAAAACTTAGTAAACTCTCTACCTAGTTTC
* ** ** **
84855962 ACTCCAATAGAAACAGGTTCTGCTCCAACGTAAAACTAGCGAACTAA
65 ACTCCAAAAGAAACAAATTCCACTCCAACGTAAAACTAGAAAACTAA
* * * *
84856009 GTTTGCTCCAA-CGAAAACATATTCCATTCCAACAGAAAACTTAGTAAACTCTCTACCTAGTTTC
1 GTTTACTCCAATAG-AAACAGATTCCATTCCAAAAGAAAACTTAGTAAACTCTCTACCTAGTTTC
*
84856073 GCTCCAA
65 ACTCCAA
84856080 CAAACATAGA
Statistics
Matches: 148, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
110 6 0.04
111 139 0.94
112 3 0.02
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (111 bp):
GTTTACTCCAATAGAAACAGATTCCATTCCAAAAGAAAACTTAGTAAACTCTCTACCTAGTTTCA
CTCCAAAAGAAACAAATTCCACTCCAACGTAAAACTAGAAAACTAA
Found at i:84860211 original size:25 final size:25
Alignment explanation
Indices: 84860183--84860234 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
84860173 CACTCCATAG
*
84860183 TAAGTTTTATTTTCTCATAATTGCC
1 TAAGTTTTATTTTCTCATAATCGCC
84860208 TAAGTTTTATTTTCTCATAATCGCC
1 TAAGTTTTATTTTCTCATAATCGCC
84860233 TA
1 TA
84860235 GCTGTCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.50
Consensus pattern (25 bp):
TAAGTTTTATTTTCTCATAATCGCC
Found at i:84861265 original size:33 final size:35
Alignment explanation
Indices: 84861225--84861293 Score: 97
Period size: 33 Copynumber: 2.0 Consensus size: 35
84861215 AAGAAAGGGA
**
84861225 AAACCTAATTTAAAAATA-AG-AAGAAAAGAAAAT
1 AAACCTAATCAAAAAATATAGAAAGAAAAGAAAAT
*
84861258 AAACCTAATCAAAAAATATAGAAAGTAAAGAAAAT
1 AAACCTAATCAAAAAATATAGAAAGAAAAGAAAAT
84861293 A
1 A
84861294 TTAAACCTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 16 0.52
34 2 0.06
35 13 0.42
ACGTcount: A:0.67, C:0.07, G:0.09, T:0.17
Consensus pattern (35 bp):
AAACCTAATCAAAAAATATAGAAAGAAAAGAAAAT
Found at i:84867046 original size:23 final size:23
Alignment explanation
Indices: 84867003--84867046 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
84866993 AAAGTAGCAA
* *
84867003 AAATAATTAATTCAAATTAAATC
1 AAATAAATAATTCAAAGTAAATC
84867026 AAATAAATAA-TCAATAGTAAA
1 AAATAAATAATTCAA-AGTAAA
84867047 ATCCTAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (23 bp):
AAATAAATAATTCAAAGTAAATC
Found at i:84874842 original size:45 final size:45
Alignment explanation
Indices: 84874792--84874898 Score: 162
Period size: 45 Copynumber: 2.4 Consensus size: 45
84874782 GTAGCAGTAG
* *
84874792 CAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCTGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGTC-GAATCGGTAA
* *
84874837 CAGTAACGGTAACAATATTCGACACACAAAGTGTCGAATCGGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAA
84874882 CAGTAACGGTAACAGTA
1 CAGTAACGGTAACAGTA
84874899 ACAGTAGTCG
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 55 0.98
46 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.21
Consensus pattern (45 bp):
CAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAA
Found at i:84874893 original size:12 final size:12
Alignment explanation
Indices: 84874876--84874900 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84874866 AGTGTCGAAT
84874876 CGGTAACAGTAA
1 CGGTAACAGTAA
84874888 CGGTAACAGTAA
1 CGGTAACAGTAA
84874900 C
1 C
84874901 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:84887209 original size:55 final size:55
Alignment explanation
Indices: 84887142--84887262 Score: 134
Period size: 55 Copynumber: 2.2 Consensus size: 55
84887132 GCCCATGTGT
* * * * * *
84887142 AACAATGGCTTTAAAACACGGCCATGGCGCACGCCCTTATGGCCTGCTCGTGTAC
1 AACAATGACTTTAAAACACGGCCATAGCACACGCCCGTATGGCCTACCCGTGTAC
* * * * * *
84887197 AATACTGACTTTAATACATGGCCATAGCATACGCCCGTGTGGCCTACCCGTGTAC
1 AACAATGACTTTAAAACACGGCCATAGCACACGCCCGTATGGCCTACCCGTGTAC
84887252 AACAATGACTT
1 AACAATGACTT
84887263 AAATTTTAAG
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (55 bp):
AACAATGACTTTAAAACACGGCCATAGCACACGCCCGTATGGCCTACCCGTGTAC
Found at i:84895052 original size:55 final size:54
Alignment explanation
Indices: 84894944--84895187 Score: 218
Period size: 55 Copynumber: 4.6 Consensus size: 54
84894934 ATTAGGGTTT
* * *
84894944 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTT-TCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACAT-GACATTGGTAA-GTTCTATAAGGC
* * * *
84894999 AAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACATTGGTAAGTT-CTATAAGGC
* * * *
84895054 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGACATTGGTAAGTTCTATAAGGC
* * * *
84895107 AAGGATACCATGTAAGACCATGTCGAGACATGGA-AATGGTAAGTT-T-CAA---
1 AAGGATACCATGTAAGACCATGCCAAGACAT-GACATTGGTAAGTTCTATAAGGC
* * *
84895156 AAGGATACCACGTAAGACCATGACAAGTCATG
1 AAGGATACCATGTAAGACCATGCCAAGACATG
84895188 GAAATGGTAA
Statistics
Matches: 156, Mismatches: 27, Indels: 19
0.77 0.13 0.09
Matches are distributed among these distances:
48 1 0.01
49 27 0.17
52 6 0.04
53 41 0.26
54 11 0.07
55 66 0.42
56 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGACATTGGTAAGTTCTATAAGGC
Found at i:84895150 original size:108 final size:110
Alignment explanation
Indices: 84894951--84895151 Score: 293
Period size: 108 Copynumber: 1.8 Consensus size: 110
84894941 TTTAAGGATA
*
84894951 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
84895016 CCATGTCAAGACATGACATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
* * *
84895061 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* *
84895123 ACCATGTCGAGACATGGA-AATGGTAAGTT
65 ACCATGTCAAGACAT-GACAATGATAAGTT
84895152 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
107 3 0.04
108 44 0.54
109 9 0.11
110 26 0.32
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:84895411 original size:16 final size:16
Alignment explanation
Indices: 84895390--84895420 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
84895380 ATAAATTTGA
84895390 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
84895406 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
84895421 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:84919020 original size:13 final size:13
Alignment explanation
Indices: 84919002--84919028 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
84918992 GAACTAATTG
84919002 CACACGGGCGTGT
1 CACACGGGCGTGT
84919015 CACACGGGCGTGT
1 CACACGGGCGTGT
84919028 C
1 C
84919029 CCTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:84930828 original size:78 final size:82
Alignment explanation
Indices: 84930706--84930889 Score: 247
Period size: 78 Copynumber: 2.3 Consensus size: 82
84930696 TTGAATGATG
*
84930706 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAG-TCCCGAAGGCAT
84930769 TTGTGCGAGTTACTA-AA
65 TTGTGCGAGTTACTATAA
* * * **
84930786 TCCGGG-TAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGTCCCGAAGGCATT
84930848 TGTGCGAGTTACTATAA
66 TGTGCGAGTTACTATAA
*
84930865 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
84930890 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 7, Indels: 10
0.84 0.06 0.09
Matches are distributed among these distances:
77 1 0.01
78 54 0.59
79 18 0.20
80 19 0.21
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGTCCCGAAGGCATT
TGTGCGAGTTACTATAA
Found at i:84930903 original size:40 final size:39
Alignment explanation
Indices: 84930706--84930889 Score: 223
Period size: 40 Copynumber: 4.6 Consensus size: 39
84930696 TTGAATGATG
* * * *
84930706 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGG-TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
84930746 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGG-GTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
84930786 TCCGGGTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
84930824 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGG-TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
84930865 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGG-TAAGTCCCGAAGGCATTTG
84930890 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
38 34 0.26
39 9 0.07
40 77 0.59
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:84939166 original size:79 final size:81
Alignment explanation
Indices: 84939030--84939214 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
84939020 TTGAATGATG
*
84939030 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
84939094 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * * **
84939109 TTCCGGGTTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
84939171 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
84939189 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
84939215 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.64
80 32 0.35
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:84939228 original size:40 final size:40
Alignment explanation
Indices: 84939031--84939214 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
84939021 TGAATGATGT
* * * *
84939031 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
84939071 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
84939111 CCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
84939149 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
84939190 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
84939215 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
39 37 0.29
40 81 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:84939236 original size:79 final size:79
Alignment explanation
Indices: 84939083--84939247 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
84939073 GGACTAAGAT
* * **
84939083 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
84939148 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
84939162 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
