Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 27 of 190
Found at i:4570467 original size:14 final size:14
Alignment explanation
Indices: 4570450--4570505 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
4570440 ATAAAATATT
4570450 AAATATAATATTTA
1 AAATATAATATTTA
* *
4570464 AAATTTAAAAATTTA
1 AAATAT-AATATTTA
*
4570479 TAATATAATATTTA
1 AAATATAATATTTA
*
4570493 AATTATAA-ATTTA
1 AAATATAATATTTA
4570506 TTAATTAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
13 5 0.15
14 18 0.53
15 11 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AAATATAATATTTA
Found at i:4570483 original size:29 final size:27
Alignment explanation
Indices: 4570442--4570515 Score: 89
Period size: 29 Copynumber: 2.7 Consensus size: 27
4570432 AAATTATAAT
4570442 AAAATATTA-AATATAATATTTAAAATTTA
1 AAAAT-TTATAATATAATATTT-AAA-TTA
4570471 AAAATTTATAATATAATATTTAAATTA
1 AAAATTTATAATATAATATTTAAATTA
*
4570498 TAAATTTATTAAT-TAATA
1 AAAATTTA-TAATATAATA
4570516 AAATATTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
27 15 0.36
28 10 0.24
29 17 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATTTATAATATAATATTTAAATTA
Found at i:4570514 original size:27 final size:30
Alignment explanation
Indices: 4570446--4570515 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 30
4570436 TATAATAAAA
4570446 TATTAAATATAATATTTAAAATTTAAAAATT
1 TATT-AATATAATATTTAAAATTTAAAAATT
*
4570477 TA-TAATATAATATTT-AAA-TTATAAATT
1 TATTAATATAATATTTAAAATTTAAAAATT
4570504 TATTAAT-TAATA
1 TATTAATATAATA
4570516 AAATATTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
27 15 0.41
28 7 0.19
29 12 0.32
30 1 0.03
31 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
TATTAATATAATATTTAAAATTTAAAAATT
Found at i:4570606 original size:27 final size:28
Alignment explanation
Indices: 4570576--4570652 Score: 59
Period size: 27 Copynumber: 2.8 Consensus size: 28
4570566 AAAAATAAAA
4570576 ATAAATGTTATATTA-ATTAATATATTT
1 ATAAATGTTATATTATATTAATATATTT
* *** * *
4570603 ATAATTCAAATGTTACATTAA-ATATTT
1 ATAAATGTTATATTATATTAATATATTT
*
4570630 TTAAAATGTATATATTATATTAA
1 AT-AAATGT-TATATTATATTAA
4570653 CTATTTACTT
Statistics
Matches: 35, Mismatches: 12, Indels: 4
0.69 0.24 0.08
Matches are distributed among these distances:
27 17 0.49
28 8 0.23
29 10 0.29
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (28 bp):
ATAAATGTTATATTATATTAATATATTT
Found at i:4570651 original size:29 final size:28
Alignment explanation
Indices: 4570578--4570774 Score: 77
Period size: 29 Copynumber: 6.9 Consensus size: 28
4570568 AAATAAAAAT
*
4570578 AAATGT-TATATTAATT-AATATATTTA
1 AAATGTATATATTAATTAAATATTTTTA
* * *
4570604 TAAT-TCAAATGTTACATTAAATATTTTTA
1 AAATGT-ATATATTA-ATTAAATATTTTTA
*
4570633 AAATGTATATATTATATTAACTATTTACTTA
1 AAATGTATATATTA-ATTAAATATTT--TTA
* * * * ****
4570664 TTATCATTTA-AAATTAATGAAAATAAAAATA
1 --A-AATGTATATATTAAT-TAAATATTTTTA
*
4570695 -AATGT-TATATTAATT-AATATATTTA
1 AAATGTATATATTAATTAAATATTTTTA
* *
4570720 TAAT-TCAAATATTATATTAAATATTTTTA
1 AAATGT-ATATATTA-ATTAAATATTTTTA
*
4570749 AAATGTATATATTATATTAAAAATTT
1 AAATGTATATATTA-ATTAAATATTT
4570775 CAATATAATT
Statistics
Matches: 123, Mismatches: 30, Indels: 33
0.66 0.16 0.18
Matches are distributed among these distances:
25 9 0.07
26 6 0.05
27 21 0.17
28 6 0.05
29 58 0.47
30 2 0.02
31 5 0.04
32 2 0.02
33 10 0.08
34 4 0.03
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (28 bp):
AAATGTATATATTAATTAAATATTTTTA
Found at i:4570673 original size:116 final size:116
Alignment explanation
Indices: 4570541--4570768 Score: 429
Period size: 116 Copynumber: 2.0 Consensus size: 116
4570531 TATTTATCCA
4570541 TTACTTATTATCATTTAAAATTAATAAAAATAAAAATAAATGTTATATTAATTAATATATTTATA
1 TTACTTATTATCATTTAAAATTAATAAAAATAAAAATAAATGTTATATTAATTAATATATTTATA
*
4570606 ATTCAAATGTTACATTAAATATTTTTAAAATGTATATATTATATTAACTAT
66 ATTCAAATATTACATTAAATATTTTTAAAATGTATATATTATATTAACTAT
*
4570657 TTACTTATTATCATTTAAAATTAATGAAAATAAAAATAAATGTTATATTAATTAATATATTTATA
1 TTACTTATTATCATTTAAAATTAATAAAAATAAAAATAAATGTTATATTAATTAATATATTTATA
*
4570722 ATTCAAATATTATATTAAATATTTTTAAAATGTATATATTATATTAA
66 ATTCAAATATTACATTAAATATTTTTAAAATGTATATATTATATTAA
4570769 AAATTTCAAT
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 109 1.00
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.46
Consensus pattern (116 bp):
TTACTTATTATCATTTAAAATTAATAAAAATAAAAATAAATGTTATATTAATTAATATATTTATA
ATTCAAATATTACATTAAATATTTTTAAAATGTATATATTATATTAACTAT
Found at i:4570722 original size:27 final size:28
Alignment explanation
Indices: 4570692--4570768 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 28
4570682 GAAAATAAAA
4570692 ATAAATGTTATATTA-ATTAATATATTT
1 ATAAATGTTATATTATATTAATATATTT
* ***
4570719 ATAATTCAAATATTATATTAA-ATATTT
1 ATAAATGTTATATTATATTAATATATTT
*
4570746 TTAAAATGTATATATTATATTAA
1 AT-AAATGT-TATATTATATTAA
4570769 AAATTTCAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
27 18 0.47
28 8 0.21
29 12 0.32
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (28 bp):
ATAAATGTTATATTATATTAATATATTT
Found at i:4571470 original size:14 final size:15
Alignment explanation
Indices: 4571451--4571513 Score: 65
Period size: 14 Copynumber: 4.0 Consensus size: 15
4571441 TATTTGTTAG
4571451 ATTTATTTATTTA-A
1 ATTTATTTATTTATA
*
4571465 ATTTATTTAATTATA
1 ATTTATTTATTTATA
4571480 ATTTATTTATTATTTATAA
1 ATTTA--T-TTATTTAT-A
*
4571499 ATATATTTATTTATA
1 ATTTATTTATTTATA
4571514 TATATTCATT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
14 12 0.29
15 7 0.17
16 8 0.20
17 2 0.05
18 7 0.17
19 5 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTATTTATTTATA
Found at i:4571489 original size:19 final size:20
Alignment explanation
Indices: 4571465--4571511 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
4571455 ATTTATTTAA
*
4571465 ATTTATTTAATTAT-AATTT
1 ATTTATTTAATTATAAATAT
*
4571484 ATTTA-TTATTTATAAATAT
1 ATTTATTTAATTATAAATAT
4571503 ATTTATTTA
1 ATTTATTTA
4571512 TATATATTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 7 0.29
19 14 0.58
20 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTATTTAATTATAAATAT
Found at i:4571518 original size:14 final size:14
Alignment explanation
Indices: 4571451--4571529 Score: 55
Period size: 14 Copynumber: 6.0 Consensus size: 14
4571441 TATTTGTTAG
* *
4571451 ATTTATTTATTTAA
1 ATTTATTTATATAT
4571465 ATTTATTTA-ATTAT
1 ATTTATTTATA-TAT
4571479 AATTTA-TT-TAT-T
1 -ATTTATTTATATAT
*
4571491 ATTTA--TAAATAT
1 ATTTATTTATATAT
4571503 ATTTATTTATATAT
1 ATTTATTTATATAT
*
4571517 ATTCATTTA-ATAT
1 ATTTATTTATATAT
4571530 TTATGAATGA
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
10 1 0.02
11 7 0.13
12 7 0.13
13 5 0.09
14 28 0.53
15 5 0.09
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTTATTTATATAT
Found at i:4571863 original size:3 final size:3
Alignment explanation
Indices: 4571855--4571912 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
4571845 TACCCTGCAT
4571855 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4571903 TTA TTA TTA T
1 TTA TTA TTA T
4571913 CAATTGATTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4573983 original size:2 final size:2
Alignment explanation
Indices: 4573976--4574001 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4573966 CGGTTTTAGA
4573976 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4574002 TGTAGATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4575431 original size:20 final size:21
Alignment explanation
Indices: 4575396--4575437 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
4575386 ATTAAAATAG
4575396 ATTTAATTTTGGTATT-TAAA
1 ATTTAATTTTGGTATTATAAA
**
4575416 ATTTAATTTTTTTATTATAAA
1 ATTTAATTTTGGTATTATAAA
4575437 A
1 A
4575438 AATATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTTAATTTTGGTATTATAAA
Found at i:4583409 original size:16 final size:16
Alignment explanation
Indices: 4583388--4583421 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4583378 ACAATTAATC
* *
4583388 AATTTTTATTTAATAA
1 AATTTTAATTGAATAA
4583404 AATTTTAATTGAATAA
1 AATTTTAATTGAATAA
4583420 AA
1 AA
4583422 ATAAACATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
AATTTTAATTGAATAA
Found at i:4584401 original size:15 final size:16
Alignment explanation
Indices: 4584376--4584406 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4584366 CAAACCCCAC
4584376 TTAATTATATATTTTA
1 TTAATTATATATTTTA
4584392 TTAA-TATATATTTTA
1 TTAATTATATATTTTA
4584407 AATTCTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTAATTATATATTTTA
Found at i:4584460 original size:20 final size:21
Alignment explanation
Indices: 4584435--4584475 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
4584425 ATAATTATTT
* *
4584435 TATATTTAAATTTAT-TTAAA
1 TATATTAAAAATTATATTAAA
4584455 TATATTAAAAATTATATTAAA
1 TATATTAAAAATTATATTAAA
4584476 ATAATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTAAAAATTATATTAAA
Found at i:4589700 original size:8 final size:8
Alignment explanation
Indices: 4589686--4589741 Score: 53
Period size: 8 Copynumber: 7.1 Consensus size: 8
4589676 ATTTCGTGTG
4589686 AATTTAAT
1 AATTTAAT
*
4589694 TATTTAAT
1 AATTTAAT
*
4589702 TATATT-AT
1 AAT-TTAAT
*
4589710 AATTTAGT
1 AATTTAAT
4589718 AATTT-AT
1 AATTTAAT
*
4589725 TATTTAAT
1 AATTTAAT
4589733 AATTTAAT
1 AATTTAAT
4589741 A
1 A
4589742 TAGTATTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
7 7 0.18
8 30 0.77
9 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (8 bp):
AATTTAAT
Found at i:4589729 original size:15 final size:15
Alignment explanation
Indices: 4589686--4589738 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
4589676 ATTTCGTGTG
4589686 AATTTAATTATTTAAT
1 AATTT-ATTATTTAAT
* * *
4589702 TATATTATAATTTAGT
1 AAT-TTATTATTTAAT
4589718 AATTTATTATTTAAT
1 AATTTATTATTTAAT
4589733 AATTTA
1 AATTTA
4589739 ATATAGTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
15 16 0.53
16 12 0.40
17 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
AATTTATTATTTAAT
Found at i:4589740 original size:28 final size:32
Alignment explanation
Indices: 4589686--4589764 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 32
4589676 ATTTCGTGTG
*
4589686 AATTTAATTATTTAATTATATTATAATTTAGT
1 AATTTAATTATTTAATTATATTATAATATAGT
4589718 AATTT-ATTATTTAA-TA-ATT-TAATATAGT
1 AATTTAATTATTTAATTATATTATAATATAGT
* *
4589746 -ATTTAATTATATAAATATA
1 AATTTAATTATTTAATTATA
4589765 ATATTTAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
27 4 0.10
28 16 0.38
29 5 0.12
30 3 0.07
31 9 0.21
32 5 0.12
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (32 bp):
AATTTAATTATTTAATTATATTATAATATAGT
Found at i:4589764 original size:21 final size:20
Alignment explanation
Indices: 4589687--4589775 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 20
4589677 TTTCGTGTGA
*
4589687 ATTTAATTATTTAAT-T-AT
1 ATTTAATTATTAAATATAAT
* * *
4589705 ATTATAATTTAGT-AATTTATT
1 ATT-TAA-TTATTAAATATAAT
* * *
4589726 ATTTAATAATTTAATATAGT
1 ATTTAATTATTAAATATAAT
4589746 ATTTAATTATATAAATATAAT
1 ATTTAATTAT-TAAATATAAT
4589767 ATTTAATTA
1 ATTTAATTA
