Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 28 of 117
Found at i:7352715 original size:16 final size:16
Alignment explanation
Indices: 7352685--7352726 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
7352675 AATTTATTAA
*
7352685 TTAATAT-ATTTATTT
1 TTAATATAATTAATTT
7352700 TTAATATAATTAATTT
1 TTAATATAATTAATTT
*
7352716 TAAATAATAAT
1 TTAAT-ATAAT
7352727 AAATAAGGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 7 0.30
16 11 0.48
17 5 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAATATAATTAATTT
Found at i:7356896 original size:21 final size:20
Alignment explanation
Indices: 7356872--7356916 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
7356862 GATAATATCA
7356872 TTTTTTTTCAATTAAAAATT
1 TTTTTTTTCAATTAAAAATT
*
7356892 CTTTTTTTTCAATTCAAAATT
1 -TTTTTTTTCAATTAAAAATT
7356913 TTTT
1 TTTT
7356917 CGATGGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTTTTCAATTAAAAATT
Found at i:7357470 original size:18 final size:18
Alignment explanation
Indices: 7357424--7357470 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
7357414 TATTTTTGAG
* *
7357424 TTTAATCAAATTTTTATA
1 TTTAATTAATTTTTTATA
7357442 TTTAATATAATTTTATTAT-
1 TTTAAT-TAATTTT-TTATA
7357461 TTTAATTAAT
1 TTTAATTAAT
7357471 AAAATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 10 0.40
19 11 0.44
20 4 0.16
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTAATTAATTTTTTATA
Found at i:7357633 original size:18 final size:19
Alignment explanation
Indices: 7357600--7357636 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
7357590 TTTTTATATC
7357600 AAAATAAACTTAAATTAAA
1 AAAATAAACTTAAATTAAA
*
7357619 AAAATAAA-TTTAATTAAA
1 AAAATAAACTTAAATTAAA
7357637 TTTAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAATAAACTTAAATTAAA
Found at i:7357673 original size:26 final size:23
Alignment explanation
Indices: 7357627--7357676 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 23
7357617 AAAAAATAAA
7357627 TTTAATTAAATTTAAATCAAATT
1 TTTAATTAAATTTAAATCAAATT
7357650 TTTAATGTAAAATTTCAAATCAAATT
1 TTTAAT-T-AAATTT-AAATCAAATT
7357676 T
1 T
7357677 AAATATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 6 0.25
24 1 0.04
25 6 0.25
26 11 0.46
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (23 bp):
TTTAATTAAATTTAAATCAAATT
Found at i:7359513 original size:17 final size:17
Alignment explanation
Indices: 7359491--7359525 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7359481 TCAAAGATTT
7359491 TTTATTATATTTTT-TTA
1 TTTATTA-ATTTTTATTA
7359508 TTTATTAATTTTTATTA
1 TTTATTAATTTTTATTA
7359525 T
1 T
7359526 AAAATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTATTAATTTTTATTA
Found at i:7359519 original size:14 final size:13
Alignment explanation
Indices: 7359488--7359526 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
7359478 GGGTCAAAGA
7359488 TTTTTTATTATAT
1 TTTTTTATTATAT
7359501 TTTTTTATT-TAT
1 TTTTTTATTATAT
7359513 TAATTTTTATTATA
1 T--TTTTTATTATA
7359527 AAATTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.17
13 9 0.39
14 8 0.35
15 2 0.09
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTTATTATAT
Found at i:7360837 original size:17 final size:16
Alignment explanation
Indices: 7360815--7360846 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
7360805 AATTTATTTT
7360815 AAAAAATTAACAAAAAA
1 AAAAAATTAA-AAAAAA
7360832 AAAAAATTAAAAAAA
1 AAAAAATTAAAAAAA
7360847 CCTTATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.12
Consensus pattern (16 bp):
AAAAAATTAAAAAAAA
Found at i:7361253 original size:24 final size:23
Alignment explanation
Indices: 7361221--7361281 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 23
7361211 TAACTTTGTT
7361221 AATAT-AATACATATATAATTATAA
1 AATATAAATACATATAT-ATTA-AA
7361245 AAT-TAAATA-A-ATAT-TTAAA
1 AATATAAATACATATATATTAAA
*
7361264 AATATAATTACATATATA
1 AATATAAATACATATATA
7361282 GATAATAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
19 5 0.16
20 8 0.26
21 1 0.03
22 8 0.26
23 2 0.06
24 7 0.23
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (23 bp):
AATATAAATACATATATATTAAA
Found at i:7361518 original size:23 final size:24
Alignment explanation
Indices: 7361482--7361536 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
7361472 TATCTAGCTT
**
7361482 AAAAAAGTCAAAAACTTAAAAAAAA
1 AAAAAAGTCAAAAA-GAAAAAAAAA
7361507 AAAAAAG-C-AAAAGAAAAAAAAA
1 AAAAAAGTCAAAAAGAAAAAAAAA
7361529 AAGAAAAG
1 AA-AAAAG
7361537 GAAACCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 10 0.37
23 9 0.33
24 1 0.04
25 7 0.26
ACGTcount: A:0.80, C:0.05, G:0.09, T:0.05
Consensus pattern (24 bp):
AAAAAAGTCAAAAAGAAAAAAAAA
Found at i:7361540 original size:18 final size:18
Alignment explanation
Indices: 7361502--7361536 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7361492 AAAACTTAAA
7361502 AAAAAAAAAAAGCAAAAG
1 AAAAAAAAAAAGCAAAAG
7361520 AAAAAAAAAAAG-AAAAG
1 AAAAAAAAAAAGCAAAAG
7361537 GAAACCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAGCAAAAG
Found at i:7361847 original size:115 final size:115
Alignment explanation
Indices: 7361645--7361867 Score: 376
Period size: 115 Copynumber: 1.9 Consensus size: 115
7361635 TTAGTTTTGT
* *
7361645 ATATTCTTCTAACCCTTGATTTAAATATATCAAAAGAATGAGAAAGACGAGTAAAAATAAAAAAA
1 ATATTCTTCTAACCCTTGATTTAAATAGATCAAAAGAATGAGAAAGACAAGTAAAAATAAAAAAA
*
7361710 AATTATTTAATCTTATTTCTTAGATTTATTAAAATCAATGATTGATTTAA
66 AATTATTTAATCTTATCTCTTAGATTTATTAAAATCAATGATTGATTTAA
*
7361760 ATATTCTTCTAACCCTTGATTTAAATAGATCAAAAGAATGAGAGAA-ACAAGTAAAAATAGAAAA
1 ATATTCTTCTAACCCTTGATTTAAATAGATCAAAAGAATGAGA-AAGACAAGTAAAAATAAAAAA
* *
7361824 AAATTGTTTAATCTTATCTCTTAGATTTATTAAAGTCAATGATT
65 AAATTATTTAATCTTATCTCTTAGATTTATTAAAATCAATGATT
7361868 AAAAAATGTA
Statistics
Matches: 101, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
115 99 0.98
116 2 0.02
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.35
Consensus pattern (115 bp):
ATATTCTTCTAACCCTTGATTTAAATAGATCAAAAGAATGAGAAAGACAAGTAAAAATAAAAAAA
AATTATTTAATCTTATCTCTTAGATTTATTAAAATCAATGATTGATTTAA
Found at i:7362801 original size:19 final size:18
Alignment explanation
Indices: 7362764--7362819 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
7362754 AAAATCTTCC
*
7362764 AAAGAAAAATAATAGAAAAA
1 AAAGAAAAAGAA-A-AAAAA
*
7362784 ATAAAAAAAAGTAAAAAAAA
1 A-AAGAAAAAG-AAAAAAAA
7362804 AAAGAAAAAGAAAAAA
1 AAAGAAAAAGAAAAAA
7362820 GATTGGTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.19
19 8 0.26
20 7 0.23
21 8 0.26
22 2 0.06
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (18 bp):
AAAGAAAAAGAAAAAAAA
Found at i:7362802 original size:13 final size:12
Alignment explanation
Indices: 7362764--7362821 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 12
7362754 AAAATCTTCC
7362764 AAAGAAAAATAATA
1 AAAGAAAAA-AA-A
7362778 GAAA-AAATAAAAA
1 -AAAGAAA-AAAAA
7362791 AAAGTAAAAAAAA
1 AAAG-AAAAAAAA
7362804 AAAGAAAAAGAAA
1 AAAGAAAAA-AAA
7362817 AAAGA
1 AAAGA
7362822 TTGGTATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
12 8 0.21
13 18 0.46
14 8 0.21
15 5 0.13
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (12 bp):
AAAGAAAAAAAA
Found at i:7367277 original size:1 final size:1
Alignment explanation
Indices: 7367225--7367261 Score: 74
Period size: 1 Copynumber: 37.0 Consensus size: 1
7367215 CTCATTCCTG
7367225 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
7367262 GCCTTTCATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:7368264 original size:17 final size:17
Alignment explanation
Indices: 7368242--7368285 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
7368232 TTATTTAATT
*
7368242 TTATATTTATATATG-TA
1 TTATATTAATA-ATGTTA
7368259 TTATATTAATAATGTTA
1 TTATATTAATAATGTTA
7368276 TTAT-TTAATA
1 TTATATTAATA
7368286 TCTTAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (17 bp):
TTATATTAATAATGTTA
Found at i:7368283 original size:16 final size:16
Alignment explanation
Indices: 7368227--7368285 Score: 52
Period size: 16 Copynumber: 3.7 Consensus size: 16
7368217 TATTTTTTAA
* *
7368227 ATTATTTATTTAATTTT
1 ATTATTTA-ATAATGTT
7368244 A-TATTT-ATATATG-T
1 ATTATTTAATA-ATGTT
7368258 ATTATATTAATAATGTT
1 ATTAT-TTAATAATGTT
7368275 ATTATTTAATA
1 ATTATTTAATA
7368286 TCTTAATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
14 4 0.11
15 5 0.14
16 16 0.46
17 10 0.29
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
ATTATTTAATAATGTT
Found at i:7368464 original size:23 final size:23
Alignment explanation
Indices: 7368418--7368469 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