84939225 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
84939241 CCGAAGG
1 CCGAAGG
84939248 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:84940931 original size:46 final size:46
Alignment explanation
Indices: 84940864--84940992 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
84940854 TGTAACCCGC
* *
84940864 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
84940910 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
84940956 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
84940993 TGCCCAAATA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:84946408 original size:93 final size:93
Alignment explanation
Indices: 84946295--84946466 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
84946285 GCCCATAAGT
* * *
84946295 GAACTCTGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTAGCATCCATAAGTGAACTCAGACTCAACTCA
84946359 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
*
84946388 GAACTCGGACTCAACTCAACGAGTTCGGACATTAGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTAGCATCCATAAGTGAACTCAGACTCAACTCAA
*
84946453 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
84946467 CAAATATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTAGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:84946462 original size:46 final size:46
Alignment explanation
Indices: 84946287--84946462 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
84946277 TGTAACCCGC
* *
84946287 CCATAAGTGAACTCTGACTCAACTCAACGAGCTCAGG-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTAGCAT
* *
84946333 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA--CATTAGCAT
* *** *
84946379 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTAGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTAGCAT
* *
84946426 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
84946463 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
45 3 0.03
46 69 0.64
47 35 0.32
48 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTAGCAT
Found at i:84946481 original size:46 final size:46
Alignment explanation
Indices: 84946338--84946481 Score: 134
Period size: 46 Copynumber: 3.1 Consensus size: 46
84946328 CGCATCCATA
* *
84946338 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--AACATC-CT
* * * *
84946387 --CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTAGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAAACATCC-T
* * *
84946430 AAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAAACATCCT
84946477 AGTGA
1 AGTGA
84946482 CATGTCACTT
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 5 0.07
45 2 0.03
46 33 0.43
47 29 0.38
48 6 0.08
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAAACATCCT
Found at i:84949348 original size:23 final size:22
Alignment explanation
Indices: 84949322--84949364 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
84949312 AAATGGTTTA
84949322 TTTA-CCATTTAAGTCCATTTACT
1 TTTATCCA-TTAAG-CCATTTACT
*
84949345 TTTATTCATTAAGCCATTTA
1 TTTATCCATTAAGCCATTTA
84949365 ATCATTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 7 0.39
23 9 0.50
24 2 0.11
ACGTcount: A:0.28, C:0.19, G:0.05, T:0.49
Consensus pattern (22 bp):
TTTATCCATTAAGCCATTTACT
Found at i:84951672 original size:25 final size:26
Alignment explanation
Indices: 84951644--84951694 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
84951634 TTATGGCATT
*
84951644 TCATGCCAAATCATATCATAA-CATA
1 TCATGCCAAATCAAATCATAATCATA
* *
84951669 TCATGTCGAATCAAATCATAATCATA
1 TCATGCCAAATCAAATCATAATCATA
84951695 ACATAACATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (26 bp):
TCATGCCAAATCAAATCATAATCATA
Found at i:84953010 original size:54 final size:54
Alignment explanation
Indices: 84952928--84953033 Score: 185
Period size: 54 Copynumber: 2.0 Consensus size: 54
84952918 AAAAAGTAAT
* * *
84952928 TTTTGCTATAGTATAGTTTTTGGGCTGAATTGAACAATGTGAATATTAAATGGG
1 TTTTGCCATAGTATAATTTTTGGGCTGAATTAAACAATGTGAATATTAAATGGG
84952982 TTTTGCCATAGTATAATTTTTGGGCTGAATTAAACAATGTGAATATTAAATG
1 TTTTGCCATAGTATAATTTTTGGGCTGAATTAAACAATGTGAATATTAAATG
84953034 AGTTAAATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.41
Consensus pattern (54 bp):
TTTTGCCATAGTATAATTTTTGGGCTGAATTAAACAATGTGAATATTAAATGGG
Found at i:84958373 original size:39 final size:39
Alignment explanation
Indices: 84958315--84958576 Score: 368
Period size: 39 Copynumber: 6.7 Consensus size: 39
84958305 TTCCAACACA
84958315 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* * *
84958354 AATACCTTCAGGACTTAGCCCGGATATAACACCAGCATG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
84958393 AATACCTTCGGGACTTAGCCCGAATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
84958432 AATGCCTTCGGGACTTAGCCCGGACATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
84958471 AATGCCTTCGGGACTTAGCCCGAATATAACACCAGCATG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
84958510 AATGCCTTCGGGACTTAGCCCTGATATAA-ATCTCA-CAC-
1 AATGCCTTCGGGACTTAGCCCGGATATAACA-C-CAGCACG
* * * *
84958548 AAGGCCTGCGGGTCTTAGCCCGGTTATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
84958577 TCCTCAATTA
Statistics
Matches: 201, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
38 25 0.12
39 174 0.87
40 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
Found at i:84962115 original size:27 final size:27
Alignment explanation
Indices: 84962085--84962262 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
84962075 ATATTGAGCC
* *
84962085 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
84962112 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
84962139 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
84962167 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
84962194 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
84962221 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
84962248 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
84962263 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:84962224 original size:82 final size:81
Alignment explanation
Indices: 84962106--84962261 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
84962096 TGCTATATAA
* * *
84962106 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
84962171 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
84962188 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
84962252 CACTTAGTGC
65 CACTTAGTGC
84962262 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:84970217 original size:27 final size:27
Alignment explanation
Indices: 84970187--84970365 Score: 182
Period size: 27 Copynumber: 6.6 Consensus size: 27
84970177 ATATTGAGCC
* * *
84970187 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
84970214 CGCACACTTAGTGCTACGTAATCAAAAT
1 CGCACACTTAGTGCTACATAGTC-AACT
84970242 CGCACACCTTAGTGCTACATAGTCAGACT
1 CGCACA-CTTAGTGCTACATAGTCA-ACT
** * *
84970271 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
84970298 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
84970325 CGCACACTTAGTGCAACATAGTCAA-T
1 CGCACACTTAGTGCTACATAGTCAACT
84970351 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
84970366 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
26 15 0.12
27 65 0.50
28 26 0.20
29 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:84972219 original size:6 final size:6
Alignment explanation
Indices: 84972201--84972238 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
84972191 AAAAAACATT
84972201 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT
84972239 TAGGTGACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 1 0.03
6 28 0.93
7 1 0.03
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:84972284 original size:31 final size:31
Alignment explanation
Indices: 84972215--84972318 Score: 93
Period size: 31 Copynumber: 3.4 Consensus size: 31
84972205 GAACTAGAAT
* * * * * *
84972215 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAAAATGAGAATCAGTATCAAGTAA
* * *
84972246 CAAAATCAGAATCGA-AATTAGTATCAAGTAA
1 CAGAATCAAAAT-GAGAATCAGTATCAAGTAA
* *
84972277 CAGAATCAAAATTAGAATCAGTATCAGGTAA
1 CAGAATCAAAATGAGAATCAGTATCAAGTAA
84972308 CAGAATCAAAA
1 CAGAATCAAAA
84972319 ATCAGAATGT
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
30 1 0.02
31 57 0.97
32 1 0.02
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.20
Consensus pattern (31 bp):
CAGAATCAAAATGAGAATCAGTATCAAGTAA
Found at i:84972505 original size:27 final size:26
Alignment explanation
Indices: 84972463--84972523 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 26
84972453 GCTCAGTTAT
*
84972463 CAGATATTGTGACAGAGACACTAGATA
1 CAGATATTGTGACAGAGACACCAGA-A
* *
84972490 CAGATATTGTGGCAGAGTCACCAGAA
1 CAGATATTGTGACAGAGACACCAGAA
84972516 CAGATATT
1 CAGATATT
84972524 TCTGACATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
26 9 0.29
27 22 0.71
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACAGAGACACCAGAA
Found at i:84973860 original size:27 final size:27
Alignment explanation
Indices: 84973228--84973853 Score: 746
Period size: 27 Copynumber: 23.4 Consensus size: 27
84973218 TTACCCCATG
* *
84973228 AGGGTATCTCGGTAATTCTACCCTACA
1 AGGGTATTTCGGTATTTCTACCCTACA
* *
84973255 GGGGTATTTCGATATTTCTACCCTACA
1 AGGGTATTTCGGTATTTCTACCCTACA
*
84973282 AGGGTATTTCAGTATTTCTATCCC-ACA
1 AGGGTATTTCGGTATTTCTA-CCCTACA
* ** *
84973309 GGGGTATTTCAATAATTCTACCCTACA
1 AGGGTATTTCGGTATTTCTACCCTACA
*
84973336 AGGG-ATTTCGGTATTTCTACCTTACA
1 AGGGTATTTCGGTATTTCTACCCTACA
*
84973362 AGGGTATTTCGGTATTTCAACCCTACA
1 AGGGTATTTCGGTATTTCTACCCTACA
