Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 38 of 190
Found at i:6577336 original size:16 final size:16
Alignment explanation
Indices: 6577296--6577338 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 16
6577286 TAATAATAAT
6577296 AAATAAATAAATAAATA
1 AAATAAA-AAATAAATA
6577313 AAATAAAAAATAAATGA
1 AAATAAAAAATAAAT-A
6577330 AAA-AAAAAA
1 AAATAAAAAA
6577339 CCTTGGAACG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.16
Consensus pattern (16 bp):
AAATAAAAAATAAATA
Found at i:6577336 original size:21 final size:21
Alignment explanation
Indices: 6577280--6577336 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
6577270 TAATCTAATC
* *
6577280 AATAAATAATAATAATAAATA
1 AATAAATAAAAAAAATAAATA
*
6577301 AATAAATAAATAAAATAAA-A
1 AATAAATAAAAAAAATAAATA
6577321 AATAAATGAAAAAAAA
1 AATAAAT-AAAAAAAA
6577337 AACCTTGGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.26
21 23 0.74
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (21 bp):
AATAAATAAAAAAAATAAATA
Found at i:6578161 original size:22 final size:22
Alignment explanation
Indices: 6578102--6578162 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
6578092 TCAAGAAAAA
* *
6578102 AGATAAAATAAAATATATATTAAT
1 AGAT-AAATAATA-ATATATGAAT
* *
6578126 AGATAAACAGTAATATATGAAT
1 AGATAAATAATAATATATGAAT
6578148 AGATAAATAATAATA
1 AGATAAATAATAATA
6578163 ATAATATATA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
22 22 0.71
23 5 0.16
24 4 0.13
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.30
Consensus pattern (22 bp):
AGATAAATAATAATATATGAAT
Found at i:6578283 original size:19 final size:18
Alignment explanation
Indices: 6578228--6578286 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
6578218 TGAGAAAAGA
*
6578228 AAATAATAAAATAATAA-
1 AAATAATAATATAATAAT
* * *
6578245 AAA-AATTATATATTAGT
1 AAATAATAATATAATAAT
6578262 AAATAATAATAGTAATAAT
1 AAATAATAATA-TAATAAT
6578281 AAATAA
1 AAATAA
6578287 ATAAATAAGA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
16 9 0.28
17 6 0.19
18 6 0.19
19 11 0.34
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
AAATAATAATATAATAAT
Found at i:6578309 original size:22 final size:22
Alignment explanation
Indices: 6578281--6578336 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
6578271 TAGTAATAAT
* *
6578281 AAATAAATAAATAAGATACAAA
1 AAATAAATAAACAAAATACAAA
6578303 AAATAAA-AATACAAAATACAAA
1 AAATAAATAA-ACAAAATACAAA
*
6578325 ATAAAAAATAAA
1 A-AATAAATAAA
6578337 AAATAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.07
22 18 0.64
23 6 0.21
24 2 0.07
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (22 bp):
AAATAAATAAACAAAATACAAA
Found at i:6578312 original size:6 final size:6
Alignment explanation
Indices: 6578301--6578349 Score: 55
Period size: 6 Copynumber: 7.7 Consensus size: 6
6578291 ATAAGATACA
6578301 AAAAAT AAAAAT ACAAAAT ACAAAAT AAAAAAT AAAAA- ATAAAAT AAAA
1 AAAAAT AAAAAT A-AAAAT A-AAAAT -AAAAAT AAAAAT A-AAAAT AAAA
6578350 TGGGCTTACC
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
5 1 0.03
6 19 0.49
7 18 0.46
8 1 0.03
ACGTcount: A:0.82, C:0.04, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:6578325 original size:20 final size:18
Alignment explanation
Indices: 6578302--6578349 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 18
6578292 TAAGATACAA
6578302 AAAATAAAAATACAAAATAC
1 AAAATAAAAATA-AAAA-AC
*
6578322 AAAATAAAAAATAAAAAAT
1 AAAAT-AAAAATAAAAAAC
6578341 AAAATAAAA
1 AAAATAAAA
6578350 TGGGCTTACC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 4 0.15
19 6 0.23
20 9 0.35
21 7 0.27
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAATAAAAATAAAAAAC
Found at i:6578343 original size:7 final size:7
Alignment explanation
Indices: 6578275--6578344 Score: 70