7368408 TGACACCTTA
**
7368418 TGTTTCATTTTTTTTTGCTTTTT
1 TGTTTCATTTTTTTTTGCAATTT
* *
7368441 TGTTTCTTTTTTTTTTTCAATTT
1 TGTTTCATTTTTTTTTGCAATTT
7368464 T-TTTCA
1 TGTTTCA
7368470 ATTGTTTAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.08, C:0.10, G:0.06, T:0.77
Consensus pattern (23 bp):
TGTTTCATTTTTTTTTGCAATTT
Found at i:7369505 original size:26 final size:26
Alignment explanation
Indices: 7369475--7369532 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
7369465 TATTGTTTGA
*
7369475 TTGTTTGCCTATATTGTCCTTTTCAG
1 TTGTTGGCCTATATTGTCCTTTTCAG
* * *
7369501 TTGTTGGCTTATGTTGTCCTTTTTAG
1 TTGTTGGCCTATATTGTCCTTTTCAG
7369527 TT-TTGG
1 TTGTTGG
7369533 TTTTAGTAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.09, C:0.14, G:0.21, T:0.57
Consensus pattern (26 bp):
TTGTTGGCCTATATTGTCCTTTTCAG
Found at i:7371645 original size:21 final size:21
Alignment explanation
Indices: 7371615--7371657 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
7371605 ATTACTCTTA
* *
7371615 ATTTGGTTCTTAATTTATTTT
1 ATTTGATTCTTAATATATTTT
7371636 ATTTGATTCTTAATATATTTT
1 ATTTGATTCTTAATATATTTT
7371657 A
1 A
7371658 GCCAATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.63
Consensus pattern (21 bp):
ATTTGATTCTTAATATATTTT
Found at i:7378017 original size:12 final size:12
Alignment explanation
Indices: 7378000--7378060 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
7377990 GTTTCTAGCT
7378000 TTTTGGGTTTAA
1 TTTTGGGTTTAA
7378012 TTTTGGGTTTAAA
1 TTTTGGGTTT-AA
** **
7378025 GTTTT-TTTTTTT
1 -TTTTGGGTTTAA
7378037 TTTTGGGTTTAA
1 TTTTGGGTTTAA
*
7378049 TTATGGGTTTAA
1 TTTTGGGTTTAA
7378061 AGCATTTTAA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
11 4 0.11
12 24 0.65
13 5 0.14
14 4 0.11
ACGTcount: A:0.16, C:0.00, G:0.21, T:0.62
Consensus pattern (12 bp):
TTTTGGGTTTAA
Found at i:7378513 original size:9 final size:9
Alignment explanation
Indices: 7378501--7378552 Score: 50
Period size: 9 Copynumber: 5.1 Consensus size: 9
7378491 CTTTCTATGA
7378501 TTTTATTTT
1 TTTTATTTT
7378510 TTTTATTTTTT
1 TTTTA--TTTT
7378521 TTTATGAATTTT
1 TTT-T--ATTTT
7378533 CTTTTATTTT
1 -TTTTATTTT
7378543 TTTTATTTT
1 TTTTATTTT
7378552 T
1 T
7378553 ATACTTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
9 15 0.41
10 5 0.14
11 7 0.19
12 6 0.16
13 3 0.08
14 1 0.03
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (9 bp):
TTTTATTTT
Found at i:7388650 original size:12 final size:12
Alignment explanation
Indices: 7388633--7388693 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
7388623 GTTTCTAGCT
7388633 TTTTGGGTTTAA
1 TTTTGGGTTTAA
7388645 TTTTGGGTTTAAA
1 TTTTGGGTTT-AA
** **
7388658 GTTTT-TTTTTTT
1 -TTTTGGGTTTAA
7388670 TTTTGGGTTTAA
1 TTTTGGGTTTAA
*
7388682 TTATGGGTTTAA
1 TTTTGGGTTTAA
7388694 AGCATTTTAA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
11 4 0.11
12 24 0.65
13 5 0.14
14 4 0.11
ACGTcount: A:0.16, C:0.00, G:0.21, T:0.62
Consensus pattern (12 bp):
TTTTGGGTTTAA
Found at i:7389018 original size:17 final size:18
Alignment explanation
Indices: 7388996--7389036 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
7388986 TCTCATTTTC
7388996 ATTTTT-ATTTTTTGTTT
1 ATTTTTCATTTTTTGTTT
*
7389013 ATTTTTCCTTTTTTGTTT
1 ATTTTTCATTTTTTGTTT
7389031 ATTTTT
1 ATTTTT
7389037 TATTAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.80
Consensus pattern (18 bp):
ATTTTTCATTTTTTGTTT
Found at i:7389183 original size:28 final size:26
Alignment explanation
Indices: 7389125--7389204 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 26
7389115 ACAAATGAGC
*
7389125 TTATTTTTCTTTTTTTCCTTTCTATGATT
1 TTATTTTT-TTTTTTT--TTTTTATGATT
7389154 TTATTTTTTTTATTTTTTTTTATGAATT
1 TTATTTTTTTT-TTTTTTTTTATG-ATT
* *
7389182 TTCTTTTATTTTTTTATTTTTAT
1 TTATTTT-TTTTTTTTTTTTTAT
7389205 ACTTTTTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
27 7 0.16
28 22 0.49
29 16 0.36
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.78
Consensus pattern (26 bp):
TTATTTTTTTTTTTTTTTTTATGATT
Found at i:7389185 original size:38 final size:38
Alignment explanation
Indices: 7389143--7389220 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
7389133 CTTTTTTTCC
**
7389143 TTTCTATGATTTTATTT-TTTTTATTTTTTTTTATGAAT
1 TTTCTATGATTTT-TTTATTTTTATACTTTTTTATGAAT
* * *
7389181 TTTCTTTTATTTTTTTATTTTTATACTTTTTTATTAAT
1 TTTCTATGATTTTTTTATTTTTATACTTTTTTATGAAT
7389219 TT
1 TT
7389221 AATTTCATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 3 0.09
38 31 0.91
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.76
Consensus pattern (38 bp):
TTTCTATGATTTTTTTATTTTTATACTTTTTTATGAAT
Found at i:7397344 original size:3 final size:3
Alignment explanation
Indices: 7397336--7397385 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
7397326 GAAATAAATA
* * * * *
7397336 AAT AAT AAT AAT AAT AAT AAC AAC AAC AAC AAT AAT AAT AAT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7397384 AA
1 AA
7397386 AAAAAGATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (3 bp):
AAT
Found at i:7402555 original size:3 final size:3
Alignment explanation
Indices: 7402541--7402588 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
7402531 AATATTTTGA
*
7402541 AAT AAA AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7402589 TTAAAAAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7405429 original size:23 final size:23
Alignment explanation
Indices: 7405403--7405455 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
7405393 TTCCAAGTGT
7405403 AATCTTTAAGAATTTCAAATGAG
1 AATCTTTAAGAATTTCAAATGAG
* *
7405426 AATCTTT--GAGTTTTAAATGAG
1 AATCTTTAAGAATTTCAAATGAG
*
7405447 AATTTTTAA
1 AATCTTTAA
7405456 ATTTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 18 0.72
23 7 0.28
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.42
Consensus pattern (23 bp):
AATCTTTAAGAATTTCAAATGAG
Found at i:7407527 original size:33 final size:33
Alignment explanation
Indices: 7407487--7407556 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
7407477 TGAATATCTC
* *
7407487 AATTCTTGTGAATCTGAATCTTTATGGATCTTT
1 AATTCTTGTGAATCTGAATCTTTACGAATCTTT
* *
7407520 AATTCTTGTGAATTTGAATCTTTGCGAATCTTT
1 AATTCTTGTGAATCTGAATCTTTACGAATCTTT
7407553 AATT
1 AATT
7407557 TTTATGATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.26, C:0.11, G:0.14, T:0.49
Consensus pattern (33 bp):
AATTCTTGTGAATCTGAATCTTTACGAATCTTT
Found at i:7407687 original size:16 final size:16
Alignment explanation
Indices: 7407668--7407724 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
7407658 ATTTGAGTTT
*
7407668 TTGTGAACCTAAATTC
1 TTGTGAAACTAAATTC
7407684 TTGTGAATA-TAAAATTC
1 TTGTGAA-ACT-AAATTC
* *
7407701 TTATGAAACTAAAGTTT
1 TTGTGAAACTAAA-TTC
7407718 TTGTGAA
1 TTGTGAA
7407725 TCTTTGAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
16 12 0.36
17 21 0.64
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (16 bp):
TTGTGAAACTAAATTC
Found at i:7407700 original size:17 final size:18
Alignment explanation
Indices: 7407678--7407725 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
7407668 TTGTGAACCT
7407678 AAATTCTTGTGAATA-TA
1 AAATTCTTGTGAATACTA
*
7407695 AAATTCTTATGAA-ACTA
1 AAATTCTTGTGAATACTA
* *
7407712 AAGTTTTTGTGAAT
1 AAATTCTTGTGAAT
7407726 CTTTGAAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 1 0.04
17 24 0.96
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (18 bp):
AAATTCTTGTGAATACTA
Found at i:7407737 original size:9 final size:10
Alignment explanation
Indices: 7407723--7407768 Score: 55
Period size: 9 Copynumber: 5.0 Consensus size: 10
7407713 AGTTTTTGTG
7407723 AATCTTTG-A
1 AATCTTTGAA
7407732 AATC-TTGAA
1 AATCTTTGAA
7407741 AAT-TTTGAA
1 AATCTTTGAA
*
7407750 AATC-TTGCA
1 AATCTTTGAA
7407759 AATCTTTGAA
1 AATCTTTGAA
7407769 CTTCAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
8 3 0.10
9 24 0.77
10 4 0.13
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (10 bp):
AATCTTTGAA
Found at i:7407754 original size:18 final size:19
Alignment explanation
Indices: 7407723--7407768 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
7407713 AGTTTTTGTG
7407723 AATCTTTG-AAATCTTGAA
1 AATCTTTGAAAATCTTGAA
*
7407741 AAT-TTTGAAAATCTTGCA
1 AATCTTTGAAAATCTTGAA
7407759 AATCTTTGAA
1 AATCTTTGAA
7407769 CTTCAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 4 0.16
18 15 0.60
19 6 0.24
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (19 bp):
AATCTTTGAAAATCTTGAA
Found at i:7407862 original size:21 final size:22
Alignment explanation
Indices: 7407781--7407865 Score: 86