84973389 AGGGTATTTCGGTATTTCTACCCTACA
1 AGGGTATTTCGGTATTTCTACCCTACA
*
84973416 AGGGTATTTCGGTAATTCTACCCTACA
1 AGGGTATTTCGGTATTTCTACCCTACA
*
84973443 AGGTTATTTCGGTATTTCTACCCTACA
1 AGGGTATTTCGGTATTTCTACCCTACA
* * *
84973470 AGGGCATTTCAGTATTTCAACCCTACA
1 AGGGTATTTCGGTATTTCTACCCTACA
* *
84973497 AGGGTATTTCGATATTTCTATCCTAC-
1 AGGGTATTTCGGTATTTCTACCCTACA
** * *
84973523 AGAGGTATTTCCATAATTCTACCCTAGA
1 AG-GGTATTTCGGTATTTCTACCCTACA
* *
84973551 GGGGTATTTCGGAATTTCT----TACA
1 AGGGTATTTCGGTATTTCTACCCTACA
* *
84973574 AGGGTATTTTGGTAATTCTACCCTACA
1 AGGGTATTTCGGTATTTCTACCCTACA
* ** * * *
84973601 GGGGTATTTCAATAATTCTACCATACG
1 AGGGTATTTCGGTATTTCTACCCTACA
* *
84973628 GGGGTATTTCAGTATTTCTACCCTACA
1 AGGGTATTTCGGTATTTCTACCCTACA
*
84973655 AGGGTATTTCGATATTTCTACCCTACA
1 AGGGTATTTCGGTATTTCTACCCTACA
*
84973682 AGGGTATTTCGGTAATTCTACCCTACA
1 AGGGTATTTCGGTATTTCTACCCTACA
* * * *
84973709 GGGGTATTTCAGTAATTCTACCATAC-
1 AGGGTATTTCGGTATTTCTACCCTACA
84973735 AGGGTTATTTCGGTATTTCTACCCTACA
1 AGGG-TATTTCGGTATTTCTACCCTACA
*
84973763 AGGGTATTTCGGTATTTCAACCCTACA
1 AGGGTATTTCGGTATTTCTACCCTACA
* *
84973790 AGGGTGTTTCGGTATTTCTATCCTACA
1 AGGGTATTTCGGTATTTCTACCCTACA
** *
84973817 AGGGTATTTCAATAATTCTACCCTACA
1 AGGGTATTTCGGTATTTCTACCCTACA
*
84973844 GGGGTATTTC
1 AGGGTATTTC
84973854 AATAATTTTG
Statistics
Matches: 512, Mismatches: 76, Indels: 22
0.84 0.12 0.04
Matches are distributed among these distances:
23 18 0.04
26 30 0.06
27 456 0.89
28 8 0.02
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
AGGGTATTTCGGTATTTCTACCCTACA
Found at i:84973926 original size:54 final size:54
Alignment explanation
Indices: 84973845--84974082 Score: 184
Period size: 54 Copynumber: 4.4 Consensus size: 54
84973835 TACCCTACAG
* ** * * * *
84973845 GGGTATTTCAATAATTTTGTAAATCGAGTGTAAAAT-GGTAATTCTGTAAATTGG
1 GGGTATTTCGATAATTTTACAAATCGAGGGT-AAATCAGTAATTCTGTAAACTGA
* ** *
84973899 GGGTACTTT-GATAATTTTACAAGTCGAGGGTATTTCAGTAATTTTGTAAACTGA
1 GGGTA-TTTCGATAATTTTACAAATCGAGGGTAAATCAGTAATTCTGTAAACTGA
**
84973953 GGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATT-T-TACAA-TCGA
1 GGGTATTTCGATAATTTTACAAATCGAGGGTAAATCAGTAATTCTGTA-AACT-GA
* * ** * *
84974006 CGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATT-T-TACAAATCA
1 GGGTATTTCGATAATTTTACAAATCGAGGGTAAATCAGTAATTCTGTA-AACTGA
* *
84974059 GGGGTATTTTGGTAATTTTACAAA
1 -GGGTATTTCGATAATTTTACAAA
84974083 CAGGGGGTAT
Statistics
Matches: 160, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
52 3 0.02
53 58 0.36
54 96 0.60
55 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTCGATAATTTTACAAATCGAGGGTAAATCAGTAATTCTGTAAACTGA
Found at i:84974225 original size:27 final size:27
Alignment explanation
Indices: 84973899--84974238 Score: 308
Period size: 27 Copynumber: 12.6 Consensus size: 27
84973889 TGTAAATTGG
* * ** *
84973899 GGGTACTTTGATAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
** ** **
84973926 GGGTATTTCAGTAATTTTGTAAACTGA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * * *
84973953 GGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
** * *
84973980 GGGTATTTCAGTAATTTTAC-AATCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * * *
84974006 CGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
** * *
84974033 GGGTATTTCAGTAATTTTACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
*
84974060 GGGTATTTTGGTAATTTTACAAA-CAGG
1 GGGTATTTTGGTAATTTTACAAACCA-A
* *
84974087 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
84974114 GGGTATTTTGGTAATTTTACAAA-CAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
84974140 GTGGTATTTTGGTAATTTTATAAACAAA
1 G-GGTATTTTGGTAATTTTACAAACCAA
* *
84974168 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
** *
84974195 GGGTATTTTGGTAATTTTGTAAGCCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
84974222 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
84974239 GGTAGACTAA
Statistics
Matches: 269, Mismatches: 39, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
26 29 0.11
27 235 0.87
28 5 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:84975224 original size:30 final size:30
Alignment explanation
Indices: 84975170--84975231 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
84975160 TACCGCTGCG
*
84975170 CACTCTGATCCTACTATCACTATCATACTT
1 CACTCTGATCCTACTATCACTATCACACTT
*
84975200 CACTCTGATCCTACTATCATTATCACACTT
1 CACTCTGATCCTACTATCACTATCACACTT
84975230 CA
1 CA
84975232 ACTAGAACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.34, G:0.03, T:0.35
Consensus pattern (30 bp):
CACTCTGATCCTACTATCACTATCACACTT
Found at i:84976242 original size:6 final size:6
Alignment explanation
Indices: 84976231--84976366 Score: 57
Period size: 6 Copynumber: 21.8 Consensus size: 6
84976221 AACTAAAATT
* * * *
84976231 AGAATC AGAATC AGAATT AGGCGA-C AGAATC ATAATC -GAAATC AGGATC
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AG-AATC AGAATC
* * * *
84976280 AGGTAA-C AGAATC AAAATC AAAATC AGTATC AGGTAA-C AGAATC AAAATC
1 A-G-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
* *
84976330 AGAATC AGTATC AGGTAA-C AGAATC AAAAATC AGAAT
1 AGAATC AGAATC A-G-AATC AGAATC -AGAATC AGAAT
84976367 GTGAATGCAA
Statistics
Matches: 97, Mismatches: 18, Indels: 30
0.67 0.12 0.21
Matches are distributed among these distances:
5 7 0.07
6 69 0.71
7 17 0.18
8 4 0.04
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:84976289 original size:31 final size:30
Alignment explanation
Indices: 84976254--84976358 Score: 165
Period size: 31 Copynumber: 3.4 Consensus size: 30
84976244 GAATTAGGCG
* *
84976254 ACAGAATCATAATCGAAATCAGGATCAGGTA
1 ACAGAATCAAAATC-AAATCAGTATCAGGTA
84976285 ACAGAATCAAAATCAAAATCAGTATCAGGTA
1 ACAGAATCAAAATC-AAATCAGTATCAGGTA
84976316 ACAGAATCAAAATCAGAATCAGTATCAGGTA
1 ACAGAATCAAAATCA-AATCAGTATCAGGTA
84976347 ACAGAATCAAAA
1 ACAGAATCAAAA
84976359 ATCAGAATGT
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
30 1 0.01
31 69 0.99
ACGTcount: A:0.50, C:0.16, G:0.15, T:0.18
Consensus pattern (30 bp):
ACAGAATCAAAATCAAATCAGTATCAGGTA
Found at i:84976545 original size:27 final size:26
Alignment explanation
Indices: 84976503--84976597 Score: 73
Period size: 27 Copynumber: 3.5 Consensus size: 26
84976493 GCTCAGTTAT
* * *
84976503 CAGATATTGTGACAGAGACACTAGATA
1 CAGATTTTGTGGCAGAGACACCAGA-A
*
84976530 CAGATTTTGTGGCAGAGCCACCAGAA
1 CAGATTTTGTGGCAGAGACACCAGAA
* * * *
84976556 CATATATTTGTGGCATAGCCACCAAAAA
1 CAGAT-TTTGTGGCAGAGACACC-AGAA
**
84976584 CAGATAATGTGGCA
1 CAGATTTTGTGGCA
84976598 AAGCCACTTA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 5 0.09
27 44 0.79
28 7 0.12
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATTTTGTGGCAGAGACACCAGAA
Found at i:84976602 original size:27 final size:27
Alignment explanation
Indices: 84976529--84976604 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 27
84976519 GACACTAGAT
* * *
84976529 ACAGAT-TTTGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAAAGCCACCAAA
* * *
84976555 ACATATATTTGTGGCATAGCCACCAAAA
1 ACAGATATATGTGGCAAAGCCACC-AAA
84976583 ACAGATA-ATGTGGCAAAGCCAC
1 ACAGATATATGTGGCAAAGCCAC
84976605 TTAACAGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.12
27 29 0.69
28 8 0.19
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (27 bp):
ACAGATATATGTGGCAAAGCCACCAAA
Found at i:84976797 original size:22 final size:22
Alignment explanation
Indices: 84976763--84976827 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
84976753 GCAAATACGT
*
84976763 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
84976785 TTGGCATAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
84976807 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
84976828 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:84978064 original size:27 final size:27
Alignment explanation
Indices: 84977258--84978063 Score: 974
Period size: 27 Copynumber: 29.9 Consensus size: 27
84977248 CAAAATGGTA
* * *
84977258 ATTT-TACCCCACGAGGGTATCTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
84977284 AATTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
84977311 ATTTCTACCCTACAAGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
84977338 ATTTCAACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
84977365 ATTTCTACCCTACAAGGGTATTTTGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * * *
84977392 AATTCTACCCTACATGGTTATATCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
84977419 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* **
84977446 ATTTCAACCCTACAAGGGTATTTCAAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * **
84977473 ATTTCTATCCTACAGGGGTATTTCAAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* *
84977500 AATTCTACCCTAC-AGGGCTATTTCGAT
1 ATTTCTACCCTACAAGGG-TATTTCGGT
*
84977527 ATTTCTACCCTACAAGGGCATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * *
84977554 AATTT-TATCCTACAGGGGTATTTCAGT
1 -ATTTCTACCCTACAAGGGTATTTCGGT
* * * *
84977581 AATTCTACCATACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
84977608 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* *
84977635 ATTTCTACCTTACAAGGGTATTTTGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * *
84977662 AATTCTACCCTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* *
84977689 AATTCTACCCTAC-AGGGTTATTTTGGT
1 ATTTCTACCCTACAAGGG-TATTTCGGT
*
84977716 ATTTCTACCCTACAAGGGTATTTTGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
84977743 ATTTCAACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * **
84977770 ATTTCTATCCTACAGGGGTATTTCAAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* *
