Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 18 of 77
Found at i:3269989 original size:42 final size:42
Alignment explanation
Indices: 3269937--3270023 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 42
3269927 ATGCTAAGTG
* *
3269937 TTTCTATTGATTAATAGCATGATTATAGAAATGACTTAAAAT
1 TTTCAATTGATTAATAACATGATTATAGAAATGACTTAAAAT
* *
3269979 TTTCAATTGATTGATAACATGATTATAGAAATGACTTGAAAT
1 TTTCAATTGATTAATAACATGATTATAGAAATGACTTAAAAT
3270021 TTT
1 TTT
3270024 TTTTAAAAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (42 bp):
TTTCAATTGATTAATAACATGATTATAGAAATGACTTAAAAT
Found at i:3271270 original size:2 final size:2
Alignment explanation
Indices: 3271263--3271287 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3271253 TTCTTATGTG
3271263 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 T
3271288 TTTTTTTTAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3276699 original size:133 final size:130
Alignment explanation
Indices: 3276485--3276891 Score: 424
Period size: 133 Copynumber: 3.1 Consensus size: 130
3276475 TTAGACAACA
* * * * *
3276485 ATTATAAAAAGTCATTACAAATATGATTAGATTTCACAATGACCTTTTTGTTGTTATAAAAAATT
1 ATTAT-AAAAGTCATTGCAAATATGATAAGATTTCGCAATGACTTTTTTGTTGTTAT-AAATATT
* * * * * * *
3276550 GAAGACATTTCATAACAATTAATTTGATAGTTGTATAAAAAATTTAAAATATATTTAATTAAATA
64 GAATAGATTTCATAACAACTAATTTGATCGATGTATAAAAAATTTAAAA-ACATTTAATTAGATA
3276615 ATG
128 ATG
**
3276618 ATTATAAAAGTCATTGCAAATATGATAAAGATTTCGCAATGATCTTTTTTGTCATTATAAATATT
1 ATTATAAAAGTCATTGCAAATATGAT-AAGATTTCGCAATGA-CTTTTTTGTTGTTATAAATATT
** * * *
3276683 GAATAGATTTTGTAACAACT-ATTTGGATCGCTGCATAAAAAATTAAAAAAACATTTAATTAGAT
64 GAATAGATTTCATAACAACTAATTT-GATCGATGTATAAAAAATT-TAAAAACATTTAATTAGAT
**
3276747 AACA
127 AATG
* * * *
3276751 ATTATAGAAAGTCGTTGCAAATCTGATAAGATTTTGCAATGACTTTTTTTGTTGTTATGAATATT
1 ATTATA-AAAGTCATTGCAAATATGATAAGATTTCGCAATGAC-TTTTTTGTTGTTATAAATATT
* * * *
3276816 -ATATAGATTTCATAATAACTATTTTGATCGATGTATATAATA-TTAAGAAACATTTAATTAGAT
64 GA-ATAGATTTCATAACAACTAATTTGATCGATGTATAAAAAATTTAA-AAACATTTAATTAGAT
3276879 AATG
127 AATG
*
3276883 ACTATAAAA
1 ATTATAAAA
3276892 ACCATTGTTA
Statistics
Matches: 227, Mismatches: 38, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
131 5 0.02
132 50 0.22
133 135 0.59
134 37 0.16
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (130 bp):
ATTATAAAAGTCATTGCAAATATGATAAGATTTCGCAATGACTTTTTTGTTGTTATAAATATTGA
ATAGATTTCATAACAACTAATTTGATCGATGTATAAAAAATTTAAAAACATTTAATTAGATAATG
Found at i:3277369 original size:1 final size:1
Alignment explanation
Indices: 3277363--3277400 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
3277353 AGGCATTTAT
3277363 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3277401 CTACAACGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3279698 original size:12 final size:12
Alignment explanation
Indices: 3279681--3279705 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3279671 TGATTTGGAA
3279681 GATTTAGATTTG
1 GATTTAGATTTG
3279693 GATTTAGATTTG
1 GATTTAGATTTG
3279705 G
1 G
3279706 GAATAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (12 bp):
GATTTAGATTTG
Found at i:3279952 original size:15 final size:16
Alignment explanation
Indices: 3279923--3279952 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3279913 AAGAGAGAGA
3279923 TAAAAGAAGAAAAATG
1 TAAAAGAAGAAAAATG
3279939 TAAAAGAA-AAAAAT
1 TAAAAGAAGAAAAAT
3279953 TTAGCTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (16 bp):
TAAAAGAAGAAAAATG
Found at i:3280464 original size:39 final size:40
Alignment explanation
Indices: 3280421--3280503 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
3280411 AATTAAAAAA
* * *
3280421 TTAAATTTTTAAATTAAAT-TTAATAAATTATTAGAAGAT
1 TTAAATCTTAAAATTAAATCTTAATAAAGTATTAGAAGAT
* *
3280460 TTAAATCTTAAAATTAAATCTTATTAAAGTATTAGAAGGT
1 TTAAATCTTAAAATTAAATCTTAATAAAGTATTAGAAGAT
3280500 TTAA
1 TTAA
3280504 TGATTCTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
39 17 0.45
40 21 0.55
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.43
Consensus pattern (40 bp):
TTAAATCTTAAAATTAAATCTTAATAAAGTATTAGAAGAT
Found at i:3284380 original size:23 final size:21
Alignment explanation
Indices: 3284331--3284380 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
3284321 TTTTAAAAAT
*
3284331 ATCAAATATCAATTTTTTCAA
1 ATCAAATATAAATTTTTTCAA
* *
3284352 AACAAATATAAATCTTATTTCAC
1 ATCAAATATAAAT-TT-TTTCAA
3284375 ATCAAA
1 ATCAAA
3284381 CCCAAATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 11 0.48
22 2 0.09
23 10 0.43
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (21 bp):
ATCAAATATAAATTTTTTCAA
Found at i:3284495 original size:119 final size:116
Alignment explanation
Indices: 3284300--3284531 Score: 293
Period size: 119 Copynumber: 2.0 Consensus size: 116
3284290 ATACCACAAT
* *** *
3284300 ATTTCAATAATTATTAGTAAATTTTAAAAATATCAAATATCAATTTTTTCAAAACAAATATAAAT
1 ATTTCAATAATTATTAGTAAATTTTAAAAATATCAAATATAAATTCCATAAAAACAAATATAAAT
* * ** *
3284365 CTTATTTCACATCAAACCCAAATTTAACGTCAAATCAACATAATTCTTTTA
66 CTTAATACACATCAAACCCAAATTTAACAACAAATCAACATAAATCTTTTA
* * * *
3284416 ATTTCTATAATTATTATTAAAATTTTAAAAATATTAAATATAAAATATCCATAAAAATAAATATA
1 ATTTCAATAATTATTAGT-AAATTTTAAAAATATCAAATAT-AAAT-TCCATAAAAACAAATATA
* *
3284481 AATCTTAATACACATCAAATCCAAATTTACCAACAAATCAACATAAATCTT
63 AATCTTAATACACATCAAACCCAAATTTAACAACAAATCAACATAAATCTT
3284532 ATACATCTAA
Statistics
Matches: 97, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
116 16 0.16
117 21 0.22
118 3 0.03
119 57 0.59
ACGTcount: A:0.49, C:0.14, G:0.01, T:0.36
Consensus pattern (116 bp):
ATTTCAATAATTATTAGTAAATTTTAAAAATATCAAATATAAATTCCATAAAAACAAATATAAAT
CTTAATACACATCAAACCCAAATTTAACAACAAATCAACATAAATCTTTTA
Found at i:3284742 original size:23 final size:23
Alignment explanation
Indices: 3284684--3284734 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
3284674 TTAACCCAAC
* *
3284684 AAAAACTCAACAAATATATAACA
1 AAAAACCCAACAAATATAAAACA
*
3284707 AAAAACCCAACAAATCTAAAACA
1 AAAAACCCAACAAATATAAAACA
3284730 AAAAA
1 AAAAA
3284735 TTTAACAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.69, C:0.20, G:0.00, T:0.12
Consensus pattern (23 bp):
AAAAACCCAACAAATATAAAACA
Found at i:3287329 original size:21 final size:21
Alignment explanation
Indices: 3287297--3287522 Score: 129
Period size: 21 Copynumber: 10.8 Consensus size: 21
3287287 ATGGTAACAC
*
3287297 GTACATATAATTGTAGTAAAA
1 GTACATATAATTATAGTAAAA
* * *
3287318 GTATACATAATTATAGTAAAT
1 GTACATATAATTATAGTAAAA
* * *
3287339 GTACATATAGTTATAATAACAT
1 GTACATATAATTATAGTAA-AA
*
3287361 GTACATATAATTGTAGTAAAAA
1 GTACATATAATTATAGT-AAAA
* *
3287383 GTATATATAATTATAGTAAAT
1 GTACATATAATTATAGTAAAA
* * * *
3287404 GTTCATATAGTTATAATAACAT
1 GTACATATAATTATAGTAA-AA
* ** *
3287426 GTACAT-TAATTGTAACAAAT
1 GTACATATAATTATAGTAAAA
* * *
3287446 GTATATATAGTTATAGTAATAT
1 GTACATATAATTATAGTAA-AA
* *
3287468 GTATATAT-A-TATAGTAACAT
1 GTACATATAATTATAGTAA-AA
* * *
3287488 GTAC--ATAGTTAAAGTAAAT
1 GTACATATAATTATAGTAAAA
*
3287507 GTACATATAGTTATAG
1 GTACATATAATTATAG
3287523 CAATTTTACA
Statistics
Matches: 162, Mismatches: 34, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
18 2 0.01
19 6 0.04
20 27 0.17
21 76 0.47
22 49 0.30
23 2 0.01
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (21 bp):
GTACATATAATTATAGTAAAA
Found at i:3287364 original size:22 final size:21
Alignment explanation
Indices: 3287321--3287700 Score: 219
Period size: 21 Copynumber: 18.1 Consensus size: 21
3287311 AGTAAAAGTA
*
3287321 TACATA-A-TTATAGTAAATG
1 TACATATAGTTATAATAAATG
3287340 TACATATAGTTATAATAACATG
1 TACATATAGTTATAATAA-ATG
* * * *
3287362 TACATATAATTGTAGTAAAAAG
1 TACATATAGTTATAAT-AAATG
* * *
3287384 TATATATAATTATAGTAAATG
1 TACATATAGTTATAATAAATG
*
3287405 TTCATATAGTTATAATAACATG
1 TACATATAGTTATAATAA-ATG
* * *
3287427 TACAT-TAATTGTAACAAATG
1 TACATATAGTTATAATAAATG
* *
3287447 TATATATAGTTATAGTAATATG
1 TACATATAGTTATAATAA-ATG
* *
3287469 TATATATA--TATAGTAACATG
1 TACATATAGTTATAATAA-ATG
3287489 TAC--ATAGTTA-AAGTAAATG
1 TACATATAGTTATAA-TAAATG
** * *
3287508 TACATATAGTTATAGCAATTT
1 TACATATAGTTATAATAAATG
* *
3287529 TACATATATAGTCAGAATAACATG
1 TAC--ATATAGTTATAATAA-ATG
* * *
3287553 TACGTATAGTTATAGT-AATA
1 TACATATAGTTATAATAAATG
* ***
3287573 TACTTAATAGTTATAGCGAATG
1 TACAT-ATAGTTATAATAAATG
* ** *
3287595 TACATATATTTACGATAATAAG
1 TACATATAGTTATAATAA-ATG
* *
3287617 TACATATAGTTGTAACAAATG
1 TACATATAGTTATAATAAATG
*
3287638 TACATATA-TTA-AAAAAATG
1 TACATATAGTTATAATAAATG
3287657 TACATATAGTTA-AA-AAATTG
1 TACATATAGTTATAATAAA-TG
* *
3287677 TACATATATTTATGATAAATG
1 TACATATAGTTATAATAAATG
3287698 TAC
1 TAC
3287701 TGATAAAATC
Statistics
Matches: 278, Mismatches: 60, Indels: 44
0.73 0.16 0.12
Matches are distributed among these distances:
18 3 0.01
19 31 0.11
20 52 0.19
21 90 0.32
22 85 0.31
23 13 0.05
24 4 0.01
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (21 bp):
TACATATAGTTATAATAAATG
Found at i:3287412 original size:65 final size:65
Alignment explanation
Indices: 3287291--3287494 Score: 278
Period size: 65 Copynumber: 3.2 Consensus size: 65
3287281 AAAGTTATGG
* * *
3287291 TAACACGTACATATAATTGTAGT-AAAAGTATACATAATTATAGTAAATGTACATATAGTTATAA
1 TAACATGTACATATAATTGTAGTAAAAAGTATATATAATTATAGTAAATGTTCATATAGTTATAA
3287355 TAACATGTACATATAATTGTAGTAAAAAGTATATATAATTATAGTAAATGTTCATATAGTTATAA
1 TAACATGTACATATAATTGTAGTAAAAAGTATATATAATTATAGTAAATGTTCATATAGTTATAA
* *
3287420 TAACATGTACAT-TAATTGTA--ACAAATGTATATATAGTTATAGTAATATG-T-ATATA-TATA
1 TAACATGTACATATAATTGTAGTA-AAAAGTATATATAATTATAGTAA-ATGTTCATATAGT-TA
*
3287479 TAG
63 TAA
3287482 TAACATGTACATA
1 TAACATGTACATA
3287495 GTTAAAGTAA
Statistics
Matches: 129, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
61 1 0.01
62 22 0.17
63 22 0.17
64 33 0.26
65 51 0.40
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (65 bp):
TAACATGTACATATAATTGTAGTAAAAAGTATATATAATTATAGTAAATGTTCATATAGTTATAA
Found at i:3287583 original size:66 final size:64
Alignment explanation
Indices: 3287450--3287603 Score: 158
Period size: 66 Copynumber: 2.4 Consensus size: 64
3287440 ACAAATGTAT
** * *
3287450 ATATAGTTATAGTAATATGTATATATATA-T-AG--TAACATGTACATAGTTAAAGTAAATGTAC
1 ATATAGTTATAGCGA-ATGTACATATATAGTCAGAATAACATGTACATAGTTAAAGTAAATATAC
* *
3287511 ATATAGTTATAGC-AATTTTACATATATAGTCAGAATAACATGTACGTATAGTTATAGT-AATAT
1 ATATAGTTATAGCGAA-TGTACATATATAGTCAGAATAACATGTAC--ATAGTTAAAGTAAATAT
3287574 AC
63 AC
*
3287576 TTAATAGTTATAGCGAATGTACATATAT
1 AT-ATAGTTATAGCGAATGTACATATAT
3287604 TTACGATAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 13
0.79 0.07 0.13
Matches are distributed among these distances:
59 1 0.01
60 11 0.14
61 13 0.17
62 2 0.03
64 10 0.13
65 7 0.09
66 31 0.40