4589776 AATTTATAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
18 3 0.05
19 9 0.16
20 23 0.41
21 21 0.38
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTTAATTATTAAATATAAT
Found at i:4590129 original size:37 final size:37
Alignment explanation
Indices: 4590088--4590160 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
4590078 TGATTAACTA
**
4590088 AAATATCTTAATCTAAATA-TTCTAAGTAAAATAATCT
1 AAATATCCGAATCTAAATATTTC-AAGTAAAATAATCT
4590125 AAATATCCGAATCTAAATATTTCAAGTAAAATAATC
1 AAATATCCGAATCTAAATATTTCAAGTAAAATAATC
4590161 AAACTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 30 0.91
38 3 0.09
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.34
Consensus pattern (37 bp):
AAATATCCGAATCTAAATATTTCAAGTAAAATAATCT
Found at i:4590596 original size:30 final size:26
Alignment explanation
Indices: 4590561--4590629 Score: 75
Period size: 30 Copynumber: 2.4 Consensus size: 26
4590551 GAATGAACAT
4590561 TAAATTAATTATTGATAAATTAAAAAAAA
1 TAAATTAATTATTG-T-AATT-AAAAAAA
*
4590590 TAAAATTATTATAATTGTAATTAAAAAAA
1 T-AAATTA--ATTATTGTAATTAAAAAAA
4590619 TAAATTAATTA
1 TAAATTAATTA
4590630 AGTGAGCTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
26 3 0.09
28 6 0.17
29 9 0.26
30 10 0.29
31 1 0.03
32 6 0.17
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (26 bp):
TAAATTAATTATTGTAATTAAAAAAA
Found at i:4600478 original size:13 final size:14
Alignment explanation
Indices: 4600442--4600475 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4600432 TGTTTTGTAG
4600442 AAAATAATTTTTAA
1 AAAATAATTTTTAA
* *
4600456 AAAATGATTTTTGA
1 AAAATAATTTTTAA
4600470 AAAATA
1 AAAATA
4600476 TTTGTATGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (14 bp):
AAAATAATTTTTAA
Found at i:4600626 original size:25 final size:26
Alignment explanation
Indices: 4600597--4600662 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 26
4600587 TTAATATAAC
*
4600597 TATTAGAATATTAAGAA-TTATTTAT
1 TATTAAAATATTAAGAAGTTATTTAT
*
4600622 TATTAAAATA-TATTGAAGTTATTTAT
1 TATTAAAATATTA-AGAAGTTATTTAT
4600648 TATTAAAATTATTAA
1 TATTAAAA-TATTAA
4600663 TATTAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 2 0.06
25 12 0.35
26 16 0.47
27 2 0.06
28 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (26 bp):
TATTAAAATATTAAGAAGTTATTTAT
Found at i:4600782 original size:23 final size:23
Alignment explanation
Indices: 4600756--4600884 Score: 99
Period size: 23 Copynumber: 5.5 Consensus size: 23
4600746 ATTATTCTTT
4600756 ATATTATTTATTAATATATTATA
1 ATATTATTTATTAATATATTATA
4600779 ATATTATTTATTAATA-ATTTATA
1 ATATTATTTATTAATATA-TTATA
4600802 ATA-TATTATATTAATAATATT-TA
1 ATATTATT-TATTAAT-ATATTATA
* *
4600825 TTTATTATATATATTAA-AT-TAATA
1 -ATATTAT-T-TATTAATATATTATA
* *
4600849 GATTTTAATTTATTTAT-TAATTATA
1 -ATATT-ATTTATTAATAT-ATTATA
4600874 ATATTATTTAT
1 ATATTATTTAT
4600885 AAGTAAAATT
Statistics
Matches: 86, Mismatches: 8, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
22 5 0.06
23 46 0.53
24 17 0.20
25 10 0.12
26 8 0.09
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.57
Consensus pattern (23 bp):
ATATTATTTATTAATATATTATA
Found at i:4600840 original size:31 final size:33
Alignment explanation
Indices: 4600797--4600862 Score: 93
Period size: 31 Copynumber: 2.1 Consensus size: 33
4600787 TATTAATAAT
*
4600797 TTATAATATATTATATTAATA-ATATTT-ATTTA
1 TTATAATATATTAAATTAATAGAT-TTTAATTTA
4600829 TTAT-ATATATTAAATTAATAGATTTTAATTTA
1 TTATAATATATTAAATTAATAGATTTTAATTTA
4600861 TT
1 TT
4600863 TATTAATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 18 0.58
32 13 0.42
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (33 bp):
TTATAATATATTAAATTAATAGATTTTAATTTA
Found at i:4607728 original size:2 final size:2
Alignment explanation
Indices: 4607716--4607760 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
4607706 AACATCATCC
* * *
4607716 TA TA AA TA TA TA TA TG TG TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4607758 TA T
1 TA T
4607761 TTGTAAGAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4610738 original size:20 final size:19
Alignment explanation
Indices: 4610715--4610759 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
4610705 GAAACTAATT
4610715 AAAAAAAGCAAAA-ACAATAA
1 AAAAAAAG-AAAAGACAA-AA
*
4610735 AAAAACAGAAAAGACAAAA
1 AAAAAAAGAAAAGACAAAA
4610754 AAAAAA
1 AAAAAA
4610760 TGGAGTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.82, C:0.09, G:0.07, T:0.02
Consensus pattern (19 bp):
AAAAAAAGAAAAGACAAAA
Found at i:4613588 original size:24 final size:25
Alignment explanation
Indices: 4613551--4613597 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
4613541 TCATATGTAG
*
4613551 TAATTAAATGATAAAT-ATTAATTT
1 TAATTAAATAATAAATAATTAATTT
*
4613575 TAATTTAATAATAAATAATTAAT
1 TAATTAAATAATAAATAATTAAT
4613598 ATTTTCAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
TAATTAAATAATAAATAATTAATTT
Found at i:4618717 original size:19 final size:19
Alignment explanation
Indices: 4618658--4618717 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
4618648 TATAAAACGG
**
4618658 TAAAATAATAAATTTTTAAT
1 TAAAATAATAAA-AATTAAT
4618678 TAAAATAATAAAAA-TACAT
1 TAAAATAATAAAAATTA-AT
*
4618697 TAAAAT-TTAAAAACTTAAT
1 TAAAATAATAAAAA-TTAAT
4618716 TA
1 TA
4618718 GGCTCGCGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 8 0.24
19 12 0.35
20 14 0.41
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAAATAATAAAAATTAAT
Found at i:4622205 original size:16 final size:16
Alignment explanation
Indices: 4622180--4622210 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4622170 AAAAATAATA
*
4622180 ATGATGATTTATGATG
1 ATGATAATTTATGATG
4622196 ATGATAATTTATGAT
1 ATGATAATTTATGAT
4622211 AATTTTAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.45
Consensus pattern (16 bp):
ATGATAATTTATGATG
Found at i:4622393 original size:25 final size:25
Alignment explanation
Indices: 4622344--4622394 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
4622334 ATGATATTTG
*
4622344 AAATATTTTAACATTATGATTTGAT
1 AAATATTTTAACATTATGATATGAT
4622369 AAATATTTTGAACAATT-T-ATATGAT
1 AAATATTTT-AAC-ATTATGATATGAT
4622394 A
1 A
4622395 TGTACGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 16 0.70
26 4 0.17
27 3 0.13
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (25 bp):
AAATATTTTAACATTATGATATGAT
Found at i:4622922 original size:26 final size:26
Alignment explanation
Indices: 4622890--4622946 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
4622880 AATATATTTT
* * *
4622890 TAAAAATAT-TTCAAATCTATTAATAA
1 TAAAAATATATGCAAATATA-TAACAA
4622916 TAAAAATATATGCAAATATATAACAA
1 TAAAAATATATGCAAATATATAACAA
4622942 TAAAA
1 TAAAA
4622947 TTTACAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 19 0.70
27 8 0.30
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.32
Consensus pattern (26 bp):
TAAAAATATATGCAAATATATAACAA
Found at i:4624869 original size:12 final size:12
Alignment explanation
Indices: 4624849--4624911 Score: 65
Period size: 12 Copynumber: 5.2 Consensus size: 12
4624839 ACTTTTTGAT
4624849 TAAATAATAAAAC
1 TAAA-AATAAAAC
*
4624862 TAAAAATAAAAA
1 TAAAAATAAAAC
* *
4624874 TAAAAATTAATC
1 TAAAAATAAAAC
*
4624886 -CAAAATATAAAC
1 TAAAAATA-AAAC
4624898 TAAAAATAAAAC
1 TAAAAATAAAAC
4624910 TA
1 TA
4624912 CAAAGGAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
11 5 0.12
12 25 0.62
13 10 0.25
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (12 bp):
TAAAAATAAAAC
Found at i:4625478 original size:23 final size:23
Alignment explanation
Indices: 4625443--4625490 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
4625433 GTTTTTGATA
4625443 AAAATATATAATTCTA-ATTAATTT
1 AAAATATATAATT-TATATT-ATTT
4625467 AAAATA-ATAATTTATATTATTT
1 AAAATATATAATTTATATTATTT
4625489 AA
1 AA
4625491 TAAAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.35
23 9 0.39
24 6 0.26
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
AAAATATATAATTTATATTATTT
Found at i:4634462 original size:38 final size:38
Alignment explanation
Indices: 4634420--4634494 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
4634410 AGCCCAATTG
4634420 AAATATGTTAAATC-TTTATATTTGAAATTTGAAATTTA
1 AAATATGTTAAA-CATTTATATTTGAAATTTGAAATTTA
*
4634458 AAATATGTTTAACATTTATATTTGAAATTTGAAATTT
1 AAATATGTTAAACATTTATATTTGAAATTTGAAATTT
4634495 TTAAAATTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 1 0.03
38 34 0.97
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (38 bp):
AAATATGTTAAACATTTATATTTGAAATTTGAAATTTA
Found at i:4635143 original size:6 final size:7
Alignment explanation
Indices: 4635118--4635142 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4635108 TTTTTTTTTT
4635118 TTTTTCA
1 TTTTTCA
4635125 TTTTTCA
1 TTTTTCA
4635132 TTTTTCA
1 TTTTTCA
4635139 TTTT
1 TTTT
4635143 CTTTCTCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCA
Found at i:4636628 original size:20 final size:20
Alignment explanation
Indices: 4636567--4636643 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 20
4636557 CGACCTGACT
4636567 TATTATATATATAATTATTTTTA
1 TATT-TATATAT-A-TATTTTTA
* * * * *
4636590 AAATTATTTATTTAATTTTA
1 TATTTATATATATATTTTTA
4636610 TATTTATATATATATTTTTA
1 TATTTATATATATATTTTTA
4636630 -ATTT-TATATATATT
1 TATTTATATATATATT
4636644 AAAAATATTT
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
18 10 0.23
19 4 0.09
20 22 0.50
22 6 0.14
23 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTATATATATATTTTTA
Found at i:4636653 original size:20 final size:18
Alignment explanation
Indices: 4636630--4636667 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
4636620 TATATTTTTA
4636630 ATTTTATATATATTAAAAAT
1 ATTTTATAT-T-TTAAAAAT
4636650 ATTTTATATTTTAAAAAT
1 ATTTTATATTTTAAAAAT
4636668 TAATATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 1 0.06
20 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTATATTTTAAAAAT
Found at i:4636804 original size:32 final size:32
Alignment explanation
Indices: 4636708--4636792 Score: 91
Period size: 32 Copynumber: 2.7 Consensus size: 32
4636698 ATATAATTTT
* * *
4636708 ATATAATATTAAATTAAATTCAAATATAAAAA
1 ATATAAAATTAAATCAAATTCAAATATAATAA
* * * *
4636740 ATAAAAAAATT-TATCAAATTCTAATATTATAA
1 AT-ATAAAATTAAATCAAATTCAAATATAATAA
4636772 ATATAAAATTAAATCAAATTC
1 ATATAAAATTAAATCAAATTC
4636793 GATATCAATA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
31 7 0.17
32 29 0.69
33 6 0.14
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (32 bp):
ATATAAAATTAAATCAAATTCAAATATAATAA
Found at i:4638368 original size:3 final size:3
Alignment explanation
Indices: 4638360--4638526 Score: 139
Period size: 3 Copynumber: 57.7 Consensus size: 3
4638350 GGATCAATTT
* * * * * * *
4638360 TTA TTA TTA CTA TTA CTA TTG TTA TTT TTG TTA TTA GTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
4638408 TTG CTA TTA TTG TTA TTA TTA CTA GTA CTA -TA TTA TTA -TA GTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
4638453 GTA -AA TTA -CA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4638498 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4638527 TACTTTATTT