84977797 AATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
84977824 ATTTCTACCCTACAATGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * *
84977851 AATTT-TACCCTATAGGGGTATTTCAGT
1 -ATTTCTACCCTACAAGGGTATTTCGGT
* *
84977878 AATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
84977905 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * * **
84977932 AATTCTACCCTGCAGGGGTATTTTAGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * *
84977959 AATTCTACCCTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * *
84977986 AATTCTATCCTACAAGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* *
84978013 ATTTCTACCCTACAAGAGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
84978040 ATTTCTACCCTGCAAGGGTATTTC
1 ATTTCTACCCTACAAGGGTATTTC
84978064 AATAATTTTG
Statistics
Matches: 680, Mismatches: 91, Indels: 17
0.86 0.12 0.02
Matches are distributed among these distances:
26 15 0.02
27 649 0.95
28 16 0.02
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (27 bp):
ATTTCTACCCTACAAGGGTATTTCGGT
Found at i:84978202 original size:80 final size:79
Alignment explanation
Indices: 84978110--84978427 Score: 335
Period size: 80 Copynumber: 4.0 Consensus size: 79
84978100 GTAAATTGGG
* *
84978110 GGTACTTTGATAATTTTACAAGTC-GAGGGTATTTCAGTAATTTTACAAA-TGAGGGTATTTTAG
1 GGTA-TTTGATAATTTTACAAATCAG-GGGTATTTTAGTAATTTTACAAACTGAGGGTATTTTAG
*
84978173 TAATTTTGCAAACTGA
64 TAATTTTACAAACTGA
* * * *
84978189 GGTTATTTCGATAATTTTACAAATCTA-GGGTATTTTAGTAATTTTACAATC-GATGATATTTCA
1 GG-TATTT-GATAATTTTACAAATC-AGGGGTATTTTAGTAATTTTACAAACTGAGGGTATTTTA
84978252 GTAATTTTACAAA-TCGA
63 GTAATTTTACAAACT-GA
* *
84978269 GGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTT-
1 -GGTATTTGA-TAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTGA-GGGTATTTTA
*
84978332 GATAATTTTACAAACCAGA
63 G-TAATTTTACAAA-CTGA
* * * * **
84978351 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGT
1 GGTA-TTTGATAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTGAGGGTATTTTAGT
84978416 AATTTTACAAAC
65 AATTTTACAAAC
84978428 CAGGGGTATT
Statistics
Matches: 203, Mismatches: 19, Indels: 33
0.80 0.07 0.13
Matches are distributed among these distances:
79 8 0.04
80 105 0.52
81 83 0.41
82 7 0.03
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (79 bp):
GGTATTTGATAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTGAGGGTATTTTAGTA
ATTTTACAAACTGA
Found at i:84978369 original size:81 final size:81
Alignment explanation
Indices: 84978110--84978471 Score: 371
Period size: 81 Copynumber: 4.5 Consensus size: 81
84978100 GTAAATTGGG
* * * **
84978110 GGTACTTTGATAATTTTACAAGTC-GAGGGTATTTCAGTAATTTTACAAA-T-GAGGGTATTTTA
1 GGTATTTTGGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTA
* *
84978172 GTAATTTTGCAAA-CTGA
64 GTAATTTTACAAACCAGA
* * * * * * * *
84978189 GGTTATTTCGATAATTTTACAAATCTA-GGGTATTTTAGTAATTTTACAATCGA-TGATATTTCA
1 GG-TATTTTGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTA
*
84978252 GTAATTTTACAAATC-GA
64 GTAATTTTACAAACCAGA
*
84978269 GGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT-G
1 -GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAG
84978333 ATAATTTTACAAACCAGA
65 -TAATTTTACAAACCAGA
* * * *
84978351 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGT
1 GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGT
*
84978416 AATTTTACAAACCAGG
66 AATTTTACAAACCAGA
** ** *
84978432 GGTATTTTGGTAATTTTGTAAGCCAAGGGTATTTTGGTAA
1 GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAA
84978472 ACTAAAGTAT
Statistics
Matches: 241, Mismatches: 30, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
79 3 0.01
80 104 0.43
81 131 0.54
82 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGT
AATTTTACAAACCAGA
Found at i:84978461 original size:27 final size:27
Alignment explanation
Indices: 84978109--84978471 Score: 327
Period size: 27 Copynumber: 13.5 Consensus size: 27
84978099 TGTAAATTGG
* * ** *
84978109 GGGTACTTTGATAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
** **
84978136 GGGTATTTCAGTAATTTTACAAA-TGA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * **
84978162 GGGTATTTTAGTAATTTTGCAAACTGA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * * * *
84978189 GGTTATTTCGATAATTTTACAAATCTA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
84978216 GGGTATTTTAGTAATTTTAC-AATCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * ** * *
84978242 TGATATTTCAGTAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
84978269 GGGTATTTTAGTAATTTTACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
84978296 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
*
84978323 GGGTATTTTGATAATTTTACAAACC-A
1 GGGTATTTTGGTAATTTTACAAACCAA
*
84978349 GAGGTATTTTGGTAATTTTACAAACCAG
1 G-GGTATTTTGGTAATTTTACAAACCAA
* *
84978377 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
84978404 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
** *
84978431 GGGTATTTTGGTAATTTTGTAAGCCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
84978458 GGGTATTTTGGTAA
1 GGGTATTTTGGTAA
84978472 ACTAAAGTAT
Statistics
Matches: 283, Mismatches: 49, Indels: 8
0.83 0.14 0.02
Matches are distributed among these distances:
26 46 0.16
27 236 0.83
28 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:84979432 original size:30 final size:30
Alignment explanation
Indices: 84979398--84979459 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
84979388 TACTGTTGCG
84979398 CACTCTGATCCTACTATCACTATCACACTT
1 CACTCTGATCCTACTATCACTATCACACTT
84979428 CACTCTGATCCTACTATCACTATCACACTT
1 CACTCTGATCCTACTATCACTATCACACTT
84979458 CA
1 CA
84979460 ACTAGAACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.37, G:0.03, T:0.32
Consensus pattern (30 bp):
CACTCTGATCCTACTATCACTATCACACTT
Found at i:84980484 original size:6 final size:6
Alignment explanation
Indices: 84980473--84980590 Score: 62
Period size: 6 Copynumber: 19.0 Consensus size: 6
84980463 AATTAGGTGA
* * * * *
84980473 CAGAAT CAGAAT CGGAAT CAGTAT CAGTAT CAGGTAA- CAGAAT GAAAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT
* * * *
84980522 CAAAAT CAGTAT CAGGTAA- CAGAAT CAAAAT CAGAAT CAGTAT CAGCTAA-
1 CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT CAGAAT CAG--AAT
*
84980572 CAGAAT CAAAACT CAGAAT
1 CAGAAT CAGAA-T CAGAAT
84980591 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 16, Indels: 20
0.70 0.13 0.16
Matches are distributed among these distances:
5 6 0.07
6 63 0.73
7 14 0.16
8 3 0.03
ACGTcount: A:0.47, C:0.17, G:0.16, T:0.19
Consensus pattern (6 bp):
CAGAAT
Found at i:84980514 original size:31 final size:31
Alignment explanation
Indices: 84980479--84980590 Score: 145
Period size: 31 Copynumber: 3.6 Consensus size: 31
84980469 GTGACAGAAT
* *
84980479 CAGAATCGGAATCAGTATCAGTATCAGGTAA
1 CAGAATCGAAATCAGAATCAGTATCAGGTAA
*
84980510 CAGAAT-GAAAATCAAAATCAGTATCAGGTAA
1 CAGAATCG-AAATCAGAATCAGTATCAGGTAA
* *
84980541 CAGAATCAAAATCAGAATCAGTATCAGCTAA
1 CAGAATCGAAATCAGAATCAGTATCAGGTAA
*
84980572 CAGAATCAAAACTCAGAAT
1 CAGAATCGAAA-TCAGAAT
84980591 GTGAATGCAA
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
30 1 0.01
31 64 0.89
32 7 0.10
ACGTcount: A:0.47, C:0.17, G:0.16, T:0.20
Consensus pattern (31 bp):
CAGAATCGAAATCAGAATCAGTATCAGGTAA
Found at i:84980768 original size:27 final size:26
Alignment explanation
Indices: 84980726--84980827 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
84980716 GCTCAGTTAT
* *
84980726 CAGATATTGTGACAGAGACACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
84980753 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
84980779 CAGATATTTATGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
84980807 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
84980828 TTAACAAAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.77
28 8 0.12
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:84981014 original size:22 final size:22
Alignment explanation
Indices: 84980986--84981049 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
84980976 GCAAATACGT
*
84980986 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
84981008 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
84981030 TTGACAAAAAGCCATAATCA
1 TTGGCACAAAGCCATAATCA
84981050 AAAGGCTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:84981507 original size:27 final size:27
Alignment explanation
Indices: 84981481--84982122 Score: 788
Period size: 27 Copynumber: 23.8 Consensus size: 27
84981471 CAAAATGGTA
* * *
84981481 ATTT-TACCCCACGAGGGTATCTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
** * * *
84981507 AACTCTACCCTACAGGGGTATTTTGAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
84981534 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * **
84981561 ATTTCTATCCTACAGGGGTATTTCAAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* *
84981588 AATTCTACCCTA-AAGGGGTATTTCTGT
1 ATTTCTACCCTACAA-GGGTATTTCGGT
84981615 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
84981642 ATTTCAACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
84981669 ATTTCTACCCTACAAGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
84981696 AATTCTACCCTAC-AGGGTTATTTCGGT
1 ATTTCTACCCTACAAGGG-TATTTCGGT
84981723 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
84981750 ATTTCAACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * **
84981777 ATTTCTATCCTACACGGGTATTTCAAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * *
84981804 AATTCTACCCTATAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * *
84981831 AATTCTACCTTACAAGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * **
84981858 AATTCTACCCTACAGGGGTATTTCAAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* *
84981885 AATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* *
84981912 ATTTCTACCCTACAAGGGCATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
84981939 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * * *
84981966 AATTCTACCCTATAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* *
84981993 AATTCTACCCTAC-AGGGTTATTTCGAT
1 ATTTCTACCCTACAAGGG-TATTTCGGT
*
84982020 ATTTCTACCTTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
84982047 ATTTCAACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * **
84982074 ATTTCTATCCTACAGGGGTATTTCAAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
84982101 AATTCTACCCTACAAGGGTATT
1 ATTTCTACCCTACAAGGGTATT
84982123 CAATAATTTT
Statistics
Matches: 531, Mismatches: 78, Indels: 13
0.85 0.13 0.02
Matches are distributed among these distances:
26 10 0.02
27 511 0.96
28 10 0.02
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
ATTTCTACCCTACAAGGGTATTTCGGT
Found at i:84982489 original size:81 final size:82
Alignment explanation
Indices: 84982168--84982535 Score: 360
Period size: 81 Copynumber: 4.5 Consensus size: 82
84982158 CTATAAATTT
* * * ** * *
84982168 GGGGTACTTTGATAATTTTACAAGTC-GAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTC
1 GGGGTATTTTGGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTT
* *
84982232 AG-TAATTTTGCAAA-CT
65 AGATAATTTTACAAACCA
* *** ** *
84982248 GAGGTTATTTCAATAATTTTACAAATC-GAGGGTATTTCAGTAATTTTAC-AATCAATGGTA-TT
1 G-GGGTATTTTGGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTACAAATCAAGGGTATTT
* *
84982310 TCGATAATTTTACAAATC-
64 TAGATAATTTTACAAACCA
** **
84982328 GAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAA-CTGGGGGTATTT
1 G-GGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATC-AAGGGTATTT
84982392 T-GATAATTTTACAAACCA
64 TAGATAATTTTACAAACCA
* * *
84982410 GGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAATAAAGGGTATTTTA
1 GGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTA
84982475 G-TAATTTTACAAACCA
66 GATAATTTTACAAACCA
** * *
84982491 GGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTT
1 GGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTT
84982536 GGTAAACTAA
Statistics
Matches: 250, Mismatches: 28, Indels: 19
0.84 0.09 0.06
Matches are distributed among these distances:
79 3 0.01
80 65 0.26
81 177 0.71
82 5 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (82 bp):
GGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTA
GATAATTTTACAAACCA
Found at i:84982542 original size:27 final size:27
Alignment explanation
Indices: 84982168--84982535 Score: 307
Period size: 27 Copynumber: 13.7 Consensus size: 27
84982158 CTATAAATTT
* * **
84982168 GGGGTACTTTGATAATTTTACAAGTC-
1 GGGGTATTTTGGTAATTTTACAAACCA
** *
84982194 GAGGGTATTTCAGTAATTTTACAAATC-
1 G-GGGTATTTTGGTAATTTTACAAACCA
** * *
84982221 GAGGGTATTTCAGTAATTTTGCAAA-CT
1 G-GGGTATTTTGGTAATTTTACAAACCA
* *** *
84982248 GAGGTTATTTCAATAATTTTACAAATC-
1 G-GGGTATTTTGGTAATTTTACAAACCA
** *
84982275 GAGGGTATTTCAGTAATTTTAC-AATCA
1 G-GGGTATTTTGGTAATTTTACAAACCA
** * * *
84982302 ATGGTATTTCGATAATTTTACAAATC-
1 GGGGTATTTTGGTAATTTTACAAACCA
** *
84982328 GAGGGTATTTCAGTAATTTTACAAATCA
1 G-GGGTATTTTGGTAATTTTACAAACCA
**
84982356 GGGGTATTTTGGTAATTTTACAAACTG
1 GGGGTATTTTGGTAATTTTACAAACCA
*
84982383 GGGGTATTTTGATAATTTTACAAACCA
1 GGGGTATTTTGGTAATTTTACAAACCA
84982410 GGGGTATTTTGGTAATTTTACAAACCA
1 GGGGTATTTTGGTAATTTTACAAACCA
* **
84982437 GGGGTATTTTGGTAATTTTATAAATAA
1 GGGGTATTTTGGTAATTTTACAAACCA
* *
84982464 AGGGTATTTTAGTAATTTTACAAACCA
1 GGGGTATTTTGGTAATTTTACAAACCA
**
84982491 GGGGTATTTTGGTAATTTTGTAAACCA
1 GGGGTATTTTGGTAATTTTACAAACCA
*
84982518 AGGGTATTTTGGTAATTT
1 GGGGTATTTTGGTAATTT
84982536 GGTAAACTAA
Statistics
Matches: 294, Mismatches: 41, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.08
27 269 0.91
28 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGGTATTTTGGTAATTTTACAAACCA
Found at i:84989043 original size:47 final size:46
Alignment explanation
Indices: 84988889--84989200 Score: 226
Period size: 47 Copynumber: 6.7 Consensus size: 46
84988879 AGGATAAATT
* * * *
84988889 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCATATATGCG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTC-TCTGTGAG
* * * * *
84988938 TGCTGATGCATGTCCCAGACATGTATTACACTAGCACAACTCT-T-A-
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCTC-TCTCTGTGAG
* * * *
84988983 GTCGATGCGTGTCCCGGACACGTCTTACACTGGCTCTCTCTGTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCTCTG-TGAG
* * **
84989030 GCCGATGCATGTCCCAGACATGTCTTACTCTGGCACTCAT-AAT-ATG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTC-TCTGTGA-G
* * * * *
84989076 GCTGAAGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTG-GAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTC-TCTGTGAG
*
84989122 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT--G
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTC-T-CTGTGAG
* *
84989170 GCCGAAGCATGTCCCAGATATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
84989201 AGCGTACAAA
Statistics
Matches: 206, Mismatches: 43, Indels: 30
0.74 0.15 0.11
Matches are distributed among these distances:
43 4 0.02
44 28 0.14
45 2 0.01
46 52 0.25
47 61 0.30
48 36 0.17
49 17 0.08
50 6 0.03
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCTCTGTGAG
Found at i:84989174 original size:140 final size:138
Alignment explanation
Indices: 84988889--84989200 Score: 353
Period size: 140 Copynumber: 2.2 Consensus size: 138
84988879 AGGATAAATT
** *
84988889 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCATATATGCGTGCTGATGCATGTCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATATAT-CGTGCTGAAGCATGTCCC
* * * *
84988954 AGACATGTATTACACTAGCACAACTCTTAGTCGATGCGTGTCCCGGACACGTCTTACACTGGCTC
63 AGACATGTATTACACTAGCACAACTCTGAGCCGATGCATGTCCCAGACACGTCTTACACTGGCTC
* **
84989019 TCTCTGTTGAG
128 TCTATAATGAG
*
84989030 GCCGATGCATGTCCCAGACATGTCTTACTCTGGCACTCATAATAT-G-GCTGAAGCATGTCCCAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCAT-ATATCGTGCTGAAGCATGTCCCAG
* ** *
84989093 ACATGTCTTACACTAGC-CCTCGTCTGGATGCCGATGCCATGTCCCAGACATGGTCTTACACTGG
65 ACATGTATTACACTAGCACAAC-TCT-GA-GCCGATG-CATGTCCCAGACA-CGTCTTACACTGG
*
84989157 CTCTC-ATAATGTG
125 CTCTCTATAATGAG
* *
84989170 GCCGAAGCATGTCCCAGATATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
84989201 AGCGTACAAA
Statistics
Matches: 146, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
136 2 0.01
137 35 0.24
138 2 0.01
139 22 0.15
140 61 0.42
141 24 0.16
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (138 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATATATCGTGCTGAAGCATGTCCCAGA
CATGTATTACACTAGCACAACTCTGAGCCGATGCATGTCCCAGACACGTCTTACACTGGCTCTCT
ATAATGAG
Found at i:84989183 original size:94 final size:92
Alignment explanation
Indices: 84988992--84989203 Score: 291
Period size: 94 Copynumber: 2.3 Consensus size: 92
84988982 AGTCGATGCG
* * * *
84988992 TGTCCCGGACACGTCTTACACTGGCTCTCTCTGTTGAGGCCGATGCATGTCCCAGACATGTCTTA
1 TGTCCCAGACATGTCTTACACTAGCCCTCTCTG-TGAGGCCGATGCATGTCCCAGACATGTCTTA
* *
84989057 CTCTGGCACTCATAATATGGCTGAAGCA
65 CACTGGCACTCATAATATGGCCGAAGCA
*
84989085 TGTCCCAGACATGTCTTACACTAGCCCTCGTCTG-GATGCCGATGCCATGTCCCAGACATGGTCT
1 TGTCCCAGACATGTCTTACACTAGCCCTC-TCTGTGAGGCCGATG-CATGTCCCAGACAT-GTCT
* *
84989149 TACACTGGCTCTCATAATGTGGCCGAAGCA
63 TACACTGGCACTCATAATATGGCCGAAGCA
*
84989179 TGTCCCAGATATGTCTTACACTAGC
1 TGTCCCAGACATGTCTTACACTAGC
84989204 GTACAAATCA
Statistics
Matches: 106, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
92 9 0.08
93 39 0.37
94 58 0.55
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (92 bp):
TGTCCCAGACATGTCTTACACTAGCCCTCTCTGTGAGGCCGATGCATGTCCCAGACATGTCTTAC
ACTGGCACTCATAATATGGCCGAAGCA
Found at i:84989333 original size:15 final size:17
Alignment explanation
Indices: 84989313--84989344 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
84989303 TATAACTTAA
84989313 CAATTC-AT-ACAATAT
1 CAATTCAATGACAATAT
84989328 CAATTCAATGACAATAT
1 CAATTCAATGACAATAT
84989345 GAATACAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (17 bp):
CAATTCAATGACAATAT
Found at i:84992951 original size:30 final size:30
Alignment explanation
Indices: 84992915--84992974 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
84992905 TTCCCGAGCC
*
84992915 TAGGGGCAAAAGTGTAA-TTATGCAAAAGTT
1 TAGGGGCAAAAATGTAAGTT-TGCAAAAGTT
*
84992945 TAGGGGCAAAAATGTAAGTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAAGTTTGCAAAAGTT
84992975 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.27
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAGTTTGCAAAAGTT
Found at i:84998612 original size:13 final size:13
Alignment explanation
Indices: 84998590--84998622 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
84998580 AAGGGTTTGT
84998590 TTAT-TAAACTAA
1 TTATCTAAACTAA
84998602 TTATCTAAACTAA
1 TTATCTAAACTAA
*
84998615 TTAACTAA
1 TTATCTAA
84998623 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:85002957 original size:37 final size:37
Alignment explanation
Indices: 85002907--85003022 Score: 196
Period size: 37 Copynumber: 3.1 Consensus size: 37
85002897 TTATTACGAA
* * * *
85002907 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
85002944 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
85002981 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
85003018 GTCTT