Period size: 7 Copynumber: 10.0 Consensus size: 7
6578265 TAATAATAGT
*
6578275 AATAATA
1 AATAAAA
6578282 AATAAATA
1 AATAAA-A
*
6578290 AATAAGA
1 AATAAAA
* *
6578297 TACAAAA
1 AATAAAA
6578304 AAT-AAA
1 AATAAAA
*
6578310 AATACAA
1 AATAAAA
*
6578317 AATACAA
1 AATAAAA
6578324 AATAAAA
1 AATAAAA
6578331 AATAAAA
1 AATAAAA
6578338 AATAAAA
1 AATAAAA
6578345 TAAAATGGGC
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
6 6 0.12
7 40 0.77
8 6 0.12
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.17
Consensus pattern (7 bp):
AATAAAA
Found at i:6578796 original size:82 final size:83
Alignment explanation
Indices: 6578517--6578873 Score: 472
Period size: 83 Copynumber: 4.3 Consensus size: 83
6578507 TCAAGGTTCT
* * * *
6578517 TCTAAGCAAAGGCTCAACGACTGTGAAAAACATAAACAAAGCTCCTCTAATCAGAGGCTCAACAA
1 TCTAATCAGAGGCTCAACGACT-TGAAACA-ATAAACAAAGCTCCTCTAAACAGAGGCTCAACAA
*
6578582 CTTTGAAAATAAATGGCTCC
64 CTTTGAAAATAAATGGCTCA
* * *
6578602 TCTGAAT-AGAGGCTCAACGACTTTGAAA-AATAAATAAAGCTCTTCTAAACAGAGGCTCAACGA
1 TCT-AATCAGAGGCTCAACGAC-TTGAAACAATAAACAAAGCTCCTCTAAACAGAGGCTCAACAA
* ** *
6578665 CTTTAAAAAATAAATTACTCC
64 CTTT-GAAAATAAATGGCTCA
* *
6578686 TCTAATTAGAGGCTCAATGACTT-AAACAATAAACAAAGCTCCTCTAAACAGAGGCTCAACAACT
1 TCTAATCAGAGGCTCAACGACTTGAAACAATAAACAAAGCTCCTCTAAACAGAGGCTCAACAACT
6578750 TTGAAAATAAATGGCTCA
66 TTGAAAATAAATGGCTCA
*
6578768 TCTAATCAGAGGCTCAACGACTT-AAACAATAAACAAAGCTCCTCTAAATAGAGGCTCAACGAA-
1 TCTAATCAGAGGCTCAACGACTTGAAACAATAAACAAAGCTCCTCTAAACAGAGGCTCAAC-AAC
6578831 TTTGAAAAATAAATGGCTCA
65 TTTG-AAAATAAATGGCTCA
*
6578851 TCTAATTAGAGGCTCAACGACTT
1 TCTAATCAGAGGCTCAACGACTT
6578874 TTGAAAAGTA
Statistics
Matches: 244, Mismatches: 21, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
82 76 0.31
83 114 0.47
84 30 0.12
85 21 0.09
86 3 0.01
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (83 bp):
TCTAATCAGAGGCTCAACGACTTGAAACAATAAACAAAGCTCCTCTAAACAGAGGCTCAACAACT
TTGAAAATAAATGGCTCA
Found at i:6579944 original size:9 final size:9
Alignment explanation
Indices: 6579932--6579975 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
6579922 TTTTTTTTCA
6579932 TCATTTTTT
1 TCATTTTTT
6579941 TCATTTTTT
1 TCATTTTTT
6579950 TCA----TT
1 TCATTTTTT
*
6579955 TCATTTTTC
1 TCATTTTTT
6579964 TCATTTTTT
1 TCATTTTTT
6579973 TCA
1 TCA
6579976 AGCATAGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
5 5 0.17
9 24 0.83
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (9 bp):
TCATTTTTT
Found at i:6579947 original size:21 final size:22
Alignment explanation
Indices: 6579923--6579975 Score: 81
Period size: 23 Copynumber: 2.4 Consensus size: 22
6579913 TTTTTCCCTT
*
6579923 TTTTTTTCA-TCATTTTTTTCA
1 TTTTTTTCATTCATTTTTCTCA
6579944 TTTTTTTCATTTCATTTTTCTCA
1 TTTTTTTCA-TTCATTTTTCTCA
6579967 TTTTTTTCA
1 TTTTTTTCA
6579976 AGCATAGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 9 0.31
23 20 0.69
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTTTTCATTCATTTTTCTCA
Found at i:6579956 original size:14 final size:14
Alignment explanation
Indices: 6579939--6579969 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6579929 TCATCATTTT
*
6579939 TTTCATTTTTTTCA
1 TTTCATTTTTCTCA
6579953 TTTCATTTTTCTCA
1 TTTCATTTTTCTCA
6579967 TTT
1 TTT
6579970 TTTTCAAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTCATTTTTCTCA
Found at i:6587202 original size:15 final size:15
Alignment explanation
Indices: 6587182--6587212 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6587172 TGTTAAGTGT
*
6587182 AATGAATAAGAATGC
1 AATGAATAAAAATGC
6587197 AATGAATAAAAATGC
1 AATGAATAAAAATGC
6587212 A
1 A
6587213 TGTATGCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.16, T:0.19
Consensus pattern (15 bp):
AATGAATAAAAATGC
Found at i:6590565 original size:57 final size:58
Alignment explanation
Indices: 6590413--6590624 Score: 301
Period size: 57 Copynumber: 3.7 Consensus size: 58
6590403 TTTTGTACAT
* *
6590413 GAAAAATTGATACTTTCAAC-TTTT-TCAAAAATGTTTTTCT-G-AAACTTTAATTTCGAA
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTT-TAGAAAAC-TTATTTTC-AA
* *
6590470 G-AAAATTAATACTTTCAACTTTTTCTCGAAAATATTTTTTAGAAAACTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTCAA
*
6590527 GAAAAATTGATACTTTCAACTTTTTCTC-AAAATATTTTTTAGAAAACTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTCAA
*
6590584 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
1 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT
6590625 TTAGGATTTT
Statistics
Matches: 142, Mismatches: 7, Indels: 11
0.89 0.04 0.07
Matches are distributed among these distances:
56 17 0.12
57 64 0.45
58 57 0.40
59 4 0.03
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTCAA
Found at i:6590605 original size:30 final size:30
Alignment explanation
Indices: 6590514--6590605 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 30
6590504 TTTTTTAGAA
*
6590514 AACTTATTTTCAAGAAAAATTGATACTTTC
1 AACTTATTTTTAAGAAAAATTGATACTTTC
* * * *
6590544 AACTT-TTTCTCA-AAATATT--T--TTTAGAA
1 AACTTATTTTTAAGAAAAATTGATACTTT---C
6590571 AACTTATTTTTAAGAAAAATTGATACTTTC
1 AACTTATTTTTAAGAAAAATTGATACTTTC
6590601 AACTT
1 AACTT
6590606 TTCCTCAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 18
0.62 0.13 0.25
Matches are distributed among these distances:
24 3 0.07
26 1 0.02
27 5 0.11
28 11 0.25
29 10 0.23
30 10 0.23
31 1 0.02
33 3 0.07
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.43
Consensus pattern (30 bp):
AACTTATTTTTAAGAAAAATTGATACTTTC
Found at i:6590619 original size:115 final size:114
Alignment explanation
Indices: 6590413--6590624 Score: 304
Period size: 115 Copynumber: 1.9 Consensus size: 114
6590403 TTTTGTACAT
*
6590413 GAAAAATTGATACTTTCAACTTTTTCAAAAATGTTTTTCTGAAACTTTAATTTCGAAGAAAATTA
1 GAAAAATTGATACTTTCAACTTTTTCAAAAATATTTTTCTGAAACTTTAATTTCGAAGAAAATTA
* *
6590478 ATACTTTCAACTTTTTCTCGAAAATATTTTTTAGAAAACTTATTTTCAA
66 ATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAA
* **
6590527 GAAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTT-TAGAAAAC-TT-ATTTTTAAGAAAA
1 GAAAAATTGATACTTTCAACTTTTTC-AAAAATATTTTTCT-G-AAACTTTAATTTCGAAG-AAA
*
6590589 ATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
62 ATTAATACTTTCAACTTTTCCTCAAAAATATTTTTT
6590625 TTAGGATTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
114 34 0.39
115 49 0.56
116 4 0.05
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (114 bp):
GAAAAATTGATACTTTCAACTTTTTCAAAAATATTTTTCTGAAACTTTAATTTCGAAGAAAATTA
ATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAA
Found at i:6590660 original size:5 final size:5
Alignment explanation
Indices: 6590650--6590688 Score: 60
Period size: 5 Copynumber: 7.4 Consensus size: 5
6590640 AAAGAAAATC
6590650 AATAA AATAA AATAA AATAAA AATAA AATAA AATTAA AA
1 AATAA AATAA AATAA AAT-AA AATAA AATAA AA-TAA AA
6590689 ATACTAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 22 0.69
6 10 0.31
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:6590674 original size:11 final size:11
Alignment explanation
Indices: 6590650--6590688 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
6590640 AAAGAAAATC
6590650 AATAAAAT-AA
1 AATAAAATAAA
6590660 AATAAAATAAA
1 AATAAAATAAA
6590671 AATAAAATAAA
1 AATAAAATAAA
*
6590682 ATTAAAA
1 AATAAAA
6590689 ATACTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:6590674 original size:16 final size:17
Alignment explanation
Indices: 6590653--6590691 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
6590643 GAAAATCAAT
6590653 AAAATAAAATAAAA-TA
1 AAAATAAAATAAAATTA
6590669 AAAATAAAATAAAATTA
1 AAAATAAAATAAAATTA
6590686 AAAATA
1 AAAATA
6590692 CTAAATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAATAAAATAAAATTA
Found at i:6591581 original size:22 final size:22
Alignment explanation
Indices: 6591546--6591601 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
6591536 AAAAGATAAA
* *
6591546 ATAAAAAAT-ATATATTAATAG
1 ATAAATAATAATATATGAATAG
*
6591567 ATAAATAGTAATATATGAATAG
1 ATAAATAATAATATATGAATAG
6591589 ATAAATAATAATA
1 ATAAATAATAATA
6591602 AAATATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 7 0.23
22 23 0.77
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (22 bp):
ATAAATAATAATATATGAATAG
Found at i:6591613 original size:51 final size:52
Alignment explanation
Indices: 6591545--6591650 Score: 153
Period size: 51 Copynumber: 2.1 Consensus size: 52
6591535 AAAAAGATAA
* * *
6591545 AATAAAAAATATATATTAATAGATAAATAGTAATAT-A-TGAATAGATAAAT
1 AATAAAAAATATATATTAACAGATAAATAATAAAATAAGTGAATAGATAAAT
*
6591595 AATAATAAAATATATATTAACAGATAAATAATAAAATAAGTTAATAGATAAAT
1 AATAA-AAAATATATATTAACAGATAAATAATAAAATAAGTGAATAGATAAAT
6591648 AAT
1 AAT
6591651 TGACAAAAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
50 5 0.10
51 28 0.57
52 1 0.02
53 15 0.31
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.31
Consensus pattern (52 bp):
AATAAAAAATATATATTAACAGATAAATAATAAAATAAGTGAATAGATAAAT
Found at i:6592114 original size:15 final size:15
Alignment explanation
Indices: 6592096--6592142 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
6592086 TATTAAAGTA
6592096 ATAAAAAATAAATAT
1 ATAAAAAATAAATAT
* * *
6592111 ATAAGCAATTTAA-AT
1 ATAA-AAAATAAATAT
6592126 ATAAAAAATAAATAT
1 ATAAAAAATAAATAT
6592141 AT
1 AT
6592143 TTTTTAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 5 0.21
15 14 0.58
16 5 0.21
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (15 bp):
ATAAAAAATAAATAT
Found at i:6594664 original size:26 final size:23
Alignment explanation
Indices: 6594614--6594663 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
6594604 ATTTCAAAAA
*
6594614 TTAAAAAATTTCAAACTTAAATT
1 TTAAAAAATTTCAAAATTAAATT
*
6594637 TTAATAAAATTTTCAAAATTATATT
1 TTAA-AAAA-TTTCAAAATTAAATT
6594662 TT
1 TT
6594664 TTAATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 4 0.17
25 15 0.65
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (23 bp):
TTAAAAAATTTCAAAATTAAATT
Found at i:6594797 original size:498 final size:497
Alignment explanation
Indices: 6594164--6595121 Score: 1480
Period size: 498 Copynumber: 1.9 Consensus size: 497
6594154 TTTACACTAA
* *
6594164 ATTTTTTAATTTTTAGTTTTTAATCTTAAAAGTAATATATCATAAAATGCTAAATTTATTAAGTA
1 ATTTTTTAATTTTTAGTTTTTAATCTTAAAAGTAATAGATCATAAAACGCTAAATTTATTAAGTA
* * *
6594229 ATTTAATCTGTTTAATATACTAATTGATATAAATTTTTTATTACAAATAACTTTCAATAATTATA
66 ACTTAATCTGTTTAATACACTAATTGATATAAATTTTTTATCACAAATAACTTTCAATAATTATA
*
6594294 TAATAAATACAATCTTCAATAATTACACAAAAATAATAAGAATTAATCTAATATTAAAAAAATTG
131 TAATAAATACAATCTTCAATAATTACACAAAAATAATAAGAATTAATCTAATATCAAAAAAATTG
* * *
6594359 ACAACAATATAAATAACAAAACAACAAAAAAATTATTAAATTTTAGATACAAAATTTTAAATTAA
196 ACAACAATATAAATAACAAAACAACAAAAAAATTACTAAATTTTAAATACAAAATTATAAATTAA
* * *
6594424 GATATAACATAATCAAAATATAATATTTAATTTTAATTAACTTTCATCTAACTTTTAC-AAAAAA
261 GATATAACAAAATCAAAATATAACATTTAATTTTAATTAACTTTCATCTAACTTATACAAAAAAA
* * *
6594488 ATTTATCAAAATTTTGTCATCTAAAATCTCTATATATATCATAT-TA-A-ATT-ATTA-ATCC-C
326 AATTATC-AAATTTT-TCATCTAAAATCTATATATATAT-ATATATATATATTAATTATAACCAC
** *
6594547 TTAATTTTTTTTTAATTATAAATCTTCAATCCCTCTAATTAGATTTTATCTAAAAAAATTTCAAA
388 TTAA--TTTTTTTAATTATAAATCTTCAAAACCTCTAATTAAATTTTATCTAAAAAAATTTCAAA
6594612 AATTAAAAAATTTCAAACTTAAATTTTAATAAAATTTTCAAAATTAT
451 AATTAAAAAATTTCAAACTTAAATTTTAATAAAATTTTCAAAATTAT
*
6594659 ATTTTTTAATTTTTAGTTTTTAATCTTAATAAGAATAATAGATCATAAAACGTTAAATTTATTAA
1 ATTTTTTAATTTTTAGTTTTTAATCTTAA-AAG--TAATAGATCATAAAACGCTAAATTTATTAA
* * * *
6594724 GTAACTTAATCTTTTTGATACACTAATTGATATAAATTTTTTATCATAAATTACTTTCAATAATT
63 GTAACTTAATCTGTTTAATACACTAATTGATATAAATTTTTTATCACAAATAACTTTCAATAATT
* *
6594789 ATATAATAAATAGAATCTTCAATAATTACACAAAAATAATAAGAATTAATCTAATATCAAAATAA
128 ATATAATAAATACAATCTTCAATAATTACACAAAAATAATAAGAATTAATCTAATATCAAAAAAA
*
6594854 TTGACAACAATATAAATACCAAAACAACAAAAAAATTACTAAATTTTAAATACAAAATTATAAAT
193 TTGACAACAATATAAATAACAAAACAACAAAAAAATTACTAAATTTTAAATACAAAATTATAAAT
* * **
6594919 TAATATATAACAAAATTAAAATATAACATTTAATTTTAATTATTTTTCATCTAACTTATACAAAA
258 TAAGATATAACAAAATCAAAATATAACATTTAATTTTAATTAACTTTCATCTAACTTATAC-AAA
6594984 AAAAAATTATCAAATTTTTCATCTAAAATCTATATATATATATATATATTATATTAAATTATTAA
322 AAAAAATTATCAAATTTTTCATCTAAAATCTATATATATATATATATA-TATATT-AATTA-TAA
*
6595049 CCACTTAATTTTTTTAATTATAAATTTTCAAAACCTCTAATTAAATTTTATCTAAAAAAATTTCA
384 CCACTTAATTTTTTTAATTATAAATCTTCAAAACCTCTAATTAAATTTTATCTAAAAAAATTTCA
6595114 AAAATTAA
449 AAAATTAA
6595122 TTATAAAATT
Statistics
Matches: 418, Mismatches: 31, Indels: 19
0.89 0.07 0.04
Matches are distributed among these distances:
495 29 0.07
496 3 0.01
497 4 0.01
498 286 0.68
499 7 0.02
500 13 0.03
501 3 0.01
503 4 0.01
504 61 0.15
505 3 0.01
506 5 0.01
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.40
Consensus pattern (497 bp):
ATTTTTTAATTTTTAGTTTTTAATCTTAAAAGTAATAGATCATAAAACGCTAAATTTATTAAGTA
ACTTAATCTGTTTAATACACTAATTGATATAAATTTTTTATCACAAATAACTTTCAATAATTATA
TAATAAATACAATCTTCAATAATTACACAAAAATAATAAGAATTAATCTAATATCAAAAAAATTG
ACAACAATATAAATAACAAAACAACAAAAAAATTACTAAATTTTAAATACAAAATTATAAATTAA
GATATAACAAAATCAAAATATAACATTTAATTTTAATTAACTTTCATCTAACTTATACAAAAAAA
AATTATCAAATTTTTCATCTAAAATCTATATATATATATATATATATATTAATTATAACCACTTA
ATTTTTTTAATTATAAATCTTCAAAACCTCTAATTAAATTTTATCTAAAAAAATTTCAAAAATTA
AAAAATTTCAAACTTAAATTTTAATAAAATTTTCAAAATTAT
Found at i:6594936 original size:16 final size:16
Alignment explanation
Indices: 6594915--6594946 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6594905 ACAAAATTAT
*
6594915 AAATTAATATATAACA
1 AAATTAAAATATAACA
6594931 AAATTAAAATATAACA
1 AAATTAAAATATAACA
6594947 TTTAATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATTAAAATATAACA
Found at i:6595178 original size:15 final size:15
Alignment explanation
Indices: 6595158--6595201 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
6595148 CGCCCCCACT
*
6595158 CCCCACTCCATCCCA
1 CCCCACTCAATCCCA
*
6595173 CCCCACTCAATCCTA
1 CCCCACTCAATCCCA
*
6595188 CCCCACCCAATCCC
1 CCCCACTCAATCCC
6595202 TCATCCACCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.23, C:0.64, G:0.00, T:0.14
Consensus pattern (15 bp):
CCCCACTCAATCCCA
Found at i:6595690 original size:6 final size:6
Alignment explanation
Indices: 6595679--6595707 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
6595669 TTATTCTATG
6595679 CTTTTA CTTTTA CTTTTA CTTTTA CTTTT
1 CTTTTA CTTTTA CTTTTA CTTTTA CTTTT
6595708 GCAAGCTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (6 bp):
CTTTTA
Found at i:6596836 original size:21 final size:25
Alignment explanation
Indices: 6596809--6596886 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 25
6596799 ATCTTTGAAT
6596809 TATTTTATATTTT-TTA-A-ATAAA
1 TATTTTATATTTTATTATATATAAA
6596831 T-TTTTATACTTTTATTATATATAAA
1 TATTTTATA-TTTTATTATATATAAA
*
6596856 TAATGTTTATATTTTAATTAATATTTAAA
1 T-AT-TTTATATTTT-ATT-ATATATAAA
6596885 TA
1 TA
6596887 AATTTTTTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
21 7 0.15
22 5 0.11
23 3 0.07
24 1 0.02
25 6 0.13
27 5 0.11
28 10 0.22
29 9 0.20
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (25 bp):
TATTTTATATTTTATTATATATAAA
Found at i:6596843 original size:29 final size:28
Alignment explanation
Indices: 6596809--6596897 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 28
6596799 ATCTTTGAAT
6596809 TATTTTATATTTTTTAAATAAATTTTTA
1 TATTTTATATTTTTTAAATAAATTTTTA
* * *
6596837 TACTTTTAT-TATATATAAAT-AATGTTTA
1 TA-TTTTATAT-TTTTTAAATAAATTTTTA
6596865 TATTTTA-ATTAATATTTAAATAAATTTTT-
1 TATTTTATATT--T-TTTAAATAAATTTTTA
6596894 TATT
1 TATT
6596898 CTTTAAAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
26 1 0.02
27 6 0.12
28 12 0.25
29 23 0.48
30 6 0.12
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (28 bp):
TATTTTATATTTTTTAAATAAATTTTTA
Found at i:6596875 original size:28 final size:29
Alignment explanation
Indices: 6596823--6596887 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
6596813 TTATATTTTT
*
6596823 TAAATAAATTTTTATACTTTTATT-ATATA
1 TAAAT-AATGTTTATACTTTTATTAATATA
*
6596852 TAAATAATGTTTATA-TTTTAATTAATATT
1 TAAATAATGTTTATACTTTT-ATTAATATA
6596881 TAAATAA
1 TAAATAA
6596888 ATTTTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 4 0.12
28 12 0.38
29 16 0.50
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (29 bp):
TAAATAATGTTTATACTTTTATTAATATA
Found at i:6596993 original size:13 final size:13
Alignment explanation
Indices: 6596971--6597007 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
6596961 ATCTTATTAA
6596971 ATAA-AAATAATT
1 ATAATAAATAATT
6596983 ATAATAAATAA-T
1 ATAATAAATAATT
6596995 ATATATAAATAAT
1 ATA-ATAAATAAT
6597008 GAAATATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATAATAAATAATT
Found at i:6597757 original size:27 final size:27
Alignment explanation
Indices: 6597727--6597783 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
6597717 AAATGTTAAT
* * *
6597727 TGTTAAATAGAAACGTTAAATAAAAAC
1 TGTTAAACAAAAACATTAAATAAAAAC
6597754 TGTTAAACAAAAACATTAAATAAAAAC
1 TGTTAAACAAAAACATTAAATAAAAAC
6597781 TGT
1 TGT
6597784 AATCAAACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.26
Consensus pattern (27 bp):
TGTTAAACAAAAACATTAAATAAAAAC
Found at i:6597760 original size:14 final size:14
Alignment explanation
Indices: 6597727--6597783 Score: 73
Period size: 13 Copynumber: 4.2 Consensus size: 14
6597717 AAATGTTAAT
*
6597727 TGTTAAATAGAAAC
1 TGTTAAATAAAAAC
6597741 -GTTAAATAAAAAC
1 TGTTAAATAAAAAC
*
6597754 TGTTAAACAAAAAC
1 TGTTAAATAAAAAC
*
6597768 -ATTAAATAAAAAC
1 TGTTAAATAAAAAC
6597781 TGT
1 TGT
6597784 AATCAAACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
13 23 0.64
14 13 0.36
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.26
Consensus pattern (14 bp):
TGTTAAATAAAAAC
Found at i:6598215 original size:40 final size:40
Alignment explanation
Indices: 6598160--6598239 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
6598150 CTTACCCAAA
*
6598160 TTGGATGAGGATTAATGTTTGA-GCTGGTCATTAAATAATG
1 TTGGATGAGGATTAATGTTT-ATGCTGGTCATTAAACAATG
6598200 TTGGATGAGGATTAATGTTTATGCTGGTCATTAAACAATG
1 TTGGATGAGGATTAATGTTTATGCTGGTCATTAAACAATG
6598240 AAAAACAGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
39 1 0.03
40 37 0.97
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (40 bp):
TTGGATGAGGATTAATGTTTATGCTGGTCATTAAACAATG
Found at i:6601588 original size:32 final size:33
Alignment explanation
Indices: 6601527--6601589 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
6601517 CTTTTTTGTC
6601527 GATACAATAAATATAAAAATAAAATATGCTTTT
1 GATACAATAAATATAAAAATAAAATATGCTTTT
6601560 GATACAATAAATATAAAAA-AAAATATGCTT
1 GATACAATAAATATAAAAATAAAATATGCTT
6601590 GTTTAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 11 0.37
33 19 0.63
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.30
Consensus pattern (33 bp):
GATACAATAAATATAAAAATAAAATATGCTTTT
Found at i:6612942 original size:88 final size:88
Alignment explanation
Indices: 6612793--6612958 Score: 260
Period size: 88 Copynumber: 1.9 Consensus size: 88
6612783 TTTACCTAAT
* * * * *
6612793 AGATCATTACATTTACAAATGAATGAAAATCTCAAACCATGTAAGTAACCTCTAACAGTATAGCA
1 AGATCATTACACTTACAAATAAATGAAAACCTCAAACCATGTAAATAACCTCTAACAGTATAACA
6612858 TGACAAAACAAAGGTTACTTTGG
66 TGACAAAACAAAGGTTACTTTGG
* * *
6612881 AGATCGTTACACTTACAAATAAATGAAAACCTCAGACCATGTAAATAACCTCTAATAGTATAACA
1 AGATCATTACACTTACAAATAAATGAAAACCTCAAACCATGTAAATAACCTCTAACAGTATAACA
6612946 TGACAAAACAAAG
66 TGACAAAACAAAG
6612959 TTGTTAGTAA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 70 1.00
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (88 bp):
AGATCATTACACTTACAAATAAATGAAAACCTCAAACCATGTAAATAACCTCTAACAGTATAACA
TGACAAAACAAAGGTTACTTTGG
Found at i:6620543 original size:26 final size:28
Alignment explanation
Indices: 6620488--6620545 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 28
6620478 ATTAAATATG
*
6620488 ATATTTAAATTTAAAAATTTATGATGTA
1 ATATTTAAATTTAAAAATTTATAATGTA
*
6620516 ATATTT-AA-TTATAAATTTATTAAT-TA
1 ATATTTAAATTTAAAAATTTA-TAATGTA
6620542 ATAT
1 ATAT
6620546 GATATTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 16 0.59
27 5 0.19
28 6 0.22
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (28 bp):
ATATTTAAATTTAAAAATTTATAATGTA
Found at i:6620671 original size:29 final size:31
Alignment explanation
Indices: 6620634--6620701 Score: 104
Period size: 29 Copynumber: 2.3 Consensus size: 31
6620624 ATAGATTTAT
6620634 AATTTAAATATTACATTAAA-AATTTA-TAA
1 AATTTAAATATTACATTAAATAATTTACTAA
* *
6620663 AATTTAAATATTATATTAAATATTTTACTAA
1 AATTTAAATATTACATTAAATAATTTACTAA
6620694 AATTTAAA
1 AATTTAAA
6620702 GATAATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 19 0.54
30 5 0.14
31 11 0.31
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (31 bp):
AATTTAAATATTACATTAAATAATTTACTAA
Found at i:6620716 original size:31 final size:30
Alignment explanation
Indices: 6620634--6620717 Score: 82
Period size: 31 Copynumber: 2.8 Consensus size: 30
6620624 ATAGATTTAT
* * * *
6620634 AATTTAAATATTACATTAAA-AATTTATAA
1 AATTTAAAGATAATATTAAATATTTTATAA
* *
6620663 AATTTAAATATTATATTAAATATTTTACTAA
1 AATTTAAAGATAATATTAAATATTTTA-TAA
6620694 AATTTAAAGATAAT-TTATAATATT
1 AATTTAAAGATAATATTA-AATATT
6620718 AATCTTAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
29 19 0.40
30 8 0.17
31 21 0.44
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.45
Consensus pattern (30 bp):
AATTTAAAGATAATATTAAATATTTTATAA
Found at i:6620797 original size:16 final size:16
Alignment explanation
Indices: 6620776--6620807 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6620766 TCATAATTAG
6620776 ATAATCAAAATGAAAA
1 ATAATCAAAATGAAAA
*
6620792 ATAATCAAAATTAAAA
1 ATAATCAAAATGAAAA
6620808 TGACTAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.22
Consensus pattern (16 bp):
ATAATCAAAATGAAAA
Found at i:6621793 original size:16 final size:15
Alignment explanation
Indices: 6621772--6621815 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6621762 TTTTTAATAA
*
6621772 TTTAAATATAAATCTT
1 TTTAAATATAAA-ATT
*
6621788 TTTAAATTTAAAATT
1 TTTAAATATAAAATT
*
6621803 TTCAAATATAAAA
1 TTTAAATATAAAA
6621816 ATATATTATC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTAAATATAAAATT
Found at i:6621858 original size:28 final size:28
Alignment explanation
Indices: 6621827--6621880 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
6621817 TATATTATCC
* * *
6621827 TTTTAAATTTAATAATTTTTATTTTTAT
1 TTTTAAATTTAAAAATTATAATTTTTAT
6621855 TTTTAAATTTAAAAATTATAATTTTT
1 TTTTAAATTTAAAAATTATAATTTTT
6621881 GGAGAAGATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTTAAATTTAAAAATTATAATTTTTAT
Found at i:6622842 original size:15 final size:15
Alignment explanation
Indices: 6622824--6622855 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6622814 ACTACTACTA
6622824 TATTTTATTTTTAAT
1 TATTTTATTTTTAAT
*
6622839 TATTTTCTTTTTAAT
1 TATTTTATTTTTAAT
6622854 TA
1 TA
6622856 AGTTTTGTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTTTATTTTTAAT
Found at i:6625245 original size:9 final size:9
Alignment explanation
Indices: 6625231--6625255 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6625221 AAAAATAAAC
6625231 AATAAATAA
1 AATAAATAA
6625240 AATAAATAA
1 AATAAATAA
6625249 AATAAAT
1 AATAAAT
6625256 TTTAAATCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AATAAATAA
Found at i:6627121 original size:63 final size:64
Alignment explanation
Indices: 6627024--6627294 Score: 268
Period size: 64 Copynumber: 4.3 Consensus size: 64
6627014 TAGTAAGGTT
* * *
6627024 ATTATTTAAGGTATTTTTTTTATCAAAAATACCTTAAATAATCCCCTTT-AAAAATTATTAGAG
1 ATTATTTAAGGTATTTTTTTTACCAAAAACACCTTAAATAATCCCCTTTAAAAAAATATTAGAG
*** * * * *
6627087 ATTATTTAAGGTATTTTTTTTGTTAAAAACACCTTAACTAATACCC-TTAAAAAAAT-TAAAGGG
1 ATTATTTAAGGTATTTTTTTTACCAAAAACACCTTAAATAATCCCCTTTAAAAAAATAT-TAGAG
* * **** *
6627150 TATTATTTAAGGCA--TTTTTGACCAAAAATGTGTTAAATAATCCTCTTTAAAAAAAAATATTAG
1 -ATTATTTAAGGTATTTTTTTTACCAAAAACACCTTAAATAATCCCCTTT--AAAAAAATATTAG
6627213 AG
63 AG
* * * *
6627215 ATTATTTAAGG--TGTTTTTAACCAAAAACACCTTAAATAATCTCCTTTAAAAAAATATTAAAG
1 ATTATTTAAGGTATTTTTTTTACCAAAAACACCTTAAATAATCCCCTTTAAAAAAATATTAGAG
6627277 ATTATTTAAGGTATTTTT
1 ATTATTTAAGGTATTTTT
6627295 GGATAAAAAA
Statistics
Matches: 166, Mismatches: 31, Indels: 21
0.76 0.14 0.10
Matches are distributed among these distances:
62 48 0.29
63 52 0.31
64 54 0.33
65 11 0.07
66 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (64 bp):
ATTATTTAAGGTATTTTTTTTACCAAAAACACCTTAAATAATCCCCTTTAAAAAAATATTAGAG
Found at i:6627284 original size:126 final size:124
Alignment explanation
Indices: 6627048--6627322 Score: 308
Period size: 126 Copynumber: 2.2 Consensus size: 124
6627038 TTTTTTTATC
* * * ****
6627048 AAAAATACCTTAAATAATCCCCTTTAAAAATTATTAGAGATTATTTAAGGTATTTTTTTTGTTAA
1 AAAAATGCCTTAAATAATCCCCTTTAAAAAATATTAGAGATTATTTAAGG-ATGTTTTTAACCAA
* *
6627113 AAACACCTTAACTAATACCCTTAAAAAAATTAAAGGGTATTATTTAAGGCATTTTT-GACC
65 AAACACCTTAAATAATACCCTTAAAAAAATTAAA-GGTATTATTTAAGGCATTTTTGGACA
** *
6627173 AAAAATGTGTTAAATAATCCTCTTTAAAAAAAAATATTAGAGATTATTTAAGG-TGTTTTTAACC
1 AAAAATGCCTTAAATAATCCCCTTT---AAAAAATATTAGAGATTATTTAAGGATGTTTTTAACC
* *
6627237 AAAAACACCTTAAATAAT-CTCCTTTAAAAAAATATTAAA-G-ATTATTTAAGGTATTTTTGGAT
63 AAAAACACCTTAAATAATAC-CC-TT-AAAAAA-ATTAAAGGTATTATTTAAGGCATTTTTGGAC
6627299 A
124 A
6627300 AAAAATGCCTTAAATAATCCCCT
1 AAAAATGCCTTAAATAATCCCCT
6627323 CATATTTTTT
Statistics
Matches: 125, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
125 22 0.18
126 42 0.34
127 25 0.20
128 30 0.24
129 6 0.05
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (124 bp):
AAAAATGCCTTAAATAATCCCCTTTAAAAAATATTAGAGATTATTTAAGGATGTTTTTAACCAAA
AACACCTTAAATAATACCCTTAAAAAAATTAAAGGTATTATTTAAGGCATTTTTGGACA
Found at i:6627303 original size:62 final size:59
Alignment explanation
Indices: 6627024--6627320 Score: 231
Period size: 62 Copynumber: 4.7 Consensus size: 59
6627014 TAGTAAGGTT
* * * *
6627024 ATTATTTAAGGTATTTTTTTTATCAAAAATACCTTAAATAATCCCCTTTAAAAATTATTAGAG
1 ATTATTTAAGGTA--TTTTTGAT-AAAAACACCTTAAATAAT-CCCTTTAAAAAATATTAAAG
* *
6627087 ATTATTTAAGGTATTTTTTTTGTTAAAAACACCTTAACTAATACCC-TTAAAAAA-ATTAAAGGG
1 ATTATTTAAGGTA---TTTTTGATAAAAACACCTTAAATAAT-CCCTTTAAAAAATATTAAA--G
* * **** *
6627150 TATTATTTAAGGCATTTTTGACCAAAAATGTGTTAAATAATCCTCTTTAAAAAAAAATATTAGAG
1 -ATTATTTAAGGTATTTTTGA-TAAAAACACCTTAAATAATCC-CTTT---AAAAAATATTAