Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, whole genome shotgun sequence
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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 50 of 74
Found at i:10182477 original size:15 final size:12
Alignment explanation
Indices: 10182466--10182528 Score: 74
Period size: 12 Copynumber: 5.2 Consensus size: 12
10182456 TCAATAAATA
10182466 AATAGACAATAAT
1 AATA-ACAATAAT
*
10182479 AATAATAATAAT
1 AATAACAATAAT
*
10182491 AATAATAATAAT
1 AATAACAATAAT
10182503 AATAACAATAA-
1 AATAACAATAAT
*
10182514 ATATAATAATAAT
1 A-ATAACAATAAT
10182527 AA
1 AA
10182529 ATATATAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
11 1 0.02
12 39 0.87
13 5 0.11
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.29
Consensus pattern (12 bp):
AATAACAATAAT
Found at i:10182481 original size:3 final size:3
Alignment explanation
Indices: 10182473--10182528 Score: 87
Period size: 3 Copynumber: 18.7 Consensus size: 3
10182463 ATAAATAGAC
*
10182473 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AA- ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
10182518 AAT AAT AAT AA
1 AAT AAT AAT AA
10182529 ATATATAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 1 0.02
3 47 0.96
4 1 0.02
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:10182539 original size:12 final size:11
Alignment explanation
Indices: 10182462--10182541 Score: 52
Period size: 9 Copynumber: 7.9 Consensus size: 11
10182452 TTAATCAATA
* *
10182462 AATAAATAGAC
1 AATAAATAAAT
10182473 AAT-AAT-AAT
1 AATAAATAAAT
10182482 AAT-AAT-AAT
1 AATAAATAAAT
10182491 AAT-AAT-AAT
1 AATAAATAAAT
*
10182500 AAT-AAT-AAC
1 AATAAATAAAT
10182509 AATAAATATAAT
1 AATAAATA-AAT
10182521 AAT-AATAAAT
1 AATAAATAAAT
10182531 ATATAAATAAA
1 A-ATAAATAAA
10182542 ATGAAAAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
9 30 0.50
10 10 0.17
11 9 0.15
12 11 0.18
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.29
Consensus pattern (11 bp):
AATAAATAAAT
Found at i:10182677 original size:23 final size:23
Alignment explanation
Indices: 10182651--10182695 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
10182641 TGGGAAGCGG
*
10182651 GTTGAAACACGGGTCAGTGCTCA
1 GTTGAAACACGGGTCAGCGCTCA
*
10182674 GTTGAAACGCGGGTCAGCGCTC
1 GTTGAAACACGGGTCAGCGCTC
10182696 GGGTCGAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.24, G:0.33, T:0.20
Consensus pattern (23 bp):
GTTGAAACACGGGTCAGCGCTCA
Found at i:10183413 original size:15 final size:16
Alignment explanation
Indices: 10183395--10183447 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 16
10183385 ACTTGAAGAT
*
10183395 AAATCAAAT-AAATAA
1 AAATAAAATAAAATAA
10183410 AAATAAAATAAAATAA
1 AAATAAAATAAAATAA
10183426 AAGATAAACAATCAAAATAA
1 AA-AT-AA-AAT-AAAATAA
10183446 AA
1 AA
10183448 TAATTAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
15 8 0.25
16 8 0.25
17 2 0.06
18 2 0.06
19 3 0.09
20 9 0.28
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.17
Consensus pattern (16 bp):
AAATAAAATAAAATAA
Found at i:10183458 original size:25 final size:22
Alignment explanation
Indices: 10183404--10183450 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 22
10183394 TAAATCAAAT
10183404 AAATAAAAATAAAATAAAATAA
1 AAATAAAAATAAAATAAAATAA
10183426 AAGATAAACAATCAAAATAAAATAA
1 AA-ATAAA-AAT-AAAATAAAATAA
10183451 TTAATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 2 0.09
23 5 0.23
24 3 0.14
25 12 0.55
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (22 bp):
AAATAAAAATAAAATAAAATAA
Found at i:10183818 original size:43 final size:43
Alignment explanation
Indices: 10183766--10183895 Score: 118
Period size: 45 Copynumber: 3.0 Consensus size: 43
10183756 TAAAGCTCTC
10183766 CTAAACAGAGGCTCACAACTTTGAGAAAATAAATACGGCTCCT
1 CTAAACAGAGGCTCACAACTTTGAGAAAATAAATACGGCTCCT
* * * ** * **
10183809 CTAAGCAGAGGTTCAACGACTTTTTGAAAAGTGAATTA-AACTCCT
1 CTAAACAGAGGCTC-ACAACTTTGAGAAAA-T-AAATACGGCTCCT
* * *
10183854 CTAAACAGAGGCACCATAACTTTGACAAAATAAATACGGCTC
1 CTAAACAGAGGC-TCACAACTTTGAGAAAATAAATACGGCTC
10183896 TTCCAAGCAG
Statistics
Matches: 63, Mismatches: 19, Indels: 9
0.69 0.21 0.10
Matches are distributed among these distances:
43 16 0.25
44 16 0.25
45 26 0.41
46 5 0.08
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (43 bp):
CTAAACAGAGGCTCACAACTTTGAGAAAATAAATACGGCTCCT
Found at i:10183876 original size:45 final size:45
Alignment explanation
Indices: 10183827--10183965 Score: 113
Period size: 45 Copynumber: 3.1 Consensus size: 45
10183817 AGGTTCAACG
*
10183827 ACTTTTTGAAAAGTGAATTAAACTCCTCTAAACAGAGGCACCATA
1 ACTTTTTGAAAAGTGAATTAAGCTCCTCTAAACAGAGGCACCATA
* * * * * * * * * *
10183872 AC--TTTGACAAAAT-AAATACGGCTCTTCCAAGCAGACGCTCAATG
1 ACTTTTTGA-AAAGTGAATTA-AGCTCCTCTAAACAGAGGCACCATA
* * *
10183916 ATTTTTTGAAAAGTGAATTAAGCTCCTCTAAACAGAGCCACCACA
1 ACTTTTTGAAAAGTGAATTAAGCTCCTCTAAACAGAGGCACCATA
10183961 ACTTT
1 ACTTT
10183966 AAAAAATAAA
Statistics
Matches: 64, Mismatches: 25, Indels: 10
0.65 0.25 0.10
Matches are distributed among these distances:
43 9 0.14
44 21 0.33
45 25 0.39
46 9 0.14
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (45 bp):
ACTTTTTGAAAAGTGAATTAAGCTCCTCTAAACAGAGGCACCATA
Found at i:10183904 original size:89 final size:89
Alignment explanation
Indices: 10183766--10183975 Score: 298
Period size: 89 Copynumber: 2.4 Consensus size: 89
10183756 TAAAGCTCTC
* * * * *
10183766 CTAAACAGAGGC-TCACAACTTTGAGAAAATAAATACGGCTCCTCTAAGCAGAGGTTCAACGACT
1 CTAAACAGAGGCACCACAACTTTGAAAAAATAAATACGGCTCCTCCAAGCAGACGCTCAACGACT
10183830 TTTTGAAAAGTGAATTAAACTCCT
66 TTTTGAAAAGTGAATTAAACTCCT
* * * * *
10183854 CTAAACAGAGGCACCATAACTTTGACAAAATAAATACGGCTCTTCCAAGCAGACGCTCAATGATT
1 CTAAACAGAGGCACCACAACTTTGAAAAAATAAATACGGCTCCTCCAAGCAGACGCTCAACGACT
*
10183919 TTTTGAAAAGTGAATTAAGCTCCT
66 TTTTGAAAAGTGAATTAAACTCCT
*
10183943 CTAAACAGAGCCACCACAACTTT-AAAAAATAAA
1 CTAAACAGAGGCACCACAACTTTGAAAAAATAAA
10183976 ATGCTCTTTG
Statistics
Matches: 108, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
88 21 0.19
89 87 0.81
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (89 bp):
CTAAACAGAGGCACCACAACTTTGAAAAAATAAATACGGCTCCTCCAAGCAGACGCTCAACGACT
TTTTGAAAAGTGAATTAAACTCCT
Found at i:10184247 original size:22 final size:20
Alignment explanation
Indices: 10184219--10184259 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
10184209 ATTTTGGAGA
10184219 TTCTCATCCAAAAGTTCAAAGC
1 TTCTCATCC--AAGTTCAAAGC
*
10184241 TTCTCATTCAAGTTCAAAG
1 TTCTCATCCAAGTTCAAAG
10184260 GTTCACATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.32
Consensus pattern (20 bp):
TTCTCATCCAAGTTCAAAGC
Found at i:10184268 original size:20 final size:20
Alignment explanation
Indices: 10184230--10184268 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10184220 TCTCATCCAA
*
10184230 AAGTTCAAAGCTTCTCATTC
1 AAGTTCAAAGCTTCACATTC
*
10184250 AAGTTCAAAGGTTCACATT
1 AAGTTCAAAGCTTCACATT
10184269 TGGGATTCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (20 bp):
AAGTTCAAAGCTTCACATTC
Found at i:10184299 original size:29 final size:30
Alignment explanation
Indices: 10184272--10184328 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
10184262 TCACATTTGG
10184272 GATTCACATCTAAAAAGTTT-AAACTTTGAA
1 GATTCACATC-AAAAAGTTTAAAACTTTGAA
* *
10184302 TATTCACATCCAAAAGTTTAAAACTTT
1 GATTCACATCAAAAAGTTTAAAACTTT
10184329 TCATTCTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (30 bp):
GATTCACATCAAAAAGTTTAAAACTTTGAA
Found at i:10184484 original size:79 final size:80
Alignment explanation
Indices: 10184336--10184498 Score: 220
Period size: 79 Copynumber: 2.0 Consensus size: 80
10184326 TTTTCATTCT
** * *
10184336 AGTTTGAAGATTCACATCCGACGAACATTAGGGTTTCACACCTCAAAAATCCTTATTTGAAACTT
1 AGTTTGAAGATTCACATCCGAAAAACATTAGGGTTTCACACCTCAAAAATCCTCATTTGAAACTC
* *
10184401 AAAGATTCTCATTTG
66 AAAGATTCACATTTA
* ** * *
10184416 AGTTTGAAGATTCACATTCGAAAAATTTTA-GGTTTCACACCTCAAAGATTCTCATTTGAAACTC
1 AGTTTGAAGATTCACATCCGAAAAACATTAGGGTTTCACACCTCAAAAATCCTCATTTGAAACTC
10184480 AAAGATTCACATTTA
66 AAAGATTCACATTTA
10184495 AGTT
1 AGTT
10184499 CAAAAATCCT
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
79 47 0.65
80 25 0.35
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (80 bp):
AGTTTGAAGATTCACATCCGAAAAACATTAGGGTTTCACACCTCAAAAATCCTCATTTGAAACTC
AAAGATTCACATTTA
Found at i:10185688 original size:17 final size:16
Alignment explanation
Indices: 10185658--10185737 Score: 85
Period size: 17 Copynumber: 5.0 Consensus size: 16
10185648 TTGAGTCTTC
10185658 ATTTTTTCTCTTTTTT
1 ATTTTTTCTCTTTTTT
10185674 ATTTTTTCTCATTTTTT
1 ATTTTTTCTC-TTTTTT
*
10185691 ATTTTTTTTC-TTTTT
1 ATTTTTTCTCTTTTTT
* *
10185706 CTTTTCTCT-TTTTCATT
1 ATTTTTTCTCTTTT--TT
10185723 ATTTTTT-TCTTTTTT
1 ATTTTTTCTCTTTTTT
10185738 TCTCTTTCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
15 16 0.30
16 11 0.21
17 26 0.49
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (16 bp):
ATTTTTTCTCTTTTTT
Found at i:10185704 original size:6 final size:6
Alignment explanation
Indices: 10185695--10185736 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
10185685 TTTTTTATTT
*
10185695 TTTTTC TTTTTC TTTTCTC TTTTTC ATTATT- TTTTTC TTTTT
1 TTTTTC TTTTTC TTTT-TC TTTTTC -TTTTTC TTTTTC TTTTT
10185737 TTCTCTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
5 4 0.13
6 17 0.55
7 10 0.32
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:10185705 original size:32 final size:30
Alignment explanation
Indices: 10185655--10185744 Score: 87
Period size: 29 Copynumber: 3.0 Consensus size: 30
10185645 AATTTGAGTC
* *
10185655 TTCATTTTTTCTCTTTTTTATTTTTTCTCATTT
1 TTCATTTTTTTTC-TTTTT-TCTTTTCTC-TTT
*
10185688 TTTATTTTTTTTC-TTTTTCTTTTCTCTTT
1 TTCATTTTTTTTCTTTTTTCTTTTCTCTTT
* *
10185717 TTCATTATTTTT-TTCTTT-TTTTCTCTTT
1 TTCATTTTTTTTCTTTTTTCTTTTCTCTTT
10185745 CACCCATCTT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
28 10 0.20
29 17 0.34
30 8 0.16
31 4 0.08
33 11 0.22
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (30 bp):
TTCATTTTTTTTCTTTTTTCTTTTCTCTTT
Found at i:10185713 original size:30 final size:31
Alignment explanation
Indices: 10185677--10185736 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
10185667 CTTTTTTATT
*
10185677 TTTTCTCATTTT--TTATTTTTTTTCTTTTTC
1 TTTTCTCTTTTTCATTA-TTTTTTTCTTTTTC
10185707 TTTTCTCTTTTTCATTATTTTTTTCTTTTT
1 TTTTCTCTTTTTCATTATTTTTTTCTTTTT
10185737 TTCTCTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 11 0.41
31 13 0.48
32 3 0.11
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (31 bp):
TTTTCTCTTTTTCATTATTTTTTTCTTTTTC
Found at i:10185718 original size:39 final size:39
Alignment explanation
Indices: 10185659--10185744 Score: 83
Period size: 36 Copynumber: 2.3 Consensus size: 39
10185649 TGAGTCTTCA
* *
10185659 TTTTTTCTCTTTTTTATTTTTTCTCATT-TTTTATTTTT
1 TTTTTTCTCTTTTTTATTTTTTCCCATTATTTTATTTCT
* * *
10185697 TTTCTTTTTCTTTTCT-CTTTTT--CATTATTTT-TTTCT
1 TTT-TTTCTCTTTTTTATTTTTTCCCATTATTTTATTTCT
10185733 TTTTTTCTCTTT
1 TTTTTTCTCTTT
10185745 CACCCATCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
35 8 0.20
36 11 0.27
37 4 0.10
38 8 0.20
39 10 0.24
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (39 bp):
TTTTTTCTCTTTTTTATTTTTTCCCATTATTTTATTTCT
Found at i:10185742 original size:28 final size:28
Alignment explanation
Indices: 10185675--10185744 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 28
10185665 CTCTTTTTTA
* *
10185675 TTTTTTCTCATTTTTTATTTTTTTTCTTT
1 TTTTTTCTC-TTTTTCATTTTTTTTCTCT
10185704 TTCTTTTCTCTTTTTCATTATTTTTT-TCT
1 TT-TTTTCTCTTTTTCATT-TTTTTTCTCT
10185733 TTTTTTCTCTTT
1 TTTTTTCTCTTT
10185745 CACCCATCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
28 10 0.27
29 14 0.38
30 13 0.35
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (28 bp):
TTTTTTCTCTTTTTCATTTTTTTTCTCT
Found at i:10188496 original size:24 final size:24
Alignment explanation
Indices: 10188468--10188515 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10188458 GCAAGTGCAA
10188468 AATGTTACATATGACAATGAAAAT
1 AATGTTACATATGACAATGAAAAT
** * *
10188492 AATGTTTGATATGATAATGCAAAT
1 AATGTTACATATGACAATGAAAAT
10188516 GCATAAAGTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.33
Consensus pattern (24 bp):
AATGTTACATATGACAATGAAAAT
Found at i:10189643 original size:19 final size:20
Alignment explanation
Indices: 10189609--10189655 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
10189599 TGAAAATTTT
10189609 ATTTTCAAGAAAAATTGATA
1 ATTTTCAAGAAAAATTGATA
*
10189629 ATTTT-AAGGAAAATTGATA
1 ATTTTCAAGAAAAATTGATA
*
10189648 CTTTTCAA
1 ATTTTCAA
10189656 CTTTTCTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (20 bp):
ATTTTCAAGAAAAATTGATA
Found at i:10189831 original size:62 final size:60
Alignment explanation
Indices: 10189630--10189824 Score: 219
Period size: 62 Copynumber: 3.2 Consensus size: 60
10189620 AAATTGATAA
* * * * *
10189630 TTTTAAGGAAAATTGATACTTTTCAACTTTTCTTTAACAATGTTTTTTCCTTAAAATTTTAT
1 TTTTAAGAAAAATTGATAC-TTTCAACTTTTCTTTAAAAATATTTTTT-TTTGAAATTTTAT
* * * * **
10189692 TTTTAAGAAAAATTAATATTTTCCACTTTTCTTTAAAAAAACACTTTTTTTGAAAATTTTAT
1 TTTTAAGAAAAATTGATACTTTCAACTTTTCTTTAAAAATA-TTTTTTTTTG-AAATTTTAT
* * * *
10189754 TTTCAAAAAAAATTGATACTTTCAATTTTTCCTTAAAAATATTTTTTTTTGAAATTTTAT
1 TTTTAAGAAAAATTGATACTTTCAACTTTTCTTTAAAAATATTTTTTTTTGAAATTTTAT
10189814 TTTTAAGAAAA
1 TTTTAAGAAAA
10189825 TTATTGAAAA
Statistics
Matches: 108, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
60 18 0.17
61 28 0.26
62 62 0.57
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (60 bp):
TTTTAAGAAAAATTGATACTTTCAACTTTTCTTTAAAAATATTTTTTTTTGAAATTTTAT
Found at i:10189885 original size:3 final size:3
Alignment explanation
Indices: 10189877--10189902 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10189867 ATACATAGAC
10189877 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
10189903 CAACAACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10190817 original size:25 final size:24
Alignment explanation
Indices: 10190776--10190864 Score: 94
Period size: 25 Copynumber: 3.6 Consensus size: 24
10190766 AGGATAAATC
*
10190776 AAATAAAAAATAAAATAAAATAA-
1 AAATAAATAATAAAATAAAATAAT
10190799 AAGATAAATAATCAAAATAAAATAAT
1 AA-ATAAATAAT-AAAATAAAATAAT
10190825 AAATAAATAA-ATAAAT-AAATAAGT
1 AAATAAATAATA-AAATAAAATAA-T
*
10190849 AAATAAAAAATGAAAA
1 AAATAAATAAT-AAAA
10190865 ACATAAAATA
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
23 9 0.16
24 22 0.39
25 23 0.40
26 3 0.05
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.20
Consensus pattern (24 bp):
AAATAAATAATAAAATAAAATAAT
Found at i:10190829 original size:37 final size:36
Alignment explanation
Indices: 10190772--10190864 Score: 111
Period size: 37 Copynumber: 2.5 Consensus size: 36
10190762 CTTGAGGATA
*
10190772 AATCAAATAAAAAATAAAATAAAATAAA-AGATAAAT
1 AATCAAATAAAAAATAAAAT-AAATAAATAAATAAAT
10190808 AATCAAAATAAAATAAT-AAATAAATAAATAAATAAAT
1 AATC-AAATAAAA-AATAAAATAAATAAATAAATAAAT
10190845 AAGT-AAATAAAAAATGAAAA
1 AA-TCAAATAAAAAAT-AAAA
10190865 ACATAAAATA
Statistics
Matches: 50, Mismatches: 1, Indels: 11
0.81 0.02 0.18
Matches are distributed among these distances:
35 3 0.06
36 19 0.38
37 24 0.48
38 4 0.08
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.20
Consensus pattern (36 bp):
AATCAAATAAAAAATAAAATAAATAAATAAATAAAT
Found at i:10190831 original size:4 final size:4
Alignment explanation
Indices: 10190769--10190859 Score: 75
Period size: 4 Copynumber: 22.5 Consensus size: 4
10190759 ATACTTGAGG
*
10190769 ATAA ATCAA ATAA A-AA ATAAA ATAAA ATAA A-AG ATAA AT-A ATCAAA
1 ATAA AT-AA ATAA ATAA AT-AA AT-AA ATAA ATAA ATAA ATAA AT--AA
*
10190815 ATAA A-ATA ATAA ATAA ATAA ATAA ATAA ATAA GTAA ATAA A-AA AT
1 ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
10190860 GAAAAACATA
Statistics
Matches: 73, Mismatches: 4, Indels: 20
0.75 0.04 0.21
Matches are distributed among these distances:
3 12 0.16
4 44 0.60
5 14 0.19
6 3 0.04
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:10190864 original size:8 final size:7
Alignment explanation
Indices: 10190776--10190872 Score: 56
Period size: 8 Copynumber: 13.1 Consensus size: 7
10190766 AGGATAAATC
10190776 AAATAAA
1 AAATAAA
10190783 AAATAAAATA
1 AAAT--AA-A
10190793 AAATAAA
1 AAATAAA
*
10190800 AGATAAA
1 AAATAAA
* *
10190807 TAAT-CA
1 AAATAAA
10190813 AAAT--A
1 AAATAAA
*
10190818 AAATAAT
1 AAATAAA
10190825 AAATAAA
1 AAATAAA
10190832 TAAATAAA
1 -AAATAAA
*
10190840 TAAATAAGT
1 -AAATAA-A
10190849 AAATAAA
1 AAATAAA
10190856 AAATGAAA
1 AAAT-AAA
10190864 AACATAAA
1 AA-ATAAA
10190872 A
1 A
10190873 TATACCTGAA
Statistics
Matches: 72, Mismatches: 9, Indels: 17
0.73 0.09 0.17
Matches are distributed among these distances:
5 5 0.07
6 4 0.06
7 23 0.32
8 31 0.43
9 4 0.06
10 5 0.07
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (7 bp):
AAATAAA
Found at i:10192873 original size:19 final size:19
Alignment explanation
Indices: 10192851--10192911 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
10192841 GATTGGATAG
10192851 GGTGGGGAGGATTGGGTGT
1 GGTGGGGAGGATTGGGTGT
* * *
10192870 GGTGGGG-TG-TTGGGGGGAA
1 GGTGGGGAGGATT-GGGTG-T
10192889 GGTGGGGAGGGATTGGGTGT
1 GGTGGGGA-GGATTGGGTGT
10192909 GGT
1 GGT
10192912 AGGGTGTATG
Statistics
Matches: 31, Mismatches: 6, Indels: 9
0.67 0.13 0.20
Matches are distributed among these distances:
17 2 0.06
18 5 0.16
19 14 0.45
20 3 0.10
21 5 0.16
22 2 0.06
ACGTcount: A:0.10, C:0.00, G:0.66, T:0.25
Consensus pattern (19 bp):
GGTGGGGAGGATTGGGTGT
Found at i:10193155 original size:20 final size:20
Alignment explanation
Indices: 10193117--10193154 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10193107 GATTGTGTTA
*
10193117 TATATTAATTTATAATTTTG
1 TATATGAATTTATAATTTTG
10193137 TATATGAATTT-TAATTTT
1 TATATGAATTTATAATTTT
10193155 TTTGTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TATATGAATTTATAATTTTG
Found at i:10193408 original size:25 final size:26
Alignment explanation
Indices: 10193379--10193427 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
10193369 TAAAAAATAA
*
10193379 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
10193404 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
10193428 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:10196818 original size:6 final size:6
Alignment explanation
Indices: 10196809--10196847 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
10196799 TTTAAGTCTA
* *
10196809 GATGAT GATGGT GATGGA GATGGT GATGGT GATGGT GAT
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GAT
10196848 AGTGCGAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.23, C:0.00, G:0.46, T:0.31
Consensus pattern (6 bp):
GATGGT
Found at i:10197218 original size:18 final size:18
Alignment explanation
Indices: 10197195--10197250 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 18
10197185 ATGGTTATTA
10197195 TCCACCTCAAATGTATCC
1 TCCACCTCAAATGTATCC
*
10197213 TCCACCTCCTCAAATATATCC
1 TCCA---CCTCAAATGTATCC
10197234 TCCACCTCAAATGTATC
1 TCCACCTCAAATGTATC
10197251 AAGAACAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 16 0.48
21 17 0.52
ACGTcount: A:0.29, C:0.39, G:0.04, T:0.29
Consensus pattern (18 bp):
TCCACCTCAAATGTATCC
Found at i:10197225 original size:21 final size:21
Alignment explanation
Indices: 10197199--10197241 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
10197189 TTATTATCCA
*
10197199 CCTCAAATGTATCCTCCACCT
1 CCTCAAATATATCCTCCACCT
10197220 CCTCAAATATATCCTCCACCT
1 CCTCAAATATATCCTCCACCT
10197241 C
1 C
10197242 AAATGTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.44, G:0.02, T:0.28
Consensus pattern (21 bp):
CCTCAAATATATCCTCCACCT
Found at i:10209922 original size:7 final size:7
Alignment explanation
Indices: 10209910--10210038 Score: 53
Period size: 7 Copynumber: 19.7 Consensus size: 7
10209900 ACTTAATGTT
10209910 GGTTTAG
1 GGTTTAG
10209917 GGTTTAG
1 GGTTTAG
*
10209924 TGGTTTAA
1 -GGTTTAG
10209932 GG-TTA-
1 GGTTTAG
* *
10209937 GGCTTGG
1 GGTTTAG
10209944 GGTTTAG
1 GGTTTAG
*
10209951 AGTTT--
1 GGTTTAG
*
10209956 GGCTTAG
1 GGTTTAG
* * *
10209963 GATTGAA
1 GGTTTAG
10209970 GGTTT--
1 GGTTTAG
10209975 GGTTTAG
1 GGTTTAG
* *
10209982 AG-TTAA
1 GGTTTAG
10209988 GGTTTA-
1 GGTTTAG
*
10209994 AGTTTA-
1 GGTTTAG
*
10210000 GGATTAG
1 GGTTTAG
10210007 GGTTTAG
1 GGTTTAG
*
10210014 GGGTTA-
1 GGTTTAG
*
10210020 GGTTTAA
1 GGTTTAG
10210027 GGTTTAG
1 GGTTTAG
10210034 GGTTT
1 GGTTT
10210039 GCATGATGGT
Statistics
Matches: 89, Mismatches: 23, Indels: 20
0.67 0.17 0.15
Matches are distributed among these distances:
5 10 0.11
6 23 0.26
7 50 0.56
8 6 0.07
ACGTcount: A:0.19, C:0.02, G:0.37, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:10209993 original size:13 final size:14
Alignment explanation
Indices: 10209975--10210038 Score: 55
Period size: 13 Copynumber: 4.9 Consensus size: 14
10209965 TTGAAGGTTT
10209975 GGTTTAGAG-TTAA
1 GGTTTAGAGTTTAA
10209988 GGTTTA-AGTTT-A
1 GGTTTAGAGTTTAA
* * *
10210000 GGATTAGGGTTTAG
1 GGTTTAGAGTTTAA
*
10210014 GGGTTAG-GTTTAA
1 GGTTTAGAGTTTAA
*
10210027 GGTTTAGGGTTT
1 GGTTTAGAGTTT
10210039 GCATGATGGT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
12 8 0.20
13 23 0.56
14 10 0.24
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (14 bp):
GGTTTAGAGTTTAA
Found at i:10210049 original size:19 final size:19
Alignment explanation
Indices: 10210027--10210077 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