1 GTCTT
85003023 TAGAGCTCGG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 75 1.00
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
Found at i:85003412 original size:47 final size:47
Alignment explanation
Indices: 85003141--85003391 Score: 403
Period size: 47 Copynumber: 5.3 Consensus size: 47
85003131 CCCTTCGGGA
* * * * * *
85003141 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
85003188 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85003235 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85003282 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85003329 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85003378 CTTATCTCATATAT
1 CTTATCACATATAT
85003392 GCATGTTTAC
Statistics
Matches: 191, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 145 0.76
49 46 0.24
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:85006969 original size:80 final size:80
Alignment explanation
Indices: 85006761--85006983 Score: 234
Period size: 80 Copynumber: 2.8 Consensus size: 80
85006751 CCAGCATGGT
* * * * * * * * *** *
85006761 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGAACTTAGTCCAGATACATCACTAGCACGAAAGCTCTTCGGAACTTAGCCCGGATA
**
85006826 TTTCACTAGCACGAA
66 CATCACTAGCACGAA
* * *
85006841 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAGTCCAGATACATCACTAGCACGAAAGCTCTTCGGAACTTAGCCCGGATA
85006906 CATCACTAGCACGAA
66 CATCACTAGCACGAA
** *
85006921 TGCTCTTCGGAACTTAGTCCAGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGAACTTAGTCCAGATA-CATCAC-TAGCACGAAAGCTCTTCGGAACTTAGCCCGGA
85006984 CATCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 108 0.89
81 8 0.07
82 6 0.05
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
TGCTCTTCGGAACTTAGTCCAGATACATCACTAGCACGAAAGCTCTTCGGAACTTAGCCCGGATA
CATCACTAGCACGAA
Found at i:85006976 original size:120 final size:120
Alignment explanation
Indices: 85006761--85006983 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 120
85006751 CCAGCATGGT
* * *** *
85006761 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGAACCTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACAGATA
* * *
85006826 TTTCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
66 TGTCACTAGCACGAAAGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * * *
85006881 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTC-CAGAT
1 TGCTCTTCGGAACCTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAG-CACAGAT
*
85006945 ATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
65 AT-GTCAC-TAGCACGAAAGCTCTTCGGAACTTAGCCCGGA
85006984 CATCATTCAA
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
120 71 0.83
121 9 0.10
122 6 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
TGCTCTTCGGAACCTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACAGATA
TGTCACTAGCACGAAAGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:85006977 original size:40 final size:40
Alignment explanation
Indices: 85006761--85006945 Score: 246
Period size: 40 Copynumber: 4.6 Consensus size: 40
85006751 CCAGCATGGT
* * * * * *
85006761 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*** **
85006801 TGCTCTTCGGGGTTTAG-CACGGATATTTCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTC-CGGATACATCACTAGCACGAA
85006841 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
85006881 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
85006921 TGCTCTTCGGAACTTAGTCCAGATA
1 TGCTCTTCGGAACTTAGTCCGGATA
85006946 TGGTCACTTA
Statistics
Matches: 131, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 129 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:85007332 original size:29 final size:29
Alignment explanation
Indices: 85007293--85007371 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
85007283 CTTAATAATC
*
85007293 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
85007323 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
85007352 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
85007372 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:85007414 original size:43 final size:43
Alignment explanation
Indices: 85007353--85007455 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
85007343 TGCATTTCAA
85007353 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
85007396 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
85007439 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
85007456 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:85013405 original size:27 final size:27
Alignment explanation
Indices: 85013383--85013647 Score: 299
Period size: 27 Copynumber: 9.8 Consensus size: 27
85013373 CAATTTACAA
85013383 AATTACTGTTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTATAG
*
85013410 AATTACTGTTTTACCCTC-AGTTTA-CG
1 AATTACTGTTTTACCCTCGA-TTTATAG
*
85013436 AAATTACTGTTTTACCCTTGATTTATAG
1 -AATTACTGTTTTACCCTCGATTTATAG
*
85013464 AATTACCGTTTTACCCTC-AGTTTATAG
1 AATTACTGTTTTACCCTCGA-TTTATAG
85013491 AATTACTGTTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTATAG
** * *
85013518 AATTACCATTTTACCCTCGATTTGTAA
1 AATTACTGTTTTACCCTCGATTTATAG
* *
85013545 AATTA-TCGTTTTACCCTTGATTTACAG
1 AATTACT-GTTTTACCCTCGATTTATAG
* * *
85013572 AATTACTGGTTTACCCTC-AGTTTACAA
1 AATTACTGTTTTACCCTCGA-TTTATAG
*
85013599 AATTA-TCGTTTTACCCTCAATTTATAG
1 AATTACT-GTTTTACCCTCGATTTATAG
* *
85013626 AATTACCGTTTTACCCTTGATT
1 AATTACTGTTTTACCCTCGATT
85013648 GTGAAATTAC
Statistics
Matches: 201, Mismatches: 25, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
26 5 0.02
27 191 0.95
28 5 0.02
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (27 bp):
AATTACTGTTTTACCCTCGATTTATAG
Found at i:85013414 original size:54 final size:54
Alignment explanation
Indices: 85013376--85013642 Score: 369
Period size: 54 Copynumber: 4.9 Consensus size: 54
85013366 GTACTCCCAA
*
85013376 TTTACAAAATTACTGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCAG
1 TTTACAAAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAG
* *
85013430 TTTACGAAATTACTGTTTTACCCTTGATTTATAGAATTACCGTTTTACCCTCAG
1 TTTACAAAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAG
* * *
85013484 TTTATAGAATTACTGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTC-G
1 TTTACAAAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAG
** * * * *
85013537 ATTTGTAAAATTA-TCGTTTTACCCTTGATTTACAGAATTACTGGTTTACCCTCAG
1 -TTTACAAAATTACT-GTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAG
*
85013592 TTTACAAAATTA-TCGTTTTACCCTCAATTTATAGAATTACCGTTTTACCCT
1 TTTACAAAATTACT-GTTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
85013643 TGATTGTGAA
Statistics
Matches: 188, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
53 2 0.01
54 185 0.98
55 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (54 bp):
TTTACAAAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAG
Found at i:85013468 original size:81 final size:81
Alignment explanation
Indices: 85013383--85013647 Score: 347
Period size: 81 Copynumber: 3.3 Consensus size: 81
85013373 CAATTTACAA
* *
85013383 AATTACTGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCAGTTTACGAAATTACTGTTT
1 AATTACCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCAGTTTACAAAATTACTGTTT
*
85013448 TACCCTTGATTTATAG
66 TACCCTCGATTTATAG
* * **
85013464 AATTACCGTTTTACCCTC-AGTTTATAGAATTACTGTTTTACCCTC-GATTTATAGAATTACCAT
1 AATTACCGTTTTACCCTCGA-TTTATAGAATTACTGTTTTACCCTCAG-TTTACAAAATTACTGT
* *
85013527 TTTACCCTCGATTTGTAA
64 TTTACCCTCGATTTATAG
* * * *
85013545 AATTATCGTTTTACCCTTGATTTACAGAATTACTGGTTTACCCTCAGTTTACAAAATTA-TCGTT
1 AATTACCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCAGTTTACAAAATTACT-GTT
*
85013609 TTACCCTCAATTTATAG
65 TTACCCTCGATTTATAG
*
85013626 AATTACCGTTTTACCCTTGATT
1 AATTACCGTTTTACCCTCGATT
85013648 GTGAAATTAC
Statistics
Matches: 158, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
80 2 0.01
81 154 0.97
82 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (81 bp):
AATTACCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCAGTTTACAAAATTACTGTTT
TACCCTCGATTTATAG
Found at i:85013682 original size:27 final size:27
Alignment explanation
Indices: 85013652--85013866 Score: 254
Period size: 27 Copynumber: 8.0 Consensus size: 27
85013642 TTGATTGTGA
*
85013652 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
85013679 AATTTCTGAAATACCCCTATAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
85013706 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
85013733 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
85013760 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
85013787 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
85013814 AAATA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * * *
85013841 AATTACCGAGATACCCTTGTGGGGTA
1 AATTACTGAAATACCCCTGTAGGGTA
85013867 ACATTACCAT
Statistics
Matches: 163, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
27 163 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:85014111 original size:27 final size:26
Alignment explanation
Indices: 85014073--85014155 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
85014063 CGGAGGAAGC
*
85014073 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
85014100 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
85014126 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
85014153 GTT
1 GTT
85014156 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:85014275 original size:22 final size:22
Alignment explanation
Indices: 85014243--85014301 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