Statistics
Matches: 132, Mismatches: 26, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
2 10 0.08
3 122 0.92
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:4639295 original size:31 final size:33
Alignment explanation
Indices: 4639257--4639327 Score: 94
Period size: 31 Copynumber: 2.2 Consensus size: 33
4639247 TTTTTTTCCT
4639257 TTTATTTATATTATTTTA-T-ATTTTAAGT-TTA
1 TTTATTTATATTATTTTACTGATTTT-AGTATTA
* *
4639288 TTTATTTATTTTATTTTACTGATTTTATTATTA
1 TTTATTTATATTATTTTACTGATTTTAGTATTA
4639321 TTTATTT
1 TTTATTT
4639328 GTTGAGTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 17 0.49
32 3 0.09
33 15 0.43
ACGTcount: A:0.25, C:0.01, G:0.03, T:0.70
Consensus pattern (33 bp):
TTTATTTATATTATTTTACTGATTTTAGTATTA
Found at i:4639305 original size:14 final size:14
Alignment explanation
Indices: 4639256--4639327 Score: 60
Period size: 14 Copynumber: 5.2 Consensus size: 14
4639246 TTTTTTTTCC
4639256 TTTTA-TTTATATTA
1 TTTTATTTTAT-TTA
* *
4639270 TTTTATATT-TTAA
1 TTTTATTTTATTTA
*
4639283 GTTTA-TTTATTTA
1 TTTTATTTTATTTA
* *
4639296 TTTTATTTTACTGA
1 TTTTATTTTATTTA
4639310 TTTTATTATTATTTA
1 TTTTATT-TTATTTA
4639325 TTT
1 TTT
4639328 GTTGAGTAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
12 2 0.05
13 13 0.30
14 19 0.43
15 10 0.23
ACGTcount: A:0.25, C:0.01, G:0.03, T:0.71
Consensus pattern (14 bp):
TTTTATTTTATTTA
Found at i:4640711 original size:15 final size:14
Alignment explanation
Indices: 4640682--4640722 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
4640672 TGTAAACTTA
4640682 TGTATTATCTTTTT
1 TGTATTATCTTTTT
4640696 TGTATGTAT-TTTTT
1 TGTAT-TATCTTTTT
4640710 T-TATTAATCTTTT
1 TGTATT-ATCTTTT
4640723 ATGTTGGTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 1 0.04
13 5 0.21
14 15 0.62
15 3 0.12
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.71
Consensus pattern (14 bp):
TGTATTATCTTTTT
Found at i:4641715 original size:19 final size:19
Alignment explanation
Indices: 4641673--4641715 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
4641663 AGAAGGTGGA
4641673 AAAAACCTAGGAAAATTTC
1 AAAAACCTAGGAAAATTTC
*
4641692 GAAAACCTAGGAAAATTTC
1 AAAAACCTAGGAAAATTTC
4641711 AAAAA
1 AAAAA
4641716 AAAGTTGAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.56, C:0.14, G:0.12, T:0.19
Consensus pattern (19 bp):
AAAAACCTAGGAAAATTTC
Found at i:4642449 original size:34 final size:34
Alignment explanation
Indices: 4642373--4642450 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
4642363 TGTTAGCGAC
* * * * *
4642373 ATTTGTATATGGAAAATGTCGCTATATTAGCATT
1 ATTTGTATTTAGAAAATGCCACTATATTAGCAAT
* *
4642407 GTTTGTATTTAGAAAATGCCACTATTTTAGCAAT
1 ATTTGTATTTAGAAAATGCCACTATATTAGCAAT
4642441 ATTTGTATTT
1 ATTTGTATTT
4642451 TTGAAACACC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (34 bp):
ATTTGTATTTAGAAAATGCCACTATATTAGCAAT
Found at i:4646626 original size:62 final size:60
Alignment explanation
Indices: 4646548--4646727 Score: 182
Period size: 62 Copynumber: 2.9 Consensus size: 60
4646538 TACAAAAAAA
*
4646548 GGATTATTTAAGGTGTTTCAGGCAAAAAATACTTTGAATAATCCTCTTAAATTTTTTA-GAAG
1 GGATTATTGAAGGTGTTTCAGGCAAAAAATACTTT-AATAAT-CTCTTAAATTTTTTATG-AG
* * ** * **
4646610 GGATTATTGAATGTGTTTTCTGTAAAAAAATACCTTTAATAATTTCTTTTATTTTTTATGAG
1 GGATTATTGAAGGTG-TTTCAGGCAAAAAATA-CTTTAATAATCTCTTAAATTTTTTATGAG
** *
4646672 GGAATTATTGAAGGCATTTCAGGCAAAAAATGCTTTCAATAATCTCATTAAATTTT
1 GG-ATTATTGAAGGTGTTTCAGGCAAAAAATACTTT-AATAATCTC-TTAAATTTT
4646728 GATAAAGAGA
Statistics
Matches: 94, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
61 4 0.04
62 49 0.52
63 37 0.39
64 4 0.04
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.42
Consensus pattern (60 bp):
GGATTATTGAAGGTGTTTCAGGCAAAAAATACTTTAATAATCTCTTAAATTTTTTATGAG
Found at i:4646875 original size:62 final size:62
Alignment explanation
Indices: 4646736--4646939 Score: 189
Period size: 61 Copynumber: 3.3 Consensus size: 62
4646726 TTGATAAAGA
** * ** **
4646736 GATTATTGGAGGTATTTTTGATCAAAAACGCCTTTAATAATTCTTTTCAATTTTTTAGAG-G
1 GATTATTAAAGGTATTTTTTATCAAAAATACCTTTAATAATTCCCTTCAATTTTTTAGAGAG
*** * * *
4646797 GATTATTTTTGATATTTTTTATCAAAAATACCTTCAATAATCCCCTTCAATTTTTTAGAGAG
1 GATTATTAAAGGTATTTTTTATCAAAAATACCTTTAATAATTCCCTTCAATTTTTTAGAGAG
* * * * *
4646859 GATTATTAAAGGTATTTTCTATAAAAAAATACGTTTAATAATTTCCTTC-ATTTTTTATGA-ACA
1 GATTATTAAAGGTATTTTTTAT-CAAAAATACCTTTAATAATTCCCTTCAATTTTTTA-GAGA-G
*
4646922 GATTATTAAAGGCATTTT
1 GATTATTAAAGGTATTTT
4646940 AGGCAAAAAA
Statistics
Matches: 116, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
61 49 0.42
62 27 0.23
63 40 0.34
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (62 bp):
GATTATTAAAGGTATTTTTTATCAAAAATACCTTTAATAATTCCCTTCAATTTTTTAGAGAG
Found at i:4646907 original size:63 final size:62
Alignment explanation
Indices: 4646571--4646915 Score: 203
Period size: 62 Copynumber: 5.6 Consensus size: 62
4646561 TGTTTCAGGC
* * * * *
4646571 AAAAAATA-CTTTGAATAA-TCCTCTTAAATTTTTTAGA-AGGGATTATTGAATGTGTTTTCTGT
1 AAAAAATACCTTT-AATAATTTC-CTTCAATTTTTTAGAGA-GGATTATTGAAGGTATTTTCTAT
** *
4646633 AAAAAAATACCTTTAATAATTT-CTTTTATTTTTTATGAG-GGAATTATTGAAGGCA-TTTC-AG
1 -AAAAAATACCTTTAATAATTTCCTTCAATTTTTTA-GAGAGG-ATTATTGAAGGTATTTTCTA-
*
4646694 GC
62 -T
* * * * * * *
4646696 AAAAAAT-GCTTTCAATAATCTCATTAAATTTTGATAAAGA-GATTATTGGAGGTATTTT-TGAT
1 AAAAAATACCTTT-AATAATTTCCTTCAATTTT-TTAGAGAGGATTATTGAAGGTATTTTCT-AT
* ** * *** * *
4646758 CAAAAACGCCTTTAATAA-TTCTTTTCAATTTTTTAGAG-GGATTATTTTTGATATTTTTTAT
1 AAAAAATACCTTTAATAATTTC-CTTCAATTTTTTAGAGAGGATTATTGAAGGTATTTTCTAT
* * ** *
4646819 CAAAAATACCTTCAATAATCCCCTTCAATTTTTTAGAGAGGATTATTAAAGGTATTTTCTAT
1 AAAAAATACCTTTAATAATTTCCTTCAATTTTTTAGAGAGGATTATTGAAGGTATTTTCTAT
*
4646881 AAAAAAATACGTTTAATAATTTCCTTC-ATTTTTTA
1 -AAAAAATACCTTTAATAATTTCCTTCAATTTTTTA
4646916 TGAACAGATT
Statistics
Matches: 215, Mismatches: 46, Indels: 43
0.71 0.15 0.14
Matches are distributed among these distances:
61 56 0.26
62 88 0.41
63 63 0.29
64 8 0.04
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (62 bp):
AAAAAATACCTTTAATAATTTCCTTCAATTTTTTAGAGAGGATTATTGAAGGTATTTTCTAT
Found at i:4646926 original size:63 final size:63
Alignment explanation
Indices: 4646820--4646964 Score: 159
Period size: 63 Copynumber: 2.3 Consensus size: 63
4646810 ATTTTTTATC
* *
4646820 AAAAATACCTTCAATAATCCCCTTCAATTTTTTAGAGAGGATTATTAAAGGTATTTTCTATAA
1 AAAAATACCTTCAATAATCCCCTTCAATTTTTTAGAGAAGATTATTAAAGGCATTTTCTATAA
* * ** ****
4646883 AAAAATACGTTTAATAATTTCCTTC-ATTTTTTATGA-ACAGATTATTAAAGGCATTTTAGGCAA
1 AAAAATACCTTCAATAATCCCCTTCAATTTTTTA-GAGA-AGATTATTAAAGGCATTTTCTATAA
*
4646946 AAAAATACCTTGAATAATC
1 AAAAATACCTTCAATAATC
4646965 TACTCATAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
62 9 0.13
63 58 0.87
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (63 bp):
AAAAATACCTTCAATAATCCCCTTCAATTTTTTAGAGAAGATTATTAAAGGCATTTTCTATAA
Found at i:4647924 original size:20 final size:20
Alignment explanation
Indices: 4647899--4647942 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
4647889 GGTGATGAAT
4647899 TTTATATGGATAGAAAGCCC
1 TTTATATGGATAGAAAGCCC
4647919 TTTATATGGATAGAAAGCCC
1 TTTATATGGATAGAAAGCCC
4647939 TTTA
1 TTTA
4647943 AGTCTAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (20 bp):
TTTATATGGATAGAAAGCCC
Found at i:4649115 original size:64 final size:62
Alignment explanation
Indices: 4648933--4649115 Score: 181
Period size: 64 Copynumber: 2.9 Consensus size: 62
4648923 AAAAATGCCC
* * * * *
4648933 TCAATAATCCTTTACAATTTTTTAGGAG-A-ATTATTGAAGGTATTTTTTGTAAAAAAACACCT
1 TCAATAATCCCTT-CTATTTTTTATGAGAAGATTATTGAAGGCATTTTTTAT-AAAAAACACCT
** * * * * * **
4648995 TCAATAATTGCTTCTATTTTTTATGAAAAGATTATTCAAAGCATTGTCTACCAAAAACACCT
1 TCAATAATCCCTTCTATTTTTTATGAGAAGATTATTGAAGGCATTTTTTATAAAAAACACCT
*
4649057 TCAATAATCCCCTATCTATTTTTTATGAGAAGATTATTGAAGGCGTTTTTTATAAAAAA
1 TCAATAAT-CCCT-TCTATTTTTTATGAGAAGATTATTGAAGGCATTTTTTATAAAAAA
4649116 AAATGCCTTA
Statistics
Matches: 93, Mismatches: 24, Indels: 6
0.76 0.20 0.05
Matches are distributed among these distances:
61 11 0.12
62 29 0.31
63 16 0.17
64 37 0.40
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (62 bp):
TCAATAATCCCTTCTATTTTTTATGAGAAGATTATTGAAGGCATTTTTTATAAAAAACACCT
Found at i:4650695 original size:9 final size:9
Alignment explanation
Indices: 4650658--4650708 Score: 59
Period size: 9 Copynumber: 5.6 Consensus size: 9
4650648 ATTTTTCTTT
*
4650658 AAAAATGAT
1 AAAAATGAA
4650667 AAAAATGAA
1 AAAAATGAA
*
4650676 AAAACA-AAA
1 AAAA-ATGAA
4650685 AAAAATGAA
1 AAAAATGAA
4650694 AAAAATGAA
1 AAAAATGAA
4650703 AGAAAA
1 A-AAAA
4650709 ATTGATAGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
8 1 0.03
9 30 0.83
10 5 0.14
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (9 bp):
AAAAATGAA
Found at i:4651028 original size:23 final size:21
Alignment explanation
Indices: 4651002--4651059 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 21
4650992 CACAAAAAAT
4651002 AAAAACGAAAAAATAAAATAAA
1 AAAAACGAAAAAA-AAAATAAA
* *
4651024 GAAAAAGCCAAAAAAATAATAAA
1 -AAAAA-CGAAAAAAAAAATAAA
4651047 AAAAGA-GAAAAAA
1 AAAA-ACGAAAAAA
4651060 GGGGATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 6 0.20
22 4 0.13
23 13 0.43
24 7 0.23
ACGTcount: A:0.79, C:0.05, G:0.09, T:0.07
Consensus pattern (21 bp):
AAAAACGAAAAAAAAAATAAA
Found at i:4652212 original size:103 final size:102
Alignment explanation
Indices: 4652033--4652281 Score: 282
Period size: 103 Copynumber: 2.4 Consensus size: 102
4652023 AATTTTATTA
* ** * * * **
4652033 TGAAACCTTTGTGAATTCAAAACCTCTGCAAAACTTAAAATTTTGCTAAACTTAAAATCTTGTAA
1 TGAAACCTTTGTGAA-TCTAAACCTCTGTGAAACTTAAAATTTTACAAAACTTAAAATATTACAA
*
4652098 ATCTTTCATTCTTATGAATTTGAAAATCCTTACAAACC
65 ATCTTTCATTCTTATGAATCTGAAAATCCTTACAAACC
** * * * *
4652136 TGAAATTTTTGTGAATGTTAAACCTCTGTGAAACTTAAGATTTTACAAAACTTGAAATATTACGA
1 TGAAACCTTTGTGAAT-CTAAACCTCTGTGAAACTTAAAATTTTACAAAACTTAAAATATTACAA
* * * *
4652201 ATCTTTCATTCTTGTGAATCTGAAAGTCCTTGCAAATC
65 ATCTTTCATTCTTATGAATCTGAAAATCCTTACAAACC
* *
4652239 TGAAACCTTTGTGAATCTAGAACCTCTATGAAATTTAAAATTT
1 TGAAACCTTTGTGAATCTA-AACCTCTGTGAAACTTAAAATTT
4652282 GGAGAATCTG
Statistics
Matches: 119, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
102 3 0.03
103 116 0.97
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (102 bp):
TGAAACCTTTGTGAATCTAAACCTCTGTGAAACTTAAAATTTTACAAAACTTAAAATATTACAAA
TCTTTCATTCTTATGAATCTGAAAATCCTTACAAACC
Found at i:4652318 original size:18 final size:18
Alignment explanation
Indices: 4652297--4652340 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4652287 ATCTGAAAGT
4652297 TTTTGCGAATCTAAAAAC
1 TTTTGCGAATCTAAAAAC
* ** *
4652315 TTTTACGAATCTTGAATC
1 TTTTGCGAATCTAAAAAC
4652333 TTTTGCGA
1 TTTTGCGA
4652341 TTATGTTACA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41
Consensus pattern (18 bp):
TTTTGCGAATCTAAAAAC
Found at i:4653337 original size:3 final size:3
Alignment explanation
Indices: 4653329--4653493 Score: 144
Period size: 3 Copynumber: 57.0 Consensus size: 3