67 2 0.03
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (64 bp):
ATATAGTTATAGCGAATGTACATATATAGTCAGAATAACATGTACATAGTTAAAGTAAATATAC
Found at i:3287640 original size:21 final size:20
Alignment explanation
Indices: 3287616--3287688 Score: 89
Period size: 19 Copynumber: 3.7 Consensus size: 20
3287606 ACGATAATAA
*
3287616 GTACATATAGTTGTAACAAAT
1 GTACATATAGTT-TAAAAAAT
*
3287637 GTACATATA-TTAAAAAAAT
1 GTACATATAGTTTAAAAAAT
3287656 GTACATATAG-TTAAAAAATT
1 GTACATATAGTTTAAAAAA-T
3287676 GTACATATA-TTTA
1 GTACATATAGTTTA
3287689 TGATAAATGT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
19 22 0.48
20 15 0.33
21 9 0.20
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.36
Consensus pattern (20 bp):
GTACATATAGTTTAAAAAAT
Found at i:3287671 original size:20 final size:20
Alignment explanation
Indices: 3287616--3287684 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
3287606 ACGATAATAA
* *
3287616 GTACATATAGTTGTAACAAAT
1 GTACATATAGTT-AAAAAAAT
3287637 GTACATATA-TTAAAAAAAT
1 GTACATATAGTTAAAAAAAT
*
3287656 GTACATATAGTTAAAAAATT
1 GTACATATAGTTAAAAAAAT
3287676 GTACATATA
1 GTACATATA
3287685 TTTATGATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 15 0.34
20 20 0.45
21 9 0.20
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.33
Consensus pattern (20 bp):
GTACATATAGTTAAAAAAAT
Found at i:3288942 original size:60 final size:62
Alignment explanation
Indices: 3288833--3288959 Score: 156
Period size: 60 Copynumber: 2.1 Consensus size: 62
3288823 TTATTTAGTA
*
3288833 AAAATCTCACAAATTCTCACCATAAATAATATAATTATAACATTCATAAAACATAGCAAATT
1 AAAATCTCACAAATTCTCACCATAAATAATATAATTATAACATTCATAAAACATAGCAAACT
* * *
3288895 AAAA-CTCAC-AATTCTCACCATAAATGATGA-AATTATGAA-ATAT-ATAAAACTTAGTAAACT
1 AAAATCTCACAAATTCTCACCATAAATAAT-ATAATTAT-AACAT-TCATAAAACATAGCAAACT
3288955 AAAAT
1 AAAAT
3288960 TCAAATATCA
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
60 44 0.77
61 9 0.16
62 4 0.07
ACGTcount: A:0.52, C:0.16, G:0.04, T:0.28
Consensus pattern (62 bp):
AAAATCTCACAAATTCTCACCATAAATAATATAATTATAACATTCATAAAACATAGCAAACT
Found at i:3294314 original size:3 final size:3
Alignment explanation
Indices: 3294306--3294337 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
3294296 ACTTAAAACT
*
3294306 TGG TGG TGG TGG TGG TGG TGG TGG TGT TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
3294338 TGTCTTTGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.62, T:0.38
Consensus pattern (3 bp):
TGG
Found at i:3295603 original size:22 final size:24
Alignment explanation
Indices: 3295561--3295605 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
3295551 AAATTTAATT
*
3295561 TTTTTATATATTATTTTAATATAA
1 TTTTTATATATTATTTAAATATAA
3295585 TTTTTA-ATA-TATTTAAATATA
1 TTTTTATATATTATTTAAATATA
3295606 TTTAGGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 11 0.55
23 3 0.15
24 6 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTTATATATTATTTAAATATAA
Found at i:3296295 original size:153 final size:152
Alignment explanation
Indices: 3296095--3296397 Score: 552
Period size: 153 Copynumber: 2.0 Consensus size: 152
3296085 CTTCCTAATG
*
3296095 AAGGATAAAATAAACAATATCTTATGCAACCATTGCGCTACATTGAAAATACTCTATCAATACGG
1 AAGGATAAAATAAACAATATCTTATGCAACCATTGCACTACATTGAAAATACTCTATCAATACGG
* *
3296160 CTGGCATTATTTTTTTTATTCTCATCACATGAAACGTTCATTAATCTGATCGTAGTACAGTGGTA
66 CTGGCATTATTTTTTTTATTCTCATCACATCAAACGTTCATTAATCTG-TCCTAGTACAGTGGTA
3296225 CACTTCTCAATAATTACACCACA
130 CACTTCTCAATAATTACACCACA
3296248 AAGGATAAAATAAACAATATCTTATGCAACCATTGCACTACATTGAAAATACTCTATCAATACGG
1 AAGGATAAAATAAACAATATCTTATGCAACCATTGCACTACATTGAAAATACTCTATCAATACGG
* *
3296313 CTGGCATTATTTTTTTTATTCTCATCACATCAAACGTTCATTAATCTGTCCTAGTACAGTTGTGC
66 CTGGCATTATTTTTTTTATTCTCATCACATCAAACGTTCATTAATCTGTCCTAGTACAGTGGTAC
3296378 ACTTCTCAATAATTACACCA
131 ACTTCTCAATAATTACACCA
3296398 AAATAAAGCC
Statistics
Matches: 145, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
152 34 0.23
153 111 0.77
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (152 bp):
AAGGATAAAATAAACAATATCTTATGCAACCATTGCACTACATTGAAAATACTCTATCAATACGG
CTGGCATTATTTTTTTTATTCTCATCACATCAAACGTTCATTAATCTGTCCTAGTACAGTGGTAC
ACTTCTCAATAATTACACCACA
Found at i:3297420 original size:14 final size:13
Alignment explanation
Indices: 3297401--3297434 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
3297391 GATGAAAATG
*
3297401 AAAAAAAGCAAAA
1 AAAAAAAACAAAA
3297414 AAAAAAAACAAAA
1 AAAAAAAACAAAA
*
3297427 ATAAAAAA
1 AAAAAAAA
3297435 TTAAGATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.88, C:0.06, G:0.03, T:0.03
Consensus pattern (13 bp):
AAAAAAAACAAAA
Found at i:3300225 original size:366 final size:366
Alignment explanation
Indices: 3299535--3300250 Score: 1039
Period size: 366 Copynumber: 2.0 Consensus size: 366
3299525 AAAGTCTTAA
* ** *
3299535 ATTTCATCAATAAGGGGGAGCTAGTCATAGATGCATACGAGTTTACCTCCCTTAAAGTAGTGAAT
1 ATTTCATCAATAAGGGAGAGCTAGTCATAGATGCATACGAACTTACCTCCCTTAAAGTAATGAAT
*
3299600 GAAACCAGATACTAGGGTAGGTTTAAGGTAACCTCATAAGGTACTTGGTTTTATAAATTTTTTTT
66 GAAACCAGATACTAGGGTAGGTTTAAGGTAACCTCATAAGGTACTTGGTTTTATAAATTTTTTCT
* * *
3299665 AGCACTTATTTTATCTTGCAAATATGTTTGGTGATGGCAAAAGGATAAGAAGTTTTACTTCTACA
131 AACACTTATTTTATCTTGCAAATATGTTTGGTGATGCCAAAAGGATAAAAAGTTTTACTTCTACA
3299730 AGTTTTTCCATCAACCATGGTTGAAAAAAAGCTAAAAAAAACCCATCCAGCTTGGGACTCCTTCT
196 AGTTTTTCCATCAACCATGGTTGAAAAAAAGCTAAAAAAAACCCATCCAGCTTGGGACTCCTTCT
* * * * * **
3299795 TGATGAGGGATCAAAGCATTTGATCCTTTAATCTCTCAATCGTTGAACTCCTTAGCTCAAGTTCT
261 TGATGAGGGATCAAAACATTCGATCATCTAAGCTCTCAATCACTGAACTCCTTAGCTCAAGTTCT
3299860 TGCCACTACCAAGGGTAAACAAAAGTAGCTCAAGTTCTTGG
326 TGCCACTACCAAGGGTAAACAAAAGTAGCTCAAGTTCTTGG
* *
3299901 ATTTCATTAAT-AGAGGAGAGCTAGTCATAGATGTATACGAACTTACCTCCAC-TAAAGTAATGA
1 ATTTCATCAATAAG-GGAGAGCTAGTCATAGATGCATACGAACTTACCTCC-CTTAAAGTAATGA
* * * *
3299964 ATGAAACCAGATATTA-GGTAGGTTTAAGGTAACCTCGTAGGGTATTTGGTTTTATAAATTTTTT
64 ATGAAACCAGATACTAGGGTAGGTTTAAGGTAACCTCATAAGGTACTTGGTTTTATAAATTTTTT
*
3300028 CTAATACTTATTTTATCTTGCAAATATGTTTGGTGATGCCAAAGAGGATAAAAAGTTTTACTTCT
129 CTAACACTTATTTTATCTTGCAAATATGTTTGGTGATGCCAAA-AGGATAAAAAGTTTTACTTCT
* * * * *
3300093 ACAAGTTTTTTCATCAACCATGGTTGAAGAAAGGCTAAAAACATCCCATCCAGCTTAGGG-CAT-
193 ACAAGTTTTTCCATCAACCATGGTTGAAAAAAAGCTAAAAAAAACCCATCCAGCTT-GGGAC-TC
* * * * * *
3300156 TTTTTTTATGAGGGATTAAAATATTCGATCATCTAAGCTCTCAATCACTGAAC-CCTTTAGCTTA
256 CTTCTTGATGAGGGATCAAAACATTCGATCATCTAAGCTCTCAATCACTGAACTCC-TTAGCTCA
3300220 AGTTCTTGCCACTACCAAGGGTAAACAAAAG
320 AGTTCTTGCCACTACCAAGGGTAAACAAAAG
3300251 GTAACGATGG
Statistics
Matches: 311, Mismatches: 33, Indels: 12
0.87 0.09 0.03
Matches are distributed among these distances:
365 88 0.28
366 218 0.70
367 5 0.02
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (366 bp):
ATTTCATCAATAAGGGAGAGCTAGTCATAGATGCATACGAACTTACCTCCCTTAAAGTAATGAAT
GAAACCAGATACTAGGGTAGGTTTAAGGTAACCTCATAAGGTACTTGGTTTTATAAATTTTTTCT
AACACTTATTTTATCTTGCAAATATGTTTGGTGATGCCAAAAGGATAAAAAGTTTTACTTCTACA
AGTTTTTCCATCAACCATGGTTGAAAAAAAGCTAAAAAAAACCCATCCAGCTTGGGACTCCTTCT
TGATGAGGGATCAAAACATTCGATCATCTAAGCTCTCAATCACTGAACTCCTTAGCTCAAGTTCT
TGCCACTACCAAGGGTAAACAAAAGTAGCTCAAGTTCTTGG
Found at i:3303401 original size:245 final size:245
Alignment explanation
Indices: 3302961--3303427 Score: 819
Period size: 245 Copynumber: 1.9 Consensus size: 245
3302951 ACCCACTTGT
* *
3302961 TAGCTCAAATTTATCCAAACTTCAATATATGAGATTGTTTTACTAGAAACAATTTAGATATATAG
1 TAGCTCAAATTTATCCAAACTTCAATATATGAGATGGGTTTACTAGAAACAATTTAGATATATAG
* *
3303026 CTTTGATGCTATGATAATCTCATAATTACAATTTTTTAGTAATTCCCATGTAAAGCTTATTTATT
66 CTTTGATGCTATGATAATCTCATAATTACAATTTTTTAGTAAGTCCCATGTAAAGCATATTTATT
* * *
3303091 CCATGGAGACTTTATCTAAGAGATGTGTAATGTCAAGTACAAACAAACTTGTAGATAAAGAATGT
131 CCATGGAGACTTTATCTAAGAGATGTGTAATGTCAAGCACAAACAAAATTGTAAATAAAGAATGT
3303156 CTTAGTTAATAATAGTAATGCTTTGTACGACTAGAAACAATTTAGATATA
196 CTTAGTTAATAATAGTAATGCTTTGTACGACTAGAAACAATTTAGATATA
3303206 TAGCTCAAATTTATCCAAACTTCAATATATGAGATGGGTTTACTAGAAACAATTTAGATATATAG
1 TAGCTCAAATTTATCCAAACTTCAATATATGAGATGGGTTTACTAGAAACAATTTAGATATATAG
* * *
3303271 CTTTGATGCTATGATAATCTCATAATTATAATTTTTTTTGTAAGTCCCTTGTAAAGCATATTTAT
66 CTTTGATGCTATGATAATCTCATAATTACAA-TTTTTTAGTAAGTCCCATGTAAAGCATATTTAT
*
3303336 TCCATGGAGACTTTA-CTAAGAGATGTGTAATGTCAAGCACAAACAAAATTGTAAATAATGAATG
130 TCCATGGAGACTTTATCTAAGAGATGTGTAATGTCAAGCACAAACAAAATTGTAAATAAAGAATG
3303400 TCTTAGTTAATAATAGTAATGCTTTGTA
195 TCTTAGTTAATAATAGTAATGCTTTGTA
3303428 TGCCATGTAT
Statistics
Matches: 210, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
245 166 0.79
246 44 0.21
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (245 bp):
TAGCTCAAATTTATCCAAACTTCAATATATGAGATGGGTTTACTAGAAACAATTTAGATATATAG
CTTTGATGCTATGATAATCTCATAATTACAATTTTTTAGTAAGTCCCATGTAAAGCATATTTATT
CCATGGAGACTTTATCTAAGAGATGTGTAATGTCAAGCACAAACAAAATTGTAAATAAAGAATGT
CTTAGTTAATAATAGTAATGCTTTGTACGACTAGAAACAATTTAGATATA
Found at i:3310641 original size:18 final size:19
Alignment explanation
Indices: 3310618--3310653 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
3310608 CACTTACAAG
3310618 TTTAATTTTCTG-TTTTAT
1 TTTAATTTTCTGCTTTTAT
3310636 TTTAATTTTCTGCTTTTA
1 TTTAATTTTCTGCTTTTA
3310654 AATTATTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.17, C:0.08, G:0.06, T:0.69
Consensus pattern (19 bp):
TTTAATTTTCTGCTTTTAT
Found at i:3310776 original size:16 final size:16
Alignment explanation
Indices: 3310742--3310786 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
3310732 TGTTTAAATT
* *
3310742 TTTTATTTTTAGCATG
1 TTTTATTTTTGGCAAG
3310758 TTTTATTTTTGGCAAG
1 TTTTATTTTTGGCAAG
*
3310774 TTTAATCTTTTGG
1 TTTTAT-TTTTGG
3310787 TATTTTACTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 19 0.76
17 6 0.24
ACGTcount: A:0.18, C:0.07, G:0.16, T:0.60
Consensus pattern (16 bp):
TTTTATTTTTGGCAAG
Found at i:3311404 original size:22 final size:22
Alignment explanation
Indices: 3311379--3311423 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
3311369 AATGCTAATG
*
3311379 AAATACCGACAGAATGTCAACA
1 AAATACCGACAAAATGTCAACA
* *
3311401 AAATATCGACAAAATGTCGACA
1 AAATACCGACAAAATGTCAACA
3311423 A
1 A
3311424 TTTTTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.20, G:0.13, T:0.16
Consensus pattern (22 bp):
AAATACCGACAAAATGTCAACA
Found at i:3313262 original size:52 final size:52
Alignment explanation
Indices: 3313176--3313320 Score: 184
Period size: 52 Copynumber: 2.8 Consensus size: 52
3313166 TATAACCATA
* * * * *
3313176 CAAACTTGCCCATTAAGAATCCATCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * *
3313228 TAAACTTACCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* *
3313280 CAAACTTACCTATTAAAAATCCCATTT-CTCTTAAAATTCTT
1 CAAACTTACCTATTAAGAATCCC-TTTCCTCTTAGAATTCTT
3313321 TTTTTGTAAG
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 77 0.96
53 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.39
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:3313375 original size:11 final size:11
Alignment explanation
Indices: 3313356--3313398 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
3313346 AGCAATATTT
3313356 AACAAATCTCA
1 AACAAATCTCA
* *
3313367 AATAAATCTCT
1 AACAAATCTCA
*
3313378 AACAAATTTCA
1 AACAAATCTCA
3313389 AACAAATCTC
1 AACAAATCTC
3313399 TTATGGGATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (11 bp):
AACAAATCTCA
Found at i:3313380 original size:22 final size:22
Alignment explanation
Indices: 3313355--3313399 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
3313345 AAGCAATATT
*
3313355 TAACAAATCTCAAATAAATCTC
1 TAACAAATCTCAAACAAATCTC
*
3313377 TAACAAATTTCAAACAAATCTC
1 TAACAAATCTCAAACAAATCTC
3313399 T
1 T
3313400 TATGGGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (22 bp):
TAACAAATCTCAAACAAATCTC
Found at i:3314353 original size:52 final size:52
Alignment explanation
Indices: 3314268--3314421 Score: 168
Period size: 52 Copynumber: 3.0 Consensus size: 52
3314258 ATAACCATAC
* * * * *
3314268 AAACTTGCCCATTAAGAATCCATCTCCTCTTAGAATTCTTCTCCTGTAAGTT
1 AAACTTACCTATTAAGAATCCATTTCCTTTTAGAATTCTTCTCTTGTAAGTT
* * * * *
3314320 AAACTTACCTATTAAGAATCCCTTTCCTTTTAGAAGTATTTTCTTGCAAG-T
1 AAACTTACCTATTAAGAATCCATTTCCTTTTAGAATTCTTCTCTTGTAAGTT
* * *
3314371 CAACTTACCTATTAAGAATCTCATTT-CTTTTGGAATTCTTCTTTTGTAAGT
1 AAACTTACCTATTAAGAATC-CATTTCCTTTTAGAATTCTTCTCTTGTAAGT
3314422 CTTCTTATCC
Statistics
Matches: 82, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
51 38 0.46
52 44 0.54
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (52 bp):
AAACTTACCTATTAAGAATCCATTTCCTTTTAGAATTCTTCTCTTGTAAGTT
Found at i:3314422 original size:51 final size:50
Alignment explanation
Indices: 3314269--3314422 Score: 148
Period size: 51 Copynumber: 3.0 Consensus size: 50
3314259 TAACCATACA
* * * * ** *
3314269 AACTTGCCCATTAAGAATCCATCTCCTCTTAGAATTCTTCTCCTGTAAGTTA
1 AACTTACCTATTAAGAATCCAT-TTCTTTTAGAATTCTTCTTTTGTAAG-TC
* * * *
3314321 AACTTACCTATTAAGAATCCCTTTCCTTTTAGAAGTATT-TTCTTGCAAGTC
1 AACTTACCTATTAAGAATCCATTT-CTTTTAGAATTCTTCTT-TTGTAAGTC
*
3314372 AACTTACCTATTAAGAATCTCATTTCTTTTGGAATTCTTCTTTTGTAAGTC
1 AACTTACCTATTAAGAATC-CATTTCTTTTAGAATTCTTCTTTTGTAAGTC
3314423 TTCTTATCCA
Statistics
Matches: 82, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
51 41 0.50
52 41 0.50
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.42
Consensus pattern (50 bp):
AACTTACCTATTAAGAATCCATTTCTTTTAGAATTCTTCTTTTGTAAGTC
Found at i:3314465 original size:11 final size:11
Alignment explanation
Indices: 3314446--3314488 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
3314436 AGCAATATTT
3314446 AACAAATCTCA
1 AACAAATCTCA
* *
3314457 AATAAATCTCT
1 AACAAATCTCA
3314468 AACAAATCTCA
1 AACAAATCTCA
3314479 AACAAATCTC
1 AACAAATCTC
3314489 TTATGGGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (11 bp):
AACAAATCTCA
Found at i:3314470 original size:22 final size:22
Alignment explanation
Indices: 3314445--3314489 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
3314435 AAGCAATATT
*
3314445 TAACAAATCTCAAATAAATCTC
1 TAACAAATCTCAAACAAATCTC
3314467 TAACAAATCTCAAACAAATCTC
1 TAACAAATCTCAAACAAATCTC
3314489 T
1 T
3314490 TATGGGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (22 bp):
TAACAAATCTCAAACAAATCTC
Found at i:3322009 original size:178 final size:176
Alignment explanation
Indices: 3321694--3322037 Score: 521
Period size: 178 Copynumber: 1.9 Consensus size: 176
3321684 GTGCAAGCCT
* *
3321694 TATTTCATAAGAAATACCATAAAGCATAATTTAACCATCCACACATATGCAAAATGGTCATTGGT
1 TATTTCAAAAGAAATAACATAAAGCATAATTTAACCATCCACACATATGCAAAATGGTCATTGGT
* *
3321759 CCATAATCATCCAATCACACAATCATATTCATAATGTGATAAATAACTTGTTTAATTCAACGTCA
66 CCATAATCATCCAATCACACAATCATATTCAAAATGTGATAAATAACATGTTTAATTCAACGTCA
* *
3321824 AGATCTTACAAATCTATCATTTGAATTAATATCAATGTCACAATCA
131 AGATCTTACAAATCCAACATTTGAATTAATATCAATGTCACAATCA
*
3321870 TATTTCAAAAGAAATAATATAAAGCATAATTTAACCATCCACACATATATGCAAAATGGTC-TTA
1 TATTTCAAAAGAAATAACATAAAGCATAATTTAACCATCCACAC--ATATGCAAAATGGTCATT-
* *
3321934 GGTCCATAATCATCCAATCACACAATTATATTCAAAATGTGATAAATAACATGTTTGATTCAA-G
63 GGTCCATAATCATCCAATCACACAATCATATTCAAAATGTGATAAATAACATGTTTAATTCAACG
* * * *
3321998 TTCATGATCTTACAAGTCCAACCTTTGAATTTATATCAAT
128 -TCAAGATCTTACAAATCCAACATTTGAATTAATATCAAT
3322038 ATCATATATC
Statistics
Matches: 151, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
176 41 0.27
177 3 0.02
178 107 0.71
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.32
Consensus pattern (176 bp):
TATTTCAAAAGAAATAACATAAAGCATAATTTAACCATCCACACATATGCAAAATGGTCATTGGT
CCATAATCATCCAATCACACAATCATATTCAAAATGTGATAAATAACATGTTTAATTCAACGTCA
AGATCTTACAAATCCAACATTTGAATTAATATCAATGTCACAATCA
Found at i:3326992 original size:16 final size:16
Alignment explanation
Indices: 3326969--3327072 Score: 66
Period size: 16 Copynumber: 6.1 Consensus size: 16
3326959 TAGCTATTAA
3326969 AATATTAAAAATATTT
1 AATATTAAAAATATTT
* * *
3326985 ATTATTAACATTA-TT
1 AATATTAAAAATATTT
* *
3327000 AATATTCAAAATAATT
1 AATATTAAAAATATTT
*
3327016 ATATTTTAATAATAATATTT
1 A-ATATT-A-AA-AATATTT
3327036 AATATTAAAATATTATGTT
1 AATATTAAAA-A-TAT-TT
* *
3327055 AATATAAAAAATACTT
1 AATATTAAAAATATTT
3327071 AA
1 AA
3327073 AATAAATTTT
Statistics
Matches: 67, Mismatches: 13, Indels: 16
0.70 0.14 0.17
Matches are distributed among these distances:
15 11 0.16
16 18 0.27
17 9 0.13
18 5 0.07
19 17 0.25
20 7 0.10
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (16 bp):
AATATTAAAAATATTT
Found at i:3327118 original size:13 final size:13
Alignment explanation
Indices: 3327100--3327147 Score: 62
Period size: 13 Copynumber: 3.6 Consensus size: 13
3327090 TTCTTTATAT
3327100 TATTTATTAATAA
1 TATTTATTAATAA
3327113 TATTTATTAAT-A
1 TATTTATTAATAA
*
3327125 TATTATATTAATAG
1 TATT-TATTAATAA
3327139 TATATTATT
1 TAT-TTATT
3327148 TATTAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
12 5 0.16
13 18 0.58
14 7 0.23
15 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (13 bp):
TATTTATTAATAA
Found at i:3327151 original size:18 final size:18
Alignment explanation
Indices: 3327120--3327169 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
3327110 TAATATTTAT
3327120 TAATATATTA--TATTAA
1 TAATATATTATTTATTAA
*
3327136 TAGTATATTATTTATTAA
1 TAATATATTATTTATTAA
*
3327154 TAATGTATTATTTATT
1 TAATATATTATTTATT
3327170 CTTATATTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 9 0.31
18 20 0.69
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (18 bp):
TAATATATTATTTATTAA
Found at i:3327189 original size:41 final size:41
Alignment explanation
Indices: 3327088--3327251 Score: 142
Period size: 44 Copynumber: 3.9 Consensus size: 41
3327078 ATTTTTTTAT
3327088 TATTCTTTATATTATTTATTAATAATATTTATTAATATATTA
1 TATTC-TTATATTATTTATTAATAATATTTATTAATATATTA
* * * *
3327130 TATTAATAGTATATTATTTATTAATAATGTATTATTTAT-TCTTA
1 TATT-CT--TATATTATTTATTAATAATAT-TTATTAATATATTA
* *
3327174 TATTCTTATAATATTTATTAAT--TA--AATTAATAATATT-
1 TATTCTTATATTATTTATTAATAATATTTATTAAT-ATATTA
*
3327211 TATTGTTATATTGATTTATTAATATATGATTTATTAATATA
1 TATTCTTATATT-ATTTATTAATA-AT-ATTTATTAATATA
3327252 ATATGATTTA
Statistics
Matches: 96, Mismatches: 13, Indels: 25
0.72 0.10 0.19
Matches are distributed among these distances:
36 5 0.05
37 10 0.10
38 13 0.14
39 1 0.01
41 16 0.17
42 6 0.06
43 4 0.04
44 34 0.35
45 7 0.07
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (41 bp):
TATTCTTATATTATTTATTAATAATATTTATTAATATATTA
Found at i:3327257 original size:18 final size:17
Alignment explanation
Indices: 3327222--3327272 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
3327212 ATTGTTATAT
3327222 TGATTTATTA-AT-ATA
1 TGATTTATTATATAATA
3327237 TGATTTATTAATATAATA
1 TGATTTATT-ATATAATA
3327255 TGATTTATT-TATTAATA
1 TGATTTATTATA-TAATA
3327272 T
1 T
3327273 TAATATATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 9 0.28
16 3 0.09
17 8 0.25
18 12 0.38
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TGATTTATTATATAATA
Found at i:3327281 original size:18 final size:17
Alignment explanation
Indices: 3327117--3327295 Score: 50
Period size: 18 Copynumber: 9.9 Consensus size: 17
3327107 TAATAATATT
3327117 TATTAATATATTATATTAA
1 TATT-ATATATT-TATTAA
*
3327136 TAGTATATTATTTATTAA
1 TATTATA-TATTTATTAA
3327154 TAATGTAT-TATTTATTCTTATA
1 T-AT-TATATATTTA---TTA-A
*
3327176 TTCTTATAATATTTATTAA
1 -TATTAT-ATATTTATTAA
**
3327195 TTAAATTAATAATATTTATTGT
1 -T--ATT-AT-ATATTTATTAA
3327217 TA-TAT-TGATTTATTAA
1 TATTATAT-ATTTATTAA
*
3327233 TA-TAT-GATTTATTAA
1 TATTATATATTTATTAA
*
3327248 TATAATATGATTTATT--
1 TATTATAT-ATTTATTAA
* *
3327264 TATTA-ATATTAATATAT
1 TATTATATATTTAT-TAA
*
3327281 TAGTATATATTTATT
1 TATTATATATTTATT
3327296 TATAATCATT
Statistics
Matches: 124, Mismatches: 15, Indels: 44
0.68 0.08 0.24
Matches are distributed among these distances:
14 5 0.04
15 15 0.12
16 18 0.15
17 7 0.06
18 31 0.25
19 12 0.10
20 6 0.05
21 9 0.07
22 14 0.11
23 7 0.06
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (17 bp):
TATTATATATTTATTAA
Found at i:3327295 original size:14 final size:13
Alignment explanation
Indices: 3327096--3327295 Score: 76
Period size: 15 Copynumber: 14.9 Consensus size: 13
3327086 ATTATTCTTT
3327096 ATATTATTTATTA
1 ATATTATTTATTA
*
3327109 ATAATATTTATTAA
1 ATATTATTTATT-A
*
3327123 TATATTATATTAATA
1 -ATATTAT-TTATTA
3327138 GTATATTATTTATTA
1 --ATATTATTTATTA
3327153 ATAATGTA-TTATTTA
1 AT-AT-TATTTA-TTA
* * *
3327168 TTCTTATATTCTT-
1 ATATTAT-TTATTA
*
3327181 ATAATATTTATTA
1 ATATTATTTATTA
* * *
3327194 AT-TAAATTAATA
1 ATATTATTTATTA
*
3327206 ATATT-TATTGTT-
1 ATATTAT-TTATTA
3327218 ATATTGATTTATTA
1 ATATT-ATTTATTA
3327232 ATATATGATTTATTA
1 ATAT-T-ATTTATTA
* *
3327247 ATA-TA-ATA-TG
1 ATATTATTTATTA
3327257 AT-TTATTTATTA
1 ATATTATTTATTA
*
3327269 ATATTAATATATTA
1 ATATT-ATTTATTA
*
3327283 GTATATATTTATT
1 ATAT-TATTTATT
3327296 TATAATCATT
Statistics
Matches: 138, Mismatches: 27, Indels: 43
0.66 0.13 0.21
Matches are distributed among these distances:
10 5 0.04
11 4 0.03
12 21 0.15
13 32 0.23
14 30 0.22
15 34 0.25
16 12 0.09
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.56
Consensus pattern (13 bp):
ATATTATTTATTA
Found at i:3331876 original size:13 final size:14
Alignment explanation
Indices: 3331845--3331875 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3331835 TTAAGGTTAT
3331845 AAAAA-ATAAATAA
1 AAAAAGATAAATAA
3331858 AAAAAGATAAATAA
1 AAAAAGATAAATAA
3331872 AAAA
1 AAAA
3331876 GTACTTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (14 bp):