85014233 CCCGTTATTA
*
85014243 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
85014265 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
85014287 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
85014302 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:85014488 original size:27 final size:27
Alignment explanation
Indices: 85014466--85014539 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
85014456 TAGGTGGGTT
*
85014466 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
85014493 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
** *
85014520 TATCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
85014540 CAGCCATGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.12
27 35 0.85
28 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:85014666 original size:6 final size:6
Alignment explanation
Indices: 85014657--85014758 Score: 86
Period size: 6 Copynumber: 16.8 Consensus size: 6
85014647 TTGCATTCAC
* * *
85014657 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG GTTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
85014706 -TTACTA ATAT-TG ATTCTA ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
85014754 ATTCT
1 ATTCT
85014759 CATTTTGGTT
Statistics
Matches: 78, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
5 6 0.08
6 65 0.83
7 5 0.06
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:85014720 original size:30 final size:30
Alignment explanation
Indices: 85014657--85014758 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
85014647 TTGCATTCAC
*
85014657 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
*
85014688 ATTCTGATTCTGGTTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
* *
85014718 ATTCTAATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
85014748 ATTCTGATTCT
1 ATTCTGATTCT
85014759 CATTTTGGTT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
29 1 0.02
30 42 0.67
31 20 0.32
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:85020350 original size:46 final size:49
Alignment explanation
Indices: 85020241--85020355 Score: 146
Period size: 50 Copynumber: 2.4 Consensus size: 49
85020231 TGTCTTCGAC
** * *
85020241 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATCTAAT
* *
85020291 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-AT-T-TATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATCTAAT
85020337 ATGGACTTACATGGCTCAT
1 ATGGACTTACATGGCTCAT
85020356 GTCTGTCCTG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 25 0.43
47 1 0.02
48 2 0.03
50 30 0.52
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (49 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATCTAAT
Found at i:85024070 original size:39 final size:40
Alignment explanation
Indices: 85023905--85024109 Score: 342
Period size: 40 Copynumber: 5.2 Consensus size: 40
85023895 GGACTAAGAT
*
85023905 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
85023945 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
85023985 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
85024025 CCGAAGGCACTTGTGCGAGTTGCTATATCC-GGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* * *
85024064 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GACTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
85024103 CCGAAGG
1 CCGAAGG
85024110 TACTTGGGTT
Statistics
Matches: 159, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
39 52 0.33
40 107 0.67
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:85028680 original size:14 final size:14
Alignment explanation
Indices: 85028647--85028696 Score: 59
Period size: 13 Copynumber: 3.7 Consensus size: 14
85028637 TCCCTTTCTG
85028647 TTCTTTCT-TACTT
1 TTCTTTCTCTACTT
* *
85028660 CTCTTTCTCTATTT
1 TTCTTTCTCTACTT
85028674 TTCTTTC-CTACTT
1 TTCTTTCTCTACTT
*
85028687 TTCCTTCTCT
1 TTCTTTCTCT
85028697 GCTCCTTCTC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 18 0.60
14 12 0.40
ACGTcount: A:0.06, C:0.30, G:0.00, T:0.64
Consensus pattern (14 bp):
TTCTTTCTCTACTT
Found at i:85030380 original size:6 final size:6
Alignment explanation
Indices: 85030356--85030419 Score: 53
Period size: 6 Copynumber: 11.2 Consensus size: 6
85030346 TTTGATTCCA
* * ** *
85030356 TTTATT TTTA-C TTTA-T TTTACT TTTCCT TTTGTT TTTATT TTTA-T
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
85030401 TTTATT TTTATT TCTATT T
1 TTTATT TTTATT TTTATT T
85030420 CCAATTTTCA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
5 13 0.27
6 36 0.73
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:85030397 original size:17 final size:17
Alignment explanation
Indices: 85030356--85030413 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
85030346 TTTGATTCCA
* *
85030356 TTTATTTTTACTTTA-T
1 TTTATTTTCATTTTATT
* *
85030372 TTTACTTTTCCTTTTGTT
1 TTTA-TTTTCATTTTATT
*
85030390 TTTATTTTTATTTTATT
1 TTTATTTTCATTTTATT
85030407 TTTATTT
1 TTTATTT
85030414 CTATTTCCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
16 4 0.12
17 24 0.73
18 5 0.15
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTATTTTCATTTTATT
Found at i:85030411 original size:11 final size:11
Alignment explanation
Indices: 85030356--85030419 Score: 60
Period size: 11 Copynumber: 5.6 Consensus size: 11
85030346 TTTGATTCCA
*
85030356 TTTATTTTTAC
1 TTTATTTTTAT
85030367 TTTA-TTTTACT
1 TTTATTTTTA-T
*
85030378 TTTCCTTTTGT-T
1 TTT-ATTTT-TAT
85030390 TTTATTTTTAT
1 TTTATTTTTAT
85030401 TTTATTTTTAT
1 TTTATTTTTAT
85030412 TTCTATTT
1 TT-TATTT
85030420 CCAATTTTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
10 6 0.14
11 25 0.57
12 9 0.20
13 3 0.07
14 1 0.02
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:85030418 original size:17 final size:17
Alignment explanation
Indices: 85030383--85030419 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
85030373 TTACTTTTCC
* *
85030383 TTTTGTTTTTATTTTTA
1 TTTTATTTTTATTTCTA
85030400 TTTTATTTTTATTTCTA
1 TTTTATTTTTATTTCTA
85030417 TTT
1 TTT
85030420 CCAATTTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (17 bp):
TTTTATTTTTATTTCTA
Found at i:85037355 original size:33 final size:33
Alignment explanation
Indices: 85037313--85037378 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
85037303 TTCGAGGCAA
85037313 TTGAAACCTTACGAAAGGAATTATCCGACTCAT
1 TTGAAACCTTACGAAAGGAATTATCCGACTCAT
85037346 TTGAAACCTTACGAAAGGAATTATCCGACTCAT
1 TTGAAACCTTACGAAAGGAATTATCCGACTCAT
85037379 GATTTGGAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.27
Consensus pattern (33 bp):
TTGAAACCTTACGAAAGGAATTATCCGACTCAT
Found at i:85044439 original size:44 final size:44
Alignment explanation
Indices: 85044376--85044462 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
85044366 CACGTTTGTA
*
85044376 ATCATTTTTAAGTAGGTAAGTTTGTA-AGTTGATTAAACTAGTTG
1 ATCATTTTTAAGTAGGTAAGTTCGTACA-TTGATTAAACTAGTTG
*
85044420 ATCATTTTTGAGTAGGTAAGTTCGTACATTGATTAAACTAGTT
1 ATCATTTTTAAGTAGGTAAGTTCGTACATTGATTAAACTAGTT
85044463 AATTGATGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 39 0.98
45 1 0.03
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.43
Consensus pattern (44 bp):
ATCATTTTTAAGTAGGTAAGTTCGTACATTGATTAAACTAGTTG
Found at i:85046342 original size:48 final size:48
Alignment explanation
Indices: 85046271--85046601 Score: 294
Period size: 48 Copynumber: 6.9 Consensus size: 48
85046261 GACATTTGGG
* * * * *
85046271 TGATATGTGTGCCAATGTAAGACCATGTCTGGGATATGGCATCAGCCA
1 TGATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCCA
* * *
85046319 TGATATGAGAGCCAGTGTAAGACCATGTTTGGAAAATGGCAT-AGGCAA
1 TGATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCA-GCCA
* * * * * *
85046367 TG-TAATGAGAGCCAATGTAAGGCCATGTTTCGGACATGGTATTAG-TA
1 TGAT-ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCCA
* * * * **
85046414 TTGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCA
1 -TGATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCCA
* * **
85046463 CGATATGAGAGCCAGTGTAAAACCATGTTTGGGACATGGCATCAGCTT
1 TGATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCCA
* * * *
85046511 TGAGATGAGAGCTAGTGTAAGACCATGTCTGGGATATGGCATC-GACC-
1 TGATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAG-CCA
* * * *
85046558 TCAACATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC
1 T-GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATC
85046602 GGCAATTCAC
Statistics
Matches: 227, Mismatches: 48, Indels: 16
0.78 0.16 0.05
Matches are distributed among these distances:
47 5 0.02
48 219 0.96
49 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (48 bp):
TGATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCCA
Found at i:85046531 original size:144 final size:144
Alignment explanation
Indices: 85046271--85046538 Score: 369
Period size: 144 Copynumber: 1.9 Consensus size: 144
85046261 GACATTTGGG
* * *
85046271 TGATATGTGTGCCAATGTAAGACCATGTCTGGGATATGGCATCAGCCATGATATGAGAGCCAGTG
1 TGATATGTGCGCCAATGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCCAGTG
* *
85046336 TAAGACCATGTTTGGAAAATGGCATAGGCAATGTAATGAGAGCCAATGTAAGGCCATGTTTCGGA
66 TAAAACCATGTTTGGAAAATGGCATAGGCAATGTAATGAGAGCCAATGTAAGACCATGTTTCGGA
85046401 CATGGTATTAGTAT
131 CATGGTATTAGTAT
* * **
85046415 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCACGATATGAGAGCCAGTG
1 TGATATGTGCGCCAATGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCCAGTG
* * ** * *
85046480 TAAAACCATGTTTGGGACATGGCATCA-GCTTTG-AGATGAGAGCTAGTGTAAGACCATGT
66 TAAAACCATGTTTGGAAAATGGCAT-AGGCAATGTA-ATGAGAGCCAATGTAAGACCATGT
85046539 CTGGGATATG
Statistics