4653319 GGGTCAATTT
* * * * * * *
4653329 TTA TTA TTA CTA TTA CTA TTC TTA TTT TTG TTA TTA GTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
4653377 TTG CTA TTA TTG TTA TTA TTA CTA GTA TTA -TA TTA TTA -TA GTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
4653422 GTA -TA TTA -CA TTA -TA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4653467 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
4653494 CTACTACTAC
Statistics
Matches: 131, Mismatches: 25, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
2 11 0.08
3 120 0.92
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:4654335 original size:6 final size:6
Alignment explanation
Indices: 4654326--4654420 Score: 77
Period size: 6 Copynumber: 15.3 Consensus size: 6
4654316 GTTTTCCTTT
* * * *
4654326 TTTTTA TTTTCA TTTTCA TTTTCA -TTTTA TTATTT- TTATTA TTTTGTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT-TTTA TTTTTA TTTT-TA
* *
4654374 TTTTAA GTTTTTA TTTTTA TTTTTA GTTTTA TTTATTTA TTTTTA TT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA -TT-TTTA TTTTTA TT
4654421 GATTTTATTA
Statistics
Matches: 74, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
5 6 0.08
6 47 0.64
7 17 0.23
8 4 0.05
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:4654403 original size:26 final size:25
Alignment explanation
Indices: 4654325--4654420 Score: 86
Period size: 26 Copynumber: 3.6 Consensus size: 25
4654315 GGTTTTCCTT
* *
4654325 TTTTTTATTTTCATTTTCA-TTTTCA
1 TTTTTTATTTTTATTTTTAGTTTT-A
*
4654350 TTTTATTATTTTTATTATTTTGTATTTTAA
1 TTTT-TTATTTTTATT-TTTAG--TTTT-A
*
4654380 GTTTTTATTTTTATTTTTAGTTTTA
1 TTTTTTATTTTTATTTTTAGTTTTA
4654405 TTTATTTATTTTTATT
1 TTT-TTTATTTTTATT
4654421 GATTTTATTA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
25 7 0.12
26 26 0.45
27 2 0.03
28 4 0.07
29 11 0.19
30 8 0.14
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (25 bp):
TTTTTTATTTTTATTTTTAGTTTTA
Found at i:4654413 original size:49 final size:49
Alignment explanation
Indices: 4654332--4654427 Score: 115
Period size: 49 Copynumber: 2.0 Consensus size: 49
4654322 CTTTTTTTTA
*
4654332 TTTTCATTTTCATTTTCATTTTATTATTTTTATTATT-TTGTATTTTAAG
1 TTTTCATTTTCATTTTCATTTTATTATATTTATTATTATTG-ATTTTAAG
* * * *
4654381 TTTTTATTTTTATTTTTAGTTTTATT-TATTTATTTTTATTGATTTTA
1 TTTTCATTTTCATTTTCA-TTTTATTATATTTATTATTATTGATTTTA
4654428 TTATTTATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
49 30 0.75
50 10 0.25
ACGTcount: A:0.20, C:0.03, G:0.04, T:0.73
Consensus pattern (49 bp):
TTTTCATTTTCATTTTCATTTTATTATATTTATTATTATTGATTTTAAG
Found at i:4654416 original size:19 final size:20
Alignment explanation
Indices: 4654372--4654438 Score: 68
Period size: 19 Copynumber: 3.3 Consensus size: 20
4654362 TATTATTTTG
*
4654372 TATTTTAAGTTTT-TATT-TT
1 TATTTTTAGTTTTAT-TTATT
4654391 TATTTTTAGTTTTATTTATT
1 TATTTTTAGTTTTATTTATT
4654411 TATTTTTATTGATTTTA-TTATT
1 TATTTTTA--G-TTTTATTTATT
4654433 TATTTT
1 TATTTT
4654439 GTTAAGTAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
19 14 0.33
20 11 0.26
22 12 0.29
23 5 0.12
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (20 bp):
TATTTTTAGTTTTATTTATT
Found at i:4654431 original size:22 final size:19
Alignment explanation
Indices: 4654372--4654438 Score: 73
Period size: 22 Copynumber: 3.3 Consensus size: 19
4654362 TATTATTTTG
*
4654372 TATTTTAAGTTTTTATT-TT
1 TATTTTTAG-TTTTATTATT
4654391 TATTTTTAGTTTTATTTATT
1 TATTTTTAGTTTTA-TTATT
4654411 TATTTTTATTGATTTTATTATT
1 TATTTTTA--G-TTTTATTATT
4654433 TATTTT
1 TATTTT
4654439 GTTAAGTAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
18 5 0.12
19 10 0.24
20 10 0.24
22 12 0.29
23 5 0.12
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (19 bp):
TATTTTTAGTTTTATTATT
Found at i:4656143 original size:33 final size:33
Alignment explanation
Indices: 4656098--4656165 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
4656088 AAGCCTAAAT
* * *
4656098 TAAAATTTAGAATTTTTCTTTAAATGTTTTGTC
1 TAAAATTAAGAATTTTACTTTAAATGTTTTATC
*
4656131 TAAAATTAAGAATTTTACTTTGAATGTTTTATC
1 TAAAATTAAGAATTTTACTTTAAATGTTTTATC
4656164 TA
1 TA
4656166 TTTATAATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (33 bp):
TAAAATTAAGAATTTTACTTTAAATGTTTTATC
Found at i:4656775 original size:61 final size:60
Alignment explanation
Indices: 4656665--4656808 Score: 173
Period size: 61 Copynumber: 2.4 Consensus size: 60
4656655 ATAATGCATG
* * * * *
4656665 CATTCATCATTCATCCATCATTATGAGGTAAACATTAACTCATGTATCCATTCATGTAGT
1 CATTTATCATTCATGCATCATTATGAGGCAAACATTAACTCATGCATCCATTCATGGAGT
* **
4656725 CATTTATTCATTCATGCATCATTATGGGGCAAACATTAACTTGTGCATCCATTCATGGAGT
1 CATTTA-TCATTCATGCATCATTATGAGGCAAACATTAACTCATGCATCCATTCATGGAGT
* *
4656786 TATTTATCAATCTATG-ATCATTA
1 CATTTATCATTC-ATGCATCATTA
4656809 AATTGTTATG
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
60 17 0.24
61 55 0.76
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (60 bp):
CATTTATCATTCATGCATCATTATGAGGCAAACATTAACTCATGCATCCATTCATGGAGT
Found at i:4661173 original size:22 final size:21
Alignment explanation
Indices: 4661148--4661224 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 21
4661138 TAAAGCTTTT
4661148 GGGTATAATTCTCAAGACCTTC
1 GGGTATAATT-TCAAGACCTTC
* *
4661170 GGGTATGATTTGTAAGACCTTC
1 GGGTATAATTT-CAAGACCTTC
* *
4661192 AGATATAATTTTCAAGACC-TC
1 GGGTATAA-TTTCAAGACCTTC
*
4661213 TGGGCATAATTT
1 -GGGTATAATTT
4661225 ACAATGCCTC
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
21 6 0.14
22 34 0.79
23 3 0.07
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (21 bp):
GGGTATAATTTCAAGACCTTC
Found at i:4661256 original size:22 final size:22
Alignment explanation
Indices: 4661196--4661256 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
4661186 ACCTTCAGAT
* * *
4661196 ATAATTTTCAAGACCTCTGGGC
1 ATAATTTACAATACCTCTGGAC
*
4661218 ATAATTTACAATGCCTCTGGAC
1 ATAATTTACAATACCTCTGGAC
**
4661240 ATAATTTGTAATACCTC
1 ATAATTTACAATACCTC
4661257 CGGGCATTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (22 bp):
ATAATTTACAATACCTCTGGAC
Found at i:4662610 original size:15 final size:15
Alignment explanation
Indices: 4662590--4662619 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4662580 GTTTTTTAAA
4662590 GTTTTAGGTATATAT
1 GTTTTAGGTATATAT
*
4662605 GTTTTAGGTTTATAT
1 GTTTTAGGTATATAT
4662620 TTGATTTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (15 bp):
GTTTTAGGTATATAT
Found at i:4670018 original size:24 final size:26
Alignment explanation
Indices: 4669991--4670059 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 26
4669981 ATTATATTAG
4669991 TAAATAATATATTTTAAATAA-AAT-
1 TAAATAATATATTTTAAATAATAATA
* *
4670015 TAAATTTAAAATA-TTAAAATAATAATA
1 TAAA--TAATATATTTTAAATAATAATA
4670042 TAAA-AATAT-TTTTAAATA
1 TAAATAATATATTTTAAATA
4670060 TTTTAATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
24 15 0.42
25 8 0.22
26 9 0.25
27 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
TAAATAATATATTTTAAATAATAATA
Found at i:4670045 original size:33 final size:33
Alignment explanation
Indices: 4670004--4670077 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 33
4669994 ATAATATATT
*
4670004 TTAA-ATAAAATTAAATTTAAAATATTAAAATAA
1 TTAATATAAAAAT-AATTTAAAATATTAAAATAA
* * **
4670037 -TAATATAAAAATATTTTTAAATATTTTAATAA
1 TTAATATAAAAATAATTTAAAATATTAAAATAA
4670069 TTAATATAA
1 TTAATATAA
4670078 CTTAAATGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
32 19 0.56
33 15 0.44
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (33 bp):
TTAATATAAAAATAATTTAAAATATTAAAATAA
Found at i:4672886 original size:53 final size:53
Alignment explanation
Indices: 4672822--4672928 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
4672812 TACAGAAACT
* *
4672822 AACATGTTTTTTTTTATGATAGGTATTATTTTATTAAATATAGTATTCACTTC
1 AACATGCTTTTTTTTATGATAGGTATTATTTTATTAAATATACTATTCACTTC
4672875 AACATGCTTTTTTTTATGATAGGTATTATTTTATTAAATATACTATTCACTTC
1 AACATGCTTTTTTTTATGATAGGTATTATTTTATTAAATATACTATTCACTTC
4672928 A
1 A
4672929 TCAAGTAAGA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.51
Consensus pattern (53 bp):
AACATGCTTTTTTTTATGATAGGTATTATTTTATTAAATATACTATTCACTTC
Found at i:4674204 original size:18 final size:20
Alignment explanation
Indices: 4674165--4674210 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
4674155 TTCGAGTTAA
4674165 TTTTATTTTCTAACATTATT
1 TTTTATTTTCTAACATTATT
4674185 TTTTATTTT-TAAC-TCT-TT
1 TTTTATTTTCTAACAT-TATT
4674203 TTTTATTT
1 TTTTATTT
4674211 GCTTCATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.44
19 5 0.20
20 9 0.36
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTATTTTCTAACATTATT
Found at i:4675876 original size:60 final size:60
Alignment explanation
Indices: 4675753--4675868 Score: 196
Period size: 60 Copynumber: 1.9 Consensus size: 60
4675743 AATGAATTGT
*
4675753 TAATTTAATGATACTGGAGTTGATTTCAATACTAAAAGTTTTGAGTTCAAACTTCAGCTA
1 TAATTTAATGATACTAGAGTTGATTTCAATACTAAAAGTTTTGAGTTCAAACTTCAGCTA
* * *
4675813 TAATTTAATGATATTAGAGTTGATTTCAATACTAAGAGTTTTGAGTTCATACTTCA
1 TAATTTAATGATACTAGAGTTGATTTCAATACTAAAAGTTTTGAGTTCAAACTTCA
4675869 ATCATAATCT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (60 bp):
TAATTTAATGATACTAGAGTTGATTTCAATACTAAAAGTTTTGAGTTCAAACTTCAGCTA
Found at i:4680442 original size:20 final size:21
Alignment explanation
Indices: 4680414--4680456 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
4680404 TTGGTATGAA
4680414 ATATATAAATACT-TAT-AAAT
1 ATATATAAAT-CTATATGAAAT
*
4680434 ATATTTAAATCTATATGAAAT
1 ATATATAAATCTATATGAAAT
4680455 AT
1 AT
4680457 CACTAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 12 0.60
21 6 0.30
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (21 bp):
ATATATAAATCTATATGAAAT
Found at i:4680611 original size:19 final size:20
Alignment explanation
Indices: 4680558--4680616 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
4680548 CAAGTTTTTC
*
4680558 TATTTAATACA-AATATATTA
1 TATTT-ATACATAATAAATTA
*
4680578 TATTTATAAAT-ATAAATTA
1 TATTTATACATAATAAATTA
4680597 -ATTTATACATAATAATATTA
1 TATTTATACATAATAA-ATTA
4680617 CTAAGAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 9 0.27
19 15 0.45
20 9 0.27
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
TATTTATACATAATAAATTA
Found at i:4680902 original size:12 final size:12
Alignment explanation
Indices: 4680858--4680905 Score: 55
Period size: 12 Copynumber: 4.0 Consensus size: 12
4680848 TTGATCATTA
4680858 TATTTATATACTT
1 TATTTATATA-TT
*
4680871 AATTTAT-TAATT
1 TATTTATAT-ATT
4680883 TA-TTATATATT
1 TATTTATATATT
4680894 TATTTATATATT
1 TATTTATATATT
4680906 ATCTCATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
11 9 0.30
12 14 0.47
13 7 0.23
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTTATATATT
Found at i:4681162 original size:19 final size:19
Alignment explanation
Indices: 4681117--4681162 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
4681107 AATTTTAATT
*
4681117 TTAATTATCGTTTAAATAA
1 TTAATTATCCTTTAAATAA
**
4681136 TTTTTTATCCTTTAAATAA
1 TTAATTATCCTTTAAATAA
4681155 TTAATTAT
1 TTAATTAT
4681163 AAAAAATTAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (19 bp):
TTAATTATCCTTTAAATAA
Found at i:4684065 original size:3 final size:3
Alignment explanation
Indices: 4684051--4684246 Score: 56
Period size: 3 Copynumber: 70.0 Consensus size: 3
4684041 TAATTTTTAC
* * * *
4684051 TAT TAC TAT TAT TAT T-T TTT TGT TAT TAG TAT T-T T-T TAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * * *
4684094 TGT TAT TAT T-T TAT TAT TGT TACT T-G TAT TA- TAT TAC TA- TAG
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * *
4684136 TA- TAG TA- TAT TA- TAT CA- TAT TAT AAT GTGAT TA- TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -T-AT TAT TAT TAT TAT
* *
4684177 GA- TAT GAT -AT TA- TAT TA- TAT TA- TAT TAT CT-T GTAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT TAT -TAT
4684219 TAT T-T TAT TAT TAT TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4684247 ATTTCTTTTT
Statistics
Matches: 146, Mismatches: 21, Indels: 52
0.67 0.10 0.24
Matches are distributed among these distances:
2 37 0.25
3 97 0.66
4 10 0.07
5 2 0.01
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:4684077 original size:23 final size:24
Alignment explanation
Indices: 4684051--4684250 Score: 98
Period size: 23 Copynumber: 8.9 Consensus size: 24
4684041 TAATTTTTAC
4684051 TATTACTATTATTATT-TT-TTTGT
1 TATTA-TATTATTATTATTATTTGT
4684074 TATTAGTATT-TT-TTATTATTTGT
1 TATTA-TATTATTATTATTATTTGT
* * *
4684097 TATTATTTTATTATTGTTACTTG-
1 TATTATATTATTATTATTATTTGT
* * *
4684120 TATTATATTACTA-TAGTA-TAGT
1 TATTATATTATTATTATTATTTGT
* *
4684142 ATATTATATCA-TATTA-TA-ATGT
1 -TATTATATTATTATTATTATTTGT
* * *
4684164 GATTATATTA-TATGA-TA--TGA
1 TATTATATTATTATTATTATTTGT
4684184 TATTATATTA-TATTATATTATCTTG-
1 TATTATATTATTA-T-TATTAT-TTGT
*
4684209 TATTATA-TATTATT-TTA-TTAT
1 TATTATATTATTATTATTATTTGT
4684230 TATTATATTATTATTA-TATTT
1 TATTATATTATTATTATTATTT
4684251 CTTTTTTTCT
Statistics
Matches: 140, Mismatches: 19, Indels: 36
0.72 0.10 0.18
Matches are distributed among these distances:
20 15 0.11
21 26 0.19
22 29 0.21
23 48 0.34
24 11 0.08
25 9 0.06
26 2 0.01
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (24 bp):
TATTATATTATTATTATTATTTGT
Found at i:4684100 original size:17 final size:17
Alignment explanation
Indices: 4684066--4684115 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
4684056 CTATTATTAT
* *
4684066 TTTTTTGTTATTAG-TA
1 TTTTTTATTATTTGTTA
4684082 TTTTTTATTATTTGTTA
1 TTTTTTATTATTTGTTA
4684099 TTATTTTATTA-TTGTTA
1 TT-TTTTATTATTTGTTA
4684116 CTTGTATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 12 0.40
17 10 0.33
18 8 0.27
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (17 bp):
TTTTTTATTATTTGTTA
Found at i:4684150 original size:5 final size:5
Alignment explanation
Indices: 4684120--4684249 Score: 109
Period size: 5 Copynumber: 24.8 Consensus size: 5
4684110 TTGTTACTTG
* * * *
4684120 TATTA TATTA CTATAGTA TAGTA TATTA TATCA TATTA TAATG TGATTA
1 TATTA TATTA -TAT--TA TATTA TATTA TATTA TATTA TATTA T-ATTA
* * * *
4684169 TATTA TATGA TATGA TATTA TATTA TATTA TATTA TCTTG TATTA TA-TA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
*
4684218 TTATTT TATTA TTATTA TATTA TTATTA TATT
1 -TATTA TATTA -TATTA TATTA -TATTA TATT
4684250 TCTTTTTTTC
Statistics
Matches: 101, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
4 2 0.02
5 78 0.77
6 17 0.17
7 2 0.02
8 2 0.02
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.56
Consensus pattern (5 bp):
TATTA
Found at i:4684232 original size:11 final size:11
Alignment explanation
Indices: 4684051--4684249 Score: 90
Period size: 10 Copynumber: 17.8 Consensus size: 11
4684041 TAATTTTTAC
4684051 TATTACTATTAT
1 TATTA-TATTAT
* * *
4684063 TATTTTTTTGT
1 TATTATATTAT
*
4684074 TATTAGTATTTTT
1 TATTA-TA-TTAT
*
4684087 TATTAT-TTGT
1 TATTATATTAT
*
4684097 TATTATTTTAT
1 TATTATATTAT
* *
4684108 TATTGTTACTT-G
1 TATT-ATA-TTAT
4684120 TATTATATTACT
1 TATTATATTA-T
* *
4684132 ATAGTATAGTA-
1 -TATTATATTAT
*
4684143 TATTATATCA-
1 TATTATATTAT
* *
4684153 TATTATAATGT
1 TATTATATTAT
*
4684164 GATTATATTA-
1 TATTATATTAT
* *
4684174 TATGATATGA-
1 TATTATATTAT
4684184 TATTATATTA-
1 TATTATATTAT
4684194 TATTATATTAT
1 TATTATATTAT
4684205 CT-TGTATTATATAT
1 -TAT-TA-TAT-TAT
*
4684219 TATTTTATTAT
1 TATTATATTAT
4684230 TATTATATTAT
1 TATTATATTAT
4684241 TATTATATT
1 TATTATATT
4684250 TCTTTTTTTC
Statistics
Matches: 141, Mismatches: 31, Indels: 31
0.69 0.15 0.15
Matches are distributed among these distances:
10 50 0.35
11 47 0.33
12 17 0.12
13 23 0.16
14 4 0.03
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (11 bp):
TATTATATTAT
Found at i:4685112 original size:22 final size:22
Alignment explanation
Indices: 4685087--4685179 Score: 64
Period size: 26 Copynumber: 3.8 Consensus size: 22
4685077 TAGGTTTTTT
4685087 TTTTTCATTTTATTTTT-ATTTA
1 TTTTT-ATTTTATTTTTAATTTA
4685109 TTTTATATTTTAAGTTTTTCAATTTA
1 TTTT-TATTTT-A-TTTTT-AATTTA
4685135 TATATTTATTTTATTTTATTAACTTTTA
1 T-T-TTTATTTTA-TTT-TTAA--TTTA
4685163 TTATTTA-TTTATTTTTA
1 TT-TTTATTTTATTTTTA
4685180 CTGAACAATT
Statistics
Matches: 60, Mismatches: 1, Indels: 18
0.76 0.01 0.23
Matches are distributed among these distances:
22 9 0.15
23 2 0.03
24 8 0.13
25 3 0.05
26 16 0.27
27 15 0.25
28 7 0.12
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (22 bp):
TTTTTATTTTATTTTTAATTTA
Found at i:4685176 original size:35 final size:34
Alignment explanation
Indices: 4685087--4685176 Score: 92
Period size: 35 Copynumber: 2.6 Consensus size: 34
4685077 TAGGTTTTTT
* *
4685087 TTTTTCATTTTATTTTTATTTATTTTATATTTTAAG
1 TTTTTCAATTTA--TTTATTTATTTTATATTTTAAC
* *
4685123 TTTTTCAATTTATATATTTATTTTATTTTATTAAC
1 TTTTTCAATTTATTTATTTATTTTATATT-TTAAC
*
4685158 TTTTAT-TATTTATTTATTT
1 TTTT-TCAATTTATTTATTT
4685177 TTACTGAACA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
34 15 0.33
35 19 0.41
36 12 0.26
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.71
Consensus pattern (34 bp):
TTTTTCAATTTATTTATTTATTTTATATTTTAAC
Found at i:4685200 original size:29 final size:28
Alignment explanation
Indices: 4685128--4685200 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
4685118 TTAAGTTTTT
*
4685128 CAATTTATATATTTATTTTATTTTATTAA
1 CAATTTAT-TATTTATTTTATTTTATGAA
*
4685157 C-TTTTATTATTTA-TTTATTTTTACTGAA
1 CAATTTATTATTTATTTTA-TTTTA-TGAA
4685185 CAATTTATTATTTATT
1 CAATTTATTATTTATT
4685201 AAATATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
26 4 0.11
27 11 0.30
28 9 0.24
29 12 0.32
30 1 0.03
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.63
Consensus pattern (28 bp):
CAATTTATTATTTATTTTATTTTATGAA
Found at i:4685218 original size:29 final size:27
Alignment explanation
Indices: 4685129--4685218 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 27
4685119 TAAGTTTTTC
* *
4685129 AATTTATATATTTATTTTATTTTATTAA
1 AATTTAT-TATTTATTATATTTTATAAA
** *
4685157 CTTTTATTATTTATT-TATTTTTACTGAAC
1 AATTTATTATTTATTATA-TTTTA-T-AAA
4685186 AATTTATTATTTATTAAATATTTTATAAA
1 AATTTATTATTTATT--ATATTTTATAAA
4685215 AATT
1 AATT
4685219 CTTTTTTCTA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
26 2 0.04
27 13 0.27
28 6 0.12
29 20 0.41
30 1 0.02
31 5 0.10
32 2 0.04
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (27 bp):
AATTTATTATTTATTATATTTTATAAA
Found at i:4685508 original size:25 final size:25
Alignment explanation
Indices: 4685470--4685517 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
4685460 TTCTCAAAGA
*
4685470 AAATAAAATTTTAT-AAATATATTTC
1 AAATAAAATCTTATCAAAT-TATTTC
4685495 AAATAAAATCTTATCAAATTATT
1 AAATAAAATCTTATCAAATTATT
4685518 GTAAGATCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (25 bp):
AAATAAAATCTTATCAAATTATTTC
Found at i:4692784 original size:18 final size:20
Alignment explanation
Indices: 4692744--4692784 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
4692734 GGCCTATCCT
* *
4692744 TTCTCTCCTCTTCTTTTTTA
1 TTCTCTCCTCTTCTTATTCA
4692764 TTCTCT-CT-TTCTTATTCA
1 TTCTCTCCTCTTCTTATTCA
4692782 TTC
1 TTC
4692785 CCCATTTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 11 0.58
19 2 0.11
20 6 0.32
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.63
Consensus pattern (20 bp):
TTCTCTCCTCTTCTTATTCA
Found at i:4693655 original size:12 final size:12
Alignment explanation
Indices: 4693638--4693663 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4693628 CTCACGGAAA
4693638 CAATTTAAATTT
1 CAATTTAAATTT
4693650 CAATTTAAATTT
1 CAATTTAAATTT
4693662 CA
1 CA
4693664 CGGAAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (12 bp):
CAATTTAAATTT
Found at i:4694617 original size:26 final size:29
Alignment explanation
Indices: 4694569--4694623 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
4694559 AAATTTTATT
*
4694569 ATAATTTTATTAAAAATAGAAAT-TAAAAA
1 ATAATATTATTAAAAATA-AAATATAAAAA
4694598 ATAATATT-TTAAAAAT-AAATATAAAA
1 ATAATATTATTAAAAATAAAATATAAAA
4694624 TATTATAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 4 0.17
27 5 0.21
28 8 0.33
29 7 0.29
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (29 bp):
ATAATATTATTAAAAATAAAATATAAAAA
Found at i:4695188 original size:16 final size:17
Alignment explanation
Indices: 4695167--4695208 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
4695157 TTAAAAGTTA
4695167 ATAGTATAA-TTAAAAT
1 ATAGTATAATTTAAAAT
*
4695183 ATAGTAATAATTTATAAT
1 ATAGT-ATAATTTAAAAT
4695201 ATA-TATAA
1 ATAGTATAA
4695209 ATCAATAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 9 0.39
17 5 0.22
18 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (17 bp):
ATAGTATAATTTAAAAT
Found at i:4695826 original size:18 final size:18
Alignment explanation
Indices: 4695800--4695837 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4695790 TTCATGATTT
4695800 TAATGTAAAAAAATAAAA
1 TAATGTAAAAAAATAAAA
* *
4695818 TAATTTAAAAATATAAAA
1 TAATGTAAAAAAATAAAA
4695836 TA
1 TA
4695838 TATATTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
TAATGTAAAAAAATAAAA
Found at i:4695846 original size:21 final size:21
Alignment explanation
Indices: 4695805--4695864 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 21
4695795 GATTTTAATG
*
4695805 TAAAAAAAT-AAA-ATA-ATT
1 TAAAAATATAAAATATATATT
4695823 TAAAAATATAAAATATATATT
1 TAAAAATATAAAATATATATT
*
4695844 TAAAATATTTAAATATATATA
1 TAAAA-ATATAAA-ATATATA
4695865 ATTTTAGGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 8 0.23
19 3 0.09
20 3 0.09
21 8 0.23
22 6 0.17
23 7 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAAATATAAAATATATATT
Found at i:4704925 original size:44 final size:42
Alignment explanation
Indices: 4704851--4704939 Score: 133
Period size: 44 Copynumber: 2.1 Consensus size: 42
4704841 TAAATTTTGA
* *
4704851 AAGACAAAAATGAGAGAATAGATCAGATCCATTCTTGCATCC
1 AAGACAAAAATGAGAGAAGAGATCAGATCCATTCTTGCACCC
*
4704893 AAGACAAAAATAAGAGAGAAGAGATTAGATCCATTCTTGCACCC
1 AAGACAAAAAT--GAGAGAAGAGATCAGATCCATTCTTGCACCC
4704937 AAG
1 AAG
4704940 TTCACATGTC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