10210017 TTAGGTTTAA
*
10210027 GGTTTAGGGTTTGCATGAT
1 GGTTTGGGGTTTGCATGAT
*
10210046 GGTTTGGGGGTTTGCATGGT
1 GGTTT-GGGGTTTGCATGAT
*
10210066 GATTTGGGGTTT
1 GGTTTGGGGTTT
10210078 AGGGTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.10, C:0.04, G:0.43, T:0.43
Consensus pattern (19 bp):
GGTTTGGGGTTTGCATGAT
Found at i:10211890 original size:190 final size:191
Alignment explanation
Indices: 10211561--10211933 Score: 559
Period size: 190 Copynumber: 2.0 Consensus size: 191
10211551 TAATTTAAGC
*
10211561 AATTTTTAGGTTGAATCTTGTAGAATACTTGTTGATAAATATGTTTTTAGCTCAACTAAAGTTCA
1 AATTTTTAGGTTGAATCTTGTAGAATACTTGTTGATAAATATGTTCTTAGCTCAACTAAAGTTCA
* * * * *
10211626 TTTTTAGTATGCCGTAGTAGATTGAATTTTTTTTTGTCATAATTTTATGTGTTTGCAGTGCATTA
66 TTTTCAATATGCCATAGTAGATTGAATTCTTTTTTGTCACAATTTTATGTGTTTGCAGTGCATTA
*** * *
10211691 TTGGATTCAGTTTTAGTGTTTTCTCACTATTTGC-CATTTTTCTTTCAATTTTTCTGCTGT
131 CCAGATTCAGTTTTAGTGTCTTCTCACTATTTGCTCATTTTTCCTTCAATTTTTCTGCTGT
* * *
10211751 AATTTTTAGGTTGAATCTTGTGGAATGCTTGTTGATAAATATGTTCTTAGCTTAACTAAAGTTCA
1 AATTTTTAGGTTGAATCTTGTAGAATACTTGTTGATAAATATGTTCTTAGCTCAACTAAAGTTCA
** *
10211816 TTTTCAATATGCCATAGTAGATTGAATTCTTTTTTGTTGCAATTTTATGTGTTTGTAGTGCATTA
66 TTTTCAATATGCCATAGTAGATTGAATTCTTTTTTGTCACAATTTTATGTGTTTGCAGTGCATTA
* **
10211881 CCAGATTCAGTTTTAGTGTCTTCTCACTGTTTGCTTTTTTTTCCTTCAATTTT
131 CCAGATTCAGTTTTAGTGTCTTCTCACTATTTGCTCATTTTTCCTTCAATTTT
10211934 CCTACTACAA
Statistics
Matches: 162, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
190 147 0.91
191 15 0.09
ACGTcount: A:0.23, C:0.12, G:0.16, T:0.50
Consensus pattern (191 bp):
AATTTTTAGGTTGAATCTTGTAGAATACTTGTTGATAAATATGTTCTTAGCTCAACTAAAGTTCA
TTTTCAATATGCCATAGTAGATTGAATTCTTTTTTGTCACAATTTTATGTGTTTGCAGTGCATTA
CCAGATTCAGTTTTAGTGTCTTCTCACTATTTGCTCATTTTTCCTTCAATTTTTCTGCTGT
Found at i:10215513 original size:42 final size:41
Alignment explanation
Indices: 10215448--10215540 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 41
10215438 AATTATCAAC
* *
10215448 ACATGAACACGATACAATTATAAAATGTATTTAAATCCTAA
1 ACATGAACACGACACAATTATAAAACGTATTTAAATCCTAA
* *
10215489 ACATGAACATGACACAAATTATAAAACGTGTTTAAATCCTAA
1 ACATGAACACGACAC-AATTATAAAACGTATTTAAATCCTAA
*
10215531 ACACGAACAC
1 ACATGAACAC
10215541 AATATGTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
41 13 0.29
42 32 0.71
ACGTcount: A:0.48, C:0.18, G:0.09, T:0.25
Consensus pattern (41 bp):
ACATGAACACGACACAATTATAAAACGTATTTAAATCCTAA
Found at i:10215644 original size:19 final size:19
Alignment explanation
Indices: 10215599--10215647 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
10215589 TGCTAATAAT
*
10215599 ATTGATATACACAAATAAC
1 ATTGATATACACAAAAAAC
*
10215618 A-CGTATATACACAAAAAAC
1 ATTG-ATATACACAAAAAAC
10215637 ATTGATATACA
1 ATTGATATACA
10215648 TGAATAGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 23 0.92
20 1 0.04
ACGTcount: A:0.53, C:0.16, G:0.06, T:0.24
Consensus pattern (19 bp):
ATTGATATACACAAAAAAC
Found at i:10215974 original size:21 final size:22
Alignment explanation
Indices: 10215929--10215974 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
10215919 TATAATTTCT
*
10215929 TATCATTATAAATGCTATTTTG
1 TATCATTATAAATGATATTTTG
10215951 TATCATTAT-AAT-ATATTGTTG
1 TATCATTATAAATGATATT-TTG
10215972 TAT
1 TAT
10215975 ATTTATATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 9 0.41
22 9 0.41
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.52
Consensus pattern (22 bp):
TATCATTATAAATGATATTTTG
Found at i:10217015 original size:22 final size:20
Alignment explanation
Indices: 10216990--10217029 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10216980 ATGGAAGTTA
10216990 TTTTAATAAAATAAAAATTATT
1 TTTTAA-AAAA-AAAAATTATT
*
10217012 TTTTAAACAAAAAAATTA
1 TTTTAAAAAAAAAAATTA
10217030 AAATAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (20 bp):
TTTTAAAAAAAAAAATTATT
Found at i:10218789 original size:25 final size:25
Alignment explanation
Indices: 10218755--10218805 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
10218745 AACAACTTGG
*
10218755 CTCAAATGCAAAGATTGGAAAAAGT
1 CTCAAATGCAAAGATTAGAAAAAGT
10218780 CTCAAATGCAAAGATTAGAAAAAGT
1 CTCAAATGCAAAGATTAGAAAAAGT
10218805 C
1 C
10218806 ATTAAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (25 bp):
CTCAAATGCAAAGATTAGAAAAAGT
Found at i:10219484 original size:41 final size:41
Alignment explanation
Indices: 10219345--10219741 Score: 383
Period size: 41 Copynumber: 9.6 Consensus size: 41
10219335 AGACTCCATA
* * *
10219345 ACTTTGAAAAATAAAATAAGGCTCCTCTAAGCAGAGGCTCAATA
1 ACTTTGAAAAAT-AAA-AA-GCTCATCTAAACAGAGGCTCAATG
* *
10219389 ACTTTGAAAAATAAAATAAGGCTTC-TCTAAGCAGAGGCTCAACG
1 ACTTTGAAAAAT-AAA-AA-GC-TCATCTAAACAGAGGCTCAATG
* * *
10219433 ACTTTAAAAAATAAAAAGCTCATTTAAACAAAGGCTCAATG
1 ACTTTGAAAAATAAAAAGCTCATCTAAACAGAGGCTCAATG
* * * * * *
10219474 ATTTTGAAAAATAAAAGGCTCCTCTAAGCAGAGGCACAACG
1 ACTTTGAAAAATAAAAAGCTCATCTAAACAGAGGCTCAATG
* *
10219515 ACTTTGAAAAAT-AAAAGCTTC-TCTAAACAGAGGTTCAATA
1 ACTTTGAAAAATAAAAAGC-TCATCTAAACAGAGGCTCAATG
* * *
10219555 ACTTGGAAAAATAAAAAGCT-ACTCTAAACAAAGGTTCAATG
1 ACTTTGAAAAATAAAAAGCTCA-TCTAAACAGAGGCTCAATG
* * * *
10219596 ACTTTGAAAAAT-AAAAGACTCCTCTAAGCAGAGGCACAATA
1 ACTTTGAAAAATAAAAAG-CTCATCTAAACAGAGGCTCAATG
* * *
10219637 ACTTTGAAAAAATAAAAGGCTCATCTAAATAGAGGCTTAATG
1 ACTTTG-AAAAATAAAAAGCTCATCTAAACAGAGGCTCAATG
* * **
10219679 ACTTTGAAAAATAAAAAGCTCCTCTAAACAGAGGCACAACA
1 ACTTTGAAAAATAAAAAGCTCATCTAAACAGAGGCTCAATG
10219720 ACTTTGAAAAAT-AAAAGCTCAT
1 ACTTTGAAAAATAAAAAGCTCAT
10219742 TGACAATCAT
Statistics
Matches: 295, Mismatches: 48, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
40 47 0.16
41 158 0.54
42 31 0.11
43 7 0.02
44 50 0.17
45 2 0.01
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.23
Consensus pattern (41 bp):
ACTTTGAAAAATAAAAAGCTCATCTAAACAGAGGCTCAATG
Found at i:10219514 original size:82 final size:81
Alignment explanation
Indices: 10219275--10219736 Score: 451
Period size: 81 Copynumber: 5.6 Consensus size: 81
10219265 TCACACTTCT
* * * * * * * *
10219275 TAAAAACTCCTCTAAACAGAGACTCCATAACTTTTAAAAA-ATAAATGCTTCC-CTAAATAAAGA
1 TAAAAGCTCCTCTAAACAGAGGCTCAATAACTTTGAAAAATA-AAAGGC-TCCTCTAAACAGAGG
* **
10219338 CTCCATAACTTTGAAAAA
64 CTCAACGACTTTGAAAAA
* * *
10219356 TAAAATAAGGCTCCTCTAAGCAGAGGCTCAATAACTTTGAAAAATAAAATAAGGCTTCTCTAAGC
1 T--AA-AA-GCTCCTCTAAACAGAGGCTCAATAACTTTGAAAAAT--AA-AAGGCTCCTCTAAAC
*
10219421 AGAGGCTCAACGACTTTAAAAAA
59 AGAGGCTCAACGACTTTGAAAAA
* * * * * *
10219444 TAAAAAGCTCATTTAAACAAAGGCTCAATGATTTTGAAAAATAAAAGGCTCCTCTAAGCAGAGGC
1 T-AAAAGCTCCTCTAAACAGAGGCTCAATAACTTTGAAAAATAAAAGGCTCCTCTAAACAGAGGC
*
10219509 ACAACGACTTTGAAAAA
65 TCAACGACTTTGAAAAA
* * * * * * *
10219526 TAAAAGCTTCTCTAAACAGAGGTTCAATAACTTGGAAAAATAAAAAGCTACTCTAAACAAAGGTT
1 TAAAAGCTCCTCTAAACAGAGGCTCAATAACTTTGAAAAATAAAAGGCTCCTCTAAACAGAGGCT
*
10219591 CAATGACTTTGAAAAA
66 CAACGACTTTGAAAAA
* * * *
10219607 TAAAAGACTCCTCTAAGCAGAGGCACAATAACTTTGAAAAAATAAAAGGCTCATCTAAATAGAGG
1 TAAAAG-CTCCTCTAAACAGAGGCTCAATAACTTTG-AAAAATAAAAGGCTCCTCTAAACAGAGG
* *
10219672 CTTAATGACTTTGAAAAA
64 CTCAACGACTTTGAAAAA
* *
10219690 TAAAAAGCTCCTCTAAACAGAGGCACAACAACTTTGAAAAATAAAAG
1 T-AAAAGCTCCTCTAAACAGAGGCTCAATAACTTTGAAAAATAAAAG
10219737 CTCATTGACA
Statistics
Matches: 316, Mismatches: 53, Indels: 23
0.81 0.14 0.06
Matches are distributed among these distances:
81 72 0.23
82 71 0.22
83 71 0.22
84 7 0.02
85 60 0.19
86 2 0.01
87 6 0.02
88 27 0.09
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (81 bp):
TAAAAGCTCCTCTAAACAGAGGCTCAATAACTTTGAAAAATAAAAGGCTCCTCTAAACAGAGGCT
CAACGACTTTGAAAAA
Found at i:10219585 original size:122 final size:122
Alignment explanation
Indices: 10219327--10219736 Score: 493
Period size: 122 Copynumber: 3.3 Consensus size: 122
10219317 AAATGCTTCC
* * * * *
10219327 CTAAATAAAGACTCCATAACTTTGAAAAATAAAATAAGGCTCCTCTAAGCAGAGGCTCAATAACT
1 CTAAACAAAGGCTCAATGACTTTGAAAAAT--AA-AAGGCTCCTCTAAGCAGAGGCACAATAACT
* * * *
10219392 TTGAAAAATAAAATAAGGCTTCTCTAAGCAGAGGCTCAACGACTTTAAAAAATAAAAAGCTCAT
63 TTGAAAAAT--AA-AAGGCTTCTCTAAACAGAGGTTCAATGACTTTGAAAAATAAAAAGCTC-T
* * **
10219456 TTAAACAAAGGCTCAATGATTTTGAAAAATAAAAGGCTCCTCTAAGCAGAGGCACAACGACTTTG
1 CTAAACAAAGGCTCAATGACTTTGAAAAATAAAAGGCTCCTCTAAGCAGAGGCACAATAACTTTG
* *
10219521 AAAAATAAAA-GCTTCTCTAAACAGAGGTTCAATAACTTGGAAAAATAAAAAGCTACT
66 AAAAATAAAAGGCTTCTCTAAACAGAGGTTCAATGACTTTGAAAAATAAAAAGCT-CT
* *
10219578 CTAAACAAAGGTTCAATGACTTTGAAAAATAAAAGACTCCTCTAAGCAGAGGCACAATAACTTTG
1 CTAAACAAAGGCTCAATGACTTTGAAAAATAAAAGGCTCCTCTAAGCAGAGGCACAATAACTTTG
*
10219643 AAAAAATAAAAGGC-TCATCTAAATAGAGGCTT-AATGACTTTGAAAAATAAAAAGCTCCT
66 -AAAAATAAAAGGCTTC-TCTAAACAGAGG-TTCAATGACTTTGAAAAATAAAAAGCT-CT
* * **
10219702 CTAAACAGAGGCACAACAACTTTGAAAAATAAAAG
1 CTAAACAAAGGCTCAATGACTTTGAAAAATAAAAG
10219737 CTCATTGACA
Statistics
Matches: 246, Mismatches: 30, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
122 98 0.40
123 15 0.06
124 69 0.28
125 2 0.01
126 36 0.15
127 2 0.01
129 24 0.10
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.22
Consensus pattern (122 bp):
CTAAACAAAGGCTCAATGACTTTGAAAAATAAAAGGCTCCTCTAAGCAGAGGCACAATAACTTTG
AAAAATAAAAGGCTTCTCTAAACAGAGGTTCAATGACTTTGAAAAATAAAAAGCTCT
Found at i:10220007 original size:21 final size:21
Alignment explanation
Indices: 10219959--10220044 Score: 57
Period size: 21 Copynumber: 4.1 Consensus size: 21
10219949 CAAGACTCGT
* **
10219959 ATCCAACATTTAAAGATTTTC
1 ATCCAAAATTTAAAGATTCAC
* *
10219980 ATTCAAAATTTAGAGATTCAC
1 ATCCAAAATTTAAAGATTCAC
* * *
10220001 ATCCAAAAGTTCAAAGCTTCTC
1 ATCCAAAA-TTTAAAGATTCAC
* * *
10220023 ATTC-AAGTTTAAAGGTTCAC
1 ATCCAAAATTTAAAGATTCAC
10220043 AT
1 AT
10220045 TTGACAAATT
Statistics
Matches: 49, Mismatches: 15, Indels: 3
0.73 0.22 0.04
Matches are distributed among these distances:
20 12 0.24
21 25 0.51
22 12 0.24
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCCAAAATTTAAAGATTCAC
Found at i:10220045 original size:20 final size:20
Alignment explanation
Indices: 10220007--10220045 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10219997 TCACATCCAA
*
10220007 AAGTTCAAAGCTTCTCATTC
1 AAGTTCAAAGCTTCACATTC
* *
10220027 AAGTTTAAAGGTTCACATT
1 AAGTTCAAAGCTTCACATT
10220046 TGACAAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (20 bp):
AAGTTCAAAGCTTCACATTC
Found at i:10220090 original size:44 final size:43
Alignment explanation
Indices: 10220027--10220132 Score: 115
Period size: 43 Copynumber: 2.4 Consensus size: 43
10220017 CTTCTCATTC
* * *
10220027 AAGTTTAAAGGTTCACATTTGACAAATTTGG-GATTCACATCTAA
1 AAGTTTAAAGCTTCTCATTTG--AAATTTGGAGATTCACATCCAA
* * *
10220071 AAGTTTAAAGCTTTTCATTTGAATTTTGGATATTCACATCCAA
1 AAGTTTAAAGCTTCTCATTTGAAATTTGGAGATTCACATCCAA
**
10220114 AAGTTCCAAGCTTCTCATT
1 AAGTTTAAAGCTTCTCATT
10220133 CGAGTTCAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 7 0.13
43 27 0.52
44 18 0.35
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (43 bp):
AAGTTTAAAGCTTCTCATTTGAAATTTGGAGATTCACATCCAA
Found at i:10220175 original size:24 final size:24
Alignment explanation
Indices: 10220144--10220199 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
10220134 GAGTTCAAAG
10220144 GTTT-ACATTCAATAAATCTTAGA
1 GTTTCACATTCAATAAATCTTAGA
10220167 GTTTCACATTCAATAAATCTTAGA
1 GTTTCACATTCAATAAATCTTAGA
10220191 GTTTCACAT
1 GTTTCACAT
10220200 CTAGAATCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 4 0.12
24 28 0.88
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (24 bp):
GTTTCACATTCAATAAATCTTAGA
Found at i:10220848 original size:12 final size:12
Alignment explanation
Indices: 10220829--10220857 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10220819 GGTTATATCA
10220829 ACCA-ATTCATC
1 ACCATATTCATC
10220840 ACCATATTCATC
1 ACCATATTCATC
10220852 ACCATA
1 ACCATA
10220858 CATGTGTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (12 bp):
ACCATATTCATC
Found at i:10221434 original size:9 final size:10
Alignment explanation
Indices: 10221406--10221454 Score: 52
Period size: 9 Copynumber: 5.3 Consensus size: 10
10221396 CTCCTCTTCA
10221406 TTTTTCA-TT
1 TTTTTCATTT
*
10221415 TTTTTAATTT
1 TTTTTCATTT
10221425 TTTTTC-TTT
1 TTTTTCATTT
*
10221434 TTTTT--TCT
1 TTTTTCATTT
10221442 TTTTTCATTT
1 TTTTTCATTT
10221452 TTT
1 TTT
10221455 CTATCTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
8 7 0.21
9 14 0.42
10 12 0.36
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTCATTT
Found at i:10221830 original size:9 final size:9
Alignment explanation
Indices: 10221812--10221856 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
10221802 ATAGCATTCA
10221812 TTTTTCTTT
1 TTTTTCTTT
*
10221821 TTTCTCTTTT
1 TTTTTC-TTT
10221831 TTTTTGCTTT
1 TTTTT-CTTT
*
10221841 TTTTTCTCT
1 TTTTTCTTT
10221850 TTTTTCT
1 TTTTTCT
10221857 ATCTTTGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
9 15 0.48
10 15 0.48
11 1 0.03
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:10221834 original size:11 final size:11
Alignment explanation
Indices: 10221818--10221854 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
10221808 TTCATTTTTC
10221818 TTTTTTCTCTT
1 TTTTTTCTCTT
10221829 TTTTTT-TGCTT
1 TTTTTTCT-CTT
10221840 TTTTTTCTCTT
1 TTTTTTCTCTT
10221851 TTTT
1 TTTT
10221855 CTATCTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.04
11 22 0.92
12 1 0.04
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.84
Consensus pattern (11 bp):
TTTTTTCTCTT
Found at i:10221840 original size:20 final size:20
Alignment explanation
Indices: 10221812--10221854 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
10221802 ATAGCATTCA
10221812 TTTTTC-TTTTTTCTCTTTT
1 TTTTTCTTTTTTTCTCTTTT
10221831 TTTTTGCTTTTTTTTCTCTTTT
1 TTTTT-C-TTTTTTTCTCTTTT
10221853 TT
1 TT
10221855 CTATCTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 1 0.05
22 15 0.71
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (20 bp):
TTTTTCTTTTTTTCTCTTTT
Found at i:10221862 original size:22 final size:22
Alignment explanation
Indices: 10221818--10221862 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
10221808 TTCATTTTTC
*
10221818 TTTTTTCTCTTTTTTTTTGCTT
1 TTTTTTCTCTTTTTTTATGCTT
10221840 TTTTTTCTCTTTTTTCTAT-CTT
1 TTTTTTCTCTTTTTT-TATGCTT
10221862 T
1 T
10221863 GAGACCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTTTTCTCTTTTTTTATGCTT
Found at i:10234980 original size:21 final size:22
Alignment explanation
Indices: 10234945--10234986 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
10234935 TGTCATCTAA
*
10234945 TAAATATATTTTTTTATTTTAT
1 TAAATACATTTTTTTATTTTAT
10234967 TAAATACA-TTTTTTATTTTA
1 TAAATACATTTTTTTATTTTA
10234987 AAAAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
TAAATACATTTTTTTATTTTAT
Found at i:10234992 original size:21 final size:21
Alignment explanation
Indices: 10234954--10234993 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10234944 ATAAATATAT
**
10234954 TTTTTTATTTTATTAAATACA
1 TTTTTTATTTTAAAAAATACA
10234975 TTTTTTATTTTAAAAAATA
1 TTTTTTATTTTAAAAAATA
10234994 AATGTATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTTATTTTAAAAAATACA
Found at i:10235253 original size:57 final size:57
Alignment explanation
Indices: 10235178--10235297 Score: 206
Period size: 57 Copynumber: 2.1 Consensus size: 57
10235168 TTTAAAATAT
* *
10235178 ATAC-TTAAAGGATATGTATTACTTTACTAACCTTACTAGGAATCTAAAAACTCCAC
1 ATACATTAAAGGATATGTATCACTTTACTAACCTTACTAAGAATCTAAAAACTCCAC
*
10235234 ATACATTAAAGGATATGTATCACTTTACTAACCTTGCTAAGAATCTAAAAACTCCAC
1 ATACATTAAAGGATATGTATCACTTTACTAACCTTACTAAGAATCTAAAAACTCCAC
10235291 ATACATT
1 ATACATT
10235298 GAATAAAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
56 4 0.07
57 56 0.93
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (57 bp):
ATACATTAAAGGATATGTATCACTTTACTAACCTTACTAAGAATCTAAAAACTCCAC
Found at i:10241223 original size:381 final size:381
Alignment explanation
Indices: 10240515--10241275 Score: 1486
Period size: 381 Copynumber: 2.0 Consensus size: 381
10240505 AGCGAACCAA
10240515 CTGGTGATGACTCTTAACACCAACTCTCTCTTCTAGCCAATTTCAAATTGATTTAGAATCTTTTT
1 CTGGTGATGACTCTTAACACCAACTCTCTCTTCTAGCCAATTTCAAATTGATTTAGAATCTTTTT
10240580 GATTGGCCATCCCAACGATGCTTGAGAAACTTCTGCTCGCTGCCTTCCTTGATCATCTTTCGTTG
66 GATTGGCCATCCCAACGATGCTTGAGAAACTTCTGCTCGCTGCCTTCCTTGATCATCTTTCGTTG
*
10240645 CCAATACCTCATTGCATCTTCAGCATCTTCAACGAGTTTAACCTTAGCAAATGATACATGTGCAT
131 CCAATACCTCATTGCATCTTCAGCATCTTCAACGAGTTCAACCTTAGCAAATGATACATGTGCAT
*
10240710 CCCATATATCTTCACTCTGAACATCTTTCTTCACTTGAACACTTGAAGTTTCTGCATTCTCTTTA
196 CCCATATATCTTCACTCTGAACATCTTTCTTCACTTGAACACTTGAAGTTGCTGCATTCTCTTTA
*
10240775 ACAAATGATAATGCCTCATTTTTCCACAATTGAAGCATTCTTTAGGTGTAGTAGCATACTTTATA
261 ACAAATGATAATGCCTCATTTTTCCACAATTGAAGCATTCTTTAGGTGTAGTAGCATACTCTATA
10240840 TGTTCCGACACTTCCTCTTCAACTATTGTTTTGATACAAAACATGGTCTTTTCCAC
326 TGTTCCGACACTTCCTCTTCAACTATTGTTTTGATACAAAACATGGTCTTTTCCAC
10240896 CTGGTGATGACTCTTAACACCAACTCTCTCTTCTAGCCAATTTCAAATTGATTTAGAATCTTTTT
1 CTGGTGATGACTCTTAACACCAACTCTCTCTTCTAGCCAATTTCAAATTGATTTAGAATCTTTTT
10240961 GATTGGCCATCCCAACGATGCTTGAGAAACTTCTGCTCGCTGCCTTCCTTGATCATCTTTCGTTG
66 GATTGGCCATCCCAACGATGCTTGAGAAACTTCTGCTCGCTGCCTTCCTTGATCATCTTTCGTTG
*
10241026 CTAATACCTCATTGCATCTTCAGCATCTTCAACGAGTTCAACCTTAGCAAATGATACATGTGCAT
131 CCAATACCTCATTGCATCTTCAGCATCTTCAACGAGTTCAACCTTAGCAAATGATACATGTGCAT
10241091 CCCATATATCTTCACTCTGAACATCTTTCTTCACTTGAACACTTGAAGTTGCTGCATTCTCTTTA
196 CCCATATATCTTCACTCTGAACATCTTTCTTCACTTGAACACTTGAAGTTGCTGCATTCTCTTTA
10241156 ACAAATGATAATGCCTCATTTTTCCACAATTGAAGCATTCTTTAGGTGTAGTAGCATACTCTATA
261 ACAAATGATAATGCCTCATTTTTCCACAATTGAAGCATTCTTTAGGTGTAGTAGCATACTCTATA
10241221 TGTTCCGACACTTCCTCTTCAACTATTGTTTTGATACAAAACATGGTCTTTTCCA
326 TGTTCCGACACTTCCTCTTCAACTATTGTTTTGATACAAAACATGGTCTTTTCCA
10241276 GCTGTTATCT
Statistics
Matches: 376, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
381 376 1.00
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (381 bp):
CTGGTGATGACTCTTAACACCAACTCTCTCTTCTAGCCAATTTCAAATTGATTTAGAATCTTTTT
GATTGGCCATCCCAACGATGCTTGAGAAACTTCTGCTCGCTGCCTTCCTTGATCATCTTTCGTTG
CCAATACCTCATTGCATCTTCAGCATCTTCAACGAGTTCAACCTTAGCAAATGATACATGTGCAT
CCCATATATCTTCACTCTGAACATCTTTCTTCACTTGAACACTTGAAGTTGCTGCATTCTCTTTA
ACAAATGATAATGCCTCATTTTTCCACAATTGAAGCATTCTTTAGGTGTAGTAGCATACTCTATA
TGTTCCGACACTTCCTCTTCAACTATTGTTTTGATACAAAACATGGTCTTTTCCAC
Found at i:10242378 original size:6 final size:7
Alignment explanation
Indices: 10242358--10242383 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
10242348 ATATATTTTC
10242358 AATAAAA
1 AATAAAA
10242365 AATAAAA
1 AATAAAA
10242372 AATAAAA
1 AATAAAA
10242379 AATAA
1 AATAA
10242384 TTAAACATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AATAAAA
Found at i:10246238 original size:9 final size:9
Alignment explanation
Indices: 10246206--10246237 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
10246196 AAAATGAAAA
10246206 AAAAAAGAG
1 AAAAAAGAG
10246215 AAAAAAGAG
1 AAAAAAGAG
10246224 AAAAAAG-G
1 AAAAAAGAG
10246232 AAAAAA
1 AAAAAA
10246238 ATAAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (9 bp):
AAAAAAGAG
Found at i:10246244 original size:9 final size:9
Alignment explanation
Indices: 10246204--10246247 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
10246194 GAAAAATGAA
10246204 AAAAAAAAG
1 AAAAAAAAG
*
10246213 AGAAAAAAG
1 AAAAAAAAG
*
10246222 AGAAAAAAG
1 AAAAAAAAG
* *
10246231 GAAAAAAAT
1 AAAAAAAAG
10246240 AAAAAAAA
1 AAAAAAAA
10246248 ATGAAAAATG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:10247423 original size:21 final size:22
Alignment explanation
Indices: 10247379--10247431 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
10247369 GTGAATCCTT
*
10247379 AAATGAGAATCTTGGAGTTTTC
1 AAATGAGAATCTTGAAGTTTTC
*
10247401 AAATGAGAATCTTTAAG-TTTC
1 AAATGAGAATCTTGAAGTTTTC
*
10247422 AAATAAGAAT
1 AAATGAGAAT
10247432 ATTTGAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 13 0.46
22 15 0.54
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.34
Consensus pattern (22 bp):
AAATGAGAATCTTGAAGTTTTC
Found at i:10247562 original size:24 final size:24
Alignment explanation
Indices: 10247530--10247584 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
10247520 GAGATTCTAG
*
10247530 ATGTAAAACTCTAAGATTTATTGA
1 ATGTGAAACTCTAAGATTTATTGA
10247554 ATGTGAAACTCTAAGATTTATTGA
1 ATGTGAAACTCTAAGATTTATTGA
10247578 ATGTGAA
1 ATGTGAA
10247585 CCTTTGAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.36
Consensus pattern (24 bp):
ATGTGAAACTCTAAGATTTATTGA
Found at i:10247599 original size:20 final size:20
Alignment explanation
Indices: 10247574--10247615 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
10247564 CTAAGATTTA
* *
10247574 TTGAATGTGAACCTTTGAAC
1 TTGAATGAGAACCTTGGAAC
*
10247594 TTGAATGAGAAGCTTGGAAC
1 TTGAATGAGAACCTTGGAAC
10247614 TT
1 TT
10247616 TTGGATGTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (20 bp):
TTGAATGAGAACCTTGGAAC
Found at i:10247707 original size:20 final size:20
Alignment explanation
Indices: 10247682--10247722 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10247672 CCCAAATTTG
*
10247682 TCAAATGTGAACCTTTAAAC
1 TCAAATGAGAACCTTTAAAC
* *
10247702 TCAAATGAGAAGCTTTGAAC
1 TCAAATGAGAACCTTTAAAC
10247722 T
1 T
10247723 TTTGGATGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (20 bp):
TCAAATGAGAACCTTTAAAC
Found at i:10248062 original size:41 final size:41
Alignment explanation
Indices: 10247989--10248444 Score: 472
Period size: 41 Copynumber: 11.0 Consensus size: 41
10247979 ATGATTGTCA
** *
10247989 AGGAGC-TTTTATTTTTCAAAGTTGTTGTGCCTCTGTTTAG
1 AGGAGCTTTTTATTTTTCAAAGTCATTGAGCCTCTGTTTAG
* *
10248029 AGGAGCTTTTTA-TTTTCTAAAGTCATTAAGCCTCTATTTAG
1 AGGAGCTTTTTATTTTTC-AAAGTCATTGAGCCTCTGTTTAG
* * * * *
10248070 ATGAGCCTTTTATTTTTTCAAAGTTATTGTGCCTCTGCTTAG
1 AGGAGCTTTTTA-TTTTTCAAAGTCATTGAGCCTCTGTTTAG
* *
10248112 AGGAG-TCTTTTATTTTTCAAAGTCATTGAACCTTTGTTTAG
1 AGGAGCT-TTTTATTTTTCAAAGTCATTGAGCCTCTGTTTAG
*
10248153 AGGAGCTTTTTATTTTTCCAAA-TCGTTGAGCCTCTGTTTAG
1 AGGAGCTTTTTATTTTT-CAAAGTCATTGAGCCTCTGTTTAG
* * * *
10248194 ATGAGCCTTTTATTTTTCCAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCTTTTTATTTTTCAAAGTCATTGAGCCTCTGTTTAG
* * * * *
10248235 AGAAGC-TTTTATTTTCCAAAGTCGTTGTGCCTCTGCTTAG
1 AGGAGCTTTTTATTTTTCAAAGTCATTGAGCCTCTGTTTAG
* *
10248275 AGGAGCCTTTTATTTTTCAAAGCCATTGAGCCTCTGTTTAG
1 AGGAGCTTTTTATTTTTCAAAGTCATTGAGCCTCTGTTTAG
* * * **
10248316 ATGAGCTTTTTATTTTTTAAAGTCGTTGAGCCTCTACTTAG
1 AGGAGCTTTTTATTTTTCAAAGTCATTGAGCCTCTGTTTAG
* * *
10248357 AGAAGCCTTATTTTATTTTTCAAAGTTATTGAGCCTCTGCTTAG
1 AGGAG-C-T-TTTTATTTTTCAAAGTCATTGAGCCTCTGTTTAG
* * *
10248401 AAGAGCCTTATTTTATTTTTCAAAGTTATTAAGCCTCTGTTTAG
1 AGGAG-C-T-TTTTATTTTTCAAAGTCATTGAGCCTCTGTTTAG
10248445 GAAAGCATTT
Statistics
Matches: 350, Mismatches: 54, Indels: 20
0.83 0.13 0.05
Matches are distributed among these distances:
40 49 0.14
41 192 0.55
42 33 0.09
43 6 0.02
44 70 0.20
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (41 bp):
AGGAGCTTTTTATTTTTCAAAGTCATTGAGCCTCTGTTTAG
Found at i:10248292 original size:122 final size:123
Alignment explanation
Indices: 10247994--10248444 Score: 530
Period size: 122 Copynumber: 3.6 Consensus size: 123
10247984 TGTCAAGGAG
** * * *
10247994 CTTTTATTTTTCAAAGTTGTTGTGCCTCTGTTTAGAGGAGCTTTTTA-TTTTCTAAAGTCATTAA
1 CTTTTATTTTTCAAAGTCATTGAGCCTCTGCTTAGAGGAGCCTTTTATTTTTC-AAAGTCATTAA
* ** * * *
10248058 GCCTCTATTTAGATGAGCCTTTTATTTTTTCAAAGTTATTGTGCCTCTGCTTAGAGGAGT
65 GCCTCTGTTTAGATGAGCCTTTTA-TTTTTCAAAGTCGTTGAGCCTCTGCTTAGAGAAGC
* * * * * *
10248118 CTTTTATTTTTCAAAGTCATTGAACCTTTGTTTAGAGGAGCTTTTTATTTTTCCAAA-TCGTTGA
1 CTTTTATTTTTCAAAGTCATTGAGCCTCTGCTTAGAGGAGCCTTTTATTTTT-CAAAGTCATTAA
* *
10248182 GCCTCTGTTTAGATGAGCCTTTTATTTTTCCAAGTCGTTGAGCCTCTGTTTAGAGAAG-
65 GCCTCTGTTTAGATGAGCCTTTTATTTTTCAAAGTCGTTGAGCCTCTGCTTAGAGAAGC
* * * * *
10248240 CTTTTATTTTCCAAAGTCGTTGTGCCTCTGCTTAGAGGAGCCTTTTATTTTTCAAAGCCATTGAG
1 CTTTTATTTTTCAAAGTCATTGAGCCTCTGCTTAGAGGAGCCTTTTATTTTTCAAAGTCATTAAG
* * *
10248305 CCTCTGTTTAGATGAGCTTTTTATTTTTTAAAGTCGTTGAGCCTCTACTTAGAGAAGC
66 CCTCTGTTTAGATGAGCCTTTTATTTTTCAAAGTCGTTGAGCCTCTGCTTAGAGAAGC
* * *
10248363 CTTATTTTATTTTTCAAAGTTATTGAGCCTCTGCTTAGAAGAGCCTTATTTTATTTTTCAAAGTT
1 C---TTTTATTTTTCAAAGTCATTGAGCCTCTGCTTAGAGGAGCC---TTTTATTTTTCAAAGTC
10248428 ATTAAGCCTCTGTTTAG
60 ATTAAGCCTCTGTTTAG
10248445 GAAAGCATTT
Statistics
Matches: 281, Mismatches: 36, Indels: 15
0.85 0.11 0.05
Matches are distributed among these distances:
121 4 0.01
122 103 0.37
123 29 0.10
124 70 0.25
125 7 0.02
126 37 0.13
129 31 0.11
ACGTcount: A:0.22, C:0.16, G:0.17, T:0.45
Consensus pattern (123 bp):
CTTTTATTTTTCAAAGTCATTGAGCCTCTGCTTAGAGGAGCCTTTTATTTTTCAAAGTCATTAAG
CCTCTGTTTAGATGAGCCTTTTATTTTTCAAAGTCGTTGAGCCTCTGCTTAGAGAAGC
Found at i:10248315 original size:163 final size:164
Alignment explanation
Indices: 10247989--10248444 Score: 530
Period size: 163 Copynumber: 2.8 Consensus size: 164
10247979 ATGATTGTCA
* * *
10247989 AGGAGC-TTTTATTTTTCAAAGTTGTTGTGCCTCTGTTTAGAGGAGCTTTTTA-TTTTCTAAAGT
1 AGGAGCTTTTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGA-GAGCCTTTTATTTTTC-AAAGT
* * * *
10248052 CATTAAGCCTCTATTTAGATGAGCCTTTTATTTTTTCAAAGTTATTGTGCCTCTGCTTAGAGGAG
64 CATTGAGCCTCTGTTTAGATGAGCCTTTTATTTTTCCAAAGTCATTGTGCCTCTGCTTAGAGGAG
* * *
10248117 TCTTTTATTTTTCAAAGTCATTGAACCTTTGTTTAG
129 CCTTTTATTTTTCAAAGCCATTGAACCTCTGTTTAG
*
10248153 AGGAGCTTTTTATTTTTCCAAA-TCGTTGAGCCTCTGTTTAGATGAGCCTTTTATTTTTCCAAGT
1 AGGAGCTTTTTATTTTT-CAAAGTCGTTGAGCCTCTGTTTAGA-GAGCCTTTTATTTTTCAAAGT
* *
10248217 CGTTGAGCCTCTGTTTAGA-GAAG-CTTTTA-TTTTCCAAAGTCGTTGTGCCTCTGCTTAGAGGA
64 CATTGAGCCTCTGTTTAGATG-AGCCTTTTATTTTTCCAAAGTCATTGTGCCTCTGCTTAGAGGA
*
10248279 GCCTTTTATTTTTCAAAGCCATTGAGCCTCTGTTTAG
128 GCCTTTTATTTTTCAAAGCCATTGAACCTCTGTTTAG
* * **
10248316 ATGAGCTTTTTATTTTTTAAAGTCGTTGAGCCTCTACTTAGAGAAGCCTTATTTTATTTTTCAAA
1 AGGAGCTTTTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAG-AGCC---TTTTATTTTTCAAA
* * * * ** *
10248381 GTTATTGAGCCTCTGCTTAGAAGAGCCTTATTTTATTTTT-CAAAGTTATTAAGCCTCTGTTTAG
62 GTCATTGAGCCTCTGTTTAGATGAGCC---TTTTATTTTTCCAAAGTCATTGTGCCTCTGCTTAG
10248445 GAAAGCATTT
Statistics
Matches: 249, Mismatches: 28, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
162 4 0.02
163 101 0.41
164 13 0.05
165 59 0.24
166 42 0.17
167 2 0.01
170 24 0.10
171 4 0.02
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (164 bp):
AGGAGCTTTTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGAGCCTTTTATTTTTCAAAGTCA
TTGAGCCTCTGTTTAGATGAGCCTTTTATTTTTCCAAAGTCATTGTGCCTCTGCTTAGAGGAGCC
TTTTATTTTTCAAAGCCATTGAACCTCTGTTTAG
Found at i:10252195 original size:19 final size:19
Alignment explanation
Indices: 10252146--10252195 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
10252136 TCAATGTTTT
**
10252146 TTTGTGTATATATGTGTTA
1 TTTGTGTATATCGGTGTTA
*
10252165 TTCGTGTATATCGGTGTTA
1 TTTGTGTATATCGGTGTTA
10252184 TTTGTGTATATC
1 TTTGTGTATATC
10252196 AATATTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.18, C:0.06, G:0.22, T:0.54
Consensus pattern (19 bp):
TTTGTGTATATCGGTGTTA
Found at i:10252203 original size:19 final size:19
Alignment explanation
Indices: 10252130--10252204 Score: 71
Period size: 19 Copynumber: 3.9 Consensus size: 19
10252120 TATCTATTCA
*
10252130 TGTATATCAATGTTTTTTTG
1 TGTATATCAATG-TTATTTG
* *
10252150 TGTATAT-ATGTGTTATTCG
1 TGTATATCA-ATGTTATTTG
**
10252169 TGTATATCGGTGTTATTTG
1 TGTATATCAATGTTATTTG
*
10252188 TGTATATCAATATTATT
1 TGTATATCAATGTTATT
10252205 AGCATTATTC
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
19 36 0.80
20 9 0.20
ACGTcount: A:0.23, C:0.05, G:0.17, T:0.55
Consensus pattern (19 bp):
TGTATATCAATGTTATTTG
Found at i:10252307 original size:42 final size:41
Alignment explanation
Indices: 10252260--10252346 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 41
10252250 ACATATTGTA
*
10252260 TTCATGGTTAGGATTTAAACACGTTTTATAATTTGTGTCATG
1 TTCATGGTTAGGATTTAAACACGTTTTATAA-TTGTATCATG
* *
10252302 TTCATGTTTAGGATTTAAATACGTTTTATAATTGTATCATG
1 TTCATGGTTAGGATTTAAACACGTTTTATAATTGTATCATG
10252343 TTCA
1 TTCA
10252347 AGTGTTGATG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 13 0.31
42 29 0.69
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (41 bp):
TTCATGGTTAGGATTTAAACACGTTTTATAATTGTATCATG
Found at i:10256169 original size:185 final size:189
Alignment explanation
Indices: 10255821--10256204 Score: 533
Period size: 185 Copynumber: 2.0 Consensus size: 189
10255811 TAAATGGAAA
** * *
10255821 AAAAATTGTAGTAGGAAAATTGAAGGAAAAAAAAAGCAAACAGTGAGAAGACACTAAAATTGAAT
1 AAAAATTACAGTAGAAAAATTGAA-GAAAAAAAAAGCAAACAGTGAGAAGACACTAAAACTGAAT
* * * *
10255886 CCGGTAGTGCACTATAAACACATAAAATTGCAATAAAAAAGAATTCAATCTACTATGGCATATTG
65 CCGATAGTGCACTACAAACACATAAAATT--AATAAAAAAGAATTCAATCTACTATGGCATACTA
* *
10255951 AAAATGAACTTTAGTTGAGATGAGAACATATTTATCAACAAGCATTCCACAAGATTCAACCT
128 AAAATGAACTTTAGTTGAGATAAAAACATATTTATCAACAAGCATTCCACAAGATTCAACCT
** * *
10256013 AAAAATTACAGTAGAAAAATTGAA-AAAAAAATGGCAAATAGTGAGAAGACATTAAAACTGAATC
1 AAAAATTACAGTAGAAAAATTGAAGAAAAAAAAAGCAAACAGTGAGAAGACACTAAAACTGAATC
* * *
10256077 CGATAGTGCACTGCAAACACATAAAATT-AT-GACAA-AATTCAATCTACTATGGCATACTAAAA
66 CGATAGTGCACTACAAACACATAAAATTAATAAAAAAGAATTCAATCTACTATGGCATACTAAAA
* * *
10256139 ATGAACTTTAGTTGAGCTAAAAACATATTTATCAACAAGTATTCTACAAGATTCAACCT
131 ATGAACTTTAGTTGAGATAAAAACATATTTATCAACAAGCATTCCACAAGATTCAACCT
10256198 AAAAATT
1 AAAAATT
10256205 GCATAAATTA
Statistics
Matches: 172, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
185 86 0.50
186 3 0.02
187 2 0.01
190 60 0.35
192 21 0.12
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (189 bp):
AAAAATTACAGTAGAAAAATTGAAGAAAAAAAAAGCAAACAGTGAGAAGACACTAAAACTGAATC
CGATAGTGCACTACAAACACATAAAATTAATAAAAAAGAATTCAATCTACTATGGCATACTAAAA
ATGAACTTTAGTTGAGATAAAAACATATTTATCAACAAGCATTCCACAAGATTCAACCT
Found at i:10257735 original size:19 final size:20
Alignment explanation
Indices: 10257691--10257741 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
10257681 TACAAACCCT
*
10257691 AAACCCCAAATCACCATGCA
1 AAACCCCAAACCACCATGCA
*
10257711 AAACCCCAAACCATCATGC-
1 AAACCCCAAACCACCATGCA
*
10257730 AAACCCTAAACC
1 AAACCCCAAACC
10257742 TTAAACCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.45, C:0.41, G:0.04, T:0.10
Consensus pattern (20 bp):
AAACCCCAAACCACCATGCA
Found at i:10257740 original size:7 final size:7
Alignment explanation
Indices: 10257730--10257859 Score: 69
Period size: 7 Copynumber: 19.7 Consensus size: 7
10257720 ACCATCATGC
10257730 AAACCCT
1 AAACCCT
*
10257737 AAACCTT
1 AAACCCT
10257744 AAA-CCT
1 AAACCCT
*
10257750 AACCCCT
1 AAACCCT
10257757 AAACCCT
1 AAACCCT
* *
10257764 -GATCCT
1 AAACCCT
*
10257770 AAACCTT
1 AAACCCT
10257777 AAA-CCT
1 AAACCCT
* *
10257783 TAACTCT
1 AAACCCT
10257790 AAA-CCT
1 AAACCCT
*
10257796 AAACCTT
1 AAACCCT
* *
10257803 CAATCCT
1 AAACCCT
*
10257810 -AAGCC-
1 AAACCCT
*
10257815 AAACTCT
1 AAACCCT
10257822 AAACCC-
1 AAACCCT
* *
10257828 CAAGCCT
1 AAACCCT
*
10257835 -AACCTT
1 AAACCCT
10257841 AAACCCT
1 AAACCCT
10257848 AAACCCT
1 AAACCCT
10257855 AAACC
1 AAACC
10257860 AACATTAAGT
Statistics
Matches: 88, Mismatches: 27, Indels: 16
0.67 0.21 0.12
Matches are distributed among these distances:
6 32 0.36
7 56 0.64
ACGTcount: A:0.40, C:0.38, G:0.02, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:10257758 original size:20 final size:18
Alignment explanation
Indices: 10257731--10257859 Score: 64
Period size: 19 Copynumber: 6.6 Consensus size: 18
10257721 CCATCATGCA
10257731 AACCCTAAACCTTAAACCT
1 AACCCTAAACCTT-AACCT
* *
10257750 AACCCCTAAACCCTGATCCT
1 AA-CCCTAAA-CCTTAACCT
*
10257770 AAACCTTAAACCTTAACTCT
1 -AACCCTAAACCTTAAC-CT
*
10257790 AAACCTAAACCTTCAATCCT
1 AACCCTAAACCTT-AA-CCT
* * *
10257810 AAGCC-AAACTCTAAACCCC
1 AACCCTAAAC-CTTAA-CCT
*
10257829 AAGCCT-AACCTTAAACCCT
1 AACCCTAAACCTT-AA-CCT
10257848 AAACCCTAAACC
1 -AACCCTAAACC
10257860 AACATTAAGT
Statistics
Matches: 85, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
18 2 0.02
19 39 0.46
20 34 0.40
21 10 0.12
ACGTcount: A:0.40, C:0.38, G:0.02, T:0.20
Consensus pattern (18 bp):
AACCCTAAACCTTAACCT
Found at i:10259543 original size:32 final size:32
Alignment explanation
Indices: 10259507--10259571 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
10259497 ATGACATTCC
10259507 TTAGTAAAAATAATAATTGGAATTCCCTTTAA
1 TTAGTAAAAATAATAATTGGAATTCCCTTTAA
** *
10259539 TTAGTAAAAATAATTGTTGGAATTGCCTTTAA
1 TTAGTAAAAATAATAATTGGAATTCCCTTTAA
10259571 T
1 T
10259572 AACTAAGTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (32 bp):
TTAGTAAAAATAATAATTGGAATTCCCTTTAA
Found at i:10264772 original size:19 final size:20
Alignment explanation
Indices: 10264736--10264773 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10264726 GATTATAAAT
10264736 AAATTAATATTAATAATTTA
1 AAATTAATATTAATAATTTA
10264756 AAATATAAT-TTAA-AATTT
1 AAAT-TAATATTAATAATTT
10264774 TTTTTACCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATTAATATTAATAATTTA
Found at i:10264933 original size:55 final size:54
Alignment explanation
Indices: 10264868--10264988 Score: 147
Period size: 55 Copynumber: 2.2 Consensus size: 54
10264858 AAAATATAAT
* *
10264868 AAAAAA-TAAAACATACAAGTCTATACTGATGGACGT-TAACTGTTGGTATAGGTA
1 AAAAAATTAAAACATACAAGTCTATACTAAT-GA-GTCTAACTGTTAGTATAGGTA
* * *
10264922 AAAAAATTAAAATATACAAGTCTATACTAATGAGTGCTAATTGTTAGTATATGTA
1 AAAAAATTAAAACATACAAGTCTATACTAATGAGT-CTAACTGTTAGTATAGGTA
10264977 AGAAAAATTAAA
1 A-AAAAATTAAA
10264989 TTGAAACATA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
53 2 0.03
54 8 0.14
55 38 0.66
56 10 0.17
ACGTcount: A:0.47, C:0.08, G:0.15, T:0.30
Consensus pattern (54 bp):
AAAAAATTAAAACATACAAGTCTATACTAATGAGTCTAACTGTTAGTATAGGTA
Found at i:10266836 original size:29 final size:28
Alignment explanation
Indices: 10266773--10266836 Score: 94
Period size: 29 Copynumber: 2.3 Consensus size: 28
10266763 TAGTTTAGGG
*
10266773 ATTTTTTTGGTGTTATTATAATTCATTTA
1 ATTTTTTTGGTGTTATTATAAAT-ATTTA
10266802 ATTTTTTTGGTGTTATTATAAAT-TTTA
1 ATTTTTTTGGTGTTATTATAAATATTTA
*
10266829 ATTATTTT
1 ATTTTTTT
10266837 ATAACATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 11 0.33
29 22 0.67
ACGTcount: A:0.25, C:0.02, G:0.09, T:0.64
Consensus pattern (28 bp):
ATTTTTTTGGTGTTATTATAAATATTTA
Found at i:10267974 original size:265 final size:265
Alignment explanation
Indices: 10267501--10268021 Score: 844
Period size: 265 Copynumber: 2.0 Consensus size: 265
10267491 ATGTGCGTAA
*
10267501 GCACCTTTGTTTTAAACATTTTTCATTGGTTACATGAATTGGTATCTTCATGAAAATGCTAAACA
1 GCACCTTTGTTTTAAACATTTTTCATTGGTTACATGAATTGGTATCTTCATGAAAAGGCTAAACA
* *
10267566 AGCTTAATCATCAAGAAATAAAGATCAAGAATTTAATCCAATGTGTCAAGTAGAAATAGAAAATC
66 AGCTTAATAATCAAGAAATAAAGATCAAGAATTTAATCCAATGTATCAAGTAGAAATAGAAAATC
* ** * *
10267631 CATATACCACAATGGTTATGGATGCTCTAATTTGAATTTTGCTCGAATGCTAATTTTGGTAATGT
131 CATATACCACAATGGTTATGGATACTCTAATTCAAATTTTACTCAAATGCTAATTTTGGTAATGT
10267696 GTTAAGATATGATGAGCAACAATCAAATTAAAAGGCACCAAACTTTTATTCTTTGACGAATGATG
196 GTTAAGATATGATGAGCAACAATCAAATTAAAAGGCACCAAACTTTTATTCTTTGACGAATGATG
10267761 CATAT
261 CATAT
* ** ** *
10267766 GCACCTTTTTTTTAAATGTTTTTTGTTGGTTACATGAATTGGTATCTTCATGGAAAGGCTAAACA
1 GCACCTTTGTTTTAAACATTTTTCATTGGTTACATGAATTGGTATCTTCATGAAAAGGCTAAACA
* *
10267831 AGCTTAATAATCAAGAAATAAAGATTAAGAATTTAATCCATTGTATCAAGTAGAAATAGAAAATC
66 AGCTTAATAATCAAGAAATAAAGATCAAGAATTTAATCCAATGTATCAAGTAGAAATAGAAAATC
* *
10267896 CATATGCCAGAATGGTTATGGATACTCTAATTCAAATTTTACTCAAATGCTAATTTTGGTAATGT
131 CATATACCACAATGGTTATGGATACTCTAATTCAAATTTTACTCAAATGCTAATTTTGGTAATGT
** * *
10267961 GTTAAGATATGATGAGCAACAATCAAATTACGAGGCACCAAACTTTTATTTTTTGATGAAT
196 GTTAAGATATGATGAGCAACAATCAAATTAAAAGGCACCAAACTTTTATTCTTTGACGAAT
10268022 AATGTAGATG
Statistics
Matches: 234, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
265 234 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (265 bp):
GCACCTTTGTTTTAAACATTTTTCATTGGTTACATGAATTGGTATCTTCATGAAAAGGCTAAACA
AGCTTAATAATCAAGAAATAAAGATCAAGAATTTAATCCAATGTATCAAGTAGAAATAGAAAATC
CATATACCACAATGGTTATGGATACTCTAATTCAAATTTTACTCAAATGCTAATTTTGGTAATGT
GTTAAGATATGATGAGCAACAATCAAATTAAAAGGCACCAAACTTTTATTCTTTGACGAATGATG
CATAT
Found at i:10273014 original size:32 final size:31
Alignment explanation
Indices: 10272958--10273017 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
10272948 TTACATGATT
* *
10272958 ATTTTTATATTTTTAAATAAAATAATATTTG
1 ATTTTTATAATTTCAAATAAAATAATATTTG
*
10272989 ATTTTTAATAATTTCAAATATAATAATAT
1 ATTTTT-ATAATTTCAAATAAAATAATAT
10273018 GTAATTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 6 0.24
32 19 0.76
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (31 bp):
ATTTTTATAATTTCAAATAAAATAATATTTG
Found at i:10281373 original size:24 final size:23
Alignment explanation
Indices: 10281325--10281417 Score: 59
Period size: 24 Copynumber: 3.9 Consensus size: 23
10281315 ATATTTTTTG
* *
10281325 TATTTA-TAAA-TTTATTTATATT
1 TATTTATTAAATTTTAATTGTA-T
10281347 TATTTATTAAATTTTAAGTTGTAT
1 TATTTATTAAATTTTAA-TTGTAT
*
10281371 TA-TTA-TAATATTTTTATATTATAT
1 TATTTATTAA-A-TTTTA-ATTGTAT
*
10281395 TATTGTATTATATTTTAAATTGT
1 TATT-TATTAAATTTT-AATTGT
10281418 GAAATCTAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
22 9 0.16
23 8 0.14
24 19 0.34
25 14 0.25
26 4 0.07
27 2 0.04
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.61
Consensus pattern (23 bp):
TATTTATTAAATTTTAATTGTAT
Found at i:10282445 original size:20 final size:20
Alignment explanation
Indices: 10282416--10282469 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
10282406 GTGAAATATC
10282416 AAAT-TTTCAAATTTCATAA
1 AAATGTTTCAAATTTCATAA
*
10282435 AAATGTTTCAAAATTCATAA
1 AAATGTTTCAAATTTCATAA
*
10282455 AAATGTTTGAAATTT
1 AAATGTTTCAAATTT
10282470 AACCTTGACT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 4 0.13
20 27 0.87
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (20 bp):
AAATGTTTCAAATTTCATAA
Found at i:10285097 original size:23 final size:24
Alignment explanation
Indices: 10285071--10285120 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
10285061 TAAAAAAACT
* *
10285071 AAAGATAAATCAACTAAA-AAT-GA
1 AAAGAAAAAT-AAATAAACAATAGA
10285094 AAAGAAAAATAAATAAACAATAGA
1 AAAGAAAAATAAATAAACAATAGA
10285118 AAA
1 AAA
10285121 ATCATAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 6 0.26
23 12 0.52
24 5 0.22
ACGTcount: A:0.72, C:0.06, G:0.08, T:0.14
Consensus pattern (24 bp):
AAAGAAAAATAAATAAACAATAGA
Found at i:10285147 original size:5 final size:5
Alignment explanation
Indices: 10285126--10285165 Score: 62
Period size: 5 Copynumber: 7.6 Consensus size: 5
10285116 GAAAAATCAT
10285126 AAATA AACATCA AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AA-AT-A AAATA AAATA AAATA AAATA AAATA AAA
10285166 GCCCATAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 26 0.79
6 4 0.12
7 3 0.09
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (5 bp):
AAATA
Found at i:10285623 original size:41 final size:41
Alignment explanation
Indices: 10285567--10285749 Score: 206
Period size: 41 Copynumber: 4.5 Consensus size: 41
10285557 ATGGCTTAAT
* * *
10285567 GACTTTGAAAAATAAAAGGTTTCTCTAATCAGAGGCTCAAC
1 GACTTTGAAAAATAAAAGGCTCCTCTAAGCAGAGGCTCAAC
* *
10285608 GACTTTGAAAAATAAAAAGCTCCTTTAAGCAGAGGCTCAAC
1 GACTTTGAAAAATAAAAGGCTCCTCTAAGCAGAGGCTCAAC
* * * **
10285649 G-CTTTGAAAAATAAAAAGCTCCTTTAAGCAGAAGCTCAGT
1 GACTTTGAAAAATAAAAGGCTCCTCTAAGCAGAGGCTCAAC
** * ** *
10285689 GACTTCAAAAAATAAAAAGCTTTTCTAAGCAGAGGCTCAAT
1 GACTTTGAAAAATAAAAGGCTCCTCTAAGCAGAGGCTCAAC
*
10285730 AACTTTGAAAAATAAAAGGC
1 GACTTTGAAAAATAAAAGGC
10285750 CTAAAAGTAT
Statistics
Matches: 122, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
40 37 0.30
41 85 0.70
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.24
Consensus pattern (41 bp):
GACTTTGAAAAATAAAAGGCTCCTCTAAGCAGAGGCTCAAC
Found at i:10285686 original size:81 final size:80
Alignment explanation
Indices: 10285468--10285746 Score: 215
Period size: 81 Copynumber: 3.4 Consensus size: 80
10285458 CTCCCCTAAA
* * *
10285468 CAGAGGCTCGTAA-CTTTGAAAAAATAAAATACAGCTCCTTTAAATAG-AGACTC-ACAACTTTG
1 CAGAGGCTC-AAAGCTTTG-AAAAAT-AAA-A-AGCTCCTTTAAACAGAAG-CTCAACGACTTTG
*
10285530 AAAAATAAAATACGGCTTCTTTAAA
60 AAAAATAAAA-A--GC-TCTTTAAG
* * * * * * * *
10285555 CA-ATGGCTTAATGACTTTGAAAAATAAAAGGTTTCTCTAATCAGAGGCTCAACGACTTTGAAAA
1 CAGA-GGCTCAAAG-CTTTGAAAAATAAAAAGCTCCTTTAAACAGAAGCTCAACGACTTTGAAAA
10285619 ATAAAAAGCTCCTTTAAG
64 ATAAAAAGCT-CTTTAAG
* * ** **
10285637 CAGAGGCTCAACGCTTTGAAAAATAAAAAGCTCCTTTAAGCAGAAGCTCAGTGACTTCAAAAAAT
1 CAGAGGCTCAAAGCTTTGAAAAATAAAAAGCTCCTTTAAACAGAAGCTCAACGACTTTGAAAAAT
*
10285702 AAAAAGCTTTTCTAAG
66 AAAAAGCTCTT-TAAG
*
10285718 CAGAGGCTCAATAACTTTGAAAAATAAAA
1 CAGAGGCTCAA-AGCTTTGAAAAATAAAA
10285747 GGCCTAAAAG
Statistics
Matches: 156, Mismatches: 27, Indels: 23
0.76 0.13 0.11
Matches are distributed among these distances:
80 2 0.01
81 66 0.42
82 32 0.21
83 1 0.01
84 13 0.08
85 20 0.13
86 5 0.03
87 12 0.08
88 5 0.03
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (80 bp):
CAGAGGCTCAAAGCTTTGAAAAATAAAAAGCTCCTTTAAACAGAAGCTCAACGACTTTGAAAAAT
AAAAAGCTCTTTAAG
Found at i:10301390 original size:2 final size:2
Alignment explanation
Indices: 10301383--10301413 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10301373 TTCCATACAC
10301383 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10301414 CTTTCTTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10306664 original size:32 final size:32
Alignment explanation
Indices: 10306624--10306692 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
10306614 AATAAAAATA
10306624 AGAATGAATTTTG-TCGTGAATAAGATCAGTAG
1 AGAATGAATTTTGCT-GTGAATAAGATCAGTAG
10306656 AGAATGAATTTTGCTGTGAATAAGATCAGTAG
1 AGAATGAATTTTGCTGTGAATAAGATCAGTAG
10306688 AGAAT
1 AGAAT
10306693 CATAGTTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 35 0.97
33 1 0.03
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.30
Consensus pattern (32 bp):
AGAATGAATTTTGCTGTGAATAAGATCAGTAG
Found at i:10307471 original size:3 final size:3
Alignment explanation
Indices: 10307459--10307487 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
10307449 TTTTTTTTTC
10307459 ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10307488 GTTTCTACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:10307697 original size:77 final size:77
Alignment explanation
Indices: 10307616--10307775 Score: 193
Period size: 77 Copynumber: 2.1 Consensus size: 77
10307606 TAAAAGTATT
** *
10307616 AATTTTTCTTAAAAATA-AAAATTTTTAAAAAATATTTTTGA-GAAAAAGTTGAAAGTATCAATT
1 AATTTTTC-TAAAAATATAAAATTGCTAAAAAATATTTTTAAGGAAAAA-TTGAAAGTATCAATT
10307679 TTTCTTAAAAATAA
64 TTTCTTAAAAATAA
** *
10307693 AA--TTTCTAAAAATATTTTCACTTGCTAAAAAATATTTTTAAGGAAAAATTGAAAGTATCAATT
1 AATTTTTCTAAAAATA--TAAAATTGCTAAAAAATATTTTTAAGGAAAAATTGAAAGTATCAATT
*
10307756 TTTCTTGAAAATAA
64 TTTCTTAAAAATAA
10307770 AATTTT
1 AATTTT
10307776 CAAAAAAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 10
0.80 0.08 0.11
Matches are distributed among these distances:
74 8 0.11
75 4 0.06
77 50 0.71
78 6 0.09
79 2 0.03
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.41
Consensus pattern (77 bp):
AATTTTTCTAAAAATATAAAATTGCTAAAAAATATTTTTAAGGAAAAATTGAAAGTATCAATTTT
TCTTAAAAATAA
Found at i:10307703 original size:58 final size:58
Alignment explanation
Indices: 10307567--10307710 Score: 211
Period size: 59 Copynumber: 2.4 Consensus size: 58
10307557 TGATTTTCCT
*
10307567 AAAATAAAATTTTTAAAAAATATATTTTTGAAGAAAAGTTAAAAGTATTAATTTTTCTTA
1 AAAATAAAATTTTT-AAAAA-ATATTTTTGAAGAAAAGTTAAAAGTATCAATTTTTCTTA
*
10307627 AAAATAAAAATTTTTAAAAAATATTTTTG-AGAAAAAGTTGAAAGTATCAATTTTTCTTA
1 AAAAT-AAAATTTTTAAAAAATATTTTTGAAG-AAAAGTTAAAAGTATCAATTTTTCTTA
*
10307686 AAAATAAAATTTCT-AAAAATATTTT
1 AAAATAAAATTTTTAAAAAATATTTT
10307711 CACTTGCTAA
Statistics
Matches: 79, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
57 11 0.14
58 10 0.13
59 39 0.49
60 10 0.13
61 9 0.11
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (58 bp):
AAAATAAAATTTTTAAAAAATATTTTTGAAGAAAAGTTAAAAGTATCAATTTTTCTTA
Found at i:10310878 original size:15 final size:15
Alignment explanation
Indices: 10310848--10310894 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
10310838 GTAAATGTTC
*
10310848 TTTTCATGCA-TGCA
1 TTTTCATCCATTGCA
10310862 TTTTCATCCATTGCA
1 TTTTCATCCATTGCA
* * *
10310877 TTCTCATTCATTACA
1 TTTTCATCCATTGCA
10310892 TTT
1 TTT
10310895 AACCAAATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 9 0.33
15 18 0.67
ACGTcount: A:0.21, C:0.23, G:0.06, T:0.49
Consensus pattern (15 bp):
TTTTCATCCATTGCA
Found at i:10318916 original size:21 final size:20
Alignment explanation
Indices: 10318886--10318931 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
10318876 AACTAACCAA
* *
10318886 CATTTGCATAGCATGCATTG
1 CATTTGCATAGCATACACTG
10318906 CATTTCGCATAGCATACACTG
1 CATTT-GCATAGCATACACTG
10318927 CATTT
1 CATTT
10318932 AAGAAAGTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (20 bp):
CATTTGCATAGCATACACTG
Found at i:10319235 original size:46 final size:46
Alignment explanation
Indices: 10319185--10319312 Score: 157
Period size: 46 Copynumber: 2.8 Consensus size: 46
10319175 TTTATCTTTC
***
10319185 CAAAGTCGTTAAGCCTCTGATTAGAGGAGCTTTGTTTATTTTTTTT
1 CAAAGTCGTTAAGCCTCTGATTAGAGGAGCTTTGTTTATTTTTAAA
* * *
10319231 CAAAGTCGTTAAGCCTCTTATTAGAAGAGCCTTGTTTATTTTTAAA
1 CAAAGTCGTTAAGCCTCTGATTAGAGGAGCTTTGTTTATTTTTAAA
* * * * *
10319277 AAAAGTGGTTAAGGCTCTGTTTAGAGGAGTTTTGTT
1 CAAAGTCGTTAAGCCTCTGATTAGAGGAGCTTTGTT
10319313 CATTCTCAAA
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (46 bp):
CAAAGTCGTTAAGCCTCTGATTAGAGGAGCTTTGTTTATTTTTAAA
Found at i:10320503 original size:4 final size:4
Alignment explanation
Indices: 10320496--10320573 Score: 56
Period size: 4 Copynumber: 19.8 Consensus size: 4
10320486 TTTTTTCTCA
*
10320496 TTAT TTAT TTAT TTAT TTAT TTA- TTA- TTA- TTA- TTATT TCTAC TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA-T T-TAT TTAT
* * * *
10320542 TTAT TTAT TGAT TAAAT TGAA TTAT TTAT TTA
1 TTAT TTAT TTAT T-TAT TTAT TTAT TTAT TTA
10320574 AGTAAGCATT
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
3 12 0.19
4 43 0.69
5 5 0.08
6 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (4 bp):
TTAT
Found at i:10320731 original size:54 final size:55
Alignment explanation
Indices: 10320601--10320745 Score: 170
Period size: 58 Copynumber: 2.6 Consensus size: 55
10320591 TTTTTCAATG
*
10320601 ATTTTCCT-AAAATAAAATTTTCAAAAAAAATTTATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTCTTAAAAATAAAATTTT--AAAAAAA--TATTTTTGAGGAAAAGTTG-AAG-ATCA
* * *
10320661 ATTTTTTTAAAAATAAAAATTTTTAAAAAATATTTTTGAGGAAAGGTTG-A-ATCA
1 ATTTTCTTAAAAAT-AAAATTTTAAAAAAATATTTTTGAGGAAAAGTTGAAGATCA
10320715 ATTTTCTTAAAAATAAAATTTTAAAAAAATA
1 ATTTTCTTAAAAATAAAATTTTAAAAAAATA
10320746 ATTTCAATTT
Statistics
Matches: 77, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
53 16 0.21
54 17 0.22
56 1 0.01
58 18 0.23
60 12 0.16
61 5 0.06
62 8 0.10
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (55 bp):
ATTTTCTTAAAAATAAAATTTTAAAAAAATATTTTTGAGGAAAAGTTGAAGATCA
Found at i:10320761 original size:73 final size:76
Alignment explanation
Indices: 10320678--10320821 Score: 222
Period size: 73 Copynumber: 1.9 Consensus size: 76
10320668 TAAAAATAAA
* * *
10320678 AATTTTTAAAAAATATTTTTGAGGAAAGGTTG-A-ATCAATTTTCTTAAAAATAAAATTTT-AAA
1 AATTTCTAAAAAATATTTTTAAGGAAAAGTTGAAGATCAATTTTCTTAAAAATAAAATTTTCAAA
10320740 AAAATAATTTC
66 AAAATAATTTC
10320751 AATTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTAAAAATAAAATTTTCA
1 AATTTCTAAAAAATATTTTTAAGGAAAAGTTG-AAG-ATCAATTTTCTTAAAAATAAAATTTTCA
10320816 AAAAAA
64 AAAAAA
10320822 AACATTTTAA
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
73 29 0.46
75 1 0.02
77 26 0.41
78 7 0.11
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.38
Consensus pattern (76 bp):
AATTTCTAAAAAATATTTTTAAGGAAAAGTTGAAGATCAATTTTCTTAAAAATAAAATTTTCAAA
AAAATAATTTC
Found at i:10320768 original size:131 final size:136
Alignment explanation
Indices: 10320633--10320880 Score: 364
Period size: 131 Copynumber: 1.9 Consensus size: 136
10320623 AAAAAAAATT
* * * * *
10320633 TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTAAAAATAAAAATTTT-TAAAAAATA-TTT
1 TATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTAAAAAT-AAAATTTTCAAAAAAAAACATT
* *
10320696 TTGAGGAAAGGTTG-AA-T-CAATTTT-CTTAAAAATAAAATTTTAAAAAAATAATTTCAATTTC
65 TTAAGGAAAAGTTGAAAGTACAATTTTCCTTAAAAATAAAATTTTAAAAAAATAATTTCAATTTC
10320757 TAAAAAA
130 TAAAAAA
10320764 TATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTAAAAATAAAATTTTCAAAAAAAAACATTT
1 TATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTAAAAATAAAATTTTCAAAAAAAAACATTT
*
10320829 TAAGGAAAAGTTGAAAGTACCAATTTTCCTTTAAAATAAAATTTTAAAAAAA
66 TAAGGAAAAGTTGAAAGTA-CAATTTTCCTTAAAAATAAAATTTTAAAAAAA
10320881 AAAAGGAAAA
Statistics
Matches: 102, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
130 8 0.08
131 47 0.46
132 14 0.14
133 2 0.02
134 1 0.01
136 7 0.07
137 23 0.23
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (136 bp):
TATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTAAAAATAAAATTTTCAAAAAAAAACATTT
TAAGGAAAAGTTGAAAGTACAATTTTCCTTAAAAATAAAATTTTAAAAAAATAATTTCAATTTCT
AAAAAA
Found at i:10320836 original size:59 final size:61
Alignment explanation
Indices: 10320758--10320883 Score: 202
Period size: 60 Copynumber: 2.1 Consensus size: 61
10320748 TTCAATTTCT
* * *
10320758 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTT-CTTAAAAATAAAATTTTCAAA
1 AAAAAACATTTTTAAGGAAAAGTTGAAAGTACCAATTTTCCTTAAAAATAAAATTTTAAAA
*
10320818 AAAAAACA-TTTTAAGGAAAAGTTGAAAGTACCAATTTTCCTTTAAAATAAAATTTTAAAA
1 AAAAAACATTTTTAAGGAAAAGTTGAAAGTACCAATTTTCCTTAAAAATAAAATTTTAAAA
10320878 AAAAAA
1 AAAAAA
10320884 AGGAAAAATT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
59 29 0.48
60 32 0.52
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.32
Consensus pattern (61 bp):
AAAAAACATTTTTAAGGAAAAGTTGAAAGTACCAATTTTCCTTAAAAATAAAATTTTAAAA
Found at i:10321585 original size:21 final size:21
Alignment explanation
Indices: 10321559--10321601 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
10321549 TAATAATGAC
10321559 AATAAAA-TTAATTAATATAAT
1 AATAAAATTTAA-TAATATAAT
*
10321580 AATAAAATTTAATATTATAAT
1 AATAAAATTTAATAATATAAT
10321601 A
1 A
10321602 GTGGATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATAAAATTTAATAATATAAT
Found at i:10321873 original size:36 final size:36
Alignment explanation
Indices: 10321796--10321874 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 36
10321786 TTAATATATA
* * * *
10321796 TTATTGATTTATTATATAATAATAAAACTTGTTTGT
1 TTATTAATTTATCATATAATAATAAAACTTATTTAT
**
10321832 TTATTAATTTATCATATAATAA-AAATTTTATTTAT
1 TTATTAATTTATCATATAATAATAAAACTTATTTAT
10321867 TATATTAA
1 T-TATTAA
10321875 ATCAATAAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
35 10 0.28
36 26 0.72
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.53
Consensus pattern (36 bp):
TTATTAATTTATCATATAATAATAAAACTTATTTAT
Found at i:10322226 original size:25 final size:27
Alignment explanation
Indices: 10322194--10322244 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
10322184 AATGTAATAT
10322194 AATAAAT-AATTT-TTATTATATAATG
1 AATAAATAAATTTGTTATTATATAATG
10322219 AATAAATAAATTTGTTATTATATAAT
1 AATAAATAAATTTGTTATTATATAAT
10322245 AAATCATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 7 0.29
26 5 0.21
27 12 0.50
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (27 bp):
AATAAATAAATTTGTTATTATATAATG
Found at i:10322698 original size:27 final size:27
Alignment explanation
Indices: 10322667--10322718 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
10322657 TTAAGGCATG
*
10322667 ATTT-ATTAGTAGAGGATTAAATTTTTA
1 ATTTAATTAGTAGAGCA-TAAATTTTTA
*
10322694 ATTTAATTATTAGAGCATAAATTTT
1 ATTTAATTAGTAGAGCATAAATTTT
10322719 GACAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (27 bp):
ATTTAATTAGTAGAGCATAAATTTTTA
Found at i:10323950 original size:73 final size:73
Alignment explanation
Indices: 10323841--10324311 Score: 335
Period size: 73 Copynumber: 6.5 Consensus size: 73
10323831 GTTGAAAAAA
* * * * *
10323841 ATGATATTTTTAAGCTAAAAATGTAATATTTT-TTGAAAACATGAAAAAATATATTTTTTAAAAT
1 ATGATATTTCTAAGATAAAAACGTAGT-TTTTATTGAAAACATGAAAAAATATATTTTTCAAAAT
10323905 TCAATAAAG
65 TCAATAAAG
* ** * *
10323914 ACT-ATATATCTAAGATAAAAACACAGTTTTTATTGAAAACAT-AAAAAATTATATTTTTTAGAA
1 A-TGATATTTCTAAGATAAAAACGTAGTTTTTATTGAAAACATGAAAAAA-TATATTTTTCAAAA
*
10323977 TTCAATAAAA
64 TTCAATAAAG
* * * * *
10323987 ATGAT-GTTCTTAAAATAAAAACGTAG-TTTTAGTTTAAAATATG-AAATATATATTTTTCAAAA
1 ATGATATTTC-TAAGATAAAAACGTAGTTTTTA-TTGAAAACATGAAAAAATATATTTTTCAAAA
*
10324049 TTAAATAAAG
64 TTCAATAAAG
* * * * * *
10324059 ATGATATTGT-TAAAATAAAAGCATAGTTTTTGTAGAAAACAT-AAAAAATTATATTTTTCAGAA
1 ATGATATT-TCTAAGATAAAAACGTAGTTTTTATTGAAAACATGAAAAAA-TATATTTTTCAAAA
*
10324122 TTCAACAAA-
64 TTCAATAAAG
* * * * * *
10324131 AAGAATATTTTTAAGATAAAAA--T-GCTTTTTGTT--TAACATGAAAAATTATACTTTTCAAAA
1 ATG-ATATTTCTAAGATAAAAACGTAG-TTTTTATTGAAAACATGAAAAAATATATTTTTCAAAA
* *
10324191 -TCAATGAGG
64 TTCAATAAAG
* * * * * * ** *
10324200 ATAAGATTTCTAAGAAAAAAACGTAGTCTTTCTTGAAAATATGAAAATTTATATTTTTTAAAA-T
1 ATGATATTTCTAAGATAAAAACGTAGTTTTTATTGAAAACATGAAAAAATATATTTTTCAAAATT
*
10324264 CTAATAAAA
66 C-AATAAAG
* * *
10324273 ATGATATTTCTAAGATAAAAATGTATTTTTTGTTGAAAA
1 ATGATATTTCTAAGATAAAAACGTAGTTTTTATTGAAAA
10324312 GATAACGTTT
Statistics
Matches: 310, Mismatches: 65, Indels: 46
0.74 0.15 0.11
Matches are distributed among these distances:
68 20 0.06
69 18 0.06
70 13 0.04
71 9 0.03
72 95 0.31
73 153 0.49
74 2 0.01
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (73 bp):
ATGATATTTCTAAGATAAAAACGTAGTTTTTATTGAAAACATGAAAAAATATATTTTTCAAAATT
CAATAAAG
Found at i:10324152 original size:145 final size:146
Alignment explanation
Indices: 10323837--10324152 Score: 383
Period size: 145 Copynumber: 2.2 Consensus size: 146
10323827 CTTTGTTGAA
* * *
10323837 AAAAATGATATTTTTAAGCTAAAAATGTAATATTTTTTGAAAACATGAAAAAATATATTTTTTAA
1 AAAAATGATATTTTTAAGATAAAAACGTAATATTTTTTGAAAACATGAAAAAATATATTTTTCAA
* * *
10323902 AATTCAATAAAGACTATATATCTAAGATAAAAACACAGTTTTTATTGAAAACATAAAAAATTATA
66 AATTAAATAAAGACTATATATCTAAAATAAAAACACAGTTTTTATAGAAAACATAAAAAATTATA
* *
10323967 TTTTTTAGAATTCAAT
131 TTTTTCAGAATTCAAC
* * * * * *
10323983 AAAAATGATGTTCTTAAAATAAAAACGTAGT-TTTAGTTT-AAAATATG-AAATATATATTTTTC
1 AAAAATGATATTTTTAAGATAAAAACGTAATATTT--TTTGAAAACATGAAAAAATATATTTTTC
* * * *
10324045 AAAATTAAATAAAGA-TGATAT-TGTTAAAATAAAAGCATAGTTTTTGTAGAAAACATAAAAAAT
64 AAAATTAAATAAAGACT-ATATAT-CTAAAATAAAAACACAGTTTTTATAGAAAACATAAAAAAT
10324108 TATATTTTTCAGAATTCAAC
127 TATATTTTTCAGAATTCAAC
10324128 AAAAA-GAATATTTTTAAGATAAAAA
1 AAAAATG-ATATTTTTAAGATAAAAA
10324153 TGCTTTTTGT
Statistics
Matches: 144, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
144 3 0.02
145 106 0.74
146 32 0.22
147 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.36
Consensus pattern (146 bp):
AAAAATGATATTTTTAAGATAAAAACGTAATATTTTTTGAAAACATGAAAAAATATATTTTTCAA
AATTAAATAAAGACTATATATCTAAAATAAAAACACAGTTTTTATAGAAAACATAAAAAATTATA
TTTTTCAGAATTCAAC
Found at i:10324620 original size:31 final size:31
Alignment explanation
Indices: 10324582--10324643 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
10324572 AACGTTAAGA
* * *
10324582 TAGTAATTAGAATTGTAAGATTATATTTGTT
1 TAGTAATTAGAATTGCAAAATCATATTTGTT
10324613 TAGTAATTAGAATTGCAAAATCATATTTGTT
1 TAGTAATTAGAATTGCAAAATCATATTTGTT
10324644 GAAAATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (31 bp):
TAGTAATTAGAATTGCAAAATCATATTTGTT
Found at i:10329547 original size:18 final size:18
Alignment explanation
Indices: 10329524--10329558 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
10329514 TGGTCCACAT
10329524 AATACACACTAATTCGAG
1 AATACACACTAATTCGAG
10329542 AATACACACTAATTCGA
1 AATACACACTAATTCGA
10329559 ATATAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.23, G:0.09, T:0.23
Consensus pattern (18 bp):
AATACACACTAATTCGAG
Found at i:10331730 original size:20 final size:20
Alignment explanation
Indices: 10331692--10331729 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
10331682 CTGAATTTGG
10331692 ATTTTTTTAGTTCTTTTTTA
1 ATTTTTTTAGTTCTTTTTTA
10331712 ATTTTTTTAGTT-TTTTTT
1 ATTTTTTTAGTTCTTTTTT
10331730 TTTTTAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.79
Consensus pattern (20 bp):
ATTTTTTTAGTTCTTTTTTA
Found at i:10333181 original size:20 final size:20
Alignment explanation
Indices: 10333129--10333232 Score: 81
Period size: 20 Copynumber: 5.3 Consensus size: 20
10333119 TTTAGGGCTA
* *
10333129 GTTTATGGTCTA-GGTTAGG
1 GTTTAGGGTCTAGGGTTAAG
* **
10333148 GTTTCGGG-CTAGGGTTTTG
1 GTTTAGGGTCTAGGGTTAAG
10333167 GTTTAGGGTCTAGGGTTAAG
1 GTTTAGGGTCTAGGGTTAAG
* * *
10333187 GTTTAGGTTTTAGGATTTAA-
1 GTTTAGGGTCTAGG-GTTAAG
*
10333207 GTTTA-GGTTTAGGGTTTAAG
1 GTTTAGGGTCTAGGG-TTAAG
10333227 GTTTAG
1 GTTTAG
10333233 CATTTAAAGT
Statistics
Matches: 67, Mismatches: 12, Indels: 10
0.75 0.13 0.11
Matches are distributed among these distances:
18 3 0.04
19 29 0.43
20 31 0.46
21 4 0.06
ACGTcount: A:0.17, C:0.04, G:0.36, T:0.43
Consensus pattern (20 bp):
GTTTAGGGTCTAGGGTTAAG
Found at i:10333196 original size:6 final size:6
Alignment explanation
Indices: 10333160--10333232 Score: 56
Period size: 7 Copynumber: 11.2 Consensus size: 6
10333150 TTCGGGCTAG
* * * *
10333160 GGTTTT GGTTTA GGGTCTA GGGTTAA GGTTTA GGTTTTA GGATTTA AGTTTA
1 GGTTTA GGTTTA -GGTTTA -GGTTTA GGTTTA GG-TTTA GG-TTTA GGTTTA
10333212 GGTTTA GGGTTTAA GGTTTA G
1 GGTTTA -GGTTT-A GGTTTA G
10333233 CATTTAAAGT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
6 23 0.42
7 31 0.56
8 1 0.02
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.45
Consensus pattern (6 bp):
GGTTTA
Found at i:10333337 original size:7 final size:7
Alignment explanation
Indices: 10333321--10333357 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
10333311 ACATCTTTGG
*
10333321 TTAGGAT
1 TTAGGGT
10333328 TTAGGGT
1 TTAGGGT
10333335 TTAGGGT
1 TTAGGGT
*
10333342 TTAGAGT
1 TTAGGGT
10333349 TTAGGGT
1 TTAGGGT
10333356 TT
1 TT
10333358 GAATTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (7 bp):
TTAGGGT
Found at i:10335014 original size:30 final size:30
Alignment explanation
Indices: 10334980--10335047 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
10334970 TTCAATCTAG
10334980 TTTGA-TTGATTTTGACTA-ATTTGGACCAAA
1 TTTGACTTGA-TTTGACTAGATTT-GACCAAA
* *
10335010 TTTGACTTTATTTGACTAGATTTGATCAAA
1 TTTGACTTGATTTGACTAGATTTGACCAAA
10335040 TTTGACTT
1 TTTGACTT
10335048 TGGGGCATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 27 0.79
31 7 0.21
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (30 bp):
TTTGACTTGATTTGACTAGATTTGACCAAA
Found at i:10335048 original size:30 final size:30
Alignment explanation
Indices: 10334990--10335048 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
10334980 TTTGATTGAT
10334990 TTTGACTAATTTGGACCAAATTTGACTTTA
1 TTTGACTAATTTGGACCAAATTTGACTTTA
*
10335020 TTTGACTAGATTT-GATCAAATTTGACTTT
1 TTTGACTA-ATTTGGACCAAATTTGACTTT
10335049 GGGGCATTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.46
Consensus pattern (30 bp):
TTTGACTAATTTGGACCAAATTTGACTTTA
Found at i:10335463 original size:40 final size:39
Alignment explanation
Indices: 10335414--10335780 Score: 256
Period size: 40 Copynumber: 9.2 Consensus size: 39
10335404 ATTCGAACGT
* * * *
10335414 CTTGAAAATCATTCAAAAATCTAAAGTTTTGCCTTAAGGA
1 CTTGGAAATCATTTAAAAATCT-AGGTTTTGCCTTAAGGC
*
10335454 CTTGGAAATCATTTAAAAATCTAAGG-TTTGCCTGAAGGC
1 CTTGGAAATCATTTAAAAATCT-AGGTTTTGCCTTAAGGC
* * ** *
10335493 CTTGTAAATCATTAAAAAATCTAAGGGTTTTTTC-TGAGGC
1 CTTGGAAATCATTTAAAAATCT-A-GGTTTTGCCTTAAGGC
* * * **
10335533 CTTGGAAATCCTTTAAAAGTCTAAGTTTTTGCCCAAAGGC
1 CTTGGAAATCATTTAAAAATCT-AGGTTTTGCCTTAAGGC
* * ** *
10335573 ATTGGGAATCATTTAAAAATCCTAGGTTTCACCTGAAGGC
1 CTTGGAAATCATTTAAAAAT-CTAGGTTTTGCCTTAAGGC
* ** *
10335613 CTTGGAAATCATTAAAAAATCTAAGGGTTTTTTC-TGAGGC
1 CTTGGAAATCATTTAAAAATCT-A-GGTTTTGCCTTAAGGC
* * * **
10335653 CTTGGAAATCCTTTAAAAGTCTAAGTTTTTGCCCAAAGGC
1 CTTGGAAATCATTTAAAAATCT-AGGTTTTGCCTTAAGGC
* * ** **
10335693 ATTGGGAATCATTTAAAAATCCTAGGTTTCACCCAAAGGC
1 CTTGGAAATCATTTAAAAAT-CTAGGTTTTGCCTTAAGGC
* **
10335733 CTTGGAAATCATTCAAAAATCTAGGGTTTT-CGGTAGAGGC
1 CTTGGAAATCATTTAAAAATCTA-GGTTTTGCCTTA-AGGC
10335773 CTTGGAAA
1 CTTGGAAA
10335781 ATTTTCAAAA
Statistics
Matches: 258, Mismatches: 59, Indels: 20
0.77 0.18 0.06
Matches are distributed among these distances:
39 52 0.20
40 192 0.74
41 14 0.05
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (39 bp):
CTTGGAAATCATTTAAAAATCTAGGTTTTGCCTTAAGGC
Found at i:10335652 original size:120 final size:120
Alignment explanation
Indices: 10335455--10335780 Score: 532
Period size: 120 Copynumber: 2.7 Consensus size: 120
10335445 CCTTAAGGAC
* * *
10335455 TTGGAAATCATTTAAAAAT-CTAAGGTTT-GCCTGAAGGCCTTGTAAATCATTAAAAAATCTAAG
1 TTGGGAATCATTTAAAAATCCT-AGGTTTCACCTGAAGGCCTTGGAAATCATTAAAAAATCTAAG
10335518 GGTTTTTTCTGAGGCCTTGGAAATCCTTTAAAAGTCTAAGTTTTTGCCCAAAGGCA
65 GGTTTTTTCTGAGGCCTTGGAAATCCTTTAAAAGTCTAAGTTTTTGCCCAAAGGCA
10335574 TTGGGAATCATTTAAAAATCCTAGGTTTCACCTGAAGGCCTTGGAAATCATTAAAAAATCTAAGG
1 TTGGGAATCATTTAAAAATCCTAGGTTTCACCTGAAGGCCTTGGAAATCATTAAAAAATCTAAGG
10335639 GTTTTTTCTGAGGCCTTGGAAATCCTTTAAAAGTCTAAGTTTTTGCCCAAAGGCA
66 GTTTTTTCTGAGGCCTTGGAAATCCTTTAAAAGTCTAAGTTTTTGCCCAAAGGCA
** *
10335694 TTGGGAATCATTTAAAAATCCTAGGTTTCACCCAAAGGCCTTGGAAATCATTCAAAAATCT-AGG
1 TTGGGAATCATTTAAAAATCCTAGGTTTCACCTGAAGGCCTTGGAAATCATTAAAAAATCTAAGG
***
10335758 GTTTTCGGTAGAGGCCTTGGAAA
66 GTTTTTTCT-GAGGCCTTGGAAA
10335781 ATTTTCAAAA
Statistics
Matches: 195, Mismatches: 9, Indels: 5
0.93 0.04 0.02
Matches are distributed among these distances:
119 33 0.17
120 162 0.83
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (120 bp):
TTGGGAATCATTTAAAAATCCTAGGTTTCACCTGAAGGCCTTGGAAATCATTAAAAAATCTAAGG
GTTTTTTCTGAGGCCTTGGAAATCCTTTAAAAGTCTAAGTTTTTGCCCAAAGGCA
Found at i:10335841 original size:120 final size:118
Alignment explanation
Indices: 10335414--10335780 Score: 481
Period size: 120 Copynumber: 3.1 Consensus size: 118
10335404 ATTCGAACGT
* * ** * *
10335414 CTTGAAAATCATTCAAAAATCTAAAG-TTTTGCCTTAAGGACTTGGAAATCATTTAAAAAT-CTA
1 CTTGGAAATC-TTTAAAAATCT-AAGTTTTTGCCCAAAGG-CATGGGAATCATTTAAAAATCCT-
* *
10335477 AGGTTT-GCCTGAAGGCCTTGTAAATCATTAAAAAATCTAAGGGTTTTTTCTGAGGC
62 AGGTTTCACCTGAAGGCCTTGGAAATCATTAAAAAATCTAAGGGTTTTTTCTGAGGC
*
10335533 CTTGGAAATCCTTTAAAAGTCTAAGTTTTTGCCCAAAGGCATTGGGAATCATTTAAAAATCCTAG
1 CTTGGAAAT-CTTTAAAAATCTAAGTTTTTGCCCAAAGGCA-TGGGAATCATTTAAAAATCCTAG
10335598 GTTTCACCTGAAGGCCTTGGAAATCATTAAAAAATCTAAGGGTTTTTTCTGAGGC
64 GTTTCACCTGAAGGCCTTGGAAATCATTAAAAAATCTAAGGGTTTTTTCTGAGGC
*
10335653 CTTGGAAATCCTTTAAAAGTCTAAGTTTTTGCCCAAAGGCATTGGGAATCATTTAAAAATCCTAG
1 CTTGGAAAT-CTTTAAAAATCTAAGTTTTTGCCCAAAGGCA-TGGGAATCATTTAAAAATCCTAG
** * ***
10335718 GTTTCACCCAAAGGCCTTGGAAATCATTCAAAAATCT-AGGGTTTTCGGTAGAGGC
64 GTTTCACCTGAAGGCCTTGGAAATCATTAAAAAATCTAAGGGTTTTTTCT-GAGGC
10335773 CTTGGAAA
1 CTTGGAAA
10335781 ATTTTCAAAA
Statistics
Matches: 227, Mismatches: 15, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
118 4 0.02
119 60 0.26
120 163 0.72
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (118 bp):
CTTGGAAATCTTTAAAAATCTAAGTTTTTGCCCAAAGGCATGGGAATCATTTAAAAATCCTAGGT
TTCACCTGAAGGCCTTGGAAATCATTAAAAAATCTAAGGGTTTTTTCTGAGGC
Found at i:10338084 original size:18 final size:17
Alignment explanation
Indices: 10338035--10338080 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
10338025 TTTTTCCCCT
* *
10338035 TTTTTCTTTTTTTTCAT
1 TTTTTCTTTTCTTTCAC
*
10338052 TTGTTTATTTTCTTTCAC
1 TT-TTTCTTTTCTTTCAC
10338070 TTTTTCTTTTC
1 TTTTTCTTTTC
10338081 CTTTTCTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.07, C:0.15, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTTTCTTTTCTTTCAC
Found at i:10338577 original size:27 final size:27
Alignment explanation
Indices: 10338547--10338602 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
10338537 TTTTTCTTTC
10338547 TTTTCATTC-TTTTAT-TTCATTTTTTAT
1 TTTTCATTCATTTT-TCTTC-TTTTTTAT
**
10338574 TTTTTTTTCATTTTTCTTCTTTTTTAT
1 TTTTCATTCATTTTTCTTCTTTTTTAT
10338601 TT
1 TT
10338603 GCATGCACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (27 bp):
TTTTCATTCATTTTTCTTCTTTTTTAT
Done.