Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 15 of 126
Found at i:3500394 original size:22 final size:22
Alignment explanation
Indices: 3500369--3500411 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
3500359 TTTTTTATCA
*
3500369 TTAATTCTAGGGATACAAATAC
1 TTAATTCTAGAGATACAAATAC
3500391 TTAATTCTAGAGATACAAATA
1 TTAATTCTAGAGATACAAATA
3500412 TAAATATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (22 bp):
TTAATTCTAGAGATACAAATAC
Found at i:3506082 original size:2 final size:2
Alignment explanation
Indices: 3506077--3506121 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
3506067 CGTGTGTGTT
3506077 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3506119 TA T
1 TA T
3506122 GATAACGGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3507685 original size:4 final size:4
Alignment explanation
Indices: 3507676--3507718 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
3507666 TTGTCAATAT
3507676 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
3507719 TACAAATATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:3507744 original size:12 final size:12
Alignment explanation
Indices: 3507672--3507755 Score: 69
Period size: 12 Copynumber: 6.8 Consensus size: 12
3507662 AGAATTGTCA
*
3507672 ATATATACATAC
1 ATATATATATAC
* *
3507684 ATACATACATAC
1 ATATATATATAC
* *
3507696 ATACATACATAC
1 ATATATATATAC
*
3507708 ATACATACATATAC
1 AT--ATATATATAC
* *
3507722 AAATATGTATAC
1 ATATATATATAC
*
3507734 ATATGTATATAC
1 ATATATATATAC
3507746 ATATATATAT
1 ATATATATAT
3507756 TGTCTTTGTT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
12 51 0.86
14 8 0.14
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.33
Consensus pattern (12 bp):
ATATATATATAC
Found at i:3507906 original size:2 final size:2
Alignment explanation
Indices: 3507899--3508035 Score: 103
Period size: 2 Copynumber: 68.5 Consensus size: 2
3507889 CAAATTCATG
* * * * * *
3507899 TA TA TA TA TG TA TA TA TA TG TG TA TA TG TA TA TC TG 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
* * * * *
3507941 GA TA TA CA TA TA TA TA TA TA TG TA TA TA GA TA CA 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
* * * * * * * *
3507983 CA TA TA TA TA GA TA CA TA TA TA TG CA TG TA TG TG 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
3508025 TA TA TA TA TA T
1 TA TA TA TA TA T
3508036 TGTCTTTGTT
Statistics
Matches: 102, Mismatches: 33, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
2 102 1.00
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (2 bp):
TA
Found at i:3513019 original size:18 final size:19
Alignment explanation
Indices: 3512991--3513031 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
3512981 ATGGAGTTTT
* *
3512991 TTTTAATAAGATTTCTATA
1 TTTTAATAAGATTCCAATA
3513010 TTTT-ATAAGATTCCAATA
1 TTTTAATAAGATTCCAATA
3513028 TTTT
1 TTTT
3513032 CATGAAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTTAATAAGATTCCAATA
Found at i:3516009 original size:23 final size:23
Alignment explanation
Indices: 3515960--3516027 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 23
3515950 TGATAATTTA
* *
3515960 AAATATGATATGATGATATAATAT
1 AAATATGATATAAT-ATAAAATAT
*
3515984 AAATATTATATAATATAAAATAT
1 AAATATGATATAATATAAAATAT
*
3516007 AAA-AGTGATATAATCTAAAAT
1 AAATA-TGATATAATATAAAAT
3516028 TTTAATAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
22 1 0.03
23 25 0.66
24 12 0.32
ACGTcount: A:0.56, C:0.01, G:0.07, T:0.35
Consensus pattern (23 bp):
AAATATGATATAATATAAAATAT
Found at i:3518603 original size:14 final size:14
Alignment explanation
Indices: 3518586--3518673 Score: 51
Period size: 14 Copynumber: 6.2 Consensus size: 14
3518576 TTTATTATAT
3518586 ATAATTA-ATTATTA
1 ATAATTATA-TATTA
*
3518600 ATAATTTTATATTA
1 ATAATTATATATTA
3518614 ATAA-TATTACTATT-
1 ATAATTA-TA-TATTA
* *
3518628 ATCATT-TATGTTA
1 ATAATTATATATTA
3518641 ATTTAATTATAATATTA
1 A--TAATTAT-ATATTA
*
3518658 ATAATT-TAAATTA
1 ATAATTATATATTA
3518671 ATA
1 ATA
3518674 TATCAAAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 19
0.69 0.08 0.23
Matches are distributed among these distances:
12 3 0.05
13 12 0.21
14 21 0.36
15 15 0.26
16 1 0.02
17 6 0.10
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.51
Consensus pattern (14 bp):
ATAATTATATATTA
Found at i:3522551 original size:22 final size:23
Alignment explanation
Indices: 3522523--3522570 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
3522513 ATTTGTATTA
*
3522523 AAAAATAATATTTTA-TATTTTT
1 AAAAATAATATTTTATTAATTTT
3522545 AAAAATAATATTTTATTAATTTT
1 AAAAATAATATTTTATTAATTTT
3522568 AAA
1 AAA
3522571 TTTGATTGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
AAAAATAATATTTTATTAATTTT
Found at i:3523169 original size:22 final size:23
Alignment explanation
Indices: 3523144--3523190 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
3523134 TTTTTAAATA
3523144 TTTATA-TTTAAAAAATAATATT
1 TTTATATTTTAAAAAATAATATT
3523166 TTTATATTTTAAAAAATAATATT
1 TTTATATTTTAAAAAATAATATT
3523189 TT
1 TT
3523191 ATTAATTTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTATATTTTAAAAAATAATATT
Found at i:3523191 original size:22 final size:21
Alignment explanation
Indices: 3523140--3523192 Score: 81
Period size: 23 Copynumber: 2.5 Consensus size: 21
3523130 GATATTTTTA
3523140 AATA-TTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
3523160 AATATTTTTATATTTTAAAAAAT
1 AATA-TTTTATA-TTTAAAAAAT
3523183 AATATTTTAT
1 AATATTTTAT
3523193 TAATTTCGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.13
22 12 0.40
23 14 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:3529309 original size:17 final size:17
Alignment explanation
Indices: 3529287--3529319 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3529277 ATTAGTTATA
3529287 TTTTTTAATAAAAATAT
1 TTTTTTAATAAAAATAT
*
3529304 TTTTTTAATTAAAATA
1 TTTTTTAATAAAAATA
3529320 AGTTAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTTTAATAAAAATAT
Found at i:3529985 original size:17 final size:17
Alignment explanation
Indices: 3529963--3529999 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
3529953 TTTATTTTTA
3529963 TATATTTTATAAAATAT
1 TATATTTTATAAAATAT
* *
3529980 TATATTTTTTAAAATTT
1 TATATTTTATAAAATAT
3529997 TAT
1 TAT
3530000 TATGATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATATTTTATAAAATAT
Found at i:3530525 original size:25 final size:25
Alignment explanation
Indices: 3530497--3530547 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
3530487 TTTTGAATAT
3530497 TTATTTTCTATTTGAAACAAAAATC
1 TTATTTTCTATTTGAAACAAAAATC
3530522 TTATTTTCTATTTGAAACAAAAATC
1 TTATTTTCTATTTGAAACAAAAATC
3530547 T
1 T
3530548 ATCTAACAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (25 bp):
TTATTTTCTATTTGAAACAAAAATC
Found at i:3530724 original size:31 final size:31
Alignment explanation
Indices: 3530689--3530753 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
3530679 TAAAATTAAG
*
3530689 TTAAAATTAAATGATAATTCTATTTTGGTC-C
1 TTAAAATTAAAT-AAAATTCTATTTTGGTCAC
* **
3530720 TTAAATTTTGATAAAATTCTATTTTGGTCAC
1 TTAAAATTAAATAAAATTCTATTTTGGTCAC
3530751 TTA
1 TTA
3530754 TCTACCACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 16 0.55
31 13 0.45
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.48
Consensus pattern (31 bp):
TTAAAATTAAATAAAATTCTATTTTGGTCAC
Found at i:3531783 original size:22 final size:23
Alignment explanation
Indices: 3531744--3531792 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
3531734 ACAAAATAAA
* *
3531744 ATTT-TAATTTTTACAAA-TATT