42 11 0.26
44 31 0.74
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.19
Consensus pattern (42 bp):
AAGACAAAAATGAGAGAAGAGATCAGATCCATTCTTGCACCC
Found at i:4709823 original size:8 final size:9
Alignment explanation
Indices: 4709806--4709830 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4709796 TTTGTACATA
4709806 TAATTTTTT
1 TAATTTTTT
4709815 TAATTTTTT
1 TAATTTTTT
4709824 TAATTTT
1 TAATTTT
4709831 AAGTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TAATTTTTT
Found at i:4710792 original size:5 final size:5
Alignment explanation
Indices: 4710776--4710806 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
4710766 ATAAAATCAT
*
4710776 ATTTG ATCTG ATTTG ATTTG ATTTG ATTTG A
1 ATTTG ATTTG ATTTG ATTTG ATTTG ATTTG A
4710807 AATTAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.19, T:0.55
Consensus pattern (5 bp):
ATTTG
Found at i:4710855 original size:14 final size:14
Alignment explanation
Indices: 4710810--4710870 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 14
4710800 GATTTGAAAT
* * *
4710810 TAATAAAATATTTT
1 TAATTAAATATATA
4710824 TAATATAAATATA-A
1 TAAT-TAAATATATA
4710838 -AATTAAATATATA
1 TAATTAAATATATA
4710851 TAATTAAATA-AT-
1 TAATTAAATATATA
4710863 TAATTAAA
1 TAATTAAA
4710871 AAATAAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
12 16 0.39
13 6 0.15
14 13 0.32
15 6 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATTAAATATATA
Found at i:4711435 original size:19 final size:20
Alignment explanation
Indices: 4711411--4711448 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4711401 AATATACTTT
4711411 TAAATTAATATT-TTAATTA
1 TAAATTAATATTATTAATTA
*
4711430 TAAATTATTATTATTAATT
1 TAAATTAATATTATTAATT
4711449 TTTAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TAAATTAATATTATTAATTA
Found at i:4711459 original size:25 final size:28
Alignment explanation
Indices: 4711414--4711466 Score: 76
Period size: 25 Copynumber: 2.0 Consensus size: 28
4711404 ATACTTTTAA
4711414 ATTAATATTTTAATTATAAATTATTATT
1 ATTAATATTTTAATTATAAATTATTATT
*
4711442 ATTAAT-TTTTAA-TA-AAATTGTTATT
1 ATTAATATTTTAATTATAAATTATTATT
4711467 TGATATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 10 0.42
26 2 0.08
27 6 0.25
28 6 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (28 bp):
ATTAATATTTTAATTATAAATTATTATT
Found at i:4712726 original size:10 final size:10
Alignment explanation
Indices: 4712713--4712741 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
4712703 AAAAAGTATA
4712713 TAAAATTTTT
1 TAAAATTTTT
4712723 TAAAATTTTT
1 TAAAATTTTT
4712733 TAAAATTTT
1 TAAAATTTT
4712742 GTACATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TAAAATTTTT
Found at i:4715004 original size:91 final size:91
Alignment explanation
Indices: 4714849--4715017 Score: 236
Period size: 91 Copynumber: 1.9 Consensus size: 91
4714839 TAGAAAGGAA
*
4714849 AGAAAAATAAAAAATTGGGAATAAGATAGAATAGAATGATAAGTACCATGGTGTTCATATTATAG
1 AGAAAAATAAAAAATTGGGAATAAGATAGAATAAAATGATAAGTACCATGGTGTTCATATTATAG
*
4714914 GCATGAGACAAGAGATTTAGACGGAG
66 GAATGAGACAAGAGATTTAGACGGAG
* * *
4714940 AGAAAAGTAAAGAATTGGGAATAA-A-ACGAAATAAAATGATAGGTACC-TAGGTGTTCATATTA
1 AGAAAAATAAAAAATTGGGAATAAGATA-G-AATAAAATGATAAGTACCAT-GGTGTTCATATTA
*
4715002 TAGTAATGAGACAAGA
63 TAGGAATGAGACAAGA
4715018 AACTTGTGAA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
89 1 0.01
90 3 0.04
91 65 0.94
ACGTcount: A:0.47, C:0.07, G:0.23, T:0.23
Consensus pattern (91 bp):
AGAAAAATAAAAAATTGGGAATAAGATAGAATAAAATGATAAGTACCATGGTGTTCATATTATAG
GAATGAGACAAGAGATTTAGACGGAG
Found at i:4718209 original size:11 final size:11
Alignment explanation
Indices: 4718193--4718223 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4718183 AATCTCATAA
4718193 GAGATTTGTTT
1 GAGATTTGTTT
*
4718204 GAGATTTATTT
1 GAGATTTGTTT
4718215 GAGATTTGT
1 GAGATTTGT
4718224 CAGATATTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:4718862 original size:31 final size:31
Alignment explanation
Indices: 4718824--4718905 Score: 128
Period size: 31 Copynumber: 2.6 Consensus size: 31
4718814 CTTTTAGCCT
4718824 AACAAATGGTATCAGAGCTGTGGTGTTCCCC
1 AACAAATGGTATCAGAGCTGTGGTGTTCCCC
* * *
4718855 AACAAATGGTATTAGAGCTATGGTGTTCTCC
1 AACAAATGGTATCAGAGCTGTGGTGTTCCCC
*
4718886 AACAAGTGGTATCAGAGCTG
1 AACAAATGGTATCAGAGCTG
4718906 AAAGTTCGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
AACAAATGGTATCAGAGCTGTGGTGTTCCCC
Found at i:4719364 original size:52 final size:52
Alignment explanation
Indices: 4719277--4719433 Score: 219
Period size: 52 Copynumber: 3.0 Consensus size: 52
4719267 TGGACAAGAA
* * **
4719277 GACTTACAAAAGAAGAATTCTAA-AAGAAAGTGGATTCTTAATAGGTGAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
* *
4719329 GACTTGCAAGAGAAGAATTCTAAGGGGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
*
4719381 GACTTACAAGAGAAGAATTCTAAGAGAAAAGGGATTCTTAAT-GGACAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGG-CAAGTTT
4719433 G
1 G
4719434 CATTGTTATA
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 87 0.93
53 5 0.05
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.26
Consensus pattern (52 bp):
GACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:4721991 original size:2 final size:2
Alignment explanation
Indices: 4721984--4722009 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4721974 AGAATTTAAA
4721984 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
4722010 CTTGCTTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4724150 original size:2 final size:2
Alignment explanation
Indices: 4724143--4724178 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
4724133 CTTAAACCAA
4724143 AT AT AT AT AT AT AT AT -T AGT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
4724179 TTTAACAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 29 0.91
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4731941 original size:52 final size:52
Alignment explanation
Indices: 4731880--4731978 Score: 180
Period size: 52 Copynumber: 1.9 Consensus size: 52
4731870 TCATGATCAT
*
4731880 ATAAGATATTGACACAACAATTATAATTATGATCATATAATAAAAAACCCAC
1 ATAAGATATTGACACAACAATTATAATTATGATCAAATAATAAAAAACCCAC
*
4731932 ATAAGATATTGTCACAACAATTATAATTATGATCAAATAATAAAAAA
1 ATAAGATATTGACACAACAATTATAATTATGATCAAATAATAAAAAA
4731979 ACAGTTGTAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.28
Consensus pattern (52 bp):
ATAAGATATTGACACAACAATTATAATTATGATCAAATAATAAAAAACCCAC
Found at i:4732491 original size:2 final size:2
Alignment explanation
Indices: 4732486--4732528 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
4732476 TAAGAGAAAC
*
4732486 AG AG AG AG AG AC AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4732528 A
1 A
4732529 TGGGGATGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.02, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4732499 original size:12 final size:12
Alignment explanation
Indices: 4732478--4732528 Score: 75
Period size: 12 Copynumber: 4.2 Consensus size: 12
4732468 TTTTTTGTTA
*
4732478 AGAGAAACAGAG
1 AGAGAGACAGAG
4732490 AGAGAGACAGAG
1 AGAGAGACAGAG
*
4732502 AGAGAGAGAGAG
1 AGAGAGACAGAG
*
4732514 AGAGAGAGAGAG
1 AGAGAGACAGAG
4732526 AGA
1 AGA
4732529 TGGGGATGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.53, C:0.04, G:0.43, T:0.00
Consensus pattern (12 bp):
AGAGAGACAGAG
Found at i:4741976 original size:18 final size:18
Alignment explanation
Indices: 4741945--4741991 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
4741935 AGAACTCGAA
* *
4741945 AAAGAGCCGGAACCTTTG
1 AAAGAGCCAGAACCTTGG
*
4741963 AAAGAGCCATAACCTTGG
1 AAAGAGCCAGAACCTTGG
*
4741981 GAAGAGCCAGA
1 AAAGAGCCAGA
4741992 TGCTGCAAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.28, T:0.13
Consensus pattern (18 bp):
AAAGAGCCAGAACCTTGG
Found at i:4743606 original size:482 final size:482
Alignment explanation
Indices: 4742701--4743665 Score: 1912
Period size: 482 Copynumber: 2.0 Consensus size: 482
4742691 GAACAAATCC
4742701 AAGGTGTATTTGTTGAGTCACTTATTTGGTGAGATTTCTCCAATTGTTTCTCTAGTTGTTGATTA
1 AAGGTGTATTTGTTGAGTCACTTATTTGGTGAGATTTCTCCAATTGTTTCTCTAGTTGTTGATTA
*
4742766 GCTCTAGTTTTACCTAGAGAAGAACTTTGTATAACTATTATTTGATAGTGAAGATTTTTCTGGTG
66 GCTCTAGTTTTACCTAAAGAAGAACTTTGTATAACTATTATTTGATAGTGAAGATTTTTCTGGTG
*
4742831 GCCCGTGATTTTTTCCCTCTACACTGGAGGGTTTTCCACGTAAATCTTGGTGTGCTTTATTTTTC
131 GCCCGTGATTTTTTCCCTCTACACTAGAGGGTTTTCCACGTAAATCTTGGTGTGCTTTATTTTTC
4742896 CTGCGTATTTGATTATTGATTGCTGTCTATTGCTTCTGTATTATTGTGATTATTGCTTCAGGCGC
196 CTGCGTATTTGATTATTGATTGCTGTCTATTGCTTCTGTATTATTGTGATTATTGCTTCAGGCGC
4742961 AACAAGTGGTATCAGAGCGAGGGTTATTTTGAGACATCGATACAGAAGCAACCCATGATAGAAGT
261 AACAAGTGGTATCAGAGCGAGGGTTATTTTGAGACATCGATACAGAAGCAACCCATGATAGAAGT
4743026 AAATTCTGTTTGAGATCATGGAGGGTGATACAGGTTTCATGATAAAATTGACAGCATCGAATTAT
326 AAATTCTGTTTGAGATCATGGAGGGTGATACAGGTTTCATGATAAAATTGACAGCATCGAATTAT
4743091 TCAATTTGGAAGCCTATGATGGAGGATCATCTATACTGCAAAGATTTGTATGAGCCAGTATTGGG
391 TCAATTTGGAAGCCTATGATGGAGGATCATCTATACTGCAAAGATTTGTATGAGCCAGTATTGGG
4743156 TGATTCGACTAAACCAGCAGATATGAA
456 TGATTCGACTAAACCAGCAGATATGAA
4743183 AAGGTGTATTTGTTGAGTCACTTATTTGGTGAGATTTCTCCAATTGTTTCTCTAGTTGTTGATTA
1 AAGGTGTATTTGTTGAGTCACTTATTTGGTGAGATTTCTCCAATTGTTTCTCTAGTTGTTGATTA
4743248 GCTCTAGTTTTACCTAAAGAAGAACTTTGTATAACTATTATTTGATAGTGAAGATTTTTCTGGTG
66 GCTCTAGTTTTACCTAAAGAAGAACTTTGTATAACTATTATTTGATAGTGAAGATTTTTCTGGTG
4743313 GCCCGTGATTTTTTCCCTCTACACTAGAGGGTTTTCCACGTAAATCTTGGTGTGCTTTATTTTTC
131 GCCCGTGATTTTTTCCCTCTACACTAGAGGGTTTTCCACGTAAATCTTGGTGTGCTTTATTTTTC
4743378 CTGCGTATTTGATTATTGATTGCTGTCTATTGCTTCTGTATTATTGTGATTATTGCTTCAGGCGC
196 CTGCGTATTTGATTATTGATTGCTGTCTATTGCTTCTGTATTATTGTGATTATTGCTTCAGGCGC
4743443 AACAAGTGGTATCAGAGCGAGGGTTATTTTGAGACATCGATACAGAAGCAACCCATGATAGAAGT
261 AACAAGTGGTATCAGAGCGAGGGTTATTTTGAGACATCGATACAGAAGCAACCCATGATAGAAGT
4743508 AAATTCTGTTTGAGATCATGGAGGGTGATACAGGTTTCATGATAAAATTGACAGCATCGAATTAT
326 AAATTCTGTTTGAGATCATGGAGGGTGATACAGGTTTCATGATAAAATTGACAGCATCGAATTAT
4743573 TCAATTTGGAAGCCTATGATGGAGGATCATCTATACTGCAAAGATTTGTATGAGCCAGTATTGGG
391 TCAATTTGGAAGCCTATGATGGAGGATCATCTATACTGCAAAGATTTGTATGAGCCAGTATTGGG
4743638 TGATTCGACTAAACCAGCAGATATGAA
456 TGATTCGACTAAACCAGCAGATATGAA
4743665 A
1 A
4743666 GATGAAAGCT
Statistics
Matches: 481, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
482 481 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (482 bp):
AAGGTGTATTTGTTGAGTCACTTATTTGGTGAGATTTCTCCAATTGTTTCTCTAGTTGTTGATTA
GCTCTAGTTTTACCTAAAGAAGAACTTTGTATAACTATTATTTGATAGTGAAGATTTTTCTGGTG
GCCCGTGATTTTTTCCCTCTACACTAGAGGGTTTTCCACGTAAATCTTGGTGTGCTTTATTTTTC
CTGCGTATTTGATTATTGATTGCTGTCTATTGCTTCTGTATTATTGTGATTATTGCTTCAGGCGC
AACAAGTGGTATCAGAGCGAGGGTTATTTTGAGACATCGATACAGAAGCAACCCATGATAGAAGT
AAATTCTGTTTGAGATCATGGAGGGTGATACAGGTTTCATGATAAAATTGACAGCATCGAATTAT
TCAATTTGGAAGCCTATGATGGAGGATCATCTATACTGCAAAGATTTGTATGAGCCAGTATTGGG
TGATTCGACTAAACCAGCAGATATGAA
Found at i:4747974 original size:18 final size:18
Alignment explanation
Indices: 4747951--4747989 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4747941 TAGAATTTTT