Period size: 21 Copynumber: 4.0 Consensus size: 22
7407771 TCAAAATACA
7407781 AATCTTTGAATTT--AATTGTG
1 AATCTTTGAATTTCAAATTGTG
*
7407801 AATCCTTGAATTTCAAAATTGTG
1 AATCTTTGAATTTC-AAATTGTG
* **
7407824 ATTCTTT-AAACTCAAATTGTG
1 AATCTTTGAATTTCAAATTGTG
* *
7407845 AATCTTTGAGTTTCAATTTGT
1 AATCTTTGAATTTCAAATTGT
7407866 ATTATGAATT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
20 12 0.24
21 14 0.27
22 13 0.25
23 12 0.24
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.46
Consensus pattern (22 bp):
AATCTTTGAATTTCAAATTGTG
Found at i:7411172 original size:21 final size:21
Alignment explanation
Indices: 7411132--7411172 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7411122 ATTTTCATCG
* **
7411132 ATAATACCTCATTTTTTGTTA
1 ATAATACCACATTTAATGTTA
7411153 ATAATACCACATTTAATGTT
1 ATAATACCACATTTAATGTT
7411173 TTACTATAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.46
Consensus pattern (21 bp):
ATAATACCACATTTAATGTTA
Found at i:7411758 original size:2 final size:2
Alignment explanation
Indices: 7411751--7411783 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
7411741 ATTGATCTTG
7411751 AT AT AT AT AT -T A- 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 AT AT AT AT A
7411784 AACTTCTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7411848 original size:2 final size:2
Alignment explanation
Indices: 7411841--7411870 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7411831 GTTTGTGTTT
7411841 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
7411871 AACTTCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7411900 original size:87 final size:89
Alignment explanation
Indices: 7411752--7411927 Score: 329
Period size: 87 Copynumber: 2.0 Consensus size: 89
7411742 TTGATCTTGA
7411752 TATATATATTAATATATATATATATATATATAAACTTCTCTTCTTCAATACCTTGATCAACAGGA
1 TATATATATTAATATATATATATATATATATAAACTTCTCTTCTTCAATACCTTGATCAACAGGA
7411817 TACCTTACCTTAACGTTTGTGTTT
66 TACCTTACCTTAACGTTTGTGTTT
7411841 TATATATA-T-ATATATATATATATATATATAAACTTCTCTTCTTCAATACCTTGATCAACAGGA
1 TATATATATTAATATATATATATATATATATAAACTTCTCTTCTTCAATACCTTGATCAACAGGA
*
7411904 TACCTTACTTTAACGTTTGTGTTT
66 TACCTTACCTTAACGTTTGTGTTT
7411928 CCATACCTCT
Statistics
Matches: 86, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
87 77 0.90
88 1 0.01
89 8 0.09
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (89 bp):
TATATATATTAATATATATATATATATATATAAACTTCTCTTCTTCAATACCTTGATCAACAGGA
TACCTTACCTTAACGTTTGTGTTT
Found at i:7415762 original size:59 final size:57
Alignment explanation
Indices: 7415671--7416119 Score: 559
Period size: 59 Copynumber: 7.7 Consensus size: 57
7415661 TTGTGCAGGA
* *
7415671 AAAAATTGATACTTTCAACATTTCCCCAAAAATATTTTTTGGAAACTTTTATTTTCAAG
1 AAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGGAAA-TTTTATTTTTAAG
7415730 AAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAA-TTTATTTTTAAG
1 AAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGGAAATTTTATTTTTAAG
* * *
7415787 GAAAATTGATA-TTTCAACTTTTCTCCAAAAATATTTTTTTGAAACTTTGATTTTTAA-
1 AAAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTGGAAA-TTTTATTTTTAAG
*
7415844 AGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCT-TTTTTTTGAAATTTTATTTTTAAG
1 A-AAAATTGATACTTTCAACTTTTCC-CAAAAA---TATTTTTTGGAAATTTTATTTTTAAG
* *
7415905 AAAAATTGATACTTTCAAATTTTCCTAAAAA-ACCCTTTTTT-GAAATTTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCCAAAAATA---TTTTTTGGAAATTTTATTTTTAAG
* * * *
7415963 AAAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAACTTTGATTTTCAAG
1 AAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGGAAA-TTTTATTTTTAAG
* * * *
7416022 GAAAATTGATACTTTCAACTTTTCCTAAAAAATCTTTTTTTGAAATTTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTGGAAATTTTATTTTTAAG
7416080 AAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
1 AAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTT
7416120 TTATTTTTAT
Statistics
Matches: 343, Mismatches: 27, Indels: 41
0.83 0.07 0.10
Matches are distributed among these distances:
55 5 0.01
56 26 0.08
57 27 0.08
58 109 0.32
59 128 0.37
60 35 0.10
61 12 0.03
62 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (57 bp):
AAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGGAAATTTTATTTTTAAG
Found at i:7415843 original size:58 final size:57
Alignment explanation
Indices: 7415671--7416120 Score: 570
Period size: 58 Copynumber: 7.7 Consensus size: 57
7415661 TTGTGCAGGA
* * *
7415671 AAAAATTGATACTTTCAACATTTCCCCAAAAATATTTTTTGGAAACTTTTATTTTCAAG
1 AAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTGAAA-TTTTATTTTTAAG
*
7415730 AAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAA-TTTATTTTTAAG
1 AAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTGAAATTTTATTTTTAAG
* *
7415787 GAAAATTGATA-TTTCAACTTTTCTCCAAAAATATTTTTTTGAAACTTTGATTTTTAA-
1 AAAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTTGAAA-TTTTATTTTTAAG
7415844 AGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCT-TTTTTTTGAAATTTTATTTTTAAG
1 A-AAAATTGATACTTTCAACTTTTCC-CAAAAA---TATTTTTTTGAAATTTTATTTTTAAG
* * *
7415905 AAAAATTGATACTTTCAAATTTTCCTAAAAA-ACCCTTTTTTGAAATTTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCCAAAAATA--TTTTTTTGAAATTTTATTTTTAAG
* * *
7415963 AAAAATTGATACTTTCAACTTTTTTCCAAAAATA-TTTTTTGAAAACTTTGATTTTCAAG
1 AAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTG-AAA-TTTTATTTTTAAG
* * *
7416022 GAAAATTGATACTTTCAACTTTTCCTAAAAAATCTTTTTTTGAAATTTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTGAAATTTTATTTTTAAG
7416080 AAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 AAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTT
7416121 TATTTTTATT
Statistics
Matches: 346, Mismatches: 25, Indels: 41
0.84 0.06 0.10
Matches are distributed among these distances:
55 5 0.01
56 26 0.08
57 28 0.08
58 116 0.34
59 116 0.34
60 42 0.12
61 12 0.03
62 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (57 bp):
AAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAATTTTATTTTTAAG
Found at i:7416052 original size:117 final size:114
Alignment explanation
Indices: 7415672--7416119 Score: 586
Period size: 117 Copynumber: 3.9 Consensus size: 114
7415662 TGTGCAGGAA
* * *
7415672 AAAATTGATACTTTCAACATTTCCCCAAAAATA-TTTTTTGGAAACTTTTATTTTCAAGAAAAAT
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAA-ACTTTTTTTGAAACTTTTATTTTTAAGAAAAAT
7415736 TGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAATTTATTTTTAAGG
64 TGATACTTTCAACTTTTTCCCAAAAATATTTTTT-GAAATTTATTTTTAAGG
*
7415788 AAAATTGATA-TTTCAACTTTTCTCCAAAAATA-TTTTTTTGAAACTTTGATTTTTAA-AGAAAA
1 AAAATTGATACTTTCAACTTTTC-CCAAAAA-ACTTTTTTTGAAACTTTTATTTTTAAGA-AAAA
* *
7415850 TTGATACTTTCAAC-TTTTCCTCAAAAACCCTTTTTTTTGAAATTTTATTTTTAAGA
63 TTGATACTTTCAACTTTTTCC-CAAAAA---TATTTTTTGAAA-TTTATTTTTAAGG
* * *
7415906 AAAATTGATACTTTCAAATTTTCCTAAAAAACCCTTTTTTGAAA-TTTTATTTTTAAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCCAAAAAA-CTTTTTTTGAAACTTTTATTTTTAAGAAAAATT
* *
7415970 GATACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAACTTTGATTTTCAAGG
65 GATACTTTCAACTTTTTCCCAAAAATATTTTTTG-AAA-TTT-ATTTTTAAGG
*
7416023 AAAATTGATACTTTCAACTTTTCCTAAAAAATCTTTTTTTGAAA-TTTTATTTTTAAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCCAAAAAA-CTTTTTTTGAAACTTTTATTTTTAAGAAAAATT
*
7416087 GATACTTTCAACTTTTCCCCAAAAATATTTTTT
65 GATACTTTCAACTTTTTCCCAAAAATATTTTTT
7416120 TTATTTTTAT
Statistics
Matches: 298, Mismatches: 20, Indels: 27
0.86 0.06 0.08
Matches are distributed among these distances:
114 11 0.04
115 69 0.23
116 16 0.05
117 105 0.35
118 70 0.23
119 27 0.09
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (114 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAAACTTTTTTTGAAACTTTTATTTTTAAGAAAAATTG
ATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAATTTATTTTTAAGG
Found at i:7416144 original size:5 final size:5
Alignment explanation
Indices: 7416136--7416221 Score: 76
Period size: 5 Copynumber: 17.6 Consensus size: 5
7416126 TTATTTAAAG
*
7416136 AAAAT AAAAT --AAT AAAAC AAAAT AAAAGT GAAAAT AAAA- AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT
*
7416185 AAAA- AAAAGT AAAAC AAAA- ATAAA- AAAAT AAAAT AAA
1 AAAAT AAAA-T AAAAT AAAAT A-AAAT AAAAT AAAAT AAA
7416222 GGTAAAAAGA
Statistics
Matches: 69, Mismatches: 3, Indels: 18
0.77 0.03 0.20
Matches are distributed among these distances:
3 3 0.04
4 12 0.17
5 44 0.64
6 6 0.09
7 4 0.06
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.14
Consensus pattern (5 bp):
AAAAT
Found at i:7416170 original size:30 final size:30