Matches: 107, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
143 1 0.01
144 105 0.98
145 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (144 bp):
TGATATGTGCGCCAATGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCCAGTG
TAAAACCATGTTTGGAAAATGGCATAGGCAATGTAATGAGAGCCAATGTAAGACCATGTTTCGGA
CATGGTATTAGTAT
Found at i:85046567 original size:144 final size:144
Alignment explanation
Indices: 85046275--85046601 Score: 356
Period size: 144 Copynumber: 2.3 Consensus size: 144
85046265 TTTGGGTGAT
* * * * *
85046275 ATGTGTGCCAATGTAAGACCATGTCTGGGATATGGCATCAGCCATGATATGAGAGCCAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCCAGTGTAAA
* *
85046340 ACCATGTTTGGAAAATGGCATAGGCAATGTAATGAGAGCCAATGTAAGGCCATGTTTCGGACATG
66 ACCATGTTTGGAAAATGGCATAGGCAATGTAATGAGAGCCAATGTAAGACCATGTCTCGGACATG
* ** *
85046405 GTATTAGTATTGAT
131 GCATTAGTATCAAC
* * **
85046419 ATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCACGATATGAGAGCCAGTGTAAA
1 ATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCCAGTGTAAA
* * ** * * * *
85046484 ACCATGTTTGGGACATGGCATCA-GCTTTG-AGATGAGAGCTAGTGTAAGACCATGTCTGGGATA
66 ACCATGTTTGGAAAATGGCAT-AGGCAATGTA-ATGAGAGCCAATGTAAGACCATGTCTCGGACA
*
85046547 TGGCA-TCG-ACCTCAAC
129 TGGCATTAGTA--TCAAC
* *
85046563 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC
1 ATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
85046602 GGCAATTCAC
Statistics
Matches: 151, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
142 1 0.01
143 3 0.02
144 146 0.97
145 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (144 bp):
ATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCCAGTGTAAA
ACCATGTTTGGAAAATGGCATAGGCAATGTAATGAGAGCCAATGTAAGACCATGTCTCGGACATG
GCATTAGTATCAAC
Found at i:85048172 original size:26 final size:26
Alignment explanation
Indices: 85048138--85048214 Score: 109
Period size: 26 Copynumber: 3.0 Consensus size: 26
85048128 GCCAACACAC
*
85048138 CAATATCGCAGTAAAGCTACCAGTAA
1 CAATATCGCAGTAGAGCTACCAGTAA
* *
85048164 TAATATCGCAGTAGAGCTACCAGTGA
1 CAATATCGCAGTAGAGCTACCAGTAA
* *
85048190 CAATAACGCAATAGAGCTACCAGTA
1 CAATATCGCAGTAGAGCTACCAGTA
85048215 TCAGTATATG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.19
Consensus pattern (26 bp):
CAATATCGCAGTAGAGCTACCAGTAA
Found at i:85048846 original size:27 final size:27
Alignment explanation
Indices: 85048802--85048856 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
85048792 GGTTAAACGT
* * *
85048802 TTGGAATTAGGGTTAACACCTTCTTAC
1 TTGGAATTAAGGTCAACACCCTCTTAC
*
85048829 TTGGCATTAAGGTCAACACCCTCTTAC
1 TTGGAATTAAGGTCAACACCCTCTTAC
85048856 T
1 T
85048857 AATACTTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (27 bp):
TTGGAATTAAGGTCAACACCCTCTTAC
Found at i:85055639 original size:26 final size:26
Alignment explanation
Indices: 85055587--85055658 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 26
85055577 AATTTCGTAG
* * * * *
85055587 CAAAGCTGCTAGTAATAATATCGCAA
1 CAAAGCTGCCAGTAACAGTAACACAA
85055613 CAAAGCTGCCAGTAACAGTAACACAA
1 CAAAGCTGCCAGTAACAGTAACACAA
* *
85055639 CAGAGCTGCCAGTATCAGTA
1 CAAAGCTGCCAGTAACAGTA
85055659 TATGTGGCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (26 bp):
CAAAGCTGCCAGTAACAGTAACACAA
Found at i:85065509 original size:46 final size:47
Alignment explanation
Indices: 85065403--85065518 Score: 144
Period size: 50 Copynumber: 2.4 Consensus size: 47
85065393 TGTCTTCGAC
** * *
85065403 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
85065453 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
85065499 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
85065519 TTGTCCTGTC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 29 0.49
50 30 0.51
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:85069845 original size:46 final size:47
Alignment explanation
Indices: 85069739--85069860 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
85069729 TGTCTTCGAC
** * *
85069739 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
85069789 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
85069835 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
85069861 CTGTCTGTCC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:85077617 original size:78 final size:80
Alignment explanation
Indices: 85077492--85077680 Score: 233
Period size: 78 Copynumber: 2.4 Consensus size: 80
85077482 GGATATAGCC
* * * * * *
85077492 ACTAGCTCAAACGCCTTCGGGACTTAGCCC-GTTATAGTAACTTGCACAAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTT
* *
85077556 AGCCCGTAA-TAATA
66 AGCCCGGAATTAACA
* *
85077570 ACTCGCACAAATGCCTTCGGGACTTA-CCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTT
* *
85077634 AGCCCGGAATTAGCC
66 AGCCCGGAATTAACA
85077649 ACTAGCACAAATG-CTCTCGGGACTTAGCCCGG
1 ACTAGCACAAATGCCT-TCGGGACTTAGCCCGG
85077681 TTATCATCCG
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
77 3 0.03
78 62 0.66
79 24 0.26
80 5 0.05
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (80 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTT
AGCCCGGAATTAACA
Found at i:85077657 original size:40 final size:39
Alignment explanation
Indices: 85077476--85077680 Score: 200
Period size: 39 Copynumber: 5.2 Consensus size: 39
85077466 CCTTCGGAGT
* * *
85077476 TTAG-CCGGATATAGCCACTAGCTCAAACGCCTTCGGGAC
1 TTAGCCCGGA-ATAGCAACTAGCACAAATGCCTTCGGGAC
** * *
85077515 TTAGCCCGTTATAGTAACTTGCACAAATGCCTTCGGGAC
1 TTAGCCCGGAATAGCAACTAGCACAAATGCCTTCGGGAC
* ** *
85077554 TTAGCCCGTAATAATAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGAATAGCAACTAGCACAAATGCCTTCGGGAC
** * * *
85077593 TTA-CCCGGATATAATAGCTCGCACAAACGCCTTCGGGAC
1 TTAGCCCGGA-ATAGCAACTAGCACAAATGCCTTCGGGAC
*
85077632 TTAGCCCGGAATTAGCCACTAGCACAAATG-CTCTCGGGAC
1 TTAGCCCGGAA-TAGCAACTAGCACAAATGCCT-TCGGGAC
85077672 TTAGCCCGG
1 TTAGCCCGG
85077681 TTATCATCCG
Statistics
Matches: 142, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
38 5 0.04
39 100 0.70
40 37 0.26
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (39 bp):
TTAGCCCGGAATAGCAACTAGCACAAATGCCTTCGGGAC
Found at i:85085015 original size:41 final size:40
Alignment explanation
Indices: 85084970--85085047 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
85084960 AGTGCCTTAC
*
85084970 ATAGCCAAAACTA-TCTCAATCTCACACACTAAGTGCCACAT
1 ATAGCCAAAACTATTC-CAA-ATCACACACTAAGTGCCACAT
* * *
85085011 ATAGCCGAAGCTATTCCAAATCGCACACTAAGTGCCA
1 ATAGCCAAAACTATTCCAAATCACACACTAAGTGCCA
85085048 TACATAGCTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 16 0.50
41 14 0.44
42 2 0.06
ACGTcount: A:0.37, C:0.31, G:0.12, T:0.21
Consensus pattern (40 bp):
ATAGCCAAAACTATTCCAAATCACACACTAAGTGCCACAT
Found at i:85088680 original size:40 final size:40
Alignment explanation
Indices: 85088599--85088854 Score: 337
Period size: 40 Copynumber: 6.4 Consensus size: 40
85088589 AAACCAAGTA
* * *
85088599 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAATATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAA-ATG
**
85088639 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
85088679 CCTTCGGG-CTTAG-CCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
85088717 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
85088757 CCTTCGGGACTTAGCCCGGAAATATAGTAACTCGCCACAAATG
1 CCTTCGGGACTTAGCCCGG--ATATAGTAACTCG-CACAAATG
* *
85088800 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAAT-
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
85088839 CCTTC-GGACTTAGCCC
1 CCTTCGGGACTTAGCCC
85088855 CGTTATCATC
Statistics
Matches: 197, Mismatches: 11, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
38 42 0.21
39 15 0.08
40 75 0.38
41 26 0.13
42 12 0.06
43 27 0.14
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:85088816 original size:83 final size:80
Alignment explanation
Indices: 85088599--85088854 Score: 344
Period size: 78 Copynumber: 3.2 Consensus size: 80
85088589 AAACCAAGTA
* * * *
85088599 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAATATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAA-ATGCCTTCGGGACTTAGCCCGGAAAT
**
85088662 AGTAGTTCGCACAAATG
64 AGTAACTCGCACAAATG
85088679 CCTTCGGG-CTTAG-CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAG
85088742 TAACTCGCACAAATG
66 TAACTCGCACAAATG
*
85088757 CCTTCGGGACTTAGCCCGGAAATATAGTAACTCGCCACAAATGCCTTCGGGACTTAGCCCGGAAT
1 CCTTCGGGACTTAGCCCGG--ATATAGTAACTCG-CACAAATGCCTTCGGGACTTAGCCCGGAAA
* *
85088822 TAGTCACTAGCACAAAT-
63 TAGTAACTCGCACAAATG
85088839 CCTTC-GGACTTAGCCC
1 CCTTCGGGACTTAGCCC
85088855 CGTTATCATC
Statistics
Matches: 161, Mismatches: 8, Indels: 13
0.88 0.04 0.07
Matches are distributed among these distances:
78 49 0.30
79 27 0.17
80 12 0.07
81 11 0.07
82 18 0.11
83 44 0.27
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAG
TAACTCGCACAAATG
Found at i:85095786 original size:41 final size:40
Alignment explanation
Indices: 85095713--85095847 Score: 119
Period size: 41 Copynumber: 3.3 Consensus size: 40
85095703 CTAAGTGCTA
* * ** *
85095713 ATACATAGCTGAAGCCATTTTAAACTCACACACAATGTGCC
1 ATACATAGCCGAAGCTATTCCAAA-TCGCACACAATGTGCC
* * **
85095754 TTACATAGCCGAAGCTATCTCGATCTCGCACACTAA-GTGCC
1 ATACATAGCCGAAGCTAT-TCCAAATCGCACAC-AATGTGCC
* * *
85095795 ATATATAGCCGAAGCTATTCCAAATTGCACACTATGTGCC
1 ATACATAGCCGAAGCTATTCCAAATCGCACACAATGTGCC
*
85095835 ATACATAGTCGAA
1 ATACATAGCCGAA
85095848 TTTTTGTCAA
Statistics
Matches: 74, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
39 1 0.01
40 26 0.35
41 43 0.58
42 4 0.05
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (40 bp):
ATACATAGCCGAAGCTATTCCAAATCGCACACAATGTGCC
Done.