4747951 AGATTTTGAT-AAAGAGTC
1 AGATTTT-ATGAAAGAGTC
*
4747969 AGATTTTTTGAAAGAGTC
1 AGATTTTATGAAAGAGTC
4747987 AGA
1 AGA
4747990 ATCGCCTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.33
Consensus pattern (18 bp):
AGATTTTATGAAAGAGTC
Found at i:4748337 original size:18 final size:17
Alignment explanation
Indices: 4748270--4748338 Score: 52
Period size: 18 Copynumber: 3.9 Consensus size: 17
4748260 GTCTGAAGAC
4748270 TTAGAAGAATCAGAACCT
1 TTAGAAGAATCAGAA-CT
***
4748288 TTAGAATTGTCAGAACT
1 TTAGAAGAATCAGAACT
4748305 TGATA-AAG-ATCCAGAACT
1 T--TAGAAGAAT-CAGAACT
4748323 TCTAGAAGAATCAGAA
1 T-TAGAAGAATCAGAA
4748339 AAGCCTGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
17 6 0.15
18 30 0.75
19 4 0.10
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.25
Consensus pattern (17 bp):
TTAGAAGAATCAGAACT
Found at i:4748509 original size:186 final size:184
Alignment explanation
Indices: 4748107--4750706 Score: 1262
Period size: 186 Copynumber: 14.3 Consensus size: 184
4748097 AGTTAAAATT
* * * * *
4748107 TTTAGAATTGTTAAAACCTGATAAAGAACCAGCACTTTTAGAA-AAACTAGAAGCATCC-GAAGT
1 TTTAGAATTGTTAAAACCTGATAAAGAACCAGAACTTTTAGAAGAATC-AGAA-AAGCCTGAACT
* * * * * * *
4748170 TGATGAAGAGTCAGAAGTCGTAGAAGAGCC---A---TTAGAAATGCTAGAGT-TGGATGAGGAT
64 TGATGAAGAGTCAAAAGTCGTAGAAGAGCCAGAACCCTTAGAATTGCTAGAATCT-GTTAAAGAA
* * * * ** * * *
4748228 CCAGAACTTGTAATGCCGGAATATGA-AGAAGAGTCTGAAGACTTAGAAGAATCAGAACC
128 CCAAAATTTGTAATGTCAGAACCTGATA-ATGAGTCTGAAG-CTTAAAAG-AGCAGAACC
* * * * *
4748287 TTTAGAATTGTCAGAACTTGATAAAGATCCAGAACTTCTAGAAGAATCAGAAAAGCCTGAACTTG
1 TTTAGAATTGTTAAAACCTGATAAAGAACCAGAACTTTTAGAAGAATCAGAAAAGCCTGAACTTG
* * * * * *
4748352 ATGAAGAGCCAAAAATTGTAGAAGAGCCAGGACCCTTTGAATTGTTAGAATCTGTTAAAGAACCA
66 ATGAAGAGTCAAAAGTCGTAGAAGAGCCAGAACCCTTAGAATTGCTAGAATCTGTTAAAGAACCA
* *
4748417 AAATTTGTAGTGTCAGAACCTGATAATGCGTCTGATAGCTTAAAAGAGCAGGAACC
131 AAATTTGTAATGTCAGAACCTGATAATGAGTCTGA-AGCTTAAAAGAGCA-GAACC
* * * *
4748473 TTTAGAATTGTTAAAACCTGATAAAGAACTAGAACTTTTCGAAGAGTCAG--AAGCATTAGAAGC
1 TTTAGAATTGTTAAAACCTGATAAAGAACCAGAACTTTTAGAAGAATCAGAAAAGC-CT-GAA-C
* * * * *
4748536 -TGATGAAGAGTCAGAAGTCGTAGAAGAGCCATAACCCTTAGAATTGCTAGAAT-TCGATGAGGA
63 TTGATGAAGAGTCAAAAGTCGTAGAAGAGCCAGAACCCTTAGAATTGCTAGAATCT-GTTAAAGA
* * * * * * * *
4748599 TCCAGAACTTGTAATGCCAGAATCTGA-AGATGAGTCTGAAATCTTAGAAGAACCAGAACC
127 ACCAAAATTTGTAATGTCAGAACCTGATA-ATGAGTCTG-AAGCTTAAAAG-AGCAGAACC
* * *
4748659 TTTAGAATTGTTAGAACTTGATAAAGAACCAGAACTTTTAGAAGAATCAGAAGAGCCTGAACTTG
1 TTTAGAATTGTTAAAACCTGATAAAGAACCAGAACTTTTAGAAGAATCAGAAAAGCCTGAACTTG
*
4748724 ATGAAGAGTCAAAAGTCGTAGAAGAGCCAGAACCCTTAGAATTGCTAGAACCTGTTAAAGAACCA
66 ATGAAGAGTCAAAAGTCGTAGAAGAGCCAGAACCCTTAGAATTGCTAGAATCTGTTAAAGAACCA
* * * * * *
4748789 AAATTTGTAGTGTCAGAACCTGATGATGACTCCGAAATCTTAAAAGAGCCAAAACC
131 AAATTTGTAATGTCAGAACCTGATAATGAGTCTG-AAGCTTAAAAGAG-CAGAACC
* * *
4748845 TTTAGAATTGTTAAAACCTGATAAAGAACCAGAACTTTTTA-AAGAGTCAG--AAGCATTGGAAG
1 TTTAGAATTGTTAAAACCTGATAAAGAACCAGAAC-TTTTAGAAGAATCAGAAAAGC-CT-GAAC
* * * * * *
4748907 TTGATGAAGAGTCAGAAGTCGTAGAAGAGTCATAACCTTTAGAATTGCTAGAAT-TCGAT-GAGA
63 TTGATGAAGAGTCAAAAGTCGTAGAAGAGCCAGAACCCTTAGAATTGCTAGAATCT-GTTAAAGA
** * * * * * *
4748970 ATCCAGCATTTGTAATGCCAGAATCTGA-AGAAGAGTTTGAAGTCTTAGAAGAATCAGAACC
127 A-CCAAAATTTGTAATGTCAGAACCTGATA-ATGAGTCTGAAG-CTTAAAAG-AGCAGAACC
* * *
4749031 TTTAGAATTGTTAGAACTTGATAAAGAACCAGAAGC-TTTAGACGAATCAGAAAAGCCTGAACTT
1 TTTAGAATTGTTAAAACCTGATAAAGAACCAGAA-CTTTTAGAAGAATCAGAAAAGCCTGAACTT
* ** * * * * *
4749095 GATGAAGAGCCAAAAGTCGGGGAAGAGCTAGAACCCTTAGAGTCGCTAGAACCTGTTAAAGAATC
65 GATGAAGAGTCAAAAGTCGTAGAAGAGCCAGAACCCTTAGAATTGCTAGAATCTGTTAAAGAACC
* *
4749160 AAAATTTGTAATGTCAGAACCTGATTATGAGTCGGAAGTCTTAAAAGAGCTAGAACC
130 AAAATTTGTAATGTCAGAACCTGATAATGAGTCTGAAG-CTTAAAAGAGC-AGAACC
* * * *
4749217 TTTAGAATTGTTAAAACCTGATAAAGAACCAGCACCTTTAGAAGAA-CTAG--AAGCGTTGGAAG
1 TTTAGAATTGTTAAAACCTGATAAAGAACCAGAACTTTTAGAAGAATC-AGAAAAGC-CT-GAAC
* * * * * * * *
4749279 TTGATGAAGAGTCAGAAGTCGTGGAAGAGCCATAACCCATAGAATTACTAGAAT-TCGATGAGGA
63 TTGATGAAGAGTCAAAAGTCGTAGAAGAGCCAGAACCCTTAGAATTGCTAGAATCT-GTTAAAGA
* * * * * * *
4749343 TCCAGAATTTGTAATG-CTAGAATCTGA-AGAAGAGTCTGAAGTCTTAGAAGAATCAGAAAC
127 ACCAAAATTTGTAATGTC-AGAACCTGATA-ATGAGTCTGAAG-CTTAAAAG-AGCAGAACC
* * *
4749403 TTTAGAATTGTTAGAACTTGATAAAGAATCAGAAC-TTT-------T-AG--AA----GAA-TT-
1 TTTAGAATTGTTAAAACCTGATAAAGAACCAGAACTTTTAGAAGAATCAGAAAAGCCTGAACTTG
** * ** * *
4749451 A-GAAGACCCAAAAGTCGTAGAAGATCCAGATTCCTTAGAATTGCTAGAACCTGTTAAATAACCA
66 ATGAAGAGTCAAAAGTCGTAGAAGAGCCAGAACCCTTAGAATTGCTAGAATCTGTTAAAGAACCA
* * * ** * *
4749515 AAATTTGCAGTGTCAGAA-CTGGATGATGAGTCCAAAGTCCTAAAAAAGCTAGAA-C
131 AAATTTGTAATGTCAGAACCT-GATAATGAGTCTGAAG-CTTAAAAGAGC-AGAACC
* * * * *
4749570 GTTAGAATTGTTAAAACCTGATAAAGAACCAGAACTTTTCGAAGAGTCAGAAGAGCTTGAACTTG
1 TTTAGAATTGTTAAAACCTGATAAAGAACCAGAACTTTTAGAAGAATCAGAAAAGCCTGAACTTG
* * * *** ** ** * *
4749635 ATG-A-A-CCAGAACGT-TTAGACTTGCTTGAA-CCTGATA-AATAACCAGAA-CT-TGT--AGT
66 ATGAAGAGTCA-AAAGTCGTAGAAGAGCCAGAACCCT--TAGAATTGCTAGAATCTGT-TAAAGA
* * ** * * * **
4749690 GCCAGAACCTG--ATGTC-G-A---G-TCA-GAAGTCT-TAG---AAGAGTT-AGAACC
127 ACCAAAATTTGTAATGTCAGAACCTGATAATG-AGTCTGAAGCTTAAAAGAGCAGAACC
* * * * ** * *
4749735 TTTAGAATTGCTAGAACTTGATAAAGAACCAGAACTTGTAGAAGAGCCAG--AAGCATCGGAATT
1 TTTAGAATTGTTAAAACCTGATAAAGAACCAGAACTTTTAGAAGAATCAGAAAAGC--CTGAACT
* * * * * * *
4749798 TGATGAATAGTCAGAAGTTGCAGAATAACCAGAACCCTTAGAATTGCTAGAA-CTTGATAAAGAA
64 TGATGAAGAGTCAAAAGTCGTAGAAGAGCCAGAACCCTTAGAATTGCTAGAATC-TGTTAAAGAA
* * * * * * * * *
4749862 CTC-GAACTTGTAGTGCCAGAATCTGATGAA-GAGCCTGAACTCTTAGAAGAGCTAGAATC
128 C-CAAAATTTGTAATGTCAGAACCTGAT-AATGAGTCTGAA-GCTTAAAAGAGC-AGAACC
* * * *
4749921 TTTAGAATTGTTAGAACCTGATAAAGAGCCAAAACTTTTAGAAGAGTCA-AAAGAG-C----C--
1 TTTAGAATTGTTAAAACCTGATAAAGAACCAGAACTTTTAGAAGAATCAGAAA-AGCCTGAACTT
* ** * * * * * * * *
4749978 --TGAAGAGCCTGAACTTGTAGAAGAGCCAGAACTCTTAGAACTGTTAGAACCTGATAAAGAACT
65 GATGAAGAGTCAAAAGTCGTAGAAGAGCCAGAACCCTTAGAATTGCTAGAATCTGTTAAAGAACC
* * * * * * * * * *
4750041 AGAACTTGTAGTGCCAGAACCTGATGATGAATCAGAAGTCTTAGAGGAGTTAGAACC
130 AAAATTTGTAATGTCAGAACCTGATAATGAGTCTGAAG-CTTAAAAGAG-CAGAACC
* * * * * ** **
4750098 TTTAGAATTGCTAGAACTTGATAAAGAACCAGAA-TTTGGAGCAGAGCCAGAAGTG-CTGGAACT
1 TTTAGAATTGTTAAAACCTGATAAAGAACCAGAACTTT-TAGAAGAATCAGAAAAGCCT-GAACT
* * * ** * * * * *
4750161 TGATGAATAGTCAGAAGTTGTAGCCGAGACAGAACTCTTGGAATTGTTAGAA-CTTGATAAAGAA
64 TGATGAAGAGTCAAAAGTCGTAGAAGAGCCAGAACCCTTAGAATTGCTAGAATC-TGTTAAAGAA
** * * * * *
4750225 TTAGAACTTGTAGTGCCAGAACCTGATGAA-GAGTCTGAAGTCTTAGAAGAGCTAGAACC
128 CCAAAATTTGTAATGTCAGAACCTGAT-AATGAGTCTGAAG-CTTAAAAGAGC-AGAACC
** * * * * * * *
4750284 TTTAGAATTACTAGAATCTGATATAGAACCAGAACCTTTAGAAG-AGCTAGAATAGCCTAAACTT
1 TTTAGAATTGTTAAAACCTGATAAAGAACCAGAACTTTTAGAAGAATC-AGAAAAGCCTGAACTT
* * * * * * * * *
4750348 GAGGAAGAGCCAAAGGTCGTAGAATG-GCTAGAACTCTTAGAATTGCCAGAACCTGATAAAGAGC
65 GATGAAGAGTCAAAAGTCGTAGAA-GAGCCAGAACCCTTAGAATTGCTAGAATCTGTTAAAGAAC
* * * * * * * * * * *
4750412 CAGAACTTATAGTGCCAG--CATAGATGATGAGTCAGAAGTTTTAGAAGAGTTAGAACC
129 CAAAATTTGTAATGTCAGAACCT-GATAATGAGTCTGAAG-CTTAAAAGAG-CAGAACC
* * * * ** *
4750469 TTTAGAATTGCTAGAACTTGATAAAGAACCAGAACTTGTAGAAGAGCCAG--AAGCATCGGAACT
1 TTTAGAATTGTTAAAACCTGATAAAGAACCAGAACTTTTAGAAGAATCAGAAAAGC--CTGAACT
* * * * * * * *
4750532 TGATGAATG-GTCAGAAGTTGCAGAAGAGCTAGAACCTTTTGAATTGCTCGAATCTGATAAAGAA
64 TGATGAA-GAGTCAAAAGTCGTAGAAGAGCCAGAACCCTTAGAATTGCTAGAATCTGTTAAAGAA
* * * ** * * * *
4750596 CCAGAACTTATGGT-TCCAGAAACTGATGAA-GAGT-TAGAAGTCTTAGAAGAAACATAACC
128 CCAAAATTTGTAATGT-CAGAACCTGAT-AATGAGTCT-GAAG-CTTAAAAG-AGCAGAACC
* * * * *
4750655 TTTAGAATTGTTAGAACTTGATAAAGAACTAGAACTTATAGAAGAGTCAGAA
1 TTTAGAATTGTTAAAACCTGATAAAGAACCAGAACTTTTAGAAGAATCAGAA
4750707 GCGCTGGAAT
Statistics
Matches: 1871, Mismatches: 398, Indels: 294
0.73 0.16 0.11
Matches are distributed among these distances:
163 3 0.00
164 4 0.00
165 53 0.03
166 4 0.00
167 42 0.02
168 101 0.05
169 8 0.00
170 5 0.00
171 18 0.01
172 2 0.00
173 3 0.00
174 1 0.00
175 3 0.00
176 7 0.00
177 141 0.08
178 5 0.00
179 16 0.01
180 75 0.04
181 9 0.00
182 22 0.01
183 13 0.01
184 20 0.01
185 170 0.09
186 1100 0.59
187 37 0.02
188 9 0.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (184 bp):
TTTAGAATTGTTAAAACCTGATAAAGAACCAGAACTTTTAGAAGAATCAGAAAAGCCTGAACTTG
ATGAAGAGTCAAAAGTCGTAGAAGAGCCAGAACCCTTAGAATTGCTAGAATCTGTTAAAGAACCA
AAATTTGTAATGTCAGAACCTGATAATGAGTCTGAAGCTTAAAAGAGCAGAACC
Found at i:4748703 original size:18 final size:18
Alignment explanation
Indices: 4748642--4748710 Score: 50
Period size: 18 Copynumber: 3.8 Consensus size: 18
4748632 GTCTGAAATC
*
4748642 TTAGAAGAACCAGAACCT
1 TTAGAAGAACCAGAACTT
*****
4748660 TTAGAATTGTTAGAACTT
1 TTAGAAGAACCAGAACTT
*
4748678 GATA-AAGAACCAGAACTT
1 -TTAGAAGAACCAGAACTT
*
4748696 TTAGAAGAATCAGAA
1 TTAGAAGAACCAGAA
4748711 GAGCCTGAAC
Statistics
Matches: 35, Mismatches: 14, Indels: 4
0.66 0.26 0.08
Matches are distributed among these distances:
17 2 0.06
18 31 0.89
19 2 0.06
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.25
Consensus pattern (18 bp):
TTAGAAGAACCAGAACTT
Found at i:4748720 original size:372 final size:372
Alignment explanation
Indices: 4748006--4750708 Score: 2369
Period size: 372 Copynumber: 7.4 Consensus size: 372
4747996 TGGACTTGAT
* * * * * * * ** *
4748006 GAAGAGTCAGAATCTTTAGAATTGCTAGAACCTGATAAAGAACCAGAACTTGTACTACCAGAATC
1 GAAGAGCCAGAACCCTTAGAATTGCTAGAACCTGTTAAAGAACCAAAATTTGTAGTGTCAGAACC
* * * * * * **
4748071 TGATGATGAATCAGAAGTCTCAGAAA-AGTTAAAATTTTTAGAATTGTTAAAACCTGATAAAGAA
66 TGATAATGAGTCTGAAGTCTTA-AAAGAGCTAGAACCTTTAGAATTGTTAAAACCTGATAAAGAA
* ** ** *
4748135 CCAGCACTTTTAGAA-AAACTAGAAGCATCCGAAGTTGATGAAGAGTCAGAAGTCGTAGAAGAGC
130 CCAGAACTTTTAGAAGAGTC-AGAAGCATTAGAAGCTGATGAAGAGTCAGAAGTCGTAGAAGAGC
* * * * * *
4748199 C---A---TTAGAAATGCTAGAGTTGGATGAGGATCCAGAACTTGTAATGCCGGAATATGAAGAA
194 CATAACCCTTAGAATTGCTAGAATTCGATGAGGATCCAGAACTTGTAATGCCAGAATCTGAAGAT
* * *
4748258 GAGTCTGAAGACTTAGAAGAATCAGAACCTTTAGAATTGTCAGAACTTGATAAAGATCCAGAACT
259 GAGTCTGAAGTCTTAGAAGAATCAGAACCTTTAGAATTGTTAGAACTTGATAAAGAACCAGAACT
* * * *
4748323 TCTAGAAGAATCAGAAAAGCCTGAACTTGATGAAGAGCCAAAAATTGTA
324 TTTAGAAGAATCAGAAGAGCCTGAACTTGATGAAGAGTCAAAAGTTGTA
* * * *
4748372 GAAGAGCCAGGACCCTTTGAATTGTTAGAATCTGTTAAAGAACCAAAATTTGTAGTGTCAGAACC
1 GAAGAGCCAGAACCCTTAGAATTGCTAGAACCTGTTAAAGAACCAAAATTTGTAGTGTCAGAACC
*
4748437 TGATAATGCGTCTGATAG-CTTAAAAGAGC-AGGAACCTTTAGAATTGTTAAAACCTGATAAAGA
66 TGATAATGAGTCTGA-AGTCTTAAAAGAGCTA-GAACCTTTAGAATTGTTAAAACCTGATAAAGA
* *
4748500 ACTAGAACTTTTCGAAGAGTCAGAAGCATTAGAAGCTGATGAAGAGTCAGAAGTCGTAGAAGAGC
129 ACCAGAACTTTTAGAAGAGTCAGAAGCATTAGAAGCTGATGAAGAGTCAGAAGTCGTAGAAGAGC
4748565 CATAACCCTTAGAATTGCTAGAATTCGATGAGGATCCAGAACTTGTAATGCCAGAATCTGAAGAT
194 CATAACCCTTAGAATTGCTAGAATTCGATGAGGATCCAGAACTTGTAATGCCAGAATCTGAAGAT
* *
4748630 GAGTCTGAAATCTTAGAAGAACCAGAACCTTTAGAATTGTTAGAACTTGATAAAGAACCAGAACT
259 GAGTCTGAAGTCTTAGAAGAATCAGAACCTTTAGAATTGTTAGAACTTGATAAAGAACCAGAACT
*