Alignment explanation
Indices: 7416135--7416221 Score: 106
Period size: 29 Copynumber: 2.9 Consensus size: 30
7416125 TTTATTTAAA
*
7416135 GAAAATAAAATAATAAAACAAAATAAAAGT
1 GAAAATAAAATAATAAAATAAAATAAAAGT
*
7416165 GAAAATAAAAAAAATAAAATAAAA-AAAAGT
1 GAAAAT-AAAATAATAAAATAAAATAAAAGT
* *
7416195 -AAAACAAAAATAAAAAAATAAAATAAA
1 GAAAA-TAAAATAATAAAATAAAATAAA
7416222 GGTAAAAAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
29 19 0.39
30 15 0.31
31 15 0.31
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (30 bp):
GAAAATAAAATAATAAAATAAAATAAAAGT
Found at i:7417199 original size:22 final size:24
Alignment explanation
Indices: 7417140--7417208 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
7417130 AGATAATTAG
7417140 AAAAATAATAATAAGATAAATCAAC
1 AAAAATAA-AATAAGATAAATCAAC
* **
7417165 AATAATATTATAAGATAAA-CAA-
1 AAAAATAAAATAAGATAAATCAAC
7417187 AAAAATAAAATAACAGATAAAT
1 AAAAATAAAAT-A-AGATAAAT
7417209 ATGAGATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
22 8 0.23
23 4 0.11
24 17 0.49
25 6 0.17
ACGTcount: A:0.68, C:0.06, G:0.04, T:0.22
Consensus pattern (24 bp):
AAAAATAAAATAAGATAAATCAAC
Found at i:7417293 original size:27 final size:27
Alignment explanation
Indices: 7417263--7417342 Score: 72
Period size: 28 Copynumber: 2.9 Consensus size: 27
7417253 AGAAAGAAAA
* *
7417263 AATAAAAAAAATATATTAATAAATAGT
1 AATAAAAAAAATATATAAATAAATAGG
*
7417290 AATAATAAATAAATA-ATAAATACATAGG
1 AATAA-AAA-AAATATATAAATAAATAGG
* *
7417318 ATATAAAGGAAAATATATACATAAA
1 A-ATAAA-AAAAATATATAAATAAA
7417343 ATATAAAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
27 5 0.12
28 20 0.48
29 17 0.40
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (27 bp):
AATAAAAAAAATATATAAATAAATAGG
Found at i:7417345 original size:13 final size:12
Alignment explanation
Indices: 7417327--7417378 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
7417317 GATATAAAGG
*
7417327 AAAATATATACAT
1 AAAATATA-AAAT
7417340 AAAATATAAAAT
1 AAAATATAAAAT
*
7417352 AAAA-ATAACA-
1 AAAATATAAAAT
7417362 AAAATATAAAAT
1 AAAATATAAAAT
7417374 AAAAT
1 AAAAT
7417379 TGGGTTTACC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 4 0.12
11 10 0.29
12 12 0.35
13 8 0.24
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATATAAAAT
Found at i:7417355 original size:25 final size:25
Alignment explanation
Indices: 7417304--7417378 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 25
7417294 ATAAATAAAT
* ** **
7417304 AATAAATACATAGGATATAAAGGAA
1 AATATATACATAAAATATAAAATAA
7417329 AATATATACATAAAATATAAAATAA
1 AATATATACATAAAATATAAAATAA
7417354 AA-ATA-ACA-AAAATATAAAATAA
1 AATATATACATAAAATATAAAATAA
7417376 AAT
1 AAT
7417379 TGGGTTTACC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
22 16 0.36
23 3 0.07
24 3 0.07
25 22 0.50
ACGTcount: A:0.68, C:0.04, G:0.05, T:0.23
Consensus pattern (25 bp):
AATATATACATAAAATATAAAATAA
Found at i:7423683 original size:12 final size:12
Alignment explanation
Indices: 7423666--7423716 Score: 75
Period size: 12 Copynumber: 4.2 Consensus size: 12
7423656 TTTTGTACCT
7423666 TATAAGTAGTTC
1 TATAAGTAGTTC
*
7423678 TATAAGTAGTTT
1 TATAAGTAGTTC
*
7423690 TATAAGTAGTTT
1 TATAAGTAGTTC
*
7423702 TATAAATAGTTC
1 TATAAGTAGTTC
7423714 TAT
1 TAT
7423717 GCTGACCCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.47
Consensus pattern (12 bp):
TATAAGTAGTTC
Found at i:7424582 original size:51 final size:52
Alignment explanation
Indices: 7424527--7424659 Score: 189
Period size: 51 Copynumber: 2.6 Consensus size: 52
7424517 TGATGCCGGG
* *
7424527 AGATTTTTGGGATTTAATTCCAAAATCAATTCACATTAAAATGGTGTTGA-A
1 AGATTTTTTGGATTTAATTCCAAAATCAATTCACATTAAAATGATGTTGAGA
* * *
7424578 AGATTTTTTGGATTTAATCCCAGAGTCAATTCACATTAAAATGATGTTGAGA
1 AGATTTTTTGGATTTAATTCCAAAATCAATTCACATTAAAATGATGTTGAGA
* *
7424630 A-ATTTTTTAGATTTAATTCCAAAATAAATT
1 AGATTTTTTGGATTTAATTCCAAAATCAATT
7424660 ATTATTAAGA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
51 69 0.97
52 2 0.03
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.39
Consensus pattern (52 bp):
AGATTTTTTGGATTTAATTCCAAAATCAATTCACATTAAAATGATGTTGAGA
Found at i:7429922 original size:65 final size:66
Alignment explanation
Indices: 7429851--7430030 Score: 193
Period size: 66 Copynumber: 2.7 Consensus size: 66
7429841 TTCATTTTCA
* * *
7429851 ACCTTGACTTGGTCTTGGTCACTTTATCTTTCTGACTCATAGTTTGA-CCTCA-TCGTTCATCAT
1 ACCTTGACTTGATCTTGGTCGCTTTATCTTTCTGACTCATAGTTTGATCCT-AGTCATTCATCAT
7429914 TG
65 TG
* ** * * * *
7429916 ATCTTGACTTGATCAGGGTCGTTTTATCTTTTTGACTCATGGTTCGATCCTAGTCATTCATCATT
1 ACCTTGACTTGATCTTGGTCGCTTTATCTTTCTGACTCATAGTTTGATCCTAGTCATTCATCATT
7429981 G
66 G
** * ** *
7429982 ACCTCAACTCGATCTTAATCGCTTTATCTTTCTGACTCACAGTTTGATC
1 ACCTTGACTTGATCTTGGTCGCTTTATCTTTCTGACTCATAGTTTGATC
7430031 TCGGTTATTC
Statistics
Matches: 90, Mismatches: 23, Indels: 3
0.78 0.20 0.03
Matches are distributed among these distances:
65 39 0.43
66 51 0.57
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (66 bp):
ACCTTGACTTGATCTTGGTCGCTTTATCTTTCTGACTCATAGTTTGATCCTAGTCATTCATCATT
G
Found at i:7430041 original size:66 final size:66
Alignment explanation
Indices: 7429971--7430119 Score: 151
Period size: 66 Copynumber: 2.3 Consensus size: 66
7429961 GATCCTAGTC
* *
7429971 ATTCATCATT-GACCTCAACTC-GATCTTAATCGCTTTATCTTTCTGACTCA-CAGTTTGATCTC
1 ATTCAT-ATTCGACCTCAACTCAG-TCTTAATCACTTTATCTTTCTGA-TCAGCAGTTCGATCTC
7430033 GGTT
63 GGTT
** * * * *
7430037 ATTCATATTCGACCTTGATTCAGTCTTAATCATTTTATCTTTTTGATTAGCAGTTCGATCTCGGT
1 ATTCATATTCGACCTCAACTCAGTCTTAATCACTTTATCTTTCTGATCAGCAGTTCGATCTCGGT
7430102 T
66 T
* * *
7430103 ACTCATTTTCGATCTCA
1 ATTCATATTCGACCTCA
7430120 GTTCGATCCA
Statistics
Matches: 67, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
65 5 0.07
66 61 0.91
67 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.44
Consensus pattern (66 bp):
ATTCATATTCGACCTCAACTCAGTCTTAATCACTTTATCTTTCTGATCAGCAGTTCGATCTCGGT
T
Found at i:7430382 original size:87 final size:86
Alignment explanation
Indices: 7430230--7430467 Score: 300
Period size: 87 Copynumber: 2.8 Consensus size: 86
7430220 TTTTGTTATG
* * ** *
7430230 AAACCTTTGGGAAACTTAGAATCTTATGAATATTCCATTCTTGCGAATCTGAAAGTCATTGTGAA
1 AAACCTTTGTGACACTTAGAATCTTATGAACCTTCCATTCTTGCGAATCTGAAAGTCTTTGTGAA
7430295 CCTAAAACCTTT-TGCAAATCTA
66 CCTAAAACCTTTATG--AATCTA
* * *
7430317 AAACCTTTGTGACACTT-GAAATCTTATGAACCTTCCATTTTTGTGAATCTGAAAGTCTTTATGA
1 AAACCTTTGTGACACTTAG-AATCTTATGAACCTTCCATTCTTGCGAATCTGAAAGTCTTTGTGA
*
7430381 ACCTGAAACCTTTATGAATCTA
65 ACCTAAAACCTTTATGAATCTA
* * * * * *
7430403 GAACCTTTATGACACTTAGAATCTTGTGAACCTTTCATTCTTGCGAATTTGAAAATCTTTGTGAA
1 AAACCTTTGTGACACTTAGAATCTTATGAACCTTCCATTCTTGCGAATCTGAAAGTCTTTGTGAA
7430468 TTTTTTGCGT
Statistics
Matches: 130, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
86 61 0.47
87 67 0.52
88 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (86 bp):
AAACCTTTGTGACACTTAGAATCTTATGAACCTTCCATTCTTGCGAATCTGAAAGTCTTTGTGAA
CCTAAAACCTTTATGAATCTA
Found at i:7430395 original size:17 final size:17
Alignment explanation
Indices: 7430373--7430414 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
7430363 ATCTGAAAGT
7430373 CTTTATGAACCT-GAAAC
1 CTTTATGAACCTAG-AAC
*
7430390 CTTTATGAATCTAGAAC
1 CTTTATGAACCTAGAAC
7430407 CTTTATGA
1 CTTTATGA
7430415 CACTTAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 22 0.96
18 1 0.04
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (17 bp):
CTTTATGAACCTAGAAC
Found at i:7430436 original size:86 final size:86
Alignment explanation
Indices: 7430243--7430467 Score: 292
Period size: 86 Copynumber: 2.6 Consensus size: 86
7430233 CCTTTGGGAA
** *
7430243 ACTTAGAATCTTATGAATATTCCATTCTTGCGAATCTGAAAGTCATTGTGAACCTAAAACCTTTT
1 ACTTAGAATCTTATGAACCTTCCATTCTTGCGAATCTGAAAGTCTTTGTGAACCTAAAACCTTTT
*
7430308 GCAAATCTAAAACCTTTGTGAC
66 G-AAATCTAAAACCTTTATGAC
* * * *
7430330 ACTT-GAAATCTTATGAACCTTCCATTTTTGTGAATCTGAAAGTCTTTATGAACCTGAAACCTTT
1 ACTTAG-AATCTTATGAACCTTCCATTCTTGCGAATCTGAAAGTCTTTGTGAACCTAAAACCTTT
*
7430394 ATG-AATCTAGAACCTTTATGAC
65 -TGAAATCTAAAACCTTTATGAC
* * * *
7430416 ACTTAGAATCTTGTGAACCTTTCATTCTTGCGAATTTGAAAATCTTTGTGAA
1 ACTTAGAATCTTATGAACCTTCCATTCTTGCGAATCTGAAAGTCTTTGTGAA
7430468 TTTTTTGCGT
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
86 61 0.51
87 56 0.47
88 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (86 bp):
ACTTAGAATCTTATGAACCTTCCATTCTTGCGAATCTGAAAGTCTTTGTGAACCTAAAACCTTTT
GAAATCTAAAACCTTTATGAC
Found at i:7432338 original size:17 final size:18
Alignment explanation
Indices: 7432316--7432349 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7432306 TTATTGAAAG
7432316 ATTTTTCAT-AAATTTAA
1 ATTTTTCATGAAATTTAA
*
7432333 ATTTTTTATGAAATTTA
1 ATTTTTCATGAAATTTA
7432350 TTAAACTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
ATTTTTCATGAAATTTAA
Found at i:7433640 original size:19 final size:19
Alignment explanation
Indices: 7433612--7433653 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
7433602 ATTGGGATAT
*
7433612 TTATAATTTATTTATTTTG
1 TTATAATTTATTTATTTTA
*
7433631 TTATATTTTATTTATTTTA
1 TTATAATTTATTTATTTTA
7433650 TTAT
1 TTAT
7433654 TATATCTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
TTATAATTTATTTATTTTA
Found at i:7433648 original size:9 final size:9
Alignment explanation
Indices: 7433618--7433651 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
7433608 ATATTTATAA
7433618 TTTATTTAT
1 TTTATTTAT
*
7433627 TTTGTTATAT
1 TTTATT-TAT
7433637 TTTATTTAT
1 TTTATTTAT
7433646 TTTATT
1 TTTATT
7433652 ATTATATCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (9 bp):
TTTATTTAT
Found at i:7433683 original size:14 final size:15
Alignment explanation
Indices: 7433666--7433699 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
7433656 TATCTGTTAG
7433666 TATATA-TTAGTATT
1 TATATATTTAGTATT
7433680 TATATATTTAGTATT
1 TATATATTTAGTATT
7433695 TATAT
1 TATAT
7433700 GTATAATATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (15 bp):
TATATATTTAGTATT
Found at i:7434309 original size:3 final size:3
Alignment explanation
Indices: 7434301--7434361 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
7434291 AGGTTACTGT
7434301 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
7434349 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
7434362 GTGGTTGATG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7441377 original size:17 final size:17
Alignment explanation
Indices: 7441347--7441396 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
7441337 TCATTGTATT
*
7441347 CCTTTTTTTATTTTTTTG
1 CCTTTTTTT-TTTTCTTG
7441365 -CTTTGTTTTTTTTCTTG
1 CCTTT-TTTTTTTTCTTG
7441382 CCTTTTTTTTCTTTC
1 CCTTTTTTTT-TTTC
7441397 ATCTTCTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.02, C:0.16, G:0.06, T:0.76
Consensus pattern (17 bp):
CCTTTTTTTTTTTCTTG
Found at i:7448503 original size:9 final size:10
Alignment explanation
Indices: 7448483--7448514 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
7448473 CGATCATTAA
*
7448483 TTTTTACTTT
1 TTTTTAATTT
7448493 TTTTTAATTT
1 TTTTTAATTT
7448503 TTTTTAATTT
1 TTTTTAATTT
7448513 TT
1 TT
7448515 AATAAAATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTAATTT
Found at i:7453756 original size:12 final size:13
Alignment explanation
Indices: 7453739--7453767 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
7453729 TGAATAATCC
7453739 ATTTATTTA-TTT
1 ATTTATTTATTTT
7453751 ATTTATTTATTTT
1 ATTTATTTATTTT
7453764 ATTT
1 ATTT
7453768 TAAAGATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTATTTATTTT
Found at i:7454525 original size:2 final size:2
Alignment explanation
Indices: 7454518--7454543 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7454508 AGCCTTCAAA
7454518 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
7454544 GAAAATATCA
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:7456814 original size:2 final size:2
Alignment explanation
Indices: 7456807--7456836 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7456797 AGCCTTCAAA
7456807 AT AT 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 AT AT
7456837 GAAAATATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7457886 original size:25 final size:25
Alignment explanation
Indices: 7457830--7457886 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
7457820 AATTTTTTAT
*
7457830 TAATTTATTTAAATTATAAGTATAA
1 TAATTTTTTTAAATTATAAGTATAA
* *
7457855 TAATTTTTTTTAATTATAATTATAA
1 TAATTTTTTTAAATTATAAGTATAA
7457880 TAATTTT
1 TAATTTT
7457887 ATTATTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (25 bp):
TAATTTTTTTAAATTATAAGTATAA
Found at i:7458511 original size:18 final size:18
Alignment explanation
Indices: 7458498--7458532 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
7458488 CATATTATTT
7458498 TTATATTTTTTATT-TATA
1 TTATA-TTTTTATTATATA
7458516 TTATATTTTTATTATAT
1 TTATATTTTTATTATAT
7458533 TACTCATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTATATTTTTATTATATA
Found at i:7458522 original size:26 final size:26
Alignment explanation
Indices: 7458449--7458527 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 26
7458439 AAAACATAAA
*
7458449 ATATTTTTTATTT-TATTAAATTTATTT
1 ATATTTTTTATTTATATTATA-TT-TTT
* * * *
7458476 ATAATTTTAAATCATA-T-TATTTTT
1 ATATTTTTTATTTATATTATATTTTT
7458500 ATATTTTTTATTTATATTATATTTTT
1 ATATTTTTTATTTATATTATATTTTT
7458526 AT
1 AT
7458528 TATATTACTC
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
24 15 0.38
25 3 0.08
26 10 0.25
27 10 0.25
28 2 0.05
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (26 bp):
ATATTTTTTATTTATATTATATTTTT
Found at i:7458530 original size:16 final size:18
Alignment explanation
Indices: 7458498--7458534 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
7458488 CATATTATTT
7458498 TTATATTTTTTATTTATA
1 TTATATTTTTTATTTATA
7458516 TTATA-TTTTTA-TTATA
1 TTATATTTTTTATTTATA
7458532 TTA
1 TTA
7458535 CTCATATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATATTTTTTATTTATA
Found at i:7458875 original size:29 final size:29
Alignment explanation
Indices: 7458842--7458899 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
7458832 TTATAATTCA
*
7458842 ATAATTATTTAAAATT-TTAAAATTTTATT
1 ATAATTA-ATAAAATTCTTAAAATTTTATT
**
7458871 ATAATTAATAAAATTCTTAATCTTTTATT
1 ATAATTAATAAAATTCTTAAAATTTTATT
7458900 TCGATTCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (29 bp):
ATAATTAATAAAATTCTTAAAATTTTATT
Found at i:7462976 original size:18 final size:19
Alignment explanation
Indices: 7462929--7462977 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
7462919 TATATCTAAA
* *
7462929 AAAATTCAAATATTGATAT
1 AAAATTTAAATATTCATAT
7462948 AAAACTTTAAATATTCA-AT
1 AAAA-TTTAAATATTCATAT
*
7462967 CAAATTTAAAT
1 AAAATTTAAAT
7462978 TGAAAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 7 0.27
19 9 0.35
20 10 0.38
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAATTTAAATATTCATAT
Found at i:7463008 original size:18 final size:19
Alignment explanation
Indices: 7462964--7463009 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
7462954 TTAAATATTC
*
7462964 AATCAAATTTAAATTGAAA
1 AATCAAATTTAAATTCAAA
* *
7462983 AAT-TAATTTAAA-TCCAA
1 AATCAAATTTAAATTCAAA
7463000 AATCAAATTT
1 AATCAAATTT
7463010 TAAAAATATC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 6 0.27
18 13 0.59
19 3 0.14
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.35
Consensus pattern (19 bp):
AATCAAATTTAAATTCAAA
Found at i:7467247 original size:19 final size:19
Alignment explanation
Indices: 7467221--7467270 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
7467211 AATTTATAAA
7467221 AAATTTATCAAAAAAGCAC
1 AAATTTATCAAAAAAGCAC
* *
7467240 ATATTTATTCAACAAAGCAC
1 AAATTTA-TCAAAAAAGCAC
*
7467260 AAATATATCAA
1 AAATTTATCAA
7467271 GAATTACATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.54, C:0.16, G:0.04, T:0.26
Consensus pattern (19 bp):
AAATTTATCAAAAAAGCAC
Found at i:7468232 original size:19 final size:19
Alignment explanation
Indices: 7468172--7468242 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
7468162 TGAGGTTTTA
*
7468172 TTTAGGATTTCAATTAAGG
1 TTTAGGATTTCATTTAAGG
* *
7468191 TTTCAGGATTTCACTTAAAG
1 TTT-AGGATTTCATTTAAGG
* *
7468211 TTTAGGGTTTCATTTAGGG
1 TTTAGGATTTCATTTAAGG
*
7468230 TTTTGGATTTCAT
1 TTTAGGATTTCAT
7468243 CTAAAGTTTC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 26 0.60
20 17 0.40
ACGTcount: A:0.24, C:0.08, G:0.21, T:0.46
Consensus pattern (19 bp):
TTTAGGATTTCATTTAAGG
Found at i:7468248 original size:38 final size:39
Alignment explanation
Indices: 7468172--7468258 Score: 106
Period size: 38 Copynumber: 2.3 Consensus size: 39
7468162 TGAGGTTTTA
*
7468172 TTTAGGATTTCAATTAAGGTTTCAGGATTTCACTTAAAG
1 TTTAGGGTTTCAATTAAGGTTTCAGGATTTCACTTAAAG
* * *
7468211 TTTAGGGTTTCATTTAGGGTTT-TGGATTTCA-TCTAAAG
1 TTTAGGGTTTCAATTAAGGTTTCAGGATTTCACT-TAAAG
*
7468249 TTTCGGGTTT
1 TTTAGGGTTT
7468259 TATCTAGGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
37 1 0.02
38 22 0.52
39 19 0.45
ACGTcount: A:0.23, C:0.09, G:0.22, T:0.46
Consensus pattern (39 bp):
TTTAGGGTTTCAATTAAGGTTTCAGGATTTCACTTAAAG
Found at i:7468251 original size:19 final size:19
Alignment explanation
Indices: 7468172--7468251 Score: 65
Period size: 19 Copynumber: 4.2 Consensus size: 19
7468162 TGAGGTTTTA
*
7468172 TTTAGGATTTCAAT-TAAGG
1 TTTAGGATTTC-ATCTAAAG
7468191 TTTCAGGATTTCA-CTTAAAG
1 TTT-AGGATTTCATC-TAAAG
* * **
7468211 TTTAGGGTTTCATTTAGGG
1 TTTAGGATTTCATCTAAAG
*
7468230 TTTTGGATTTCATCTAAAG
1 TTTAGGATTTCATCTAAAG
7468249 TTT
1 TTT
7468252 CGGGTTTTAT
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
19 32 0.68
20 15 0.32
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.46
Consensus pattern (19 bp):
TTTAGGATTTCATCTAAAG
Found at i:7468292 original size:13 final size:13
Alignment explanation
Indices: 7468274--7468323 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
7468264 AGGAATTAAG
7468274 ATTTTATTTTAGA
1 ATTTTATTTTAGA
* *
7468287 ATTTTACTTTAGG
1 ATTTTATTTTAGA
*
7468300 GTTTTATTTTAGA
1 ATTTTATTTTAGA
7468313 ATTTTATTTTA
1 ATTTTATTTTA
7468324 AGGTTTCATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.26, C:0.02, G:0.10, T:0.62
Consensus pattern (13 bp):
ATTTTATTTTAGA
Found at i:7468305 original size:26 final size:26
Alignment explanation
Indices: 7468269--7468336 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
7468259 TATCTAGGAA
*
7468269 TTAAGATTTTATTTTAGAATTTTACT
1 TTAAGGTTTTATTTTAGAATTTTACT
* *
7468295 TTAGGGTTTTATTTTAGAATTTTATT
1 TTAAGGTTTTATTTTAGAATTTTACT
*
7468321 TTAAGGTTTCATTTTA
1 TTAAGGTTTTATTTTA
7468337 AGGTTTTGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.26, C:0.03, G:0.12, T:0.59
Consensus pattern (26 bp):
TTAAGGTTTTATTTTAGAATTTTACT
Found at i:7468343 original size:26 final size:24
Alignment explanation
Indices: 7468288--7468392 Score: 66
Period size: 26 Copynumber: 4.2 Consensus size: 24
7468278 TATTTTAGAA
* * *
7468288 TTTTACTTTAGGGTTTTATTTTAGAA
1 TTTTACTTTAAGGTTTCA-TTTAG-G
*
7468314 TTTTATTTTAAGGTTTCATTTTAAGG
1 TTTTACTTTAAGGTTTCA-TTT-AGG
* * * *
7468340 TTTTGCTTTAAAGTTTTACTTAAGG
1 TTTTACTTTAAGGTTTCA-TTTAGG
***
7468365 TTTTGGGTTAAGGTTTCATTTAGG
1 TTTTACTTTAAGGTTTCATTTAGG
7468389 TTTT
1 TTTT
7468393 CATATATTTA
Statistics
Matches: 63, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
24 9 0.14
25 17 0.27
26 35 0.56
27 2 0.03
ACGTcount: A:0.21, C:0.05, G:0.18, T:0.56
Consensus pattern (24 bp):
TTTTACTTTAAGGTTTCATTTAGG
Found at i:7468349 original size:13 final size:13
Alignment explanation
Indices: 7468333--7468380 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
7468323 AAGGTTTCAT
7468333 TTTAAGGTTTTGC
1 TTTAAGGTTTTGC
* *
7468346 TTTAAAGTTTTAC
1 TTTAAGGTTTTGC
*
7468359 -TTAAGGTTTTGG
1 TTTAAGGTTTTGC
*
7468371 GTTAAGGTTT
1 TTTAAGGTTT
7468381 CATTTAGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
12 9 0.31
13 20 0.69
ACGTcount: A:0.21, C:0.04, G:0.23, T:0.52
Consensus pattern (13 bp):
TTTAAGGTTTTGC
Found at i:7468367 original size:12 final size:13
Alignment explanation
Indices: 7468288--7468368 Score: 67
Period size: 13 Copynumber: 6.3 Consensus size: 13
7468278 TATTTTAGAA
*
7468288 TTTTACTTTAGGG
1 TTTTACTTTAAGG
* *
7468301 TTTTA-TTTTAGAA
1 TTTTACTTTAAG-G
*
7468314 TTTTATTTTAAGG
1 TTTTACTTTAAGG
* *
7468327 TTTCATTTTAAGG
1 TTTTACTTTAAGG
* *
7468340 TTTTGCTTTAAAG
1 TTTTACTTTAAGG
7468353 TTTTAC-TTAAGG
1 TTTTACTTTAAGG
7468365 TTTT
1 TTTT
7468369 GGGTTAAGGT
Statistics
Matches: 54, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
12 13 0.24
13 36 0.67
14 5 0.09
ACGTcount: A:0.22, C:0.05, G:0.15, T:0.58
Consensus pattern (13 bp):
TTTTACTTTAAGG
Found at i:7468547 original size:3 final size:3
Alignment explanation
Indices: 7468539--7468585 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
7468529 TTGAAAATTT
7468539 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7468586 CAATAACTCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7468773 original size:16 final size:16
Alignment explanation
Indices: 7468749--7468786 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
7468739 TGTATAAATC
* *
7468749 TAAAATGTATGAAAAA
1 TAAATTGTATCAAAAA
7468765 TAAATTGTATCAAAAA
1 TAAATTGTATCAAAAA
7468781 TAAATT
1 TAAATT
7468787 AACACATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (16 bp):
TAAATTGTATCAAAAA
Found at i:7469975 original size:21 final size:20
Alignment explanation
Indices: 7469937--7469977 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
7469927 ATAAAAAATT
7469937 ATTTTTTAATTAATTATTTA
1 ATTTTTTAATTAATTATTTA
7469957 ATTTTTT-ATTATATATATTTA
1 ATTTTTTAATTA-AT-TATTTA
7469978 TATAATGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTTTTAATTAATTATTTA
Found at i:7469991 original size:30 final size:30
Alignment explanation
Indices: 7469957--7470027 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
7469947 TAATTATTTA
* * *
7469957 ATTTTTTATTATATATATTTATATAATGAT
1 ATTTTTTATTATATATATTTAAAAAATAAT
* * *
7469987 ATTTTTAAATATTTATATTTAAAAAATAAT
1 ATTTTTTATTATATATATTTAAAAAATAAT
*
7470017 ATTTTATATTA
1 ATTTTTTATTA
7470028 AAAATAATAA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (30 bp):
ATTTTTTATTATATATATTTAAAAAATAAT
Found at i:7470019 original size:20 final size:21
Alignment explanation
Indices: 7469994--7470048 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
7469984 GATATTTTTA
*
7469994 AATATTTATATTTAAAA-AAT
1 AATATTTATATTAAAAATAAT
7470014 AATATTTTATATTAAAAATAAT
1 AATA-TTTATATTAAAAATAAT
7470036 AATATTT-TATTAA
1 AATATTTATATTAA
7470049 TTTCGGGTCG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 10 0.31
21 15 0.47
22 7 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATATTTATATTAAAAATAAT
Found at i:7470024 original size:21 final size:22
Alignment explanation
Indices: 7469994--7470045 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
7469984 GATATTTTTA
*
7469994 AATA-TTTATATTTAAAA-AAT
1 AATATTTTATATTAAAAATAAT
7470014 AATATTTTATATTAAAAATAAT
1 AATATTTTATATTAAAAATAAT
7470036 AATATTTTAT
1 AATATTTTAT
7470046 TAATTTCGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 4 0.14
21 12 0.41
22 13 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATATTTTATATTAAAAATAAT
Found at i:7471035 original size:11 final size:10
Alignment explanation
Indices: 7471001--7471083 Score: 50
Period size: 9 Copynumber: 8.4 Consensus size: 10
7470991 GGCCAAGCTT
7471001 TTTATTATT-
1 TTTATTATTA
*
7471010 TTAATT-TTGA
1 TTTATTATT-A
7471020 TTTATTATTTA
1 TTTATTA-TTA
*
7471031 GTTATTATTA
1 TTTATTATTA
*
7471041 TAT-TTATTA
1 TTTATTATTA
*
7471050 TATA-T-TTA
1 TTTATTATTA
7471058 TTTATTATTA
1 TTTATTATTA
*
7471068 TATTACTTCTTA
1 T-TTA-TTATTA
7471080 TTTA
1 TTTA
7471084 ATGGCTAATA
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
8 8 0.14
9 16 0.28
10 13 0.22
11 13 0.22
12 8 0.14
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTATTATTA
Found at i:7471055 original size:27 final size:26
Alignment explanation
Indices: 7471021--7471071 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
7471011 TAATTTTGAT
7471021 TTATTATTTAGTTATTATTATATTTA
1 TTATTATTTAGTTATTATTATATTTA
*
7471047 TTATATATTTATTTATTATTATATT
1 TTAT-TATTTAGTTATTATTATATT
7471072 ACTTCTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (26 bp):
TTATTATTTAGTTATTATTATATTTA
Found at i:7471066 original size:30 final size:27
Alignment explanation
Indices: 7471001--7471068 Score: 75
Period size: 30 Copynumber: 2.4 Consensus size: 27
7470991 GGCCAAGCTT
*
7471001 TTTATTATT-TTAATTTTGATTTATTA
1 TTTATTATTATTAATTTTGATATATTA
*
7471027 TTTAGTTATTATTATATTTATTATATATTTA
1 TTTA-TTATTATTA-ATTT-TGATATA-TTA
7471058 TTTATTATTAT
1 TTTATTATTAT
7471069 ATTACTTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 4 0.11
27 5 0.14
28 3 0.09
29 4 0.11
30 12 0.34
31 7 0.20
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (27 bp):
TTTATTATTATTAATTTTGATATATTA
Found at i:7471069 original size:16 final size:16
Alignment explanation
Indices: 7471024--7471071 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 16
7471014 TTTTGATTTA
7471024 TTATTTAGTTATTAT-T
1 TTATTTA-TTATTATAT
*
7471040 ATATTTATTA-TATAT
1 TTATTTATTATTATAT
7471055 TTATTTATTATTATAT
1 TTATTTATTATTATAT
7471071 T
1 T
7471072 ACTTCTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 3 0.11
15 13 0.46
16 12 0.43
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTATTTATTATTATAT
Found at i:7471945 original size:33 final size:33
Alignment explanation
Indices: 7471888--7471995 Score: 103
Period size: 33 Copynumber: 3.3 Consensus size: 33
7471878 GGTATCAGTT
* *
7471888 TTAAATTTTCATTAGGTGCCAGCTATA-TTAGGC
1 TTAAATTTTCACTAGGTGCAAGCTA-AGTTAGGC
**
7471921 TTAAATTTTCACTAGGTTTAAGCTAAGTTAGGC
1 TTAAATTTTCACTAGGTGCAAGCTAAGTTAGGC
** * * *
7471954 TTATGTTTTCAC-GGGATGCCAGCTAAGTTAGGT
1 TTAAATTTTCACTAGG-TGCAAGCTAAGTTAGGC
7471987 TTAAATTTT
1 TTAAATTTT
7471996 TACTGAGTGT
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
32 3 0.05
33 57 0.95
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (33 bp):
TTAAATTTTCACTAGGTGCAAGCTAAGTTAGGC
Found at i:7472066 original size:62 final size:61
Alignment explanation
Indices: 7471970--7472127 Score: 144
Period size: 62 Copynumber: 2.5 Consensus size: 61
7471960 TTTCACGGGA
* * ** *
7471970 TGCCAGCTAAGTTAGGTTTAAATT-TTTACT-GAGTGTTAGTTAAAC-AGGGCTTAAAACTTA-T
1 TGCCAGCTAA-TT-GGCTTAAATTCTTT-CTCGAGTGCTAGAAAAACTA-GGCTTAAAACCTAGT
7472031 GTGCCAGCTAATTGGACTTAAATTCTTTCTCGAGTGCTAGAAAAACTAGGCTTAAAACCTAGT
1 -TGCCAGCTAATTGG-CTTAAATTCTTTCTCGAGTGCTAGAAAAACTAGGCTTAAAACCTAGT
* *
7472094 TGCCAGCTAAACTGGGCTTAAATTTCATTCTCGA
1 TGCCAGCT-AA-TTGGCTTAAA-TTCTTTCTCGA
7472128 ATGGTAGCTA
Statistics
Matches: 81, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
60 2 0.02
61 11 0.14
62 45 0.56
63 10 0.12
64 13 0.16
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (61 bp):
TGCCAGCTAATTGGCTTAAATTCTTTCTCGAGTGCTAGAAAAACTAGGCTTAAAACCTAGT
Found at i:7472226 original size:33 final size:33
Alignment explanation
Indices: 7472154--7472236 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
7472144 GTTTAAAACT
* * *
7472154 TGGG-TGCCAGCTAAACTAGGCTTATATTTTCA
1 TGGGATGCCAGCTAAACTAGGCATAAATTTGCA
*
7472186 TGGGATGCCAACTAAACTAGGCATAAATTTGCA
1 TGGGATGCCAGCTAAACTAGGCATAAATTTGCA
** *
7472219 TTTGATGCTAGCTAAACT
1 TGGGATGCCAGCTAAACT
7472237 GTGCTTAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 4 0.10
33 38 0.90
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (33 bp):
TGGGATGCCAGCTAAACTAGGCATAAATTTGCA
Found at i:7473476 original size:16 final size:16
Alignment explanation
Indices: 7473457--7473491 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
7473447 TAAAAGATTA
*
7473457 AAAATAAAAATAAATT
1 AAAAGAAAAATAAATT
*
7473473 AAAAGATAAATAAATT
1 AAAAGAAAAATAAATT
7473489 AAA
1 AAA
7473492 TGAAGGCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAAGAAAAATAAATT
Found at i:7474332 original size:19 final size:20
Alignment explanation
Indices: 7474304--7474342 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
7474294 TTAATTAAAA
*
7474304 AATTACAAA-GAAAAAAATT
1 AATTAAAAAGGAAAAAAATT
7474323 AATTAAAAAGTGAAAAAAAT
1 AATTAAAAAG-GAAAAAAAT
7474343 CATAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.21
Consensus pattern (20 bp):
AATTAAAAAGGAAAAAAATT
Found at i:7475987 original size:20 final size:19
Alignment explanation
Indices: 7475946--7475991 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
7475936 GAATAATTTT
**
7475946 TTTAAGAAAAAAAGAACGAA
1 TTTAA-AAAAAAAGAAAAAA
7475966 TTTAAAAAAAAAGAAAAAA
1 TTTAAAAAAAAAGAAAAAA
*
7475985 ATTAAAA
1 TTTAAAA
7475992 TAAAGAGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.17
Consensus pattern (19 bp):
TTTAAAAAAAAAGAAAAAA
Found at i:7477007 original size:21 final size:20
Alignment explanation
Indices: 7476982--7477021 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7476972 AAATAAGATT
7476982 AAATTTATTACCAAAATTAAG
1 AAATTT-TTACCAAAATTAAG
**
7477003 AAATTTTTGTCAAAATTAA
1 AAATTTTTACCAAAATTAA
7477022 AGGATAATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (20 bp):
AAATTTTTACCAAAATTAAG
Found at i:7481241 original size:134 final size:134
Alignment explanation
Indices: 7480992--7481883 Score: 695
Period size: 134 Copynumber: 6.5 Consensus size: 134
7480982 AAAAGAAAAT
* *
7480992 AGAATTCAAGAAAGTAGAATGTTAAAGATGAAGTCAAATATTTCAAAAAAAAATAATAAAGTCAA
1 AGAATTCAAGAAAGTAGAATGCTAAAGATGAAGTCAAATATTTC-AAAAAAAAGAA-AAAGT-AA
* * * * *
7481057 A-AAAGAAAGATATGCACCTTAAAAATGAGAGTCTAGGGTAAAAAGTGAATAAGACTTTAGTTAG
63 AGAAAGAAAGATATGCACCTCAAAGATGAGAGTCCATGGTAAAAAGTGAATAAGACTTCAGTTAG
7481121 AATCCCA
128 AATCCCA
* * *
7481128 AAAATTTAAGAAAGTAGAATGCTAAAGATGAAGTCAAATGTTTCAAAAAAAAGAAAAAGTAAAGA
1 AGAATTCAAGAAAGTAGAATGCTAAAGATGAAGTCAAATATTTCAAAAAAAAGAAAAAGTAAAGA
* * ** *
7481193 AAGAAAGATATGCACCTCAGAGATGAGAATCCATGACAAAAAGTGAATAA-AGCTTCAATTAGAA
66 AAGAAAGATATGCACCTCAAAGATGAGAGTCCATGGTAAAAAGTGAATAAGA-CTTCAGTTAGAA
*
7481257 TCTCAAGTAAAAAAGA
130 TC-C----------CA
* ** * * *
7481273 AGATAAAATTCAAGAAAGTAGATTGCTAAATCTGAAGTCAAATATTTC-AAAAAAGGAAAGGAGC
1 AG----AATTCAAGAAAGTAGAATGCTAAAGATGAAGTCAAATATTTCAAAAAAAAGAAA-AAGT
* * *** ** * *
7481337 AAAGAAAGAAAGACATGCACTTTGGAGATGATTGTCTGA-GGTAAAAAGTGAATAAGATTTCAGT
61 AAAGAAAGAAAGATATGCACCTCAAAGATGAGAGTC-CATGGTAAAAAGTGAATAAGACTTCAGT
*
7481401 TAGAATCCTA
125 TAGAATCCCA
* * * * *
7481411 ATAATTCAAGAAAGTAAAATGCTAAAGATGAAGTCAAATGTTTC--CAAAAA-AAAAAGCAAA-A
1 AGAATTCAAGAAAGTAGAATGCTAAAGATGAAGTCAAATATTTCAAAAAAAAGAAAAAGTAAAGA
* * ** * * **
7481472 AA-AAAAAAATGCATTTCAAAGATAAGAGTTCGCGGTAAAAAGTGAATGAAG-CTTCAGTTAGAA
66 AAGAAAGATATGCACCTCAAAGATGAGAGTCCATGGTAAAAAGTGAAT-AAGACTTCAGTTAGAA
7481535 TCCCA
130 TCCCA
* * * * * *
7481540 AGAATTCAAGAAAATATATTGCTAAAGCTGAAGTTAAATATTTCAAAAAAAA-AAAAGAGCAAAG
1 AGAATTCAAGAAAGTAGAATGCTAAAGATGAAGTCAAATATTTCAAAAAAAAGAAAA-AGTAAAG
* * *** * * *
7481604 AAAGAAAGACATGCACCTCGAAA-ATGAAAGTCTGGGGTAAAAAGTGAATGAGAATTTAGTTAGA
65 AAAGAAAGATATGCACCTC-AAAGATGAGAGTCCATGGTAAAAAGTGAATAAGACTTCAGTTAGA
*
7481668 ATCACA
129 ATCCCA
* *
7481674 AGAATTCAAGAAAGTGGAATGCTAAAGATGAATTCAAAT-TCTTCCAAAAAAAAG----AGCT-A
1 AGAATTCAAGAAAGTAGAATGCTAAAGATGAAGTCAAATAT-TT-CAAAAAAAAGAAAAAG-TAA
* * * * * * * *
7481733 AGAAAGAAAGATATACACTTCAAATATAAGAGTCCATGGCAAAAAGTGAATAAGGCTTCAATTAA
63 AGAAAGAAAGATATGCACCTCAAAGATGAGAGTCCATGGTAAAAAGTGAATAAGACTTCAGTTAG
7481798 AATCCCA
128 AATCCCA
** * *
7481805 AGAATTTTAGAAAGTAGAATGCTAAAGATAAAGTCAAATATTTCCAAAACAAAAAAACAAAAAAG
1 AGAATTCAAGAAAGTAGAATGCTAAAGATGAAGTCAAATATTT-C---A-AAAAAAA-GAAAAAG
7481870 TAAAGAAAGAAAGA
60 TAAAGAAAGAAAGA
7481884 CAAGCACGTT
Statistics
Matches: 599, Mismatches: 112, Indels: 86
0.75 0.14 0.11
Matches are distributed among these distances:
129 84 0.14
130 9 0.02
131 108 0.18
132 10 0.02
133 14 0.02
134 178 0.30
135 30 0.05
136 40 0.07
138 2 0.00
139 1 0.00
140 14 0.02
145 2 0.00
148 11 0.02
149 94 0.16
150 2 0.00
ACGTcount: A:0.51, C:0.10, G:0.17, T:0.21
Consensus pattern (134 bp):
AGAATTCAAGAAAGTAGAATGCTAAAGATGAAGTCAAATATTTCAAAAAAAAGAAAAAGTAAAGA
AAGAAAGATATGCACCTCAAAGATGAGAGTCCATGGTAAAAAGTGAATAAGACTTCAGTTAGAAT
CCCA
Found at i:7482193 original size:123 final size:122
Alignment explanation
Indices: 7482030--7482255 Score: 321
Period size: 123 Copynumber: 1.8 Consensus size: 122
7482020 AAAAAGGAAA
* * * *
7482030 ACATGCACCTTAGAGATGAGAGTCTGGGGTAAAAAATGAATAAAGTTTCAATTAGAATT-CTAAG
1 ACATGCACCTTAAAGATGAGAGTCTGAGGTAAAAAATGAATAAAGGTTCAATTAG-ATTCCCAAG
7482094 TAAAAAAAAAGATAAAATTCAAGAAAGTAGAATGCAAAAGAAAGAGTAGAGAAAAAAAG
65 T-AAAAAAAAGATAAAATTCAAGAAAGTAGAATGCAAAAGAAAGAGTAGAGAAAAAAAG
* *
7482153 ACATGCA-CTTCAAAGATGAGAGTCTGAGGTAAAAAGTGAATGAAGGTTCAATTAGATTCCCAAG
1 ACATGCACCTT-AAAGATGAGAGTCTGAGGTAAAAAATGAATAAAGGTTCAATTAGATTCCCAAG
* * * *
7482217 TAAAAAGAAGATAGAATTCAAGAAAGTATAATGCTAAAG
65 TAAAAAAAAGATAAAATTCAAGAAAGTAGAATGCAAAAG
7482256 TTGAGGTTAA
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
122 40 0.44
123 51 0.56
ACGTcount: A:0.50, C:0.09, G:0.21, T:0.21
Consensus pattern (122 bp):
ACATGCACCTTAAAGATGAGAGTCTGAGGTAAAAAATGAATAAAGGTTCAATTAGATTCCCAAGT
AAAAAAAAGATAAAATTCAAGAAAGTAGAATGCAAAAGAAAGAGTAGAGAAAAAAAG
Found at i:7483457 original size:86 final size:86
Alignment explanation
Indices: 7483268--7483469 Score: 217
Period size: 86 Copynumber: 2.3 Consensus size: 86
7483258 ACATTTACAT
* * *
7483268 CACTTACATGTGCATTATGAGAAAGACATTTAATCTATATGCTGCAAAATAAAAAAAAAAATTCA
1 CACTAACATGTGCATCATGAGAAAGACATTTAATCTACATGCTGCAAAATAAAAAAAAAAATTCA
* * *
7483333 CATTTGTATCATTTGCATTCA
66 CATTTGCATCACTTGCATTAA
* * * * * * *
7483354 CACTAACATATGCATCATGAGAAAGACATTTGATCTACATGCTGTAAAA-ACAATAAAGACATTT
1 CACTAACATGTGCATCATGAGAAAGACATTTAATCTACATGCTGCAAAATA-AAAAAAAAAATTC
*
7483418 GCATTTGCATCACTTGCATTAA
65 ACATTTGCATCACTTGCATTAA
*** * *
7483440 CACTTGTATGTGTATCATGAGAAAGGCATT
1 CACTAACATGTGCATCATGAGAAAGACATT
7483470 CGCATTCGCA
Statistics
Matches: 95, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
85 1 0.01
86 94 0.99
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.31
Consensus pattern (86 bp):
CACTAACATGTGCATCATGAGAAAGACATTTAATCTACATGCTGCAAAATAAAAAAAAAAATTCA
CATTTGCATCACTTGCATTAA
Found at i:7484192 original size:23 final size:23
Alignment explanation
Indices: 7484162--7484245 Score: 89
Period size: 23 Copynumber: 3.7 Consensus size: 23
7484152 CCAGATGATA
*
7484162 TTTAAGCCCAATTTAACTAGAAC
1 TTTAAGCCCAATTTAACTAGCAC
* *
7484185 TTTAAGCCTAGTTTAA-TGAGCAC
1 TTTAAGCCCAATTTAACT-AGCAC
* * *
7484208 TTTAAACCCAATTTATCTGGCAC
1 TTTAAGCCCAATTTAACTAGCAC
*
7484231 TTTAAGTCCAATTTA
1 TTTAAGCCCAATTTA
7484246 GTTGGAACTC
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
22 1 0.02
23 47 0.96
24 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (23 bp):
TTTAAGCCCAATTTAACTAGCAC
Found at i:7489363 original size:19 final size:20
Alignment explanation
Indices: 7489341--7489379 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
7489331 ATTTCAATCA
*
7489341 AAAACATATAAGC-ATATAC
1 AAAACACATAAGCAATATAC
*
7489360 AAAATACATAAGCAATATAC
1 AAAACACATAAGCAATATAC
7489380 CTAAGTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.59, C:0.15, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAACACATAAGCAATATAC
Found at i:7490435 original size:28 final size:29
Alignment explanation
Indices: 7490387--7490441 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
7490377 AAACACAAGG
*
7490387 AAGACATATTTATCATTAAAAACATAATC
1 AAGACATATTTATCATCAAAAACATAATC
*
7490416 AAGA-ATATTTCATCA-CAAAAGCATAA
1 AAGACATATTT-ATCATCAAAAACATAA
7490442 ATATATCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.27
Consensus pattern (29 bp):
AAGACATATTTATCATCAAAAACATAATC
Found at i:7491035 original size:3 final size:3
Alignment explanation
Indices: 7491027--7491055 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7491017 ATTAAAAAAT
7491027 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
7491056 TATTATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:7491116 original size:7 final size:7
Alignment explanation
Indices: 7491102--7491143 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
7491092 AAAGTTAAAA
7491102 TCAAAGG
1 TCAAAGG
*
7491109 TTAAAGG
1 TCAAAGG
7491116 TCAAAGG
1 TCAAAGG
*
7491123 TCAAAAG
1 TCAAAGG
7491130 TCAAAGGG
1 TCAAA-GG
7491138 TCAAAG
1 TCAAAG
7491144 AGGTGTAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 24 0.80
8 6 0.20
ACGTcount: A:0.45, C:0.12, G:0.26, T:0.17
Consensus pattern (7 bp):
TCAAAGG
Found at i:7491121 original size:14 final size:14
Alignment explanation
Indices: 7491086--7491136 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
7491076 TAAGAAATTT
7491086 AAGGTCAAA-GTTA
1 AAGGTCAAAGGTTA
*
7491099 AA-ATCAAAGGTTA
1 AAGGTCAAAGGTTA
*
7491112 AAGGTCAAAGGTCA
1 AAGGTCAAAGGTTA
*
7491126 AAAGTCAAAGG
1 AAGGTCAAAGG
7491137 GTCAAAGAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
12 5 0.16
13 8 0.25
14 19 0.59
ACGTcount: A:0.49, C:0.10, G:0.24, T:0.18
Consensus pattern (14 bp):
AAGGTCAAAGGTTA
Found at i:7493227 original size:16 final size:18
Alignment explanation
Indices: 7493203--7493235 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7493193 CAATTCATCA
7493203 AATTGTTTTTTC-AAAAT
1 AATTGTTTTTTCTAAAAT
7493220 AATT-TTTTTTCTAAAA
1 AATTGTTTTTTCTAAAA
7493236 ATTCATTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (18 bp):
AATTGTTTTTTCTAAAAT
Found at i:7498524 original size:2 final size:2
Alignment explanation
Indices: 7498519--7498547 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7498509 TTTATATATA
7498519 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
7498548 AAAAGAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:7502191 original size:25 final size:25
Alignment explanation
Indices: 7502158--7502219 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 25
7502148 ATTTTTTCCT
* *
7502158 TTTACTTTTAAAATATTTAATAAATA
1 TTTACTTTTAAAAT-TATAAAAAATA
7502184 TTTA-TTTT-AAATTATAAAAAATA
1 TTTACTTTTAAAATTATAAAAAATA
* *
7502207 TATATTTTTAAAA
1 TTTACTTTTAAAA
7502220 AAATTATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 12 0.39
24 8 0.26
25 7 0.23
26 4 0.13
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
TTTACTTTTAAAATTATAAAAAATA
Found at i:7502220 original size:17 final size:17
Alignment explanation
Indices: 7502199--7502235 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 17
7502189 TTTAAATTAT
7502199 AAAAAATATATATTTTTA
1 AAAAAAT-TATATTTTTA
7502217 AAAAAATTATATTTTTA
1 AAAAAATTATATTTTTA
7502234 AA
1 AA
7502236 TATAATACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAAAATTATATTTTTA
Found at i:7502443 original size:7 final size:8
Alignment explanation
Indices: 7502427--7502454 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
7502417 GTATAAATCA
7502427 TTTTCTTT
1 TTTTCTTT
7502435 TTTTCTTT
1 TTTTCTTT
7502443 TTTTCTTT
1 TTTTCTTT
7502451 TTTT
1 TTTT
7502455 GGGCCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTCTTT
Found at i:7508514 original size:24 final size:23
Alignment explanation
Indices: 7508467--7508521 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
7508457 AAATTATATA
7508467 TTTTAT-TAAACTTAATTTTTAT
1 TTTTATATAAACTTAATTTTTAT
* *
7508489 TTTTATATAATCTTATTTTTTAAT
1 TTTTATATAAACTTAATTTTT-AT
*
7508513 TTATATATA
1 TTTTATATA
7508522 TAATTTTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 6 0.21
23 12 0.43
24 10 0.36
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTATATAAACTTAATTTTTAT
Found at i:7508534 original size:26 final size:26
Alignment explanation
Indices: 7508492--7508545 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
7508482 TTTTTATTTT
*
7508492 TATATAATCTTATTTTTTAATTTATA
1 TATATAATCTTATTTTTCAATTTATA
* *
7508518 TATATAAT-TTTTGTTTTCAATTTGTA
1 TATATAATCTTAT-TTTTCAATTTATA
7508544 TA
1 TA
7508546 AAAATGAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 3 0.12
26 21 0.88
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (26 bp):
TATATAATCTTATTTTTCAATTTATA
Found at i:7508892 original size:24 final size:25
Alignment explanation
Indices: 7508865--7508915 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
7508855 ATATTTAAAA
**
7508865 TTATTTTA-TATATTTTTTATGTTT
1 TTATTTTATTATATTTTGCATGTTT
*
7508889 TTATTTTATTTTATTTTGCATGTTT
1 TTATTTTATTATATTTTGCATGTTT
7508914 TT
1 TT
7508916 TAAACATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.18, C:0.02, G:0.06, T:0.75
Consensus pattern (25 bp):
TTATTTTATTATATTTTGCATGTTT
Found at i:7511162 original size:2 final size:2
Alignment explanation
Indices: 7511155--7511202 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
7511145 TATCAGCAAA
* * *
7511155 AT AT AT AT AT AC GT GT 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 AT AT AT AT AT AT AT AT
7511197 AT AT AT
1 AT AT AT
7511203 GTAGTTCCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7513292 original size:15 final size:15
Alignment explanation
Indices: 7513274--7513309 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
7513264 TTTCAATTAT
*
7513274 AAAATTAAAATTTTG
1 AAAATTAAAATTTTA
*
7513289 AAAATAAAAATTTTA
1 AAAATTAAAATTTTA
7513304 AAAATT
1 AAAATT
7513310 TGAAATTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
AAAATTAAAATTTTA
Found at i:7513311 original size:23 final size:23
Alignment explanation
Indices: 7513278--7513321 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
7513268 AATTATAAAA
*
7513278 TTAAAATTTTGAAAATAAAAATT
1 TTAAAAATTTGAAAATAAAAATT
*
7513301 TTAAAAATTTGAAATTAAAAA
1 TTAAAAATTTGAAAATAAAAA
7513322 AATAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (23 bp):
TTAAAAATTTGAAAATAAAAATT
Found at i:7513859 original size:23 final size:23
Alignment explanation
Indices: 7513832--7513879 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
7513822 ACTCGTTTAA
*
7513832 ATTAAATAAATTTATTCATAAAT
1 ATTAAATAAATATATTCATAAAT
* * *
7513855 ATTAAATGAATATATTTATGAAT
1 ATTAAATAAATATATTCATAAAT
7513878 AT
1 AT
7513880 ATATATATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (23 bp):
ATTAAATAAATATATTCATAAAT
Found at i:7532188 original size:38 final size:37
Alignment explanation
Indices: 7532131--7532234 Score: 163
Period size: 38 Copynumber: 2.8 Consensus size: 37
7532121 ATCATTTGCC
* *
7532131 AATATATAAATTAATAAATAATTAGTTTGACCAAAAA
1 AATATATAAATTAAGAAATAATTAGTTTAACCAAAAA
*
7532168 ATGTATATAAATTAAGAAATAATTAGTTTAACCAAAAA
1 A-ATATATAAATTAAGAAATAATTAGTTTAACCAAAAA
*
7532206 AACATATAAATTAAGAAATAATTAGTTTA
1 AATATATAAATTAAGAAATAATTAGTTTA
7532235 TGATAAAAAC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 27 0.44
38 34 0.56
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.33
Consensus pattern (37 bp):
AATATATAAATTAAGAAATAATTAGTTTAACCAAAAA
Done.