1 ATTTATAATTTTAAAAAATTATT
*
3531765 TTTTATAATTTTAAAAAATTATT
1 ATTTATAATTTTAAAAAATTATT
3531788 ATTTA
1 ATTTA
3531793 AAAAAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 3 0.14
22 11 0.50
23 8 0.36
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTTATAATTTTAAAAAATTATT
Found at i:3537883 original size:20 final size:20
Alignment explanation
Indices: 3537803--3537883 Score: 60
Period size: 20 Copynumber: 4.0 Consensus size: 20
3537793 TGATTTAATA
* *
3537803 TATATAAAAAATTATTTTAAT
1 TATATTAAAAA-TATTTTATT
* *
3537824 TA-ATTAATTAATATTATATT
1 TATATTAA-AAATATTTTATT
*
3537844 TATA-TATATAAT-TTTATATT
1 TATATTA-AAAATATTT-TATT
3537864 TATATTAAAAATATTTTATT
1 TATATTAAAAATATTTTATT
3537884 AATTTTAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
19 2 0.04
20 35 0.73
21 11 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATATTAAAAATATTTTATT
Found at i:3541733 original size:2 final size:2
Alignment explanation
Indices: 3541726--3541752 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3541716 TTCTTATTTA
3541726 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
3541753 AAAAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3542595 original size:14 final size:13
Alignment explanation
Indices: 3542571--3542597 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3542561 ATATTATATA
3542571 AAAATAATTTTTT
1 AAAATAATTTTTT
3542584 AAAATAATTTTTT
1 AAAATAATTTTTT
3542597 A
1 A
3542598 TTTATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAAATAATTTTTT
Found at i:3542618 original size:26 final size:25
Alignment explanation
Indices: 3542587--3542637 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
3542577 ATTTTTTAAA
* * *
3542587 ATAATTTTTTATTTATATATATTTAT
1 ATAATTATATATTTAAATAT-TTTAT
3542613 ATAATTATATATTTAAATATTTTAT
1 ATAATTATATATTTAAATATTTTAT
3542638 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
ATAATTATATATTTAAATATTTTAT
Found at i:3542653 original size:20 final size:19
Alignment explanation
Indices: 3542628--3542678 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 19
3542618 TATATATTTA
3542628 AATATTTTATTTTAAAAAAT
1 AATATTTTATTTT-AAAAAT
3542648 AATATTTTATATTTAAAAAT
1 AATATTTTAT-TTTAAAAAT
3542668 AATATTTTATT
1 AATATTTTATT
3542679 AATTTCGACT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 1 0.03
20 26 0.87
21 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATATTTTATTTTAAAAAT
Found at i:3546163 original size:24 final size:25
Alignment explanation
Indices: 3546130--3546176 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
3546120 TTGAAAATTT
3546130 TTTTTCAATCGTAACTACAATAATA
1 TTTTTCAATCGTAACTACAATAATA
* *
3546155 TTTTT-AATCGTAATTATAATAA
1 TTTTTCAATCGTAACTACAATAA
3546177 CTTTTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (25 bp):
TTTTTCAATCGTAACTACAATAATA
Found at i:3550018 original size:21 final size:21
Alignment explanation
Indices: 3549989--3550028 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3549979 AAAAATAATA
3549989 ATAAAAATAAAATTAATTACT
1 ATAAAAATAAAATTAATTACT
* * *
3550010 ATAACAATAAGATTGATTA
1 ATAAAAATAAAATTAATTA
3550029 TTGTAATGAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (21 bp):
ATAAAAATAAAATTAATTACT
Found at i:3550939 original size:13 final size:14
Alignment explanation
Indices: 3550905--3550939 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
3550895 CCTGAACGTC
3550905 TTGCTACAACATGA
1 TTGCTACAACATGA
3550919 TT-CTACAACATGA
1 TTGCTACAACATGA
3550932 TTGC-ACAA
1 TTGCTACAA
3550940 AAAATCATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 17 0.85
14 3 0.15
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (14 bp):
TTGCTACAACATGA
Found at i:3555345 original size:306 final size:306
Alignment explanation
Indices: 3554784--3555395 Score: 1055
Period size: 306 Copynumber: 2.0 Consensus size: 306
3554774 TACGAATACC
* * *
3554784 ATTGAACAGTCCAGGAAAGAATACCAGAATTCCAAAACTGAGTGGGAGCAAAAAGAACTGCATTT
1 ATTGAACAGTCCAGGAAAGAATACCAGAATTCCAAAACTGAGTGGGAACAAAAAAAACGGCATTT
* *
3554849 AGTAGATTCTGTAAAAAAATCGGAAGAAGAAAATGCTTCTCTTGAAAAAGAAATTAATGGGCTGG
66 AGTAGATTCTGTAAAAAAATCGGAAGAAGAAAATGCTTCTCTGGAAAAAGAAATTAATAGGCTGG
* *
3554914 TAACTTTGCTTAAACAATCTGAGGAAGAAGCTTCTGCATCTAAGGAGGAAGAAGCTCAGTTGAAG
131 TAAATTTGCTTAAACAATCCGAGGAAGAAGCTTCTGCATCTAAGGAGGAAGAAGCTCAGTTGAAG
*
3554979 GAGAGCCTAAAGGAAGTTGAATCTGAGGTGATTTATCTGCAAGAAGCTCTAAAGGAGGTCAAGAT
196 GAGAGCCTAAAGGAAGTTGAATCTGAGGTGATTTATCTGCAAGAAGATCTAAAGGAGGTCAAGAT
*
3555044 TGAGAGCATGAAATTGAAGGAGAGTTTGTTGGATAAAGAAACTGAA
261 TGAGAGCATGAAATTGAAGGAGACTTTGTTGGATAAAGAAACTGAA
*
3555090 ATTGAACAGTCCAGGAATGAATACCAGAATTCCAAAACTGAGTGGGAACAAAAAAAACGGCATTT
1 ATTGAACAGTCCAGGAAAGAATACCAGAATTCCAAAACTGAGTGGGAACAAAAAAAACGGCATTT
* * *
3555155 AGTAGATTGTGTAATAAAATCGGAAGAAGAAAATGCTTCTCTGGAAAAAGAAATTAATAGGTTGG
66 AGTAGATTCTGTAAAAAAATCGGAAGAAGAAAATGCTTCTCTGGAAAAAGAAATTAATAGGCTGG
*
3555220 TAAATTTGCTTAAACAATCCGAGGAAGAAGCTTCTGCATCTAAGGAGGAAGAAGTTCAGTTGAAG
131 TAAATTTGCTTAAACAATCCGAGGAAGAAGCTTCTGCATCTAAGGAGGAAGAAGCTCAGTTGAAG
* *
3555285 GAGAGCTTAAAGGAAGTTGAATCTGAGGTGATTTGTCTGCAAGAAGATCTGAAA-GAGGTCAAGA
196 GAGAGCCTAAAGGAAGTTGAATCTGAGGTGATTTATCTGCAAGAAGATCT-AAAGGAGGTCAAGA
*
3555349 TTGAGAGCATGAAATTGAAGGAGTCTTTGTTGGATAAAGAAACTGAA
260 TTGAGAGCATGAAATTGAAGGAGACTTTGTTGGATAAAGAAACTGAA
3555396 TTGCAGAGTG
Statistics
Matches: 288, Mismatches: 17, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
306 285 0.99
307 3 0.01
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.23
Consensus pattern (306 bp):
ATTGAACAGTCCAGGAAAGAATACCAGAATTCCAAAACTGAGTGGGAACAAAAAAAACGGCATTT
AGTAGATTCTGTAAAAAAATCGGAAGAAGAAAATGCTTCTCTGGAAAAAGAAATTAATAGGCTGG
TAAATTTGCTTAAACAATCCGAGGAAGAAGCTTCTGCATCTAAGGAGGAAGAAGCTCAGTTGAAG
GAGAGCCTAAAGGAAGTTGAATCTGAGGTGATTTATCTGCAAGAAGATCTAAAGGAGGTCAAGAT
TGAGAGCATGAAATTGAAGGAGACTTTGTTGGATAAAGAAACTGAA
Found at i:3563566 original size:33 final size:33
Alignment explanation
Indices: 3563529--3563597 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
3563519 ATCTCGATTT
3563529 TATGTTTATTTGATTAATAATATACAAAAATCA
1 TATGTTTATTTGATTAATAATATACAAAAATCA
*
3563562 TATGTTTATTTGATTAATAATATACAAGAATCA
1 TATGTTTATTTGATTAATAATATACAAAAATCA
3563595 TAT
1 TAT
3563598 ATTAAAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.43
Consensus pattern (33 bp):
TATGTTTATTTGATTAATAATATACAAAAATCA
Found at i:3565229 original size:94 final size:96
Alignment explanation
Indices: 3564959--3565477 Score: 290
Period size: 96 Copynumber: 5.5 Consensus size: 96
3564949 TTTAAAAAAC
* *
3564959 TAATATATTTTATGAAATATT-TAATTTAAAATAAATAAATTTTAAAATGTTTTATTTAATTTAA
1 TAATATATTTTATCAAATATTATAATTTAAAATAAATAAAATTTAAAA--TTTTATTT--TTTAA
* * * *
3565023 TTTAA-TTTT-TTTATTTTTAAGCATAATACATATTTT
62 --TAAGTTTTCTTAATTTTTTAGAAT-ATACATAGTTT
* * * * * *
3565059 TAACATA-TTTGT-AAATATTATAATTT-AAATCAATAAAATTTTATATTTTATATTTT-A-AAG
1 TAATATATTTTATCAAATATTATAATTTAAAATAAATAAAATTTAAAATTTTATTTTTTAATAAG
* * *
3565119 ATATTTATTATTTTTTTAGAATATA-ATA-TAT
66 -T-TTTCTTAATTTTTTAGAATATACATAGTTT
* * *
3565150 TAATATGTATTATCAAATATTATAATTTAAAATAAAT-AAATTTCAAAATTTTCTTTTTTAATAA
1 TAATATATTTTATCAAATATTATAATTTAAAATAAATAAAATTT-AAAATTTTATTTTTTAATAA
* *
3565214 GTTTTCTTAATTTTTT-CAATGTACTATAGTTT
65 GTTTTCTTAATTTTTTAGAATATAC-ATAGTTT
* *
3565246 TAATATATTTTATCAAA-ATTTATAGTTTAAAAT-AATAAAATTTAAAA--TTCTTTTTTAATAA
1 TAATATATTTTATCAAATA-TTATAATTTAAAATAAATAAAATTTAAAATTTTATTTTTTAAT-A
* * *
3565307 ATTTTCTACTTTCAAATTTTTAG-GTATAACATA-TTT
64 AGTTT-T-C-TT-AATTTTTTAGAATAT-ACATAGTTT
* *
3565343 T--TATATTTTAT--AGTGCTTTATAATTTAAAATAAAT--AATTTGAAAATTTTA-TTTTTAAT
1 TAATATATTTTATCAAAT--ATTATAATTTAAAATAAATAAAATTT-AAAATTTTATTTTTTAAT
* **
3565401 ATGTTTT-TTGAA-AATTTA-AACTTATACA-A-TTT
63 AAGTTTTCTT-AATTTTTTAGAA--TATACATAGTTT
* * * **
3565433 TAATATATTTTATCGAATTTTTTGGTTTAAAATAAAT-AAATTTAA
1 TAATATATTTTATCAAATATTATAATTTAAAATAAATAAAATTTAA
3565478 TGTGAATTTT
Statistics
Matches: 333, Mismatches: 48, Indels: 84
0.72 0.10 0.18
Matches are distributed among these distances:
90 11 0.03
91 14 0.04
92 38 0.11
93 50 0.15
94 57 0.17
95 45 0.14
96 58 0.17
97 8 0.02
98 34 0.10
99 12 0.04
100 6 0.02
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (96 bp):
TAATATATTTTATCAAATATTATAATTTAAAATAAATAAAATTTAAAATTTTATTTTTTAATAAG
TTTTCTTAATTTTTTAGAATATACATAGTTT
Found at i:3567093 original size:23 final size:26
Alignment explanation
Indices: 3567042--3567095 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
3567032 TAAATTTAAC
* *
3567042 TAATTATGATATGAAGAGTATTTTCA
1 TAATTATGATATGAAGAGTATTATAA
3567068 TAATTATGATAT-AA-A-TATTATAA
1 TAATTATGATATGAAGAGTATTATAA
3567091 TAATT
1 TAATT
3567096 TATTATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 11 0.42
24 1 0.04
25 2 0.08
26 12 0.46
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (26 bp):
TAATTATGATATGAAGAGTATTATAA
Found at i:3572444 original size:69 final size:69
Alignment explanation
Indices: 3572328--3572463 Score: 200
Period size: 69 Copynumber: 2.0 Consensus size: 69
3572318 AGCTTGGAGG
* * * * *
3572328 AGAAGAACTTCTTTAGTGTGTAATCTATGGAATTTGTGTCAGCTAGTCCGGTAAATTACTACTAA
1 AGAAGAACTTCTTTAGTCTGTAACCTATGAAATGTGTGTCAGCTAGTCCGGCAAATTACTACTAA
3572393 TACA
66 TACA
* * *
3572397 AGAATAACTTCTTTAGTCTGTAACCTATGAAATGTGTGTCAGCTAGTCTGGCAAATTACTATTAA
1 AGAAGAACTTCTTTAGTCTGTAACCTATGAAATGTGTGTCAGCTAGTCCGGCAAATTACTACTAA
3572462 TA
66 TA
3572464 ACTGGGGACT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (69 bp):
AGAAGAACTTCTTTAGTCTGTAACCTATGAAATGTGTGTCAGCTAGTCCGGCAAATTACTACTAA
TACA
Found at i:3572878 original size:71 final size:71
Alignment explanation
Indices: 3572794--3572935 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
3572784 GGAATTTCTA
3572794 GTTTCTTCAAGCCTATCCCTTTCAAGAGCAACTTTTGAAGCATCCTTGAAAGCACACACAGTAAT
1 GTTTCTTCAAGCCTATCCCTTTCAAGAGCAACTTTTGAAGCATCCTTGAAAGCACACACAGTAAT
3572859 GGATAC
66 GGATAC
*
3572865 GTTTCTTCAAGCCTATCCCTTTCAAGAGCAACTTTTGAAGCATCCTTGAAAGGACACACAGTAAT
1 GTTTCTTCAAGCCTATCCCTTTCAAGAGCAACTTTTGAAGCATCCTTGAAAGCACACACAGTAAT
3572930 GGATAC
66 GGATAC
3572936 CAAATAATAG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (71 bp):
GTTTCTTCAAGCCTATCCCTTTCAAGAGCAACTTTTGAAGCATCCTTGAAAGCACACACAGTAAT
GGATAC
Found at i:3573919 original size:2 final size:2
Alignment explanation
Indices: 3573907--3573936 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3573897 GAAAGTCATT
3573907 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3573937 TTAAGATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:3577110 original size:24 final size:23
Alignment explanation
Indices: 3577057--3577113 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
3577047 TTTGAATTTG
*
3577057 ATTTAATTTTTTTATTTAATCATA
1 ATTTAATTTTTTTAATTAAT-ATA
*
3577081 AATTAATTTTTGATTAATTAAT-TA
1 ATTTAATTTTT--TTAATTAATATA
3577105 ATTTAATTT
1 ATTTAATTT
3577114 ATTTGTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 20 0.71
26 8 0.29
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
ATTTAATTTTTTTAATTAATATA
Found at i:3578475 original size:36 final size:36
Alignment explanation
Indices: 3578434--3578507 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
3578424 TGAAAAAGAC
*
3578434 TTCATAAAATTTTATAGGTAAAATTCTCGAAGTTCT
1 TTCATAAAATTTTATAGGTAAAATTCTCGAAATTCT
3578470 TTCATAAAATTTTATAGGTAAAATTCTCGAAATTCT
1 TTCATAAAATTTTATAGGTAAAATTCTCGAAATTCT
3578506 TT
1 TT
3578508 ATTAGAAATG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (36 bp):
TTCATAAAATTTTATAGGTAAAATTCTCGAAATTCT
Found at i:3578587 original size:10 final size:10
Alignment explanation
Indices: 3578574--3578610 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
3578564 TTAATTATGC
3578574 AAAATTTGAA
1 AAAATTTGAA
3578584 AAAATTTGAA
1 AAAATTTGAA
3578594 AAAATTT-AA
1 AAAATTTGAA
3578603 ATAAATTT
1 A-AAATTT
3578611 TGATATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 3 0.12
10 23 0.88
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (10 bp):
AAAATTTGAA
Found at i:3578706 original size:18 final size:20
Alignment explanation
Indices: 3578680--3578716 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
3578670 ATAAATATTC
3578680 ATAAAA-TTTAAAT-TATAA
1 ATAAAATTTTAAATATATAA
*
3578698 ATAATATTTTAAATATATA
1 ATAAAATTTTAAATATATA
3578717 TATTTTACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.31
19 7 0.44
20 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATAAAATTTTAAATATATAA
Found at i:3584577 original size:29 final size:30
Alignment explanation
Indices: 3584535--3584593 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
3584525 AATTAATAAA
*
3584535 TTTATAATTCAAATATAATATTAAA-ATTT
1 TTTAAAATTCAAATATAATATTAAATATTT
* *
3584564 TTTAAAATTTAAATATTATATTAAATATTT
1 TTTAAAATTCAAATATAATATTAAATATTT
3584594 CACTATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (30 bp):
TTTAAAATTCAAATATAATATTAAATATTT
Found at i:3585162 original size:6 final size:6
Alignment explanation
Indices: 3585151--3585206 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
3585141 CGTTTTGATG
* * * * *
3585151 TAAATA TAAATA TATATA T-GATG TAAATA TAAATA TATATA TATGATA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TA-AATA
3585199 TAAATA TA
1 TAAATA TA
3585207 TAAATGTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
5 3 0.08
6 32 0.80
7 5 0.12
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (6 bp):
TAAATA
Found at i:3585172 original size:23 final size:23
Alignment explanation
Indices: 3585146--3585208 Score: 98
Period size: 23 Copynumber: 2.9 Consensus size: 23
3585136 TTATACGTTT
3585146 TGATGTAAATATAAATATATATA
1 TGATGTAAATATAAATATATATA
3585169 TGATGTAAATATAAATATATATA
1 TGATGTAAATATAAATATATATA
3585192 T-ATG---ATATAAATATATA
1 TGATGTAAATATAAATATATA
3585209 AATGTTAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.32
22 3 0.08
23 24 0.60
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (23 bp):
TGATGTAAATATAAATATATATA
Found at i:3585194 original size:25 final size:24
Alignment explanation
Indices: 3585146--3585211 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 24
3585136 TTATACGTTT
3585146 TGATGTAAATAT-AAATATATATA
1 TGATGTAAATATAAAATATATATA
3585169 TGATGTAAATATAAATATATATATA
1 TGATGTAAATATAAA-ATATATATA
*
3585194 TGATATAAATATATAAAT
1 TGATGTAAATATA-AAAT
3585212 GTTAAATAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
23 12 0.31
24 2 0.05
25 23 0.59
26 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (24 bp):
TGATGTAAATATAAAATATATATA
Found at i:3585220 original size:19 final size:19
Alignment explanation
Indices: 3585157--3585221 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
3585147 GATGTAAATA
* *
3585157 TAAATATATATAT-GATGT
1 TAAATAAATATATAAATGT
* * *
3585175 AAATATAAATATATATATAT
1 TAA-ATAAATATATAAATGT
* *
3585195 GATATAAATATATAAATGT
1 TAAATAAATATATAAATGT
3585214 TAAATAAA
1 TAAATAAA
3585222 AAAATTAATG
Statistics
Matches: 35, Mismatches: 10, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
18 2 0.06
19 29 0.83
20 4 0.11
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (19 bp):
TAAATAAATATATAAATGT