4748695 TTTAGAAGAATCAGAAGAGCCTGAACTTGATGAAGAGTCAAAAGTCGTA
324 TTTAGAAGAATCAGAAGAGCCTGAACTTGATGAAGAGTCAAAAGTTGTA
4748744 GAAGAGCCAGAACCCTTAGAATTGCTAGAACCTGTTAAAGAACCAAAATTTGTAGTGTCAGAACC
1 GAAGAGCCAGAACCCTTAGAATTGCTAGAACCTGTTAAAGAACCAAAATTTGTAGTGTCAGAACC
* * * * * *
4748809 TGATGATGACTCCGAAATCTTAAAAGAGCCAAAACCTTTAGAATTGTTAAAACCTGATAAAGAAC
66 TGATAATGAGTCTGAAGTCTTAAAAGAGCTAGAACCTTTAGAATTGTTAAAACCTGATAAAGAAC
* * *
4748874 CAGAACTTTTTA-AAGAGTCAGAAGCATTGGAAGTTGATGAAGAGTCAGAAGTCGTAGAAGAGTC
131 CAGAAC-TTTTAGAAGAGTCAGAAGCATTAGAAGCTGATGAAGAGTCAGAAGTCGTAGAAGAGCC
* * * * *
4748938 ATAACCTTTAGAATTGCTAGAATTCGATGAGAATCCAGCATTTGTAATGCCAGAATCTGAAGAAG
195 ATAACCCTTAGAATTGCTAGAATTCGATGAGGATCCAGAACTTGTAATGCCAGAATCTGAAGATG
*
4749003 AGTTTGAAGTCTTAGAAGAATCAGAACCTTTAGAATTGTTAGAACTTGATAAAGAACCAGAAGC-
260 AGTCTGAAGTCTTAGAAGAATCAGAACCTTTAGAATTGTTAGAACTTGATAAAGAACCAGAA-CT
* * * * **
4749067 TTTAGACGAATCAGAAAAGCCTGAACTTGATGAAGAGCCAAAAGTCGGG
324 TTTAGAAGAATCAGAAGAGCCTGAACTTGATGAAGAGTCAAAAGTTGTA
* * * * *
4749116 GAAGAGCTAGAACCCTTAGAGTCGCTAGAACCTGTTAAAGAATCAAAATTTGTAATGTCAGAACC
1 GAAGAGCCAGAACCCTTAGAATTGCTAGAACCTGTTAAAGAACCAAAATTTGTAGTGTCAGAACC
* *
4749181 TGATTATGAGTCGGAAGTCTTAAAAGAGCTAGAACCTTTAGAATTGTTAAAACCTGATAAAGAAC
66 TGATAATGAGTCTGAAGTCTTAAAAGAGCTAGAACCTTTAGAATTGTTAAAACCTGATAAAGAAC
* * * * * * *
4749246 CAGCACCTTTAGAAGA-ACTAGAAGCGTTGGAAGTTGATGAAGAGTCAGAAGTCGTGGAAGAGCC
131 CAGAACTTTTAGAAGAGTC-AGAAGCATTAGAAGCTGATGAAGAGTCAGAAGTCGTAGAAGAGCC
* * * * *
4749310 ATAACCCATAGAATTACTAGAATTCGATGAGGATCCAGAATTTGTAATGCTAGAATCTGAAGAAG
195 ATAACCCTTAGAATTGCTAGAATTCGATGAGGATCCAGAACTTGTAATGCCAGAATCTGAAGATG
* *
4749375 AGTCTGAAGTCTTAGAAGAATCAGAAACTTTAGAATTGTTAGAACTTGATAAAGAATCAGAACTT
260 AGTCTGAAGTCTTAGAAGAATCAGAACCTTTAGAATTGTTAGAACTTGATAAAGAACCAGAACTT
*
4749440 TTAGAAGAATTAGAAGA-CC----C---A--AA-AGTC-------GTA
325 TTAGAAGAATCAGAAGAGCCTGAACTTGATGAAGAGTCAAAAGTTGTA
* ** * *
4749470 GAAGATCCAGATTCCTTAGAATTGCTAGAACCTGTTAAATAACCAAAATTTGCAGTGTCAGAA-C
1 GAAGAGCCAGAACCCTTAGAATTGCTAGAACCTGTTAAAGAACCAAAATTTGTAGTGTCAGAACC
* ** * * *
4749534 TGGATGATGAGTCCAAAGTCCTAAAAAAGCTAGAA-CGTTAGAATTGTTAAAACCTGATAAAGAA
66 T-GATAATGAGTCTGAAGTCTTAAAAGAGCTAGAACCTTTAGAATTGTTAAAACCTGATAAAGAA
* * **
4749598 CCAGAACTTTTCGAAGAGTCAGAAG-AGCTT-GAA-CTTGATG-A-A-CCAGAA--CGT-TTAGA
130 CCAGAACTTTTAGAAGAGTCAGAAGCA--TTAGAAGC-TGATGAAGAGTCAGAAGTCGTAGAAGA
** * ** * * *
4749654 --C-T--TGCTT-GAA--CCT-G-A-TAAAT-A--A-CCAGAACTTGTAGTGCCAGAACCTGATG
192 GCCATAACCCTTAGAATTGCTAGAATTCGATGAGGATCCAGAACTTGTAATGCCAGAATCTGAAG
* * * *
4749704 -TCGAGTCAGAAGTCTTAGAAGAGTTAGAACCTTTAGAATTGCTAGAACTTGATAAAGAACCAGA
257 AT-GAGTCTGAAGTCTTAGAAGAATCAGAACCTTTAGAATTGTTAGAACTTGATAAAGAACCAGA
* ** * * * * * *
4749768 ACTTGTAGAAGAGCCAGAAGCA-TCGGAATTTGATGAATAGTCAGAAGTTGCA
321 ACTTTTAGAAGAATCAGAAG-AGCCTGAACTTGATGAAGAGTCAAAAGTTGTA
* * * * * * * *
4749820 GAATAACCAGAACCCTTAGAATTGCTAGAACTTGATAAAGAACTC-GAACTTGTAGTGCCAGAAT
1 GAAGAGCCAGAACCCTTAGAATTGCTAGAACCTGTTAAAGAAC-CAAAATTTGTAGTGTCAGAAC
* * * * *
4749884 CTGATGAA-GAGCCTGAACTCTTAGAAGAGCTAGAATCTTTAGAATTGTTAGAACCTGATAAAGA
65 CTGAT-AATGAGTCTGAAGTCTTAAAAGAGCTAGAACCTTTAGAATTGTTAAAACCTGATAAAGA
* * * * * * *
4749948 GCCAAAACTTTTAGAAGAGTC--AA--A--AG-AGC--CTGAAGAGCCTGAACTTGTAGAAGAGC
129 ACCAGAACTTTTAGAAGAGTCAGAAGCATTAGAAGCTGATGAAGAGTCAGAAGTCGTAGAAGAGC
* * * * * * * * * * * *
4750004 CAGAACTCTTAGAACTGTTAGAA-CCTGATAAAGAACTAGAACTTGTAGTGCCAGAACCTGATGA
194 CATAACCCTTAGAATTGCTAGAATTC-GATGAGGATCCAGAACTTGTAATGCCAGAATCTGAAGA
* * * * * *
4750068 TGAATCAGAAGTCTTAGAGGAGTTAGAACCTTTAGAATTGCTAGAACTTGATAAAGAACCAGAA-
258 TGAGTCTGAAGTCTTAGAAGAATCAGAACCTTTAGAATTGTTAGAACTTGATAAAGAACCAGAAC
* * ** * * *
4750132 TTTGGAGCAGAGCCAGAAGTG-CTGGAACTTGATGAATAGTCAGAAGTTGTA
323 TTT-TAGAAGAATCAGAAGAGCCT-GAACTTGATGAAGAGTCAAAAGTTGTA
** * * * * * * ** * * *
4750183 GCCGAGACAGAACTCTTGGAATTGTTAGAACTTGATAAAGAATTAGAACTTGTAGTGCCAGAACC
1 GAAGAGCCAGAACCCTTAGAATTGCTAGAACCTGTTAAAGAACCAAAATTTGTAGTGTCAGAACC
* ** * * *
4750248 TGATGAA-GAGTCTGAAGTCTTAGAAGAGCTAGAACCTTTAGAATTACTAGAATCTGATATAGAA
66 TGAT-AATGAGTCTGAAGTCTTAAAAGAGCTAGAACCTTTAGAATTGTTAAAACCTGATAAAGAA
* * * *
4750312 CCAGAACCTTTAGAAGAG-CTAGAATAGC-CTA-AA-CTTGAGGAAGAGCCA-AAGGTCGTAGAA
130 CCAGAACTTTTAGAAGAGTC-AG-A-AGCATTAGAAGC-TGATGAAGAGTCAGAA-GTCGTAGAA
* * * * * * * * * * * *
4750372 TG-GCTAGAACTCTTAGAATTGCCAGAA-CCTGATAAAGAGCCAGAACTTATAGTGCCAGCAT-A
190 -GAGCCATAACCCTTAGAATTGCTAGAATTC-GATGAGGATCCAGAACTTGTAATGCCAGAATCT
* * * * * *
4750434 GATGATGAGTCAGAAGTTTTAGAAGAGTTAGAACCTTTAGAATTGCTAGAACTTGATAAAGAACC
253 GAAGATGAGTCTGAAGTCTTAGAAGAATCAGAACCTTTAGAATTGTTAGAACTTGATAAAGAACC
* ** * * * *
4750499 AGAACTTGTAGAAGAGCCAGAAGCA-TCGGAACTTGATGAATG-GTCAGAAGTTGCA
318 AGAACTTTTAGAAGAATCAGAAG-AGCCTGAACTTGATGAA-GAGTCAAAAGTTGTA
* * * * * * * * * * *
4750554 GAAGAGCTAGAACCTTTTGAATTGCTCGAATCTGATAAAGAACCAGAACTTATGGT-TCCAGAAA
1 GAAGAGCCAGAACCCTTAGAATTGCTAGAACCTGTTAAAGAACCAAAATTTGTAGTGT-CAGAAC
* * * * *
4750618 CTGATGAA-GAGT-TAGAAGTCTTAGAAGAAAC-ATAACCTTTAGAATTGTTAGAACTTGATAAA
65 CTGAT-AATGAGTCT-GAAGTCTTAAAAG-AGCTAGAACCTTTAGAATTGTTAAAACCTGATAAA
* *
4750680 GAACTAGAACTTATAGAAGAGTCAGAAGC
127 GAACCAGAACTTTTAGAAGAGTCAGAAGC
4750709 GCTGGAATTT
Statistics
Matches: 1964, Mismatches: 277, Indels: 189
0.81 0.11 0.08
Matches are distributed among these distances:
332 95 0.05
333 3 0.00
335 1 0.00
336 3 0.00
337 1 0.00
338 1 0.00
339 2 0.00
340 1 0.00
341 3 0.00
342 6 0.00
343 5 0.00
344 3 0.00
345 8 0.00
347 5 0.00
348 7 0.00
349 2 0.00
350 81 0.04
351 49 0.02
352 1 0.00
353 60 0.03
354 88 0.04
356 1 0.00
357 1 0.00
358 1 0.00
359 2 0.00
360 1 0.00
361 3 0.00
362 7 0.00
363 251 0.13
364 2 0.00
365 4 0.00
366 152 0.08
367 6 0.00
369 5 0.00
370 4 0.00
371 230 0.12
372 862 0.44
373 7 0.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (372 bp):
GAAGAGCCAGAACCCTTAGAATTGCTAGAACCTGTTAAAGAACCAAAATTTGTAGTGTCAGAACC
TGATAATGAGTCTGAAGTCTTAAAAGAGCTAGAACCTTTAGAATTGTTAAAACCTGATAAAGAAC
CAGAACTTTTAGAAGAGTCAGAAGCATTAGAAGCTGATGAAGAGTCAGAAGTCGTAGAAGAGCCA
TAACCCTTAGAATTGCTAGAATTCGATGAGGATCCAGAACTTGTAATGCCAGAATCTGAAGATGA
GTCTGAAGTCTTAGAAGAATCAGAACCTTTAGAATTGTTAGAACTTGATAAAGAACCAGAACTTT
TAGAAGAATCAGAAGAGCCTGAACTTGATGAAGAGTCAAAAGTTGTA
Found at i:4748754 original size:99 final size:95
Alignment explanation
Indices: 4748643--4749447 Score: 389
Period size: 87 Copynumber: 8.6 Consensus size: 95
4748633 TCTGAAATCT
* * *
4748643 TAGAAGAACCAGAACCTTTAGAATTGTTAGAACTTGATAAAGAACCAGAACTTTTAGAAGAATCA
1 TAGAAGAGCCAGAACCTTTAGAATTGCTAGAACCTGATAAAGAACCAGAACTTTTAGAAG-ATCA
4748708 GAAGAGCCTGAACTTGATGAAGAGTCAAAAGTCG
65 G-A-AGCCTGAA-TTGATGAAGAGTCAAAAGTCG
* * * *
4748742 TAGAAGAGCCAGAACCCTTAGAATTGCTAGAACCTGTTAAAGAACCA-AAATTTGTAG-TG-TCA
1 TAGAAGAGCCAGAACCTTTAGAATTGCTAGAACCTGATAAAGAACCAGAACTTT-TAGAAGATCA
* * *
4748804 GAA-CCTG-A-TGAT---GACTCCGAAA-TCT
65 GAAGCCTGAATTGATGAAGAGT-CAAAAGTCG
* * * *
4748829 TAAAAGAGCCAAAACCTTTAGAATTGTTAAAACCTGATAAAGAACCAGAACTTTTTA-AAGAGTC
1 TAGAAGAGCCAGAACCTTTAGAATTGCTAGAACCTGATAAAGAACCAGAAC-TTTTAGAAGA-TC
* *
4748893 AGAAGCATTGGAAGTTGATGAAGAGTCAGAAGTCG
64 AGAAGC-CT-GAA-TTGATGAAGAGTCAAAAGTCG
* * * * *
4748928 TAGAAGAGTCATAACCTTTAGAATTGCTAGAA-TTCGAT-GAGAATCCAG--CATTT----G-T-
1 TAGAAGAGCCAGAACCTTTAGAATTGCTAGAACCT-GATAAAGAA-CCAGAACTTTTAGAAGATC
* * * *** *
4748983 A-ATGCCAGAATCTGAAGAAGAGTTTGAAGTCT
64 AGAAGCCTGAAT-TGATGAAGAGTCAAAAGTCG
** * * *
4749015 TAGAAGAATCAGAACCTTTAGAATTGTTAGAACTTGATAAAGAACCAGAAGC-TTTAGACGAATC
1 TAGAAGAGCCAGAACCTTTAGAATTGCTAGAACCTGATAAAGAACCAGAA-CTTTTAGAAG-ATC
*
4749079 AGAAAAGCCTGAACTTGATGAAGAGCCAAAAGTCG
64 AG--AAGCCTGAA-TTGATGAAGAGTCAAAAGTCG
** * * * * * * * *
4749114 GGGAAGAGCTAGAACCCTTAGAGTCGCTAGAACCTGTTAAAGAATCA-AAATTTGTA-ATG-TCA
1 TAGAAGAGCCAGAACCTTTAGAATTGCTAGAACCTGATAAAGAACCAGAACTTT-TAGAAGATCA
** *
4749176 GAA-CCTG-ATT-AT---GAGTCGGAAGTCT
65 GAAGCCTGAATTGATGAAGAGTCAAAAGTCG
* * * * * * *
4749201 TAAAAGAGCTAGAACCTTTAGAATTGTTAAAACCTGATAAAGAACCAGCACCTTTAGAAGAACTA
1 TAGAAGAGCCAGAACCTTTAGAATTGCTAGAACCTGATAAAGAACCAGAACTTTTAGAAGATC-A
* *
4749266 GAAGCGTTGGAAGTTGATGAAGAGTCAGAAGTCG
65 GAAGC-CT-GAA-TTGATGAAGAGTCAAAAGTCG
* * ** * * * * * * *
4749300 TGGAAGAGCCATAACCCATAGAATTACTAGAA-TTCGATGAGGATCCAGAA-TTTGTA-ATGCT-
1 TAGAAGAGCCAGAACCTTTAGAATTGCTAGAACCT-GATAAAGAACCAGAACTTT-TAGAAGATC
* ** *
4749361 AGAA-TCTG-A---A-GAAGAGTCTGAAGTCT
64 AGAAGCCTGAATTGATGAAGAGTCAAAAGTCG
** * * * *
4749387 TAGAAGAATCAGAAACTTTAGAATTGTTAGAACTTGATAAAGAATCAGAACTTTTAGAAGA
1 TAGAAGAGCCAGAACCTTTAGAATTGCTAGAACCTGATAAAGAACCAGAACTTTTAGAAGA
4749448 ATTAGAAGAC
Statistics
Matches: 527, Mismatches: 123, Indels: 123
0.68 0.16 0.16
Matches are distributed among these distances:
86 1 0.00
87 199 0.38
88 28 0.05
89 10 0.02
90 18 0.03
91 5 0.01
92 5 0.01
93 13 0.02
94 6 0.01
95 4 0.01
96 22 0.04
97 1 0.00
98 25 0.05
99 189 0.36
100 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.24
Consensus pattern (95 bp):
TAGAAGAGCCAGAACCTTTAGAATTGCTAGAACCTGATAAAGAACCAGAACTTTTAGAAGATCAG
AAGCCTGAATTGATGAAGAGTCAAAAGTCG
Found at i:4749447 original size:18 final size:18
Alignment explanation
Indices: 4749386--4749454 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 18
4749376 GTCTGAAGTC
4749386 TTAGAAGAATCAGAAAC-T
1 TTAGAAGAATCAG-AACTT
*** *
4749404 TTAGAATTGTTAGAACTT
1 TTAGAAGAATCAGAACTT
*
4749422 GATA-AAGAATCAGAACTT
1 -TTAGAAGAATCAGAACTT
*
4749440 TTAGAAGAATTAGAA
1 TTAGAAGAATCAGAA
4749455 GACCCAAAAG
Statistics
Matches: 37, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
17 5 0.14
18 30 0.81
19 2 0.05
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.29
Consensus pattern (18 bp):
TTAGAAGAATCAGAACTT
Found at i:4749768 original size:18 final size:18
Alignment explanation
Indices: 4749747--4749786 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
4749737 TAGAATTGCT
4749747 AGAACTTGATA-AAGAACC
1 AGAACTTG-TAGAAGAACC
*
4749765 AGAACTTGTAGAAGAGCC
1 AGAACTTGTAGAAGAACC
4749783 AGAA
1 AGAA
4749787 GCATCGGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (18 bp):
AGAACTTGTAGAAGAACC
Found at i:4750288 original size:18 final size:18
Alignment explanation
Indices: 4750267--4750335 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 18
4750257 GTCTGAAGTC
4750267 TTAGAAGAGCTAGAACCT
1 TTAGAAGAGCTAGAACCT
* *
4750285 TTAGAATTA-CTAGAATCT
1 TTAGAA-GAGCTAGAACCT
* * * *
4750303 GATA-TAGAACCAGAACCT
1 -TTAGAAGAGCTAGAACCT
4750321 TTAGAAGAGCTAGAA
1 TTAGAAGAGCTAGAA
4750336 TAGCCTAAAC
Statistics
Matches: 36, Mismatches: 11, Indels: 8
0.65 0.20 0.15
Matches are distributed among these distances:
17 3 0.08
18 30 0.83
19 3 0.08
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (18 bp):
TTAGAAGAGCTAGAACCT
Found at i:4750502 original size:18 final size:18
Alignment explanation
Indices: 4750481--4750520 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
4750471 TAGAATTGCT
4750481 AGAACTTGATA-AAGAACC
1 AGAACTTG-TAGAAGAACC
*
4750499 AGAACTTGTAGAAGAGCC
1 AGAACTTGTAGAAGAACC
4750517 AGAA
1 AGAA
4750521 GCATCGGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (18 bp):
AGAACTTGTAGAAGAACC
Done.