AAAAAGATAAATAA
Found at i:3332043 original size:16 final size:17
Alignment explanation
Indices: 3332011--3332043 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3332001 GATAATTTGC
*
3332011 TAATATTTTTATATTAA
1 TAATATTTTGATATTAA
3332028 TAATATTTTGAT-TTAA
1 TAATATTTTGATATTAA
3332044 AACGTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TAATATTTTGATATTAA
Found at i:3336105 original size:22 final size:20
Alignment explanation
Indices: 3336080--3336135 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 20
3336070 TATTTTTACT
3336080 TTTTTATTTATTTCTTTTCTTC
1 TTTTTATTTATTTC-TTT-TTC
*
3336102 TTTTT-TTTATGTCTTTTTC
1 TTTTTATTTATTTCTTTTTC
3336121 TTTTAATATTTATTT
1 TTTT--TATTTATTT
3336136 TAATAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 7 0.24
20 3 0.10
21 8 0.28
22 11 0.38
ACGTcount: A:0.12, C:0.09, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTATTTATTTCTTTTTC
Found at i:3336733 original size:27 final size:28
Alignment explanation
Indices: 3336703--3336755 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
3336693 AATTGAAACC
3336703 AAATTAATATAATATTTAATT-TAAAAA
1 AAATTAATATAATATTTAATTATAAAAA
* *
3336730 AAATTATTCTAATATTTAATTATAAA
1 AAATTAATATAATATTTAATTATAAA
3336756 TTTATTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (28 bp):
AAATTAATATAATATTTAATTATAAAAA
Found at i:3342180 original size:15 final size:17
Alignment explanation
Indices: 3342155--3342191 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
3342145 AAATCCAAAC
3342155 AAAAACTCAAAAAAT-A
1 AAAAACTCAAAAAATGA
*
3342171 AAAAAC-CAAAGAATGA
1 AAAAACTCAAAAAATGA
3342187 AAAAA
1 AAAAA
3342192 TAGGAAGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.76, C:0.11, G:0.05, T:0.08
Consensus pattern (17 bp):
AAAAACTCAAAAAATGA
Found at i:3344814 original size:22 final size:22
Alignment explanation
Indices: 3344775--3344835 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 22
3344765 ATGTGACTTT
** * *
3344775 TTATATTTAAAATCTTATCTTG
1 TTATATTTATTATTTTATATTG
* *
3344797 TTATTTTTATTATTTTATATTT
1 TTATATTTATTATTTTATATTG
*
3344819 TTATATTTGTTATTTTA
1 TTATATTTATTATTTTA
3344836 ACAAAACAAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.67
Consensus pattern (22 bp):
TTATATTTATTATTTTATATTG
Found at i:3345092 original size:14 final size:13
Alignment explanation
Indices: 3345051--3345095 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
3345041 TATGGTTTTG
3345051 GGGTTTC-ACTTA
1 GGGTTTCGACTTA
* *
3345063 GAGTTTCGATTTA
1 GGGTTTCGACTTA
3345076 GGGTTTCGACCTTA
1 GGGTTTCGA-CTTA
3345090 GGGTTT
1 GGGTTT
3345096 TATTTTTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 6 0.22
13 12 0.44
14 9 0.33
ACGTcount: A:0.16, C:0.13, G:0.29, T:0.42
Consensus pattern (13 bp):
GGGTTTCGACTTA
Found at i:3345889 original size:3 final size:3
Alignment explanation
Indices: 3345877--3345920 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
3345867 AATAAATAAT
*
3345877 AAC AAT AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
3345921 TAATAATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.68, C:0.30, G:0.00, T:0.02
Consensus pattern (3 bp):
AAC
Found at i:3349248 original size:18 final size:17
Alignment explanation
Indices: 3349209--3349254 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
3349199 ACTTCTCTTC
3349209 TTTC-TTTTAGTTTTTA
1 TTTCTTTTTAGTTTTTA
**
3349225 AGTCTTTTTAAGTTTTTA
1 TTTCTTTTT-AGTTTTTA
3349243 TTTC-TTTTAGTT
1 TTTCTTTTTAGTT
3349255 GAGGTATTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
16 6 0.25
17 8 0.33
18 10 0.42
ACGTcount: A:0.15, C:0.07, G:0.09, T:0.70
Consensus pattern (17 bp):
TTTCTTTTTAGTTTTTA
Found at i:3352744 original size:26 final size:26
Alignment explanation
Indices: 3352715--3352791 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
3352705 TGACCCTATA
3352715 GCATTAGAAGTAGTGTTAAGCCCATG
1 GCATTAGAAGTAGTGTTAAGCCCATG
* * *
3352741 GCATTAGAGGTAGTCTTGAGCCCATG
1 GCATTAGAAGTAGTGTTAAGCCCATG
* **
3352767 GCACTAGATTTAGTCG-TAAGCCCAT
1 GCATTAGAAGTAGT-GTTAAGCCCAT
3352792 AACATTAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (26 bp):
GCATTAGAAGTAGTGTTAAGCCCATG
Found at i:3352763 original size:104 final size:104
Alignment explanation
Indices: 3352577--3352769 Score: 271
Period size: 104 Copynumber: 1.9 Consensus size: 104
3352567 TATAGTCTTA
* * * * *
3352577 AGCCCATGGTACTAAATTTAGTTGTGAGTCCATAGGATTATAGGTAGTCTTAAGCCCATGACGTT
1 AGCCCATGGTACTAAATTTAGTTGTGAGCCCATAGCATTAGAAGTAGTCTTAAGCCCATGACATT
*
3352642 AGATGTAGACTTAAGCCCATGGCATTTGGTGTGGTTTTG
66 AGAGGTAGACTTAAGCCCATGGCATTTGGTGTGGTTTTG
* * *
3352681 AGCCCATGGTACTAGATTTAGTTGTGA-CCCTATAGCATTAGAAGTAGTGTTAAGCCCATGGCAT
1 AGCCCATGGTACTAAATTTAGTTGTGAGCCC-ATAGCATTAGAAGTAGTCTTAAGCCCATGACAT
* *
3352745 TAGAGGTAGTCTTGAGCCCATGGCA
65 TAGAGGTAGACTTAAGCCCATGGCA
3352770 CTAGATTTAG
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
103 2 0.03
104 75 0.97
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (104 bp):
AGCCCATGGTACTAAATTTAGTTGTGAGCCCATAGCATTAGAAGTAGTCTTAAGCCCATGACATT
AGAGGTAGACTTAAGCCCATGGCATTTGGTGTGGTTTTG
Found at i:3352798 original size:78 final size:78
Alignment explanation
Indices: 3352621--3352798 Score: 207
Period size: 78 Copynumber: 2.3 Consensus size: 78
3352611 GGATTATAGG
* * * * * * *
3352621 TAGTCTTAAGCCCATGACGTTAGATGTAGACTTAAGCCCATGGCATTTGGTGTGGTTTTGAGCCC
1 TAGTCGTAAGCCCATAACATTAGAAGTAGACTTAAGCCCATGGCATTAGGTGTAGTCTTGAGCCC
*
3352686 ATGGTACTAGATT
66 ATGGCACTAGATT
* * * **
3352699 TAGTTGTGA-CCCTATAGCATTAGAAGTAGTGTTAAGCCCATGGCATTAGAG-GTAGTCTTGAGC
1 TAGTCGTAAGCCC-ATAACATTAGAAGTAGACTTAAGCCCATGGCATTAG-GTGTAGTCTTGAGC
3352762 CCATGGCACTAGATT
64 CCATGGCACTAGATT
3352777 TAGTCGTAAGCCCATAACATTA
1 TAGTCGTAAGCCCATAACATTA
3352799 AAAAAATCTC
Statistics
Matches: 81, Mismatches: 16, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
77 3 0.04
78 74 0.91
79 4 0.05
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (78 bp):
TAGTCGTAAGCCCATAACATTAGAAGTAGACTTAAGCCCATGGCATTAGGTGTAGTCTTGAGCCC
ATGGCACTAGATT
Found at i:3353170 original size:8 final size:8
Alignment explanation
Indices: 3353134--3353200 Score: 70
Period size: 7 Copynumber: 8.6 Consensus size: 8
3353124 AAAATCCAAT
3353134 AAAAATTC
1 AAAAATTC
*
3353142 -AAATTTC
1 AAAAATTC
3353149 AAAAAATTC
1 -AAAAATTC
3353158 AAAAAATTC
1 -AAAAATTC
3353167 AAAAA-TC
1 AAAAATTC
3353174 AAAAATT-
1 AAAAATTC
*
3353181 AAAAATTA
1 AAAAATTC
3353189 AAAAATT-
1 AAAAATTC
3353196 AAAAA
1 AAAAA
3353201 AAAACTTTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
7 25 0.47
8 13 0.25
9 15 0.28
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAAATTC
Found at i:3353202 original size:9 final size:8
Alignment explanation
Indices: 3353149--3353201 Score: 65
Period size: 8 Copynumber: 6.8 Consensus size: 8
3353139 TTCAAATTTC
3353149 AAAAAATT
1 AAAAAATT
3353157 CAAAAAATT
1 -AAAAAATT
*
3353166 CAAAAA-T
1 AAAAAATT
*
3353173 CAAAAATT
1 AAAAAATT
3353181 -AAAAATT
1 AAAAAATT
3353188 AAAAAATT
1 AAAAAATT
3353196 AAAAAA
1 AAAAAA
3353202 AAACTTTAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
7 14 0.34
8 19 0.46
9 8 0.20
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAAATT
Found at i:3353784 original size:20 final size:20
Alignment explanation
Indices: 3353741--3353795 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
3353731 CCCCTTTTTG
*
3353741 AAACTCAAGTCCAAATTGGCC
1 AAACTCAGGT-CAAATTGGCC
* *
3353762 AAACTCAGGTCAACTTGGTC
1 AAACTCAGGTCAAATTGGCC
3353782 AAAC-CTAGGTCAAA
1 AAACTC-AGGTCAAA
3353796 ACTAAAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 1 0.03
20 19 0.66
21 9 0.31
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.20
Consensus pattern (20 bp):
AAACTCAGGTCAAATTGGCC
Found at i:3355200 original size:23 final size:23
Alignment explanation
Indices: 3355167--3355214 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
3355157 TGTCATGTTA
*
3355167 ATCATGTTAGAGT-AATGTCATGC
1 ATCATGATAGA-TCAATGTCATGC
*
3355190 ATCATGATAGATCAATTTCATGC
1 ATCATGATAGATCAATGTCATGC
3355213 AT
1 AT
3355215 TAGCTCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (23 bp):
ATCATGATAGATCAATGTCATGC
Found at i:3356515 original size:3 final size:3
Alignment explanation
Indices: 3356501--3356532 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
3356491 TTTTCTCCAA
*
3356501 AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3356533 AAAGCACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3360030 original size:116 final size:115
Alignment explanation
Indices: 3359814--3360034 Score: 259
Period size: 116 Copynumber: 1.9 Consensus size: 115
3359804 CAACTCTGAC
* * * * *
3359814 AATTTAACTTGGGAAGTTGTTTTGAGAGGTCAATCTTGCCATGAGGACCCAATTTTATTCTGTCT
1 AATTTAACTTGGGAAGTTATTTTGACAGGTAAATCTTACCATGAGGACCCAATTTTATTCTCTCT
* * * *
3359879 ATCACTAACCCTTGCCTTCCTCAGTCTCTATCTCTCTCTCAAACTCCCAA
66 ATCACTAACCCTGGCCTTCCTCACTCGCTAGCTCTCTCTCAAACTCCCAA
* *
3359929 AATTTTACTTGGGAAGTATAATTTT-ACAGGTAAATCTTACCATGCATG-CCCAATTTTATTCTC
1 AATTTAACTTGGGAAGT-T-ATTTTGACAGGTAAATCTTACCATG-AGGACCCAATTTTATTCTC
* * *
3359992 TCTATCACTGAGCCTGGCCTTCCTCACTCAGC-GGCTCTCTCTC
63 TCTATCACTAACCCTGGCCTTCCTCACTC-GCTAGCTCTCTCTC
3360035 TCTCAAACTC
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
115 16 0.18
116 65 0.74
117 7 0.08
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (115 bp):
AATTTAACTTGGGAAGTTATTTTGACAGGTAAATCTTACCATGAGGACCCAATTTTATTCTCTCT
ATCACTAACCCTGGCCTTCCTCACTCGCTAGCTCTCTCTCAAACTCCCAA
Found at i:3364507 original size:3 final size:3
Alignment explanation
Indices: 3364499--3364573 Score: 82
Period size: 3 Copynumber: 25.3 Consensus size: 3
3364489 ATATATTGTA
3364499 TAT TAT TAT TAT TAT TAT TAT TA- TAT T-T CTAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * * * *
3364543 TAT CAT CAT CAT TAT TTT TAT TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
3364574 TCTTTCTTCC
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 3 0.05
3 59 0.94
4 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:3365304 original size:12 final size:12
Alignment explanation
Indices: 3365277--3365333 Score: 57
Period size: 11 Copynumber: 4.8 Consensus size: 12
3365267 CAATCGTAGG
3365277 TTTTCATTTTCA-
1 TTTTCATTTT-AT
*
3365289 TTTTCAATTTATT
1 TTTTCATTTTA-T
*
3365302 TTTTGATTTTAT
1 TTTTCATTTTAT
3365314 TTTTC-TTTTAT
1 TTTTCATTTTAT
3365325 TTTT-ATTTT
1 TTTTCATTTT
3365334 TTTAAGTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 15 0.39
12 14 0.37
13 9 0.24
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (12 bp):
TTTTCATTTTAT
Found at i:3365322 original size:19 final size:17
Alignment explanation
Indices: 3365296--3365373 Score: 52
Period size: 17 Copynumber: 4.5 Consensus size: 17
3365286 TCATTTTCAA
*
3365296 TTTATTTTTTGATTTTAT
1 TTTATTTTTT-TTTTTAT
*
3365314 TTT-TCTTTTATTTTTAT
1 TTTAT-TTTTTTTTTTAT
***
3365331 TTT-TTTAAGTTTTTAT
1 TTTATTTTTTTTTTTAT
3365347 TTTATTTTTAATTTTTTAT
1 TTTATTTTT--TTTTTTAT
*
3365366 TTAATTTT
1 TTTATTTT
3365374 ACTGGTTTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
16 12 0.26
17 14 0.30
18 7 0.15
19 14 0.30
ACGTcount: A:0.18, C:0.01, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTATTTTTTTTTTTAT
Found at i:3365351 original size:27 final size:27
Alignment explanation
Indices: 3365313--3365364 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
3365303 TTTGATTTTA
* *
3365313 TTTTTCTTTTATTTTTATTTTTTTAAG
1 TTTTTATTTTATTTTTAATTTTTTAAG
3365340 TTTTTATTTTATTTTTAATTTTTTA
1 TTTTTATTTTATTTTTAATTTTTTA
3365365 TTTAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (27 bp):
TTTTTATTTTATTTTTAATTTTTTAAG
Found at i:3365354 original size:18 final size:18
Alignment explanation
Indices: 3365324--3365374 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 18
3365314 TTTTCTTTTA
3365324 TTTTTA-TTT-TTTTAAG
1 TTTTTATTTTATTTTAAG
*
3365340 TTTTTATTTTATTTTTAAT
1 TTTTTATTTTA-TTTTAAG
*
3365359 TTTTTATTTAATTTTA
1 TTTTTATTTTATTTTA
3365375 CTGGTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 6 0.20
17 3 0.10
18 5 0.17
19 16 0.53
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTTATTTTATTTTAAG
Found at i:3365447 original size:11 final size:11
Alignment explanation
Indices: 3365427--3365467 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
3365417 ACAAAAGAAT
*
3365427 CAAAATAAAAA
1 CAAAAAAAAAA
3365438 CAAAAAAAAAA
1 CAAAAAAAAAA
* *
3365449 TAAAAAACAAA
1 CAAAAAAAAAA
3365460 CAAAAAAA
1 CAAAAAAA
3365468 TCTTTTCAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.05
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:3365453 original size:22 final size:23
Alignment explanation
Indices: 3365419--3365467 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
3365409 TCTGGAATAC
*
3365419 AAAAGAATCAAAATAA-AAACAAA
1 AAAAAAATCAAAA-AACAAACAAA
3365442 AAAAAAAT-AAAAAACAAACAAA
1 AAAAAAATCAAAAAACAAACAAA
3365464 AAAA
1 AAAA
3365468 TCTTTTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 2 0.08
22 15 0.62
23 7 0.29
ACGTcount: A:0.84, C:0.08, G:0.02, T:0.06
Consensus pattern (23 bp):
AAAAAAATCAAAAAACAAACAAA
Found at i:3365456 original size:18 final size:18
Alignment explanation
Indices: 3365428--3365468 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
3365418 CAAAAGAATC
3365428 AAAATAAAAACAAA-AAA
1 AAAATAAAAACAAACAAA
3365445 AAAATAAAAAACAAACAAA
1 AAAAT-AAAAACAAACAAA
3365464 AAAAT
1 AAAAT
3365469 CTTTTCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 5 0.23
18 9 0.41
19 8 0.36
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (18 bp):
AAAATAAAAACAAACAAA
Found at i:3365515 original size:40 final size:37
Alignment explanation
Indices: 3365447--3365556 Score: 141
Period size: 38 Copynumber: 2.8 Consensus size: 37
3365437 ACAAAAAAAA
*
3365447 AATAAAAAACAAACAAAAAAATCTTTTCAAATAAGTTT
1 AATAAAAAA-AAAAAAAAAAATCTTTTCAAATAAGTTT
3365485 GAA-AAAATAAAAAATAAAAAAATACTTTTCAAATAAGTTT
1 -AATAAAA-AAAAAA-AAAAAAAT-CTTTTCAAATAAGTTT
*
3365525 AATAAAAAATAAAAAAAAAATCTTTTTCAAAT
1 AATAAAAAAAAAAAAAAAAATC-TTTTCAAAT
3365557 GAAAATCTTT
Statistics
Matches: 64, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
37 1 0.02
38 24 0.38
39 19 0.30
40 20 0.31
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (37 bp):
AATAAAAAAAAAAAAAAAAATCTTTTCAAATAAGTTT
Found at i:3370859 original size:86 final size:85
Alignment explanation
Indices: 3370711--3370999 Score: 323
Period size: 86 Copynumber: 3.4 Consensus size: 85
3370701 AACCCTTGCT
* * * **
3370711 AAACTTAAAATCTTGCAAATCTTTCTTTC-TTATGAATCTGAAAGTCCTTGCAAAGTTAAAATCT
1 AAACTTGAAATCTTGCAAATCTTTCATTCTTTA-GAATCTGAAAGTCCTTGAAAACATAAAATCT
3370775 TTACGAATCTAGAACCTCTGTG
65 TTACGAATCTAGAACCT-TGTG
* * * *
3370797 AAACTTGAAATTTTGTAAATTTTTCATTCTTTAGAAT-TGGAAAGTCCTTGAAAACATGAAATCT
1 AAACTTGAAATCTTGCAAATCTTTCATTCTTTAGAATCT-GAAAGTCCTTGAAAACATAAAATCT
** * *
3370861 TTGTGAATTTAAAACCATTGTG
65 TTACGAATCTAGAACC-TTGTG
* * ** *
3370883 AAACTTGAAATCTTGCGAATCTTTCATTCTTGT-GAATCTAAAAGTCCTTGGGAACCTAAAATCT
1 AAACTTGAAATCTTGCAAATCTTTCATTCTT-TAGAATCTGAAAGTCCTTGAAAACATAAAATCT
3370947 TTACGAATCTAGAACCTTTGTG
65 TTACGAATCTAGAACC-TTGTG
* *
3370969 AAACTTGAAATCTTGCGAATCTTTTATTCTT
1 AAACTTGAAATCTTGCAAATCTTTCATTCTT
3371000 GCAAATCTAA
Statistics
Matches: 170, Mismatches: 28, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
85 1 0.01
86 163 0.96
87 6 0.04
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (85 bp):
AAACTTGAAATCTTGCAAATCTTTCATTCTTTAGAATCTGAAAGTCCTTGAAAACATAAAATCTT
TACGAATCTAGAACCTTGTG
Found at i:3371367 original size:117 final size:118
Alignment explanation
Indices: 3371199--3371985 Score: 295
Period size: 118 Copynumber: 6.7 Consensus size: 118
3371189 TCGTGATTTC
* * *
3371199 ATCCCGATCAATCATATTCGACCTCGACCCGATCATGGTTACTTTATTTTTTGACTCATGAATTT
1 ATCCCGATC-ATCATATTCGACCTCGACCCAATCATGGTCACTTTATTTTTTGACTCACGAATTT
* * *
3371264 GTCTTGGTCATTCAATCTCGATTCCATCCAAATCATTTTTTGACTCAAGATTCT
65 GTCTCGATCATTCAATCTCGATTCCATCCAAATCATTTCTTGACTCAAGATTCT
* ** * * *
3371318 ATCCCGATC-TCATATTCGATCTCGATGCAATCTTGGTCATTTTATTTTTTGACTCACGATTTTG
1 ATCCCGATCATCATATTCGACCTCGACCCAATCATGGTCACTTTATTTTTTGACTCACGAATTTG
* * * *
3371382 TCTCGATCATTCGATCTCGGTTTCATCCAGATCATTTCTTGA--C----TTC-
66 TCTCGATCATTCAATCTCGATTCCATCCAAATCATTTCTTGACTCAAGATTCT
* * * * * *** * * * * * *
3371428 -T--CGGTCAGTCATATTCAATCGCTACTCGGTTC-TAGTCATTTTATCTTTTCGACCCA-TAGT
1 ATCCCGATCA-TCATATTCGACCTCGAC-CCAATCATGGTCACTTTAT-TTTTTGACTCACGAAT
* * * * * ** *
3371488 TTCATCTCGATCATTCAATCTCGGTTCCAACCAAA-CTATTTTTTTGATTCGTGATTTT
63 TT-GTCTCGATCATTCAATCTCGATTCCATCCAAATC-A-TTTCTTGACTCAAGATTCT
* * * * **** * * * *
3371546 ATCCTGGTCAGTCATATTCAACCTTGACCTGGCCCTAGTCACTTTATTTTTTGACTTACGATTTT
1 ATCCCGATCA-TCATATTCGACCTCGACCCAATCATGGTCACTTTATTTTTTGACTCACGAATTT
* * * *** * * * *
3371611 ATCCCGATCATTTAATCTCGATTTTGTCTAGATCATTT-TCTGACTCGCAGTTTC-
65 GTCTCGATCATTCAATCTCGATTCCATCCAAATCATTTCT-TGACTC-AAGATTCT
* * * * * ** *
3371665 ATCTCGGTCAATCATATTTGACCTCGA--CATGTCTTGGTCACTTTATTTTTTGACTCTTGATTT
1 ATCCCGATC-ATCATATTCGACCTCGACCCA-ATCATGGTCACTTTATTTTTTGACTCACGAATT
* * * * ** * * * *
3371728 TATCTTGATTATTCAATCTCAATTTTATCCAGATCATTTCCTAACTCATGATTCT
64 TGTCTCGATCATTCAATCTCGATTCCATCCAAATCATTTCTTGACTCAAGATTCT
* * * * * **
3371783 ATCCCGATTAGTCATATTTGACCTCGACTC-ATCCTGGTCACTTTATCTTTTCGACTCGTG-ATT
1 ATCCCGATCA-TCATATTCGACCTCGACCCAATCATGGTCACTTTAT-TTTTTGACTCACGAATT
* * * * * * * * *
3371846 TCATTTCGATTATTCAATCTCGATTCTATCTAGATCATTTTCTTAATTCACGATT-T
64 T-GTCTCGATCATTCAATCTCGATTCCATCCAAATCA-TTTCTTGACTCAAGATTCT
* * * * * * * * ** *
3371902 CATTCTGATCAGTCATATTCAACCTCAACCCGATCTTGATCATTTTATTTTTTGACTCGTGATTT
1 -ATCCCGATCA-TCATATTCGACCTCGACCCAATCATGGTCACTTTATTTTTTGACTCACGAATT
*
3371967 TGTCTCTG-TTATTCAATCT
64 TGTCTC-GATCATTCAATCT
3371986 TAGTTTCATT
Statistics
Matches: 512, Mismatches: 120, Indels: 71
0.73 0.17 0.10
Matches are distributed among these distances:
107 4 0.01
109 30 0.06
110 39 0.08
111 10 0.02
113 1 0.00
115 1 0.00
117 88 0.17
118 104 0.20
119 80 0.16
120 103 0.20
121 52 0.10
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.43
Consensus pattern (118 bp):
ATCCCGATCATCATATTCGACCTCGACCCAATCATGGTCACTTTATTTTTTGACTCACGAATTTG
TCTCGATCATTCAATCTCGATTCCATCCAAATCATTTCTTGACTCAAGATTCT
Found at i:3371727 original size:118 final size:118
Alignment explanation
Indices: 3371583--3372170 Score: 379
Period size: 119 Copynumber: 4.9 Consensus size: 118
3371573 CCTGGCCCTA
* * * * *
3371583 GTCACTTTATTTTTTGACT-TACGATTTTATCCCGATCATTTAATCTCGATTTTGTCTAGATCAT
1 GTCACTTTATTTTTTGACTCT-TGATTTTATCTCGATTATTCAATCTCGATTTTATCTAGATCAT
* * * * * *
3371647 TTTCTGACTCGCA-GTTTC-ATCTCGGTCAATCATATTTGACCTCGACAT-GTCTTG
65 TTTCTAACT--CATGATTCTATCCCGATCAATCATATTTGACCTCGAC-TCATCCTG
* * *
3371701 GTCACTTTATTTTTTGACTCTTGATTTTATCTTGATTATTCAATCTCAATTTTATCCAGATCATT
1 GTCACTTTATTTTTTGACTCTTGATTTTATCTCGATTATTCAATCTCGATTTTATCTAGATCATT
* * *
3371766 TCCTAACTCATGATTCTATCCCGATTAGTCATATTTGACCTCGACTCATCCTG
66 TTCTAACTCATGATTCTATCCCGATCAATCATATTTGACCTCGACTCATCCTG
* * * * *
3371819 GTCACTTTATCTTTTCGACTCGTGATTTCATTTCGATTATTCAATCTCGATTCTATCTAGATCAT
1 GTCACTTTAT-TTTTTGACTCTTGATTTTATCTCGATTATTCAATCTCGATTTTATCTAGATCAT
* * * * * ** * * *
3371884 TTTCTTAATTCACGATT-TCATTCTGATCAGTCATATTCAACCTCAACCCGATCTTG
65 TTTC-TAACTCATGATTCT-ATCCCGATCAATCATATTTGACCTCGACTC-ATCCTG
* * * * * * *
3371940 ATCATTTTATTTTTTGACTCGTGATTTTGTCTCTG-TTATTCAATCT-TAGTTTCAT-TCGGATC
1 GTCACTTTATTTTTTGACTCTTGATTTTATCTC-GATTATTCAATCTCGA-TTTTATCT-AGATC
* * * * ** * *
3372002 ATTTTGTAACTCGTGATTCCATCCC-AGTCAGTCATATTCAACCTCGACTTAATCCTA
63 ATTTTCTAACTCATGATTCTATCCCGA-TCAATCATATTTGACCTCGAC-TCATCCTG
* * * * * * * **
3372059 GTCATTTTATTTTTTAACT-TGTGGTTTTGTCTCG-TTCATTCAATATTGGTTCCATCTAGATCA
1 GTCACTTTATTTTTTGACTCT-TGATTTTATCTCGATT-ATTCAATCTCGATTTTATCTAGATCA
* ** * ** * **
3372122 TTTCCTAACTCGCGATTCCATCTAGGTCAATCATATTCAACCTCGACTC
64 TTTTCTAACTCATGATTCTATCCCGATCAATCATATTTGACCTCGACTC
3372171 GATTTTGGTT
Statistics
Matches: 376, Mismatches: 75, Indels: 38
0.77 0.15 0.08
Matches are distributed among these distances:
116 2 0.01
117 5 0.01
118 104 0.28
119 174 0.46
120 77 0.20
121 14 0.04
ACGTcount: A:0.22, C:0.23, G:0.11, T:0.44
Consensus pattern (118 bp):
GTCACTTTATTTTTTGACTCTTGATTTTATCTCGATTATTCAATCTCGATTTTATCTAGATCATT
TTCTAACTCATGATTCTATCCCGATCAATCATATTTGACCTCGACTCATCCTG
Found at i:3372102 original size:239 final size:236
Alignment explanation
Indices: 3371552--3372244 Score: 640
Period size: 239 Copynumber: 2.9 Consensus size: 236
3371542 TTTTATCCTG
* *** ** *
3371552 GTCAGTCATATTCAACCTTGACCTGGCCCTAGTCACTTTATTTTTTGACTTACGATTTTATCCCG
1 GTCAGTCATATTCAACCTCGA-CTAATCCTAGTCACTTTATTTTTTGACTTGTGATTTTATCTCG
* * * * * *
3371617 ATCATTTAATCTCGATTTTGTCTAGATCATTTTCTGACTCGC-AGTTTCATCTCGGTCAATCATA
65 TTCATTCAATCTCGATTCTATCTAGATCATTTTCTAACTCGCGA-TTTCATCTAGGTCAATCATA
** * * * *
3371681 TTTGACCTCGACATG-TCTTGGTCACTTTATTTTTTGACTCTTGATTTTATCT-TGATTATTCAA
129 TTCAACCTCGACACGATCTTGGTCATTTTATTTTTTGACTCATGATTTTGTCTCTG-TTATTCAA
* *
3371744 TCTCAATTTTATCCAGATCATTTCCTAACTCATGATTCTATCCC
193 TCTCAATTTCATCCAGATCATTTCCTAACTCATGATTCCATCCC
* ** * * * * * *
3371788 GATTAGTCATATTTGACCTCGACTCATCCTGGTCACTTTATCTTTTCGACTCGTGATTTCATTTC
1 G-TCAGTCATATTCAACCTCGACTAATCCTAGTCACTTTAT-TTTTTGACTTGTGATTTTATCTC
* * * *
3371853 GATT-ATTCAATCTCGATTCTATCTAGATCATTTTCTTAATTCACGATTTCATTCT-GATCAGTC
64 G-TTCATTCAATCTCGATTCTATCTAGATCATTTTC-TAACTCGCGATTTCA-TCTAGGTCAATC
* * * *
3371916 ATATTCAACCTCAACCCGATCTTGATCATTTTATTTTTTGACTCGTGATTTTGTCTCTGTTATTC
126 ATATTCAACCTCGACACGATCTTGGTCATTTTATTTTTTGACTCATGATTTTGTCTCTGTTATTC
* * * * ** *
3371981 AATCTTAGTTTCATTCGGATCATTTTGTAACTCGTGATTCCATCCC
191 AATCTCAATTTCATCCAGATCATTTCCTAACTCATGATTCCATCCC
* * * *
3372027 AGTCAGTCATATTCAACCTCGACTTAATCCTAGTCATTTTATTTTTTAACTTGTGGTTTTGTCTC
1 -GTCAGTCATATTCAACCTCGAC-TAATCCTAGTCACTTTATTTTTTGACTTGTGATTTTATCTC
* * * * * *
3372092 GTTCATTCAATATTGGTTCCATCTAGATCATTTCCTAACTCGCGATTCCATCTAGGTCAATCATA
64 GTTCATTCAATCTCGATTCTATCTAGATCATTTTCTAACTCGCGATTTCATCTAGGTCAATCATA
* * ** ** * * *
3372157 TTCAACCTCGACTCGATTTTGGTTGTTTTATCTTTTCAACTCATGATTTTGTTTCGGTTATTCGA
129 TTCAACCTCGACACGATCTTGGTCATTTTAT-TTTTTGACTCATGATTTTGTCTCTGTTATTCAA
** * *
3372222 TCTCGGTTCCATCCAAATCATTT
193 TCTCAATTTCATCCAGATCATTT
3372245 TTTTGATTTA
Statistics
Matches: 361, Mismatches: 83, Indels: 23
0.77 0.18 0.05
Matches are distributed among these distances:
236 16 0.04
237 64 0.18
238 78 0.22
239 185 0.51
240 18 0.05
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.44
Consensus pattern (236 bp):
GTCAGTCATATTCAACCTCGACTAATCCTAGTCACTTTATTTTTTGACTTGTGATTTTATCTCGT
TCATTCAATCTCGATTCTATCTAGATCATTTTCTAACTCGCGATTTCATCTAGGTCAATCATATT
CAACCTCGACACGATCTTGGTCATTTTATTTTTTGACTCATGATTTTGTCTCTGTTATTCAATCT
CAATTTCATCCAGATCATTTCCTAACTCATGATTCCATCCC
Found at i:3373188 original size:3 final size:3
Alignment explanation
Indices: 3373180--3373224 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
3373170 TATTGTATAG
3373180 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3373225 CATCGTCATC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:3373271 original size:17 final size:17
Alignment explanation
Indices: 3373180--3373262 Score: 58
Period size: 18 Copynumber: 4.5 Consensus size: 17
3373170 TATTGTATAG
*
3373180 TATTATTATTATTATTAT
1 TATTATTTTTATTATT-T
*
3373198 TATTATTATTATTATTAT
1 TATTATTTTTATTATT-T
* * *
3373216 TATTATTATCATCGTCATCCT
1 TATTATTTTTAT--T-AT-TT
*
3373237 CATTATTTTTATTATTT
1 TATTATTTTTATTATTT
3373254 TATTATTTT
1 TATTATTTT
3373263 CTTTTTTTTC
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
17 9 0.17
18 31 0.57
19 1 0.02
20 1 0.02
21 12 0.22
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (17 bp):
TATTATTTTTATTATTT
Found at i:3374147 original size:19 final size:20
Alignment explanation
Indices: 3374125--3374173 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
3374115 ATTTTTTAGG
3374125 TTTTTATTTTATTTT-CAAT
1 TTTTTATTTTATTTTACAAT
* **
3374144 TTTTTATTTAATTTTACTGT
1 TTTTTATTTTATTTTACAAT
3374164 TTTTTATTTT
1 TTTTTATTTT
3374174 TTAAAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTTATTTTATTTTACAAT
Found at i:3374188 original size:20 final size:20
Alignment explanation
Indices: 3374165--3374214 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
3374155 TTTTACTGTT
3374165 TTTTATTTTTTAAAAAAA-TC
1 TTTT-TTTTTTAAAAAAACTC
*
3374185 TTTTCTTTTTAAAAAAACTC
1 TTTTTTTTTTAAAAAAACTC
3374205 TTTTTTTTTT
1 TTTTTTTTTT
3374215 GGAATACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTTTTTTAAAAAAACTC
Found at i:3374195 original size:19 final size:19
Alignment explanation
Indices: 3374170--3374213 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
3374160 CTGTTTTTTA
3374170 TTTTTTAAAAAAA-TCTTT
1 TTTTTTAAAAAAACTCTTT
3374188 TCTTTTTAAAAAAACTCTTT
1 T-TTTTTAAAAAAACTCTTT
3374208 TTTTTT
1 TTTTTT
3374214 TGGAATACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.04
19 17 0.71
20 6 0.25
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTTTAAAAAAACTCTTT
Found at i:3374290 original size:35 final size:35
Alignment explanation
Indices: 3374249--3374330 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 35
3374239 AACATAAAAA
*
3374249 TAAAAAAAAACAAAAAAAA-TCTTTTCAAATAAATT
1 TAAAAAAAAA-AAAAAAAAGACTTTTCAAATAAATT
* *
3374284 TGAAAAAATAAAAAAAAAAGACTTTTCAAATAAGTT
1 T-AAAAAAAAAAAAAAAAAGACTTTTCAAATAAATT
*
3374320 TAATAAAAAAA
1 TAAAAAAAAAA
3374331 TCTTTTTCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 17 0.43
36 23 0.57
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.24
Consensus pattern (35 bp):
TAAAAAAAAAAAAAAAAAGACTTTTCAAATAAATT
Found at i:3377088 original size:47 final size:47
Alignment explanation
Indices: 3377020--3377112 Score: 186
Period size: 47 Copynumber: 2.0 Consensus size: 47
3377010 TCTTGTAGTA
3377020 TAATTAATATCCTTTCATCATATAATATCTCGATTTAACGTTGAGTT
1 TAATTAATATCCTTTCATCATATAATATCTCGATTTAACGTTGAGTT
3377067 TAATTAATATCCTTTCATCATATAATATCTCGATTTAACGTTGAGT
1 TAATTAATATCCTTTCATCATATAATATCTCGATTTAACGTTGAGT
3377113 ATAAATTAGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (47 bp):
TAATTAATATCCTTTCATCATATAATATCTCGATTTAACGTTGAGTT
Found at i:3377542 original size:20 final size:20
Alignment explanation
Indices: 3377474--3377558 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
3377464 TGAATCCCTA
*
3377474 AATTTATTTGTGAACCTTTG
1 AATTTATTTGCGAACCTTTG
* * *
3377494 AGTTTGTTTGCGAACCTCTG
1 AATTTATTTGCGAACCTTTG
* *
3377514 -ATTTCATTTGCAAATCTTTG
1 AATTT-ATTTGCGAACCTTTG
** *
3377534 AATTTATTTATGAATCTTTG
1 AATTTATTTGCGAACCTTTG
3377554 AATTT
1 AATTT
3377559 GTGAATCTTT
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
19 3 0.06
20 44 0.86
21 4 0.08
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (20 bp):
AATTTATTTGCGAACCTTTG
Found at i:3377563 original size:16 final size:15
Alignment explanation
Indices: 3377539--3377572 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
3377529 CTTTGAATTT
3377539 ATTTATGAATCTTTGA
1 ATTTATGAATCTTT-A
*
3377555 ATTTGTGAATCTTTA
1 ATTTATGAATCTTTA
3377570 ATT
1 ATT
3377573 CAATTTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTTATGAATCTTTA
Found at i:3377645 original size:20 final size:20
Alignment explanation
Indices: 3377593--3377668 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
3377583 TTTTATTGGT
*
3377593 AAATCTTTGAATTTATTCTC
1 AAATTTTTGAATTTATTCTC
**
3377613 AAACCTTTGAATTTATTCTC
1 AAATTTTTGAATTTATTCTC
* *
3377633 AAATTTTTTAATTTTATTTTC
1 AAATTTTTGAA-TTTATTCTC
*
3377654 AAATTGTTGAATTTA
1 AAATTTTTGAATTTA
3377669 AAAATTGTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 31 0.65
21 17 0.35
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.53
Consensus pattern (20 bp):
AAATTTTTGAATTTATTCTC
Found at i:3377650 original size:21 final size:21
Alignment explanation
Indices: 3377576--3377667 Score: 82
Period size: 20 Copynumber: 4.4 Consensus size: 21
3377566 TTTAATTCAA
* *
3377576 TTTGCAATTTTATTGGT-AAATC
1 TTTG-AATTTTATT-CTCAAATT
**
3377598 TTTGAA-TTTATTCTCAAACC
1 TTTGAATTTTATTCTCAAATT
3377618 TTTGAA-TTTATTCTCAAATT
1 TTTGAATTTTATTCTCAAATT
* *
3377638 TTTTAATTTTATTTTCAAATT
1 TTTGAATTTTATTCTCAAATT
*
3377659 GTTGAATTT
1 TTTGAATTT
3377668 AAAAATTGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
19 1 0.02
20 33 0.55
21 22 0.37
22 4 0.07
ACGTcount: A:0.28, C:0.10, G:0.08, T:0.54
Consensus pattern (21 bp):
TTTGAATTTTATTCTCAAATT
Found at i:3377690 original size:17 final size:16
Alignment explanation
Indices: 3377648--3377691 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
3377638 TTTTAATTTT
*
3377648 ATTTTCAAATTGTTGA
1 ATTTTAAAATTGTTGA
*
3377664 ATTTAAAAATTGTTTGA
1 ATTTTAAAATTG-TTGA
*
3377681 ATTTTTAAATT
1 ATTTTAAAATT
3377692 TATATATATC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.52
Consensus pattern (16 bp):
ATTTTAAAATTGTTGA
Found at i:3378615 original size:31 final size:30
Alignment explanation
Indices: 3378580--3378664 Score: 111
Period size: 31 Copynumber: 2.8 Consensus size: 30
3378570 TTTATTTGTA
3378580 AATAAGTGGTATCAGAGCTATGGTGACATCT-
1 AATAAGTGGTATCAGAGCTATGGT-A-ATCTC
*
3378611 AATAAGTGGTATCAGAGCTATGATAATCTCC
1 AATAAGTGGTATCAGAGCTATGGTAATCT-C
*
3378642 AACAAGTGGTATCAGAGC-ATGGT
1 AATAAGTGGTATCAGAGCTATGGT
3378665 TCGAGATATG
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
29 4 0.08
30 5 0.10
31 40 0.82
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (30 bp):
AATAAGTGGTATCAGAGCTATGGTAATCTC
Found at i:3380844 original size:4 final size:4
Alignment explanation
Indices: 3380830--3380865 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
3380820 TTGTGTTTCT
*
3380830 TTTA TTTTA TTTA TTTA GTTA TTTA TTTA TTTA TTT
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
3380866 GAATTTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:3381561 original size:17 final size:17
Alignment explanation
Indices: 3381527--3381561 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3381517 TATTTTTTAT
*
3381527 AAAATAAATAACATAAA
1 AAAATAAATAACAAAAA
*
3381544 AAAATAAATAATAAAAA
1 AAAATAAATAACAAAAA
3381561 A
1 A
3381562 TGATGAAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAATAAATAACAAAAA
Found at i:3382887 original size:17 final size:17
Alignment explanation
Indices: 3382848--3382904 Score: 73
Period size: 16 Copynumber: 3.5 Consensus size: 17
3382838 TTAAATTTTT
*
3382848 TTATTTTTTACTTTTAC
1 TTATTTTTTACTTTTAA
*
3382865 TT-TTTTTTATTTTTAA
1 TTATTTTTTACTTTTAA
*
3382881 TTATTTTCT-CTTTTAA
1 TTATTTTTTACTTTTAA
3382897 TTATTTTT
1 TTATTTTT
3382905 CCCTTAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
16 27 0.79
17 7 0.21
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (17 bp):
TTATTTTTTACTTTTAA
Found at i:3383010 original size:26 final size:28
Alignment explanation
Indices: 3382979--3383041 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 28
3382969 AAATTTTAAA
*
3382979 TTGTATATA-TATTTTTATAC-TTATT-T
1 TTGTATATATTATTTTGA-ACATTATTGT
3383005 TTGTATA-ATTATTTTGAACGATTATTGT
1 TTGTATATATTATTTTGAAC-ATTATTGT
3383033 TTGTATATA
1 TTGTATATA
3383042 ATGATGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
25 3 0.10
26 14 0.45
27 5 0.16
28 8 0.26
29 1 0.03
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.59
Consensus pattern (28 bp):
TTGTATATATTATTTTGAACATTATTGT
Found at i:3384808 original size:149 final size:143
Alignment explanation
Indices: 3384479--3384885 Score: 406
Period size: 143 Copynumber: 2.8 Consensus size: 143
3384469 ACCAATTTTT
* *** * *
3384479 AATTAAAGGAGATTATTCAAGGCGTTTTTGGCTAGAAAATACCTTGAATAAT-TCTTACAAAAAA
1 AATTTAAGGAGATTATTCAAGATATTTTTGACTAGAAAATACCTTAAATAATCTCTTAC-AAAAA
* * * * * * *
3384543 TTAATTGGGGTTATTCAAGGTGTTTGTGGCCAAAAACACTTTGAATAATTCTTTAACCCCTAAAC
65 TTAAATGGGGTTATTCAAGGCGTTTATGGCAAAAAACACCTTGAATAATTCCTAAACCCCTAAAC
*
3384608 CCTAAACTTATAAA
130 CCTAAACTCATAAA
* * *
3384622 AATTTAAGGAGATTATTTAA-AGTATTTTT-ACTCAGAAAATACATTAAATAATCCCTTACAAAA
1 AATTTAAGGAGATTATTCAAGA-TATTTTTGACT-AGAAAATACCTTAAATAATCTCTTACAAAA
* * * *
3384685 ATTAAATGGGGTTATTGAAGGCGTTTCTGGCTAAAAACACCTTAAATAATTCCTAAACCATAAAC
64 ATTAAATGGGGTTATTCAAGGCGTTTATGGCAAAAAACACCTTGAATAATTCCTAAACC-----C
* *
3384750 TTTAAACCTTAAACTCATAAA
124 -CTAAACCCTAAACTCATAAA
* * * * *
3384771 AATTTAAGGAAATTATTCAAGATATTTTTGCCTAGAAAATGCCTTTAATAATCTTTTACAAAAAT
1 AATTTAAGGAGATTATTCAAGATATTTTTGACTAGAAAATACCTTAAATAATCTCTTACAAAAA-
* * * *
3384836 TTGAATTGGGTTATTCAAGGCATTTATGGCAAAAAAACGCCTTGAATAAT
65 TTAAATGGGGTTATTCAAGGCGTTTATGGC-AAAAAACACCTTGAATAAT
3384886 CCTCTACAAT
Statistics
Matches: 214, Mismatches: 37, Indels: 18
0.80 0.14 0.07
Matches are distributed among these distances:
142 2 0.01
143 94 0.44
144 5 0.02
148 1 0.00
149 68 0.32
150 28 0.13
151 16 0.07
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (143 bp):
AATTTAAGGAGATTATTCAAGATATTTTTGACTAGAAAATACCTTAAATAATCTCTTACAAAAAT
TAAATGGGGTTATTCAAGGCGTTTATGGCAAAAAACACCTTGAATAATTCCTAAACCCCTAAACC
CTAAACTCATAAA
Found at i:3385373 original size:185 final size:187
Alignment explanation
Indices: 3385117--3385453 Score: 418
Period size: 185 Copynumber: 1.8 Consensus size: 187
3385107 TTGGCTAGAC
* * **
3385117 GCCTTCAATAACCCCATTAAATTTTTTGTAAGAGATTATTCAAGGCATTTTTCAGAAAAAATGTC
1 GCCTTCAATAACCCCATTAAAATTTTTATAAGAGATTATTCAAGGCATTTTTCAGAAAAAATCAC
* * * **
3385182 TTGAATAATCCCTAATAAAAAA-TT-ATAGGAAATTATTCAAGGCTTTTTTTG-CAA-AAAGGCC
66 TTGAATAATCCCTAACAAAAAATTTAATA-GAAATTATTCAAGG-TGTTTATGCCAATAAACACC
*
3385243 ATGAATAATCACCTCATAAAAATTGAAGTGGATTATTAAAAGAGTTTTTGGCAAAAAAT
129 ATCAATAATCACCTCATAAAAATTGAAGTGGATTATTAAAAGAGTTTTTGGCAAAAAAT
* * *
3385302 GCCTTCAATAACCCCATTAAAATTTTTATAA-AGGATTATTTAATGCATTTTT-GGCAAAAAA-C
1 GCCTTCAATAACCCCATTAAAATTTTTATAAGA-GATTATTCAAGGCATTTTTCAG-AAAAAATC
* * *
3385364 ACATTGAATAATCTCTTACAAAAAATTTAATAGAGATTATTCAAGGTGTTTATGCCAATAAACAC
64 AC-TTGAATAATCCCTAACAAAAAATTTAATAGAAATTATTCAAGGTGTTTATGCCAATAAACAC
* *
3385429 CTTCAATAATCCCCTCATAAAAATT
128 CATCAATAATCACCTCATAAAAATT
3385454 TTTGAAGATT
Statistics
Matches: 127, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
184 3 0.02
185 77 0.61
186 18 0.14
187 29 0.23
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (187 bp):
GCCTTCAATAACCCCATTAAAATTTTTATAAGAGATTATTCAAGGCATTTTTCAGAAAAAATCAC
TTGAATAATCCCTAACAAAAAATTTAATAGAAATTATTCAAGGTGTTTATGCCAATAAACACCAT
CAATAATCACCTCATAAAAATTGAAGTGGATTATTAAAAGAGTTTTTGGCAAAAAAT
Found at i:3391486 original size:12 final size:13
Alignment explanation
Indices: 3391464--3391500 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
3391454 TTTGTTTAAA
*
3391464 TTATTTTTAATTT
1 TTATATTTAATTT
3391477 TTA-ATTTAA-TT
1 TTATATTTAATTT
3391488 TTATATTTAATTT
1 TTATATTTAATTT
3391501 AAAATCATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
11 5 0.24
12 11 0.52
13 5 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTATATTTAATTT
Found at i:3392747 original size:29 final size:30
Alignment explanation
Indices: 3392713--3392780 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
3392703 TTTATTGGAC
3392713 AATTTTATCCTTAT-ATATTTAATT-ATTAT
1 AATTTTATCCTT-TCATATTTAATTAATTAT
*
3392742 AATTTTATCCTTTCATATTTAATTAATTCT
1 AATTTTATCCTTTCATATTTAATTAATTAT
3392772 AATTATTAT
1 AATT-TTAT
3392781 GATTAATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
28 1 0.03
29 22 0.63
30 8 0.23
31 4 0.11
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (30 bp):
AATTTTATCCTTTCATATTTAATTAATTAT
Found at i:3392830 original size:12 final size:11
Alignment explanation
Indices: 3392816--3392876 Score: 54
Period size: 10 Copynumber: 5.5 Consensus size: 11
3392806 ATCAATTAAA
3392816 TAATATTAATT
1 TAATATTAATT
3392827 ATAATATTTAATT
1 -TAATA-TTAATT
*
3392840 TGATAATTAA-T
1 TAAT-ATTAATT
*
3392851 TAATATTACTT
1 TAATATTAATT
3392862 TAATA-TAATT
1 TAATATTAATT
*
3392872 AAATA
1 TAATA
3392877 ATATCAAACA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
10 12 0.29
11 10 0.24
12 12 0.29
13 7 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (11 bp):
TAATATTAATT
Found at i:3392855 original size:35 final size:36
Alignment explanation
Indices: 3392782--3392867 Score: 95
Period size: 35 Copynumber: 2.4 Consensus size: 36
3392772 AATTATTATG
* *
3392782 ATTAATTAATATTATTTTATTTTAATCAATTAAATAAT
1 ATTAATT-ATAATA-TTTAATTTAATCAATTAAATAAT
* *
3392820 ATTAATTATAATATTTAATTTGAT-AATTAATTAAT
1 ATTAATTATAATATTTAATTTAATCAATTAAATAAT
*
3392855 ATTACTT-TAATAT
1 ATTAATTATAATAT
3392868 AATTAAATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
34 6 0.14
35 16 0.37
36 9 0.21
37 5 0.12
38 7 0.16
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.52
Consensus pattern (36 bp):
ATTAATTATAATATTTAATTTAATCAATTAAATAAT
Found at i:3392944 original size:29 final size:29
Alignment explanation
Indices: 3392912--3393142 Score: 127
Period size: 29 Copynumber: 7.9 Consensus size: 29
3392902 ATTAATCTTT
*
3392912 AATATTATTATATATTAAAATATTATTAA
1 AATAATATTATATATTAAAATATTATTAA
* * **
3392941 AATAGTA-TAGCATACAAAAATATTATTAA
1 AATAATATTA-TATATTAAAATATTATTAA
* *
3392970 ATTTAATATTTATATTATTAAAATAATT-TGAA
1 A-ATAATA-TTATA-TATTAAAAT-ATTATTAA
* * *
3393002 AATAATATAATAT-TTGAATTATTATT-A
1 AATAATATTATATATTAAAATATTATTAA
3393029 AATCAATATT-TCATATTAAAATATTATTAA
1 AAT-AATATTAT-ATATTAAAATATTATTAA
** * * *
3393059 TTTCAGATTCA-ATATTAATATATTATTAA
1 AATAATATT-ATATATTAAAATATTATTAA
* * * *
3393088 ATTAATAATTA-ATATT-ACATAATATTAT
1 AATAAT-ATTATATATTAAAATATTATTAA
* * *
3393116 AATATTGTTAAATATTAAAATATTATT
1 AATAATATTATATATTAAAATATTATT
3393143 CGATGTTAAA
Statistics
Matches: 152, Mismatches: 34, Indels: 32
0.70 0.16 0.15
Matches are distributed among these distances:
27 11 0.07
28 33 0.22
29 73 0.48
30 13 0.09
31 6 0.04
32 13 0.09
33 3 0.02
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (29 bp):
AATAATATTATATATTAAAATATTATTAA
Found at i:3393200 original size:29 final size:27
Alignment explanation
Indices: 3393148--3393235 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 27
3393138 TTATTCGATG
* * *
3393148 TTAAAATGCTTTTAAATTAATATTTAATA
1 TTAAAATACTATTAAA-TATTATTTAA-A
3393177 TTAAAATACTAGTTAAATATTATTTAAA
1 TTAAAATACTA-TTAAATATTATTTAAA
*
3393205 TAACATAATA-TATTAAATATTA-TTAAA
1 TTA-A-AATACTATTAAATATTATTTAAA
3393232 TTAA
1 TTAA
3393236 TATTTAACAT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
26 1 0.02
27 7 0.14
28 13 0.25
29 21 0.41
30 9 0.18
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.44
Consensus pattern (27 bp):
TTAAAATACTATTAAATATTATTTAAA
Found at i:3393231 original size:38 final size:40
Alignment explanation
Indices: 3393174--3393277 Score: 99
Period size: 39 Copynumber: 2.6 Consensus size: 40
3393164 TTAATATTTA
* *
3393174 ATATTAAAATACTAGTTAAATATTATTTAA-AT-AACATAAT
1 ATATT-AAATATTA-TTAAATATTATTTAACATCAAAATAAT
* *
3393214 ATATTAAATATTATTAAATTAATATTTAACATCAAAATATT
1 ATATTAAATATTATTAAA-TATTATTTAACATCAAAATAAT
* *
3393255 ATAAT-AATATT-TAAAATATTATT
1 ATATTAAATATTATTAAATATTATT
3393278 ATTTCAATAT
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
38 11 0.20
39 20 0.37
40 13 0.24
41 10 0.19
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (40 bp):
ATATTAAATATTATTAAATATTATTTAACATCAAAATAAT
Found at i:3393238 original size:21 final size:20
Alignment explanation
Indices: 3393069--3393334 Score: 66
Period size: 18 Copynumber: 13.7 Consensus size: 20
3393059 TTTCAGATTC
3393069 AATATTAATATATTATTAAAT
1 AATATTAA-ATATTATTAAAT
* * * *
3393090 --TAATAATTAATATTACAT
1 AATATTAAATATTATTAAAT
*
3393108 AATATTATAATATTGTTAAAT
1 AATATTA-AATATTATTAAAT
* **
3393129 -AT-TAAAATATTATTCGAT
1 AATATTAAATATTATTAAAT
* * *
3393147 -GT-TAAAATGCTT-TTAAATT
1 AATATTAAAT-ATTATTAAA-T
*
3393166 AATATTTAATATTA--AAAT
1 AATATTAAATATTATTAAAT
*
3393184 ACTAGTTAAATATTATTTAAAT
1 AATA-TTAAATATTA-TTAAAT
*
3393206 AACA-T-AATA-TATTAAAT
1 AATATTAAATATTATTAAAT
* *
3393223 ATTATTAAATTAATATT---T
1 AATATTAAA-TATTATTAAAT
* *
3393241 AACATCAAA-A-TATTATAAT
1 AATATTAAATATTATTA-AAT
**
3393260 AATATTTAAAATATTATTATTT
1 AATA-TT-AAATATTATTAAAT
* *
3393282 CAATATTTAATATTATTACAT
1 -AATATTAAATATTATTAAAT
* *
3393303 AAGA--AAATAATATTAAAGT
1 AATATTAAATATTATTAAA-T
*
3393322 AATATTGAATATT
1 AATATTAAATATT
3393335 GAATATTTTA
Statistics
Matches: 173, Mismatches: 44, Indels: 56
0.63 0.16 0.21
Matches are distributed among these distances:
15 4 0.02
16 1 0.01
17 8 0.05
18 53 0.31
19 36 0.21
20 16 0.09
21 36 0.21
22 10 0.06
23 9 0.05
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (20 bp):
AATATTAAATATTATTAAAT
Found at i:3393553 original size:16 final size:15
Alignment explanation
Indices: 3393503--3393556 Score: 58
Period size: 16 Copynumber: 3.6 Consensus size: 15
3393493 ATATTAAATT
*
3393503 TTTATTAAATTAATA
1 TTTATTAAATTAAAA
*
3393518 TTTA--ATATTAAAA
1 TTTATTAAATTAAAA
3393531 TATTATTAAATTAAAA
1 T-TTATTAAATTAAAA
3393547 TGTTATTAAA
1 T-TTATTAAA
3393557 ATGCTAATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 8 0.25
14 3 0.09
15 4 0.12
16 17 0.53
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
TTTATTAAATTAAAA
Found at i:3393658 original size:21 final size:21
Alignment explanation
Indices: 3393611--3393665 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
3393601 TAATATTTAA
*
3393611 TATTCAAATAATAGGAAATAG
1 TATTAAAATAATAGGAAATAG
* * **
3393632 TCTTAAAATAATAGTAAATCT
1 TATTAAAATAATAGGAAATAG
*
3393653 TATTAAACTAATA
1 TATTAAAATAATA
3393666 TTTACTATTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (21 bp):
TATTAAAATAATAGGAAATAG
Found at i:3393708 original size:10 final size:10
Alignment explanation
Indices: 3393693--3393718 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
3393683 AATATAAAAA
3393693 ATTATTTAAT
1 ATTATTTAAT
3393703 ATTATTTAAT
1 ATTATTTAAT
3393713 ATTATT
1 ATTATT
3393719 AAAAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
ATTATTTAAT
Found at i:3394410 original size:24 final size:24
Alignment explanation
Indices: 3394360--3394411 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
3394350 TATATGTAAT
*
3394360 AATACTACTAATAATTTATAAATA
1 AATACTACTAATAATTTAAAAATA
3394384 AATA-TAC-AATATATTTAAAAATCA
1 AATACTACTAATA-ATTTAAAAAT-A
3394408 AATA
1 AATA
3394412 AATAAGTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 4 0.16
23 12 0.48
24 9 0.36
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (24 bp):
AATACTACTAATAATTTAAAAATA
Found at i:3394415 original size:21 final size:22
Alignment explanation
Indices: 3394360--3394424 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 22
3394350 TATATGTAAT
*
3394360 AATACTACTAATAATTTATAAATA
1 AATA-TAC-AATAATTTAAAAATA
*
3394384 AATATACAATATATTTAAAAATC
1 AATATACAATA-ATTTAAAAATA
3394407 AA-ATA-AATAAGTTTAAAA
1 AATATACAATAA-TTTAAAA
3394425 GTATAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.30
22 7 0.19
23 14 0.38
24 4 0.11
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (22 bp):
AATATACAATAATTTAAAAATA
Found at i:3394768 original size:19 final size:18
Alignment explanation
Indices: 3394735--3394783 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
3394725 TATTTTTATT
3394735 AAATTAAAAAT-AATTACA
1 AAATTAAAAATAAATTA-A
3394753 AAATTAAAAATAAATTAA
1 AAATTAAAAATAAATTAA
3394771 AAATTACAAAATA
1 AAATTA-AAAATA
3394784 TATTTCATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 18 0.62
19 11 0.38
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (18 bp):
AAATTAAAAATAAATTAA
Found at i:3395762 original size:81 final size:81
Alignment explanation
Indices: 3395621--3395779 Score: 228
Period size: 81 Copynumber: 2.0 Consensus size: 81
3395611 AAATTTATGT
* * * * * * *
3395621 CGATAATATATCAAATATTAATTGTATATAAAAAATCACTGAATAATCAAATAAATAAATTAGAA
1 CGATAATATATAAAATACTAACTGTATATAAAAAATCACTAAATAATAAAACAAACAAATTAGAA
*
3395686 CATAACTAAATAAATC
66 CATAAATAAATAAATC
*
3395702 CGATAATATATAAAATACTAACTGTATATAAAAAATTACTAAATAATAAAACAAACAAATTAGAA
1 CGATAATATATAAAATACTAACTGTATATAAAAAATCACTAAATAATAAAACAAACAAATTAGAA
*
3395767 TATAAATAAATAA
66 CATAAATAAATAA
3395780 TTTAAGCATA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.28
Consensus pattern (81 bp):
CGATAATATATAAAATACTAACTGTATATAAAAAATCACTAAATAATAAAACAAACAAATTAGAA
CATAAATAAATAAATC
Found at i:3401121 original size:4 final size:4
Alignment explanation
Indices: 3401112--3401171 Score: 75
Period size: 4 Copynumber: 15.0 Consensus size: 4
3401102 AAGTGTCGCA
* * *
3401112 ATAT ATAT ATAT ATAT ATAT ATAT ATTT ATAT ACAT ATAT ATAT TTAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* *
3401160 TTAT GTAT ATAT
1 ATAT ATAT ATAT
3401172 TAGGCTCCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (4 bp):
ATAT
Found at i:3401135 original size:18 final size:18
Alignment explanation
Indices: 3401112--3401171 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
3401102 AAGTGTCGCA
*
3401112 ATATATATATATATATAT
1 ATATATATTTATATATAT
*
3401130 ATATATATTTATATACAT
1 ATATATATTTATATATAT
* *
3401148 ATATATATTTATTTATGT
1 ATATATATTTATATATAT
3401166 ATATAT
1 ATATAT
3401172 TAGGCTCCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (18 bp):
ATATATATTTATATATAT
Found at i:3403069 original size:3 final size:3
Alignment explanation
Indices: 3403050--3403093 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
3403040 CCTCCATTGA
* *
3403050 ATC ACC ATC ATC CTC ATC ATC ATC ATC ATC ATC AAT- ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC -ATC ATC ATC AT
3403094 AACTATCAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.89
4 2 0.06
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:3403435 original size:2 final size:2
Alignment explanation
Indices: 3403428--3403458 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3403418 GGGAAGAAAA
3403428 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
3403459 CGAAAAGAAT
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3405509 original size:30 final size:29
Alignment explanation
Indices: 3405471--3405557 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 29
3405461 AATTAAAAAA
3405471 ATAT-ATTTTGTATTAATATTAATTATAAT
1 ATATAATTTT-TATTAATATTAATTATAAT
*
3405500 ATATAATTTTTATATAAAATATAA-TATAAT
1 ATATAATTTTTAT-TAATAT-TAATTATAAT
*
3405530 ATATAAATTATTATT-ATATTATATTATA
1 ATAT-AATTTTTATTAATATTA-ATTATA
3405558 TAAATATGCA
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
28 2 0.04
29 11 0.22
30 25 0.51
31 11 0.22
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (29 bp):
ATATAATTTTTATTAATATTAATTATAAT
Found at i:3406409 original size:15 final size:17
Alignment explanation
Indices: 3406391--3406422 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
3406381 ATTATATTAA
3406391 AAAATT-TTAAA-ATTT
1 AAAATTATTAAATATTT
3406406 AAAATTATTAAATATTT
1 AAAATTATTAAATATTT
3406423 TATTATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAATTATTAAATATTT
Found at i:3406412 original size:28 final size:28
Alignment explanation
Indices: 3406353--3406413 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
3406343 ATAAGTTGTT
*
3406353 TATTA-ATTAAAAATTTCATAATTCAAA
1 TATTATATTAAAAATTTCAAAATTCAAA
* *
3406380 TATTATATTAAAAAATTTTAAAATTTAAA
1 TATTATATT-AAAAATTTCAAAATTCAAA
3406409 -ATTAT
1 TATTAT
3406414 TAAATATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 5 0.17
28 8 0.28
29 16 0.55
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (28 bp):
TATTATATTAAAAATTTCAAAATTCAAA
Found at i:3420413 original size:18 final size:18
Alignment explanation
Indices: 3420390--3420427 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
3420380 AAGTTGAGTT
3420390 AGTCGGATGAGAATTATG
1 AGTCGGATGAGAATTATG
3420408 AGTCGGATGAGAATTATG
1 AGTCGGATGAGAATTATG
3420426 AG
1 AG
3420428 GCATTTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTCGGATGAGAATTATG
Found at i:3429665 original size:2 final size:2
Alignment explanation
Indices: 3429660--3429693 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
3429650 GGTAATAGAA
* *
3429660 CT CT CT CT CT CT CT CT CT CT CT CC CT CT GT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
3429694 ATTCACTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.03, T:0.47
Consensus pattern (2 bp):
CT
Found at i:3433581 original size:364 final size:363
Alignment explanation
Indices: 3432912--3433614 Score: 821
Period size: 364 Copynumber: 1.9 Consensus size: 363
3432902 AATGGTAGGG
* * ** * * *
3432912 AGGGAGGGGCGCATTTTTCAGGGAGTGAAGGAATTGAGGGGAGGATGCAAGGAGGAAGGGTGGGC
1 AGGGAGGGACGCATTGTTCAGGGAGTGAAGGAATTGACAGGAAGATGCAAAGAGGAACGGTGGGC
* * * * * *
3432977 CAGATAAGAAGAAGAGGGGGAGAGAGAGAGAGCCCATAGTGTGTGAGAGACTAGAAAAGTTAAAG
66 CAGAGAAGAAGAAGAGGGGGAGAGAGAGAGAACCAATAATATCTGAGAGACTAGAAAAGTTAAAG
* * *
3433042 TGAGTGTATAAAGAAATAAAATGAAAATGGGATAATAGGAAGTCAAATGGATATTGTGAGCAATA
131 TGAGTGAATAAAGAAACAAAATGAAAATGGGATAATAGGAAATCAAATGGATA-TGTGAGCAATA
* * * * * *
3433107 CCCACGTTGAGAGGAAATTAATTTGGAGCATGTGAATTTCCTTATGAGAAAATGAAGAAGAGAAC
195 CCCACGTTGAGAGGAAATTAATTTGGAGCATGTAAATTCCCCTACGAGAAAAGGAAGAAAAGAAC
** * ** * *
3433172 AAGTTACAAAATCAGGATGAGTAAAAAGGATAAAATGGGGATCAT-AAGAAAAAGAGAAGAAAAT
260 AAGGAACAAAATCAGGATGAGTAAAAAGGAGAAAACAGAGATCATAAAAAAAAAGAGAAGAAAAT
3433236 GAAATAAAATTGGACGATAGGGAATAAAATGGTGGGGTA
325 GAAATAAAATTGGACGATAGGGAATAAAATGGTGGGGTA
* *
3433275 AGGGAGGGACTCATTGTTCAGGGGGTGAAGGAATTGACAGGAAGATGCAAAGAGGAACGGT-GGC
1 AGGGAGGGACGCATTGTTCAGGGAGTGAAGGAATTGACAGGAAGATGCAAAGAGGAACGGTGGGC
* * *
3433339 CTGGAGAAGAAGATGAAGGGGGAGCAAGAGAGAGATAACCAATAATATCTG-GAGACTAGAAAGG
66 C-AGAGAAGAAGAAG-AGGGGGAG--AGAGAGAG--AACCAATAATATCTGAGAGACTAGAAAAG
* * *
3433403 TTAAATTGCA-TGAATAAAGAAACAAAATGGAAAA-GGTAT-ATAGGAAATCTAATGGATA-GTG
125 TTAAAGTG-AGTGAATAAAGAAACAAAAT-GAAAATGGGATAATAGGAAATCAAATGGATATGTG
* * * *
3433464 TGCCATACCCATGTTGAG-GGAAAATTAGTTTGGAGCATGTAAATTCCCCTACGAGAAAAGGAAG
188 AGCAATACCCACGTTGAGAGG-AAATTAATTTGGAGCATGTAAATTCCCCTACGAGAAAAGGAAG
* ** *
3433528 AAAAGAACAGGGAATGAAAT-TGGAATGAGTAAAAAGGAGAAAACAGAGATCATAAAAAAAAAGA
252 AAAAGAACAAGGAACAAAATCAGG-ATGAGTAAAAAGGAGAAAACAGAGATCATAAAAAAAAAGA
* *
3433592 TAAGAATATGAAATAAAATTGGA
316 GAAGAAAATGAAATAAAATTGGA
3433615 GAATAGGAAA
Statistics
Matches: 282, Mismatches: 47, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
362 4 0.01
363 66 0.23
364 102 0.36
365 30 0.11
366 25 0.09
367 39 0.14
368 16 0.06
ACGTcount: A:0.44, C:0.08, G:0.30, T:0.18
Consensus pattern (363 bp):
AGGGAGGGACGCATTGTTCAGGGAGTGAAGGAATTGACAGGAAGATGCAAAGAGGAACGGTGGGC
CAGAGAAGAAGAAGAGGGGGAGAGAGAGAGAACCAATAATATCTGAGAGACTAGAAAAGTTAAAG
TGAGTGAATAAAGAAACAAAATGAAAATGGGATAATAGGAAATCAAATGGATATGTGAGCAATAC
CCACGTTGAGAGGAAATTAATTTGGAGCATGTAAATTCCCCTACGAGAAAAGGAAGAAAAGAACA
AGGAACAAAATCAGGATGAGTAAAAAGGAGAAAACAGAGATCATAAAAAAAAAGAGAAGAAAATG
AAATAAAATTGGACGATAGGGAATAAAATGGTGGGGTA
Found at i:3437443 original size:32 final size:32
Alignment explanation
Indices: 3437402--3437464 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
3437392 CTTAGAGAAG
3437402 GTCTGAAATTAACCATTTAGTTTGGCATATAA
1 GTCTGAAATTAACCATTTAGTTTGGCATATAA
3437434 GTCTGAAATTAACCATTTAGTTTGGCATATA
1 GTCTGAAATTAACCATTTAGTTTGGCATATA
3437465 TGTGCTTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (32 bp):
GTCTGAAATTAACCATTTAGTTTGGCATATAA
Found at i:3439528 original size:179 final size:178
Alignment explanation
Indices: 3439188--3439544 Score: 560
Period size: 178 Copynumber: 2.0 Consensus size: 178
3439178 CTATATTTTG
3439188 TTTGTTTTTATTGTATCTAAGAGGTACTCTCCTTTTGGGACACGTGTTTAGAGAGGTAATTCTTC
1 TTTGTTTTTATTGTATCTAAGAGGTACTCTCCTTTTGGGACACGTGTTTAGAGAGGTAATTCTTC
* *
3439253 AAATAAGCAGTACAGGAAAGGTGAGCTATATATAAAACATTGTGCTTATCTCATTGAAGATCTCA
66 AAATAAGCAGAACAGGAAAGGTGAGCTATATATAAAAAATTGTGCTTATCTCATTGAAGATCTCA
* *
3439318 GTGCAACTGAAAATGGGATTATTAATAACCTGGTTTGTATGTTGAGGA
131 CTGCAACTGAAAATGGGATTATTAATAACCTGGTTTGTATGATGAGGA
* **
3439366 TTTGTTTTTATTGTATTTAAGAGGTACTCTCCCTTTT-GGATGC-TGGTTTAGAGAGGTAATTCT
1 TTTGTTTTTATTGTATCTAAGAGGTACTCT-CCTTTTGGGACACGT-GTTTAGAGAGGTAATTCT
* *
3439429 TCAAATAAGCAGAATAGGAAAGGTGAGCTATATATAAAAAAATTGCT-CTTATCTCATTGAAGGT
64 TCAAATAAGCAGAACAGGAAAGGTGAGCTATATAT-AAAAAATTG-TGCTTATCTCATTGAAGAT
3439493 CTCACTG-ACACTGAAAATGGGATTATTAATAACCTGGTTTGTATGATGAGGA
127 CTCACTGCA-ACTGAAAATGGGATTATTAATAACCTGGTTTGTATGATGAGGA
3439545 AATTAACTAT
Statistics
Matches: 165, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
177 1 0.01
178 85 0.52
179 78 0.47
180 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.36
Consensus pattern (178 bp):
TTTGTTTTTATTGTATCTAAGAGGTACTCTCCTTTTGGGACACGTGTTTAGAGAGGTAATTCTTC
AAATAAGCAGAACAGGAAAGGTGAGCTATATATAAAAAATTGTGCTTATCTCATTGAAGATCTCA
CTGCAACTGAAAATGGGATTATTAATAACCTGGTTTGTATGATGAGGA
Found at i:3442658 original size:2 final size:2
Alignment explanation
Indices: 3442651--3442675 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3442641 AATTATTTGA
3442651 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
3442676 AATTGTTTGT
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:3456889 original size:18 final size:18
Alignment explanation
Indices: 3456866--3456953 Score: 62
Period size: 18 Copynumber: 5.1 Consensus size: 18
3456856 CTTGGTTATT
3456866 ATCCACCAT-AAATGTATC
1 ATCCACC-TCAAATGTATC
3456884 ATCCACCTCAAATGTATC
1 ATCCACCTCAAATGTATC
*
3456902 --CCTCACTACAAATGTATC
1 ATCCAC-CT-CAAATGTATC
* * *
3456920 -T--TCTTCAAATATATC
1 ATCCACCTCAAATGTATC
*
3456935 ATCCACTTCAAATGTATC
1 ATCCACCTCAAATGTATC
3456953 A
1 A
3456954 AGAACAAATG
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
15 9 0.16
16 5 0.09
17 5 0.09
18 39 0.67
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.32
Consensus pattern (18 bp):
ATCCACCTCAAATGTATC
Done.