Found at i:3586204 original size:21 final size:21
Alignment explanation
Indices: 3586167--3586209 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
3586157 TAACATGATC
*
3586167 TTTTAATTTATCGATTTTTAA
1 TTTTAATTTATCGATTTGTAA
*
3586188 TTTTTATTTAATC-ATTTGTAA
1 TTTTAATTT-ATCGATTTGTAA
3586209 T
1 T
3586210 AAAAAAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (21 bp):
TTTTAATTTATCGATTTGTAA
Found at i:3588239 original size:2 final size:2
Alignment explanation
Indices: 3588232--3588273 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
3588222 TTGGTTATCT
3588232 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3588273 T
1 T
3588274 TTTTCATTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3590598 original size:2 final size:2
Alignment explanation
Indices: 3590591--3590621 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3590581 AAAAACAAAC
3590591 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3590622 TGTTGATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3590946 original size:4 final size:4
Alignment explanation
Indices: 3590937--3590966 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
3590927 TTATATATGT
3590937 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
3590967 GTATATCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:3591937 original size:2 final size:2
Alignment explanation
Indices: 3591932--3591956 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3591922 ATATTAATTA
3591932 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3591957 GATTAACTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3592111 original size:2 final size:2
Alignment explanation
Indices: 3592104--3592136 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3592094 CAATGTCATT
3592104 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3592137 CCAAAGAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3592336 original size:2 final size:2
Alignment explanation
Indices: 3592283--3592320 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
3592273 AGTACGTGTG
*
3592283 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3592321 TCTCTCATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3597152 original size:28 final size:29
Alignment explanation
Indices: 3597099--3597161 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
3597089 ACATTAAAAA
*
3597099 CAAATTTCATATAAAAATGTTTATTACAG
1 CAAATTTCATATAAAAATGTTGATTACAG
* *
3597128 -AAATTTTATATAAAAACT-TTGATTATAG
1 CAAATTTCATATAAAAA-TGTTGATTACAG
3597156 CAAATT
1 CAAATT
3597162 AATCGAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 23 0.79
29 6 0.21
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (29 bp):
CAAATTTCATATAAAAATGTTGATTACAG
Found at i:3598917 original size:2 final size:2
Alignment explanation
Indices: 3598910--3598960 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
3598900 ACCCTGAGTG
3598910 TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3598951 TA TA TA TA TA
1 TA TA TA TA TA
3598961 ATTATTTGTC
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:3603309 original size:24 final size:24
Alignment explanation
Indices: 3603282--3603334 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
3603272 TATCATGTAA
*
3603282 AAATATCATAATAAA-CATGCAAAT
1 AAATATAATAA-AAATCATGCAAAT
3603306 AAATATAATAAAAATCATGCAAAT
1 AAATATAATAAAAATCATGCAAAT
3603330 AAATA
1 AAATA
3603335 AACTTCATGC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 3 0.11
24 24 0.89
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.25
Consensus pattern (24 bp):
AAATATAATAAAAATCATGCAAAT
Found at i:3603329 original size:77 final size:77
Alignment explanation
Indices: 3603226--3603411 Score: 340
Period size: 77 Copynumber: 2.4 Consensus size: 77
3603216 AATCATGTAA
*
3603226 AAATAAATCATAAT--AAATAATGCAAATAAATAAACTTCATGCAAAATATCATGTAAAAATATC
1 AAATAAAT-ATAATAAAAATCATGCAAATAAATAAACTTCATGCAAAATATCATGTAAAAATATC
3603289 ATAATAAACATGC
65 ATAATAAACATGC
3603302 AAATAAATATAATAAAAATCATGCAAATAAATAAACTTCATGCAAAATATCATGTAAAAATATCA
1 AAATAAATATAATAAAAATCATGCAAATAAATAAACTTCATGCAAAATATCATGTAAAAATATCA
3603367 TAATAAACATGC
66 TAATAAACATGC
3603379 AAATAAATATAATAAAAATCATGCAAATAAATA
1 AAATAAATATAATAAAAATCATGCAAATAAATA
3603412 TAATAATAAA
Statistics
Matches: 107, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
75 5 0.05
76 8 0.07
77 94 0.88
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.26
Consensus pattern (77 bp):
AAATAAATATAATAAAAATCATGCAAATAAATAAACTTCATGCAAAATATCATGTAAAAATATCA
TAATAAACATGC
Found at i:3603349 original size:20 final size:20
Alignment explanation
Indices: 3603306--3603347 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
3603296 ACATGCAAAT
3603306 AAATATAATAAAAATCATGC
1 AAATATAATAAAAATCATGC
**
3603326 AAATA-AATAAACTTCATGC
1 AAATATAATAAAAATCATGC
3603345 AAA
1 AAA
3603348 ATATCATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.24
Consensus pattern (20 bp):
AAATATAATAAAAATCATGC
Found at i:3603386 original size:24 final size:24
Alignment explanation
Indices: 3603359--3603417 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
3603349 TATCATGTAA
*
3603359 AAATATCATAATAAA-CATGCAAAT
1 AAATATAATAA-AAATCATGCAAAT
3603383 AAATATAATAAAAATCATGCAAAT
1 AAATATAATAAAAATCATGCAAAT
3603407 AAATATAATAA
1 AAATATAATAA
3603418 TAAAAATCCC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
23 3 0.09
24 30 0.91
ACGTcount: A:0.63, C:0.08, G:0.03, T:0.25
Consensus pattern (24 bp):
AAATATAATAAAAATCATGCAAAT
Found at i:3603929 original size:7 final size:7
Alignment explanation
Indices: 3603917--3603941 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3603907 AATCAAAATC
3603917 AAATTTT
1 AAATTTT
3603924 AAATTTT
1 AAATTTT
3603931 AAATTTT
1 AAATTTT
3603938 AAAT
1 AAAT
3603942 CTAAATAAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AAATTTT
Found at i:3604433 original size:22 final size:22
Alignment explanation
Indices: 3604408--3604479 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
3604398 TGCAAAAAGA
3604408 GATACTC-GAGGGTTTTTAGAAT
1 GATACTCAGA-GGTTTTTAGAAT
*
3604430 GATACTCAGAGGTATTTA-ATAT
1 GATACTCAGAGGTTTTTAGA-AT
*
3604452 GATAC-CTAGAGGTTTTTGAGGAT
1 GATACTC-AGAGGTTTTT-AGAAT
3604475 GATAC
1 GATAC
3604480 CTTGAGGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
21 2 0.05
22 30 0.71
23 10 0.24
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.35
Consensus pattern (22 bp):
GATACTCAGAGGTTTTTAGAAT
Found at i:3605415 original size:25 final size:25
Alignment explanation
Indices: 3605387--3605471 Score: 75
Period size: 25 Copynumber: 3.4 Consensus size: 25
3605377 TCATCAAATG
3605387 ATGCAAATGTATGATCCAAACAATT
1 ATGCAAATGTATGATCCAAACAATT
* * **** *
3605412 ATGC-AATTTATAAATTTTTA-AATG
1 ATGCAAATGTAT-GATCCAAACAATT
*
3605436 ATGCAAATGCATGATCCAAACAATT
1 ATGCAAATGTATGATCCAAACAATT
3605461 ATGCAAATGTA
1 ATGCAAATGTA
3605472 ATTATTAAAA
Statistics
Matches: 41, Mismatches: 16, Indels: 6
0.65 0.25 0.10
Matches are distributed among these distances:
24 16 0.39
25 25 0.61
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.32
Consensus pattern (25 bp):
ATGCAAATGTATGATCCAAACAATT
Found at i:3605451 original size:49 final size:50
Alignment explanation
Indices: 3605342--3605466 Score: 180
Period size: 49 Copynumber: 2.5 Consensus size: 50
3605332 TTCACCAAAT
** *
3605342 AATGCATGGCCCAATCAATTATGCAATTTACAAATTCATCAAATGATGCA
1 AATGCATGATCCAAACAATTATGCAATTTACAAATTCATCAAATGATGCA
* * * *
3605392 AATGTATGATCCAAACAATTATGCAATTTATAAATT-TTTAAATGATGCA
1 AATGCATGATCCAAACAATTATGCAATTTACAAATTCATCAAATGATGCA
3605441 AATGCATGATCCAAACAATTATGCAA
1 AATGCATGATCCAAACAATTATGCAA
3605467 ATGTAATTAT
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 36 0.54
50 31 0.46
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.30
Consensus pattern (50 bp):
AATGCATGATCCAAACAATTATGCAATTTACAAATTCATCAAATGATGCA
Found at i:3607537 original size:17 final size:16
Alignment explanation
Indices: 3607515--3607546 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
3607505 TTCCTTTCTT
3607515 CTTTTCTTTCTTTTTTC
1 CTTTTCTTT-TTTTTTC
3607532 CTTTTCTTTTTTTTT
1 CTTTTCTTTTTTTTT
3607547 ACTATTCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
CTTTTCTTTTTTTTTC
Found at i:3609528 original size:29 final size:30
Alignment explanation
Indices: 3609491--3609549 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
3609481 AATCAATATA
3609491 TTTATAATTCAAATATCATATTAAAAATTT
1 TTTATAATTCAAATATCATATTAAAAATTT
* *
3609521 TTTA-AATTTAAATATCATATTAAATATTT
1 TTTATAATTCAAATATCATATTAAAAATTT
3609550 CACTAGAGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (30 bp):
TTTATAATTCAAATATCATATTAAAAATTT
Found at i:3614523 original size:67 final size:67
Alignment explanation
Indices: 3614389--3614538 Score: 166
Period size: 67 Copynumber: 2.2 Consensus size: 67
3614379 ATATGATAAA
* * *
3614389 ATATT-TAAAATTTTAATAATAATTATATATAAATTTAATAAAATAGATAAATATATTTTATATT
1 ATATTATAAAATTATAATAATAATTATATATAAA-TTAATAAAATAAATAAATAAATTTTATATT
3614453 TTT
65 TTT
* *
3614456 ATATTGATAAAATTATAATTAATAAATTATATA-AAA-T-ATGAAATAAATATATAAATTTTA-A
1 ATATT-ATAAAATTATAA-TAAT-AATTATATATAAATTAATAAAATAAATAAATAAATTTTATA
3614517 TATTTT
63 T-TTTT
*
3614523 ATATTATAAAAATATA
1 ATATTATAAAATTATA
3614539 TAAATTATCA
Statistics
Matches: 72, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
66 12 0.17
67 33 0.46
68 1 0.01
69 10 0.14
70 7 0.10
71 9 0.12
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (67 bp):
ATATTATAAAATTATAATAATAATTATATATAAATTAATAAAATAAATAAATAAATTTTATATTT
TT
Found at i:3615080 original size:11 final size:11
Alignment explanation
Indices: 3615060--3615102 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
3615050 GGATAGACAA
*
3615060 AAATAGAAAAT
1 AAATAAAAAAT
*
3615071 CAATAAAAAAT
1 AAATAAAAAAT
* *
3615082 AAAGAACAAAT
1 AAATAAAAAAT
3615093 AAATAAAAAA
1 AAATAAAAAA
3615103 AATAAAAGTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:3615848 original size:24 final size:24
Alignment explanation
Indices: 3615811--3615869 Score: 100
Period size: 24 Copynumber: 2.4 Consensus size: 24
3615801 TCCTGCCATA
3615811 AATAAAATAATATACATTATCTGTC
1 AATAAAA-AATATACATTATCTGTC
*
3615836 AATAGAAAATATACATTATCTGTC
1 AATAAAAAATATACATTATCTGTC
3615860 AATAAAAAAT
1 AATAAAAAAT
3615870 GCTAGATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 26 0.81
25 6 0.19
ACGTcount: A:0.53, C:0.10, G:0.05, T:0.32
Consensus pattern (24 bp):
AATAAAAAATATACATTATCTGTC
Found at i:3623467 original size:20 final size:21
Alignment explanation
Indices: 3623444--3623482 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3623434 AAAATCAACC
3623444 AAAACCTAA-AAAAAAAAAAA
1 AAAACCTAACAAAAAAAAAAA
*
3623464 AAAATCTAACAAAAAAAAA
1 AAAACCTAACAAAAAAAAA
3623483 TGCAAAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.82, C:0.10, G:0.00, T:0.08
Consensus pattern (21 bp):
AAAACCTAACAAAAAAAAAAA
Found at i:3625287 original size:15 final size:16
Alignment explanation
Indices: 3625258--3625290 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
3625248 AATTTAAGAT
3625258 AAAAATTAATTATTTTA
1 AAAAATTAA-TATTTTA
3625275 AAAAATTAA-ATTTTA
1 AAAAATTAATATTTTA
3625290 A
1 A
3625291 TTTTTTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAAATTAATATTTTA
Found at i:3625631 original size:17 final size:17
Alignment explanation
Indices: 3625609--3625641 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3625599 TTCTCTTCTG
3625609 TTCTTTTCCTTTCTTTT
1 TTCTTTTCCTTTCTTTT
*
3625626 TTCTTTTCTTTTCTTT
1 TTCTTTTCCTTTCTTT
3625642 CGAAACAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTCTTTTCCTTTCTTTT
Found at i:3633391 original size:20 final size:20
Alignment explanation
Indices: 3633366--3633406 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
3633356 TTTTTATAGA
3633366 ATTATGT-ATATATTTTATTT
1 ATTATGTAAT-TATTTTATTT
3633386 ATTATGTAATTATTTTATTT
1 ATTATGTAATTATTTTATTT
3633406 A
1 A
3633407 ATAAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
ATTATGTAATTATTTTATTT
Found at i:3633672 original size:24 final size:24
Alignment explanation
Indices: 3633626--3633685 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
3633616 CTTTATTAAT
*
3633626 TAATTTATTAAATAATAATATAAAC
1 TAATTT-TAAAATAATAATATAAAC
* *
3633651 T-ATTTTAAAATAATTATAATAAAT
1 TAATTTTAAAATAATAAT-ATAAAC
3633675 TAATTTTAAAA
1 TAATTTTAAAA
3633686 ACTTTAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 10 0.33
24 10 0.33
25 10 0.33
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TAATTTTAAAATAATAATATAAAC
Found at i:3633680 original size:25 final size:24
Alignment explanation
Indices: 3633623--3633685 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 24
3633613 TCTCTTTATT
*
3633623 AATTAATTTATTAAATAATAATATA
1 AATTAATTT-TAAAATAATAATATA
* *
3633648 AACT-ATTTTAAAATAATTATAATA
1 AATTAATTTTAAAATAATAAT-ATA
3633672 AATTAATTTTAAAA
1 AATTAATTTTAAAA
3633686 ACTTTAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 10 0.31
24 10 0.31
25 12 0.38
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
AATTAATTTTAAAATAATAATATA
Found at i:3639060 original size:2 final size:2
Alignment explanation
Indices: 3639053--3639093 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
3639043 ATTTACTTAC
* *
3639053 AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3639094 GGTAAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:3639075 original size:14 final size:14
Alignment explanation
Indices: 3639056--3639093 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
3639046 TACTTACATA
3639056 TATATATATATATT
1 TATATATATATATT
3639070 TATATATATATATT
1 TATATATATATATT
3639084 TATATATATA
1 TATATATATA
3639094 GGTAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATATATATATATT
Found at i:3642499 original size:23 final size:22
Alignment explanation
Indices: 3642462--3642505 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
3642452 TTAAAATTTA
*
3642462 GCAAAAACCATATATGAGTTTG
1 GCAAAAACCAAATATGAGTTTG
*
3642484 GCAAAAACCAAAATATGTGTTT
1 GCAAAAACC-AAATATGAGTTT
3642506 TGTGTTTGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (22 bp):
GCAAAAACCAAATATGAGTTTG
Found at i:3643979 original size:10 final size:9
Alignment explanation
Indices: 3643941--3644028 Score: 58
Period size: 10 Copynumber: 9.7 Consensus size: 9
3643931 TGTTCTTTTC
3643941 TTTTTAA-A
1 TTTTTAATA
*
3643949 TTTTTATTTA
1 TTTTTA-ATA
3643959 TTTTT-AT-
1 TTTTTAATA
3643966 TTTTTAACTA
1 TTTTTAA-TA
*
3643976 TTTTTCATA
1 TTTTTAATA
3643985 TTTTTTAATA
1 -TTTTTAATA
*
3643995 TTTAATGAATA
1 TTT--TTAATA
*
3644006 TTTTTAAGA
1 TTTTTAATA
*
3644015 -TTTTAATT
1 TTTTTAATA
3644023 TTTTTA
1 TTTTTA
3644029 TGTGAAACTC
Statistics
Matches: 62, Mismatches: 9, Indels: 17
0.70 0.10 0.19
Matches are distributed among these distances:
7 5 0.08
8 14 0.23
9 15 0.24
10 20 0.32
11 8 0.13
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTTAATA
Found at i:3644302 original size:25 final size:24
Alignment explanation
Indices: 3644265--3644313 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
3644255 AAAAGTGTTG
* * *
3644265 TATTTTTATTTTTTTATTTTAAAT
1 TATTTTTAATTTTATATATTAAAT
3644289 TATTTTTAAATTTTATATATTAAAT
1 TATTTTT-AATTTTATATATTAAAT
3644314 AAATTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTTTTAATTTTATATATTAAAT
Found at i:3644431 original size:23 final size:21
Alignment explanation
Indices: 3644381--3644425 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3644371 CCATTGTTAG
* *
3644381 TTATTTTTTTATATTTTTTAT
1 TTATTTTTTTAAATTTTATAT
3644402 TTATTTTTTTAAATATTTATAT
1 TTATTTTTTTAAAT-TTTATAT
3644424 TT
1 TT
3644426 TCTTTTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (21 bp):
TTATTTTTTTAAATTTTATAT
Found at i:3648535 original size:17 final size:19
Alignment explanation
Indices: 3648494--3648542 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 19
3648484 TAAAAATGAT
3648494 AATTACACAATTAGATTCATA
1 AATTA-ACAATTAGATT-ATA
3648515 AATTAACAA-TAGATT-TA
1 AATTAACAATTAGATTATA
3648532 AATTAA-AATTA
1 AATTAACAATTA
3648543 AATATTACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 2 0.07
17 10 0.37
19 6 0.22
20 4 0.15
21 5 0.19
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (19 bp):
AATTAACAATTAGATTATA
Found at i:3650103 original size:23 final size:21
Alignment explanation
Indices: 3650077--3650129 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
3650067 CATGAAATTA
3650077 ATAAAATATTATTTTTTTTAAAT
1 ATAAAATATTA--TTTTTTAAAT
3650100 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
3650121 AT-AAATATT
1 ATAAAATATT
3650130 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.23
21 12 0.40
23 11 0.37
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:3650909 original size:17 final size:17
Alignment explanation
Indices: 3650887--3650920 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3650877 GATTCCTCCC
3650887 TTATTT-ATAATATTTTA
1 TTATTTCAT-ATATTTTA
3650904 TTATTTCATATATTTTA
1 TTATTTCATATATTTTA
3650921 AAACATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTTCATATATTTTA
Found at i:3655711 original size:15 final size:15
Alignment explanation
Indices: 3655688--3655718 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3655678 TGTTCGATTA
*
3655688 ATTTCAAATTAAATT
1 ATTTAAAATTAAATT
3655703 ATTTAAAATTAAATT
1 ATTTAAAATTAAATT
3655718 A
1 A
3655719 ACTAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTTAAAATTAAATT
Found at i:3655724 original size:15 final size:15
Alignment explanation
Indices: 3655693--3655726 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3655683 GATTAATTTC
**
3655693 AAATTAAATTATTTA
1 AAATTAAATTAACTA
3655708 AAATTAAATTAACTA
1 AAATTAAATTAACTA
3655723 AAAT
1 AAAT
3655727 ATTTTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATTAAATTAACTA
Found at i:3661297 original size:26 final size:25
Alignment explanation
Indices: 3661247--3661299 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
3661237 TATCTTGAAT
*
3661247 AATTTTTTATAAAAAATTACCTTTA
1 AATTTTTTATAAAAAATTACATTTA
*
3661272 AATTTTTT-TAAAAGAGATTATATTTA
1 AATTTTTTATAAAA-A-ATTACATTTA
3661298 AA
1 AA
3661300 AAAAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 9 0.38
26 10 0.42
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (25 bp):
AATTTTTTATAAAAAATTACATTTA
Found at i:3661349 original size:27 final size:25
Alignment explanation
Indices: 3661301--3661350 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
3661291 ATATTTAAAA
*
3661301 AAAATTATTTAAAATATTTTTAATT
1 AAAATTATTTAAAATATCTTTAATT
*
3661326 AAAATTACTTTGAAAATCTCTTTAA
1 AAAATTA-TTT-AAAATATCTTTAA
3661351 AAATTGAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 3 0.14
27 11 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (25 bp):
AAAATTATTTAAAATATCTTTAATT
Found at i:3664688 original size:22 final size:22
Alignment explanation
Indices: 3664663--3664705 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
3664653 GTCCCGTTGT
3664663 TTAAATATGACTTTTTCGTGCG
1 TTAAATATGACTTTTTCGTGCG
3664685 TTAAATATGACTTTTTCGTGC
1 TTAAATATGACTTTTTCGTGC
3664706 AAAACAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (22 bp):
TTAAATATGACTTTTTCGTGCG
Found at i:3664714 original size:23 final size:22
Alignment explanation
Indices: 3664665--3664714 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
3664655 CCCGTTGTTT
***
3664665 AAATATGACTTTTTCGTGCGTT
1 AAATATGACTTTTTCGTGCAAA
3664687 AAATATGACTTTTTCGTGCAAA
1 AAATATGACTTTTTCGTGCAAA
3664709 ACAATA
1 A-AATA
3664715 GCTCTGCTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (22 bp):
AAATATGACTTTTTCGTGCAAA
Found at i:3667144 original size:2 final size:2
Alignment explanation
Indices: 3667137--3667179 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
3667127 GAGAGCAAAG
* * * *
3667137 TA TA TA TA CA TA CA TA CA TA CA 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
3667179 T
1 T
3667180 TGAGAGATTA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (2 bp):
TA
Found at i:3669671 original size:23 final size:23
Alignment explanation
Indices: 3669645--3669689 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
3669635 TATCAATTAA
3669645 AAAAATAATTACAAAAAATAAAT
1 AAAAATAATTACAAAAAATAAAT
* * **
3669668 AAAATTATTTTTAAAAAATAAA
1 AAAAATAATTACAAAAAATAAA
3669690 AGTAAGAATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (23 bp):
AAAAATAATTACAAAAAATAAAT
Found at i:3673952 original size:13 final size:14
Alignment explanation
Indices: 3673919--3673968 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
3673909 ATTAATGAAA
3673919 AGTTTATAATGTTTT
1 AGTTTA-AATGTTTT
3673934 -GTTTAAA-GTTTT
1 AGTTTAAATGTTTT
* *
3673946 AGTTTAATTTTATTT
1 AGTTTAAATGT-TTT
3673961 AGTTTAAA
1 AGTTTAAA
3673969 ATTTTCAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 5 0.17
13 8 0.28
14 6 0.21
15 10 0.34
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (14 bp):
AGTTTAAATGTTTT
Found at i:3680632 original size:43 final size:43
Alignment explanation
Indices: 3680571--3680659 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
3680561 CTTAATTTGG
* * *
3680571 TTAGTATTTATCTAAAACAACTTGGTAGCATTTATTTATTTCA
1 TTAGTATTTATCTAAAACAACATGGTAACATTTATTTAGTTCA
3680614 TTAGTATTTATCTAAAACAACATGGTAACATTTATTTAGTTCA
1 TTAGTATTTATCTAAAACAACATGGTAACATTTATTTAGTTCA
3680657 TTA
1 TTA
3680660 CGAAATAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (43 bp):
TTAGTATTTATCTAAAACAACATGGTAACATTTATTTAGTTCA
Found at i:3681686 original size:2 final size:2
Alignment explanation
Indices: 3681679--3681703 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3681669 ATAGTCTTTA
3681679 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3681704 ATTAACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3683342 original size:11 final size:11
Alignment explanation
Indices: 3683328--3683408 Score: 71
Period size: 11 Copynumber: 7.5 Consensus size: 11
3683318 TCCAGATAGC
*
3683328 ATCCATTAAAT
1 ATCCATAAAAT
*
3683339 ATCCATCAAAT
1 ATCCATAAAAT
*
3683350 A-CATCATAAAAC
1 ATC--CATAAAAT
3683362 ATCCATAAAAT
1 ATCCATAAAAT
*
3683373 ATCCAT--AGT
1 ATCCATAAAAT
*
3683382 AACCATAAAAT
1 ATCCATAAAAT
3683393 AT-CATAAAAT
1 ATCCATAAAAT
3683403 ATCCAT
1 ATCCAT
3683409 TCATAAAACA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
9 7 0.12
10 11 0.20
11 30 0.54
12 7 0.12
13 1 0.02
ACGTcount: A:0.51, C:0.21, G:0.01, T:0.27
Consensus pattern (11 bp):
ATCCATAAAAT
Found at i:3683414 original size:15 final size:15
Alignment explanation
Indices: 3683394--3683423 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3683384 CCATAAAATA
*
3683394 TCATAAAATATCCAT
1 TCATAAAACATCCAT
3683409 TCATAAAACATCCAT
1 TCATAAAACATCCAT
3683424 AGCATTCATT
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:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (15 bp):
TCATAAAACATCCAT
Found at i:3688005 original size:17 final size:17
Alignment explanation
Indices: 3687985--3688028 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
3687975 ACAACCAAAA
*
3687985 AAATAATTTACGTAATT
1 AAATAATTAACGTAATT
*
3688002 AAATTGA-TAACGTAATT
1 AAA-TAATTAACGTAATT
3688019 AAATAATTAA
1 AAATAATTAA
3688029 ATTGATAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
16 2 0.09
17 18 0.82
18 2 0.09
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (17 bp):
AAATAATTAACGTAATT
Found at i:3688613 original size:10 final size:10
Alignment explanation
Indices: 3688600--3688637 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
3688590 TCTCATAAGT
3688600 TATCATGATA
1 TATCATGATA
*
3688610 TATCATGAGA
1 TATCATGATA
3688620 TATCATGATA
1 TATCATGATA
*
3688630 TCTCATGA
1 TATCATGA
3688638 CCTTAGAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (10 bp):
TATCATGATA
Found at i:3688623 original size:20 final size:20
Alignment explanation
Indices: 3688600--3688637 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3688590 TCTCATAAGT
3688600 TATCATGATATATCATGAGA
1 TATCATGATATATCATGAGA
*
3688620 TATCATGATATCTCATGA
1 TATCATGATATATCATGA
3688638 CCTTAGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (20 bp):
TATCATGATATATCATGAGA
Found at i:3691364 original size:22 final size:22
Alignment explanation
Indices: 3691338--3691383 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
3691328 AATGATTGAA
**
3691338 TAAATTAATTAAATTTAAATTT
1 TAAATTAATTAAATAGAAATTT
* *
3691360 TAAATTTATTTAATAGAAATTT
1 TAAATTAATTAAATAGAAATTT
3691382 TA
1 TA
3691384 CACATCAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TAAATTAATTAAATAGAAATTT
Found at i:3695132 original size:102 final size:104
Alignment explanation
Indices: 3694954--3695153 Score: 264
Period size: 102 Copynumber: 1.9 Consensus size: 104
3694944 CTCTTTGTTA
* *
3694954 AAAACATGAATAATATATTTTTCAAAATTCAATAAAGATAGATGTTTTTAAGATAAAAATGTAGT
1 AAAACATGAAAAATATATTTTTCAAAATTCAATAAAGATAGATGTTTTTAAGATAAAAACGTAGT
3695019 CTTTGTTGAAAAGACAATGCTTCTAAGATAAAATTATTG
66 CTTTGTTGAAAAGACAATGCTTCTAAGATAAAATTATTG
* * **
3695058 AAAACATGAAAAATATATTTTT-AGAATTTAATAAA-A-ACGATGTTTTTGGGATAAAAACGTAA
1 AAAACATGAAAAATATATTTTTCAAAATTCAATAAAGATA-GATGTTTTTAAGATAAAAACGT-A
* ** *
3695120 GT-TTTGTTGAAAAGACGATTTTTTTAAGATAAAA
64 GTCTTTGTTGAAAAGACAATGCTTCTAAGATAAAA
3695154 AACACAATTT
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
101 1 0.01
102 48 0.57
103 14 0.17
104 21 0.25
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.35
Consensus pattern (104 bp):
AAAACATGAAAAATATATTTTTCAAAATTCAATAAAGATAGATGTTTTTAAGATAAAAACGTAGT
CTTTGTTGAAAAGACAATGCTTCTAAGATAAAATTATTG
Found at i:3697371 original size:17 final size:17
Alignment explanation
Indices: 3697338--3697371 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3697328 ATTTTTTTTA
**
3697338 AAAATCAAATTTCATAT
1 AAAATCAAATTAAATAT
3697355 AAAATCAAATTAAATAT
1 AAAATCAAATTAAATAT
3697372 TATTAAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATCAAATTAAATAT
Found at i:3699946 original size:12 final size:12
Alignment explanation
Indices: 3699929--3699960 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
3699919 TTAACAAAAC
3699929 AAAACAAACAAA
1 AAAACAAACAAA
3699941 AAAACAAACAAA
1 AAAACAAACAAA
3699953 AAAACAAA
1 AAAACAAA
3699961 ACGAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAACAAACAAA
Found at i:3700305 original size:17 final size:17
Alignment explanation
Indices: 3700283--3700338 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
3700273 ACACCAACTG
* *
3700283 AAAAAAAAAGAAACGCA
1 AAAAAAAAAAAAACACA
3700300 AAAAAAAAAAAAACACA
1 AAAAAAAAAAAAACACA
3700317 AAAACAGAAACAAAAAC-CA
1 AAAA-A-AAA-AAAAACACA
3700336 AAA
1 AAA
3700339 CGAAATCACA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 19 0.56
18 1 0.03
19 8 0.24
20 6 0.18
ACGTcount: A:0.80, C:0.14, G:0.05, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAACACA
Found at i:3700762 original size:27 final size:27
Alignment explanation
Indices: 3700724--3700793 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
3700714 AGCTAAAACT
3700724 CAAAACGACGTCGTTTAGGGAAAGACC
1 CAAAACGACGTCGTTTAGGGAAAGACC
*
3700751 CAAAACGACGTCATTTAGGGAAAGACC
1 CAAAACGACGTCGTTTAGGGAAAGACC
3700778 CAAAACGACGTCGTTT
1 CAAAACGACGTCGTTT
3700794 TAAACAAAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (27 bp):
CAAAACGACGTCGTTTAGGGAAAGACC
Found at i:3701049 original size:13 final size:13
Alignment explanation
Indices: 3701016--3701041 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3701006 CAGGTAAAAA
3701016 AAAATTTTTTTTT
1 AAAATTTTTTTTT
3701029 AAAATTTTTTTTT
1 AAAATTTTTTTTT
3701042 GAATTTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
AAAATTTTTTTTT
Found at i:3703856 original size:21 final size:22
Alignment explanation
Indices: 3703816--3703876 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
3703806 TTTTGTGTAA
* * *
3703816 AAAAAATTACAATCTAAAAATAT
1 AAAAATTTA-AATTTAAAATTAT
3703839 AAAAATTTAAATTTAAAATTAT
1 AAAAATTTAAATTTAAAATTAT
* * *
3703861 TAAATTTTAATTTTAA
1 AAAAATTTAAATTTAA
3703877 TTTTGAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 24 0.75
23 8 0.25
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAAATTTAAATTTAAAATTAT
Found at i:3714646 original size:15 final size:14
Alignment explanation
Indices: 3714612--3714640 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3714602 TGTCAAATTT
3714612 AATATTTTTAGATA
1 AATATTTTTAGATA
3714626 AATATTTTTA-ATA
1 AATATTTTTAGATA
3714639 AA
1 AA
3714641 AATATTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (14 bp):
AATATTTTTAGATA
Found at i:3716300 original size:2 final size:2
Alignment explanation
Indices: 3716295--3716327 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3716285 TCTTTTCCCA
3716295 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
3716328 ATATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3716332 original size:2 final size:2
Alignment explanation
Indices: 3716327--3716361 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3716317 TCTCTCTCTC
3716327 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3716362 TTATGTGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3718037 original size:7 final size:7
Alignment explanation
Indices: 3718027--3718060 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
3718017 AAAACAAAGT
*
3718027 AAAAAGC
1 AAAAAAC
3718034 AAAAAAC
1 AAAAAAC
*
3718041 AAGAAAC
1 AAAAAAC
3718048 AAAAAAC
1 AAAAAAC
3718055 AAAAAA
1 AAAAAA
3718061 GAGATAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.82, C:0.12, G:0.06, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:3719715 original size:21 final size:21
Alignment explanation
Indices: 3719691--3719735 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
3719681 GTATATTTGA
*
3719691 AATTATCAAAATTTAAATTTT
1 AATTATCAAAATTAAAATTTT
*
3719712 AATTATTAAAATTAAAATTTT
1 AATTATCAAAATTAAAATTTT
3719733 AAT
1 AAT
3719736 ATTTTATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTATCAAAATTAAAATTTT
Found at i:3723675 original size:28 final size:25
Alignment explanation
Indices: 3723636--3723687 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
3723626 TTTTAAGCTT
3723636 TTTTTTTGTTTATTTATTTATTTAAA
1 TTTTTTTGTTTATTT-TTTATTTAAA
*
3723662 TTTTTTTGAATTTATTTTTTTTTTAA
1 TTTTTTTG--TTTATTTTTTATTTAA
3723688 TAAGTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
27 8 0.35
28 7 0.30
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTTTTTGTTTATTTTTTATTTAAA
Found at i:3723846 original size:14 final size:15
Alignment explanation
Indices: 3723827--3723855 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3723817 TTTCAAATTG
3723827 AACTCAAAG-TAAAA
1 AACTCAAAGTTAAAA
3723841 AACTCAAAGTTAAAA
1 AACTCAAAGTTAAAA
3723856 CAAGATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.14, G:0.07, T:0.17
Consensus pattern (15 bp):
AACTCAAAGTTAAAA
Found at i:3724330 original size:28 final size:30
Alignment explanation
Indices: 3724266--3724325 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
3724256 TATAAATGTC
3724266 TATTAATAAAAATATTATTTAATATATATTA
1 TATTAATAAAAATATTATTT-ATATATATTA
*
3724297 TTTTAATAAAAATATTATATTTATATATA
1 TATTAATAAAAATA-T-TATTTATATATA
3724326 ATTAAGTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 13 0.50
32 8 0.31
33 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (30 bp):
TATTAATAAAAATATTATTTATATATATTA
Found at i:3724670 original size:22 final size:24
Alignment explanation
Indices: 3724632--3724685 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 24
3724622 TGAAAATGAC
3724632 ATAATATA-AAATGTTAACAAAA-
1 ATAATATATAAATGTTAACAAAAT
* *
3724654 ATAATATATGAAT-TTAATAAAAT
1 ATAATATATAAATGTTAACAAAAT
*
3724677 AAAATATAT
1 ATAATATAT
3724686 TTAATATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (24 bp):
ATAATATATAAATGTTAACAAAAT
Found at i:3724689 original size:19 final size:20
Alignment explanation
Indices: 3724651--3724691 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
3724641 AATGTTAACA
*
3724651 AAAATAATATATGAATTTAAT
1 AAAATAAAATAT-AATTTAAT
3724672 AAAATAAAATAT-ATTTAAT
1 AAAATAAAATATAATTTAAT
3724691 A
1 A
3724692 TTTAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
21 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAATAAAATATAATTTAAT
Found at i:3745478 original size:28 final size:29
Alignment explanation
Indices: 3745447--3745504 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
3745437 AAATATTAAA
3745447 TTTAATAAAA-TTTATTCAA-TATAAATTT
1 TTTAATAAAATTTTATTCAATTAT-AATTT
* *
3745475 TTTATTAAAATTTTTTTCAATTATAATTT
1 TTTAATAAAATTTTATTCAATTATAATTT
3745504 T
1 T
3745505 AATAATTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 9 0.35
29 14 0.54
30 3 0.12
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (29 bp):
TTTAATAAAATTTTATTCAATTATAATTT
Found at i:3745517 original size:25 final size:25
Alignment explanation
Indices: 3745479--3745537 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
3745469 AAATTTTTTA
* *
3745479 TTAA-AATTTTTTTCAATTATAATT
1 TTAATAATTTCTTTCAATCATAATT
*
3745503 TTAATAATTTCTTTCAATCGTAATT
1 TTAATAATTTCTTTCAATCATAATT
*
3745528 ATAATAATTT
1 TTAATAATTT
3745538 TTATTATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (25 bp):
TTAATAATTTCTTTCAATCATAATT
Found at i:3747908 original size:18 final size:17
Alignment explanation
Indices: 3747887--3747947 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 17
3747877 GTTAATTAAA
3747887 ATTTTTATTTTTATTAT
1 ATTTTTATTTTTATTAT
* *
3747904 GATTTGATATTTTAATTAT
1 -ATTT-TTATTTTTATTAT
3747923 ATTATTTATATTTTATATAT
1 ATT-TTTAT-TTTTAT-TAT
3747943 ATTTT
1 ATTTT
3747948 GAACATGTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
18 10 0.29
19 19 0.54
20 6 0.17
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
ATTTTTATTTTTATTAT
Found at i:3747938 original size:11 final size:11
Alignment explanation
Indices: 3747889--3747947 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
3747879 TAATTAAAAT
*
3747889 TTTTATTTTTA
1 TTTTATTTATA
*
3747900 TTATGATTTGATA
1 TT-TTATTT-ATA
*
3747913 TTTTAATTATA
1 TTTTATTTATA
3747924 --TTATTTATA
1 TTTTATTTATA
*
3747933 TTTTATATATA
1 TTTTATTTATA
3747944 TTTT
1 TTTT
3747948 GAACATGTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 8 0.21
11 17 0.45
12 9 0.24
13 4 0.11
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (11 bp):
TTTTATTTATA
Found at i:3760628 original size:19 final size:20
Alignment explanation
Indices: 3760604--3760649 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
3760594 ACTACACTTT
3760604 AAAAAATG-A-GAAAAAGTAA
1 AAAAAATGAATGAAAAA-TAA
3760623 AAAAAATGAATGAAAAATAA
1 AAAAAATGAATGAAAAATAA
3760643 AAGAAAA
1 AA-AAAA
3760650 AAAACTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.33
20 6 0.25
21 10 0.42
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (20 bp):
AAAAAATGAATGAAAAATAA
Found at i:3761835 original size:40 final size:38
Alignment explanation
Indices: 3761742--3761926 Score: 149
Period size: 39 Copynumber: 4.7 Consensus size: 38
3761732 CGGATGTTAT
* * *
3761742 CTTTATTTTTAAAGTCATGTGGCTCTGTTATAGAGACGC
1 CTTTATTTTTAAAGT-ATGTGCCTCTGTTATAGGGAAGC
* * * *
3761781 CTTTATATTTAAAGTAGTGTGTCTCTATTGTAGGGAAGC
1 CTTTATTTTTAAAGTA-TGTGCCTCTGTTATAGGGAAGC
* * *
3761820 CTTTATTTTTTAAAGTCGTGTGCCTCTGTTAT-GGAATAGT
1 CTTTA-TTTTTAAAGT-ATGTGCCTCTGTTATAGGGA-AGC
* * *
3761860 CTTTATTTTTTAAAAGTTATATGTCTCTGTTA-AGGATAAGC
1 CTTTA-TTTTT-AAAG-TATGTGCCTCTGTTATAGG-GAAGC
3761901 CTTTATTTTTAAAGTTATGTGCCTCT
1 CTTTATTTTTAAAG-TATGTGCCTCT
3761927 ATTTTCAAAG
Statistics
Matches: 118, Mismatches: 20, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
38 1 0.01
39 53 0.45
40 38 0.32
41 24 0.20
42 2 0.02
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.45
Consensus pattern (38 bp):
CTTTATTTTTAAAGTATGTGCCTCTGTTATAGGGAAGC
Found at i:3761888 original size:41 final size:40
Alignment explanation
Indices: 3761816--3761926 Score: 127
Period size: 41 Copynumber: 2.8 Consensus size: 40
3761806 TATTGTAGGG
** * *
3761816 AAGCCTTTATTTTTTAAAGTCGTGTGCCTCTGTTATGGA-
1 AAGCCTTTATTTTTTAAAGTTATATGCCTCTGTTAAGGAT
* *
3761855 ATAGTCTTTATTTTTTAAAAGTTATATGTCTCTGTTAAGGAT
1 A-AGCCTTTATTTTTT-AAAGTTATATGCCTCTGTTAAGGAT
*
3761897 AAGCCTTTA-TTTTTAAAGTTATGTGCCTCT
1 AAGCCTTTATTTTTTAAAGTTATATGCCTCT
3761927 ATTTTCAAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
39 15 0.25
40 18 0.30
41 26 0.43
42 1 0.02
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (40 bp):
AAGCCTTTATTTTTTAAAGTTATATGCCTCTGTTAAGGAT
Found at i:3763859 original size:86 final size:85
Alignment explanation
Indices: 3763707--3763865 Score: 185
Period size: 86 Copynumber: 1.9 Consensus size: 85
3763697 TGTAATTTTA
* ** * * * * *
3763707 TTTTCAACATAAGGTTTTACCAACATATTGGAGAGTTTTATAAATTTTTCATAAAAAACAAATTT
1 TTTTCAAAATAAAATTTTACCAACATATTAGAAAATCTTATAAATTTTTAATAAAAAACAAATTT
3763772 TAAGAAAAACAAAAAATATAG
66 TAA-AAAAACAAAAAATATAG
* ** *
3763793 TTTTCAAAATAAAATTTTACCAACATATTAGAAAATCTTAT-GATTTTTAAATAAAAATTAAGTT
1 TTTTCAAAATAAAATTTTACCAACATATTAGAAAATCTTATAAATTTTT-AATAAAAAACAAATT
3763857 TTAAAAAAA
65 TTAAAAAAA
3763866 TAGAAAACAA
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
85 11 0.18
86 49 0.82
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (85 bp):
TTTTCAAAATAAAATTTTACCAACATATTAGAAAATCTTATAAATTTTTAATAAAAAACAAATTT
TAAAAAAACAAAAAATATAG
Found at i:3765055 original size:13 final size:13
Alignment explanation
Indices: 3765037--3765070 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
3765027 TAAAAATATT
3765037 ATTTAATATCTTA
1 ATTTAATATCTTA
* *
3765050 ATTTAAGATGTTA
1 ATTTAATATCTTA
3765063 ATTTAATA
1 ATTTAATA
3765071 AAAATACTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (13 bp):
ATTTAATATCTTA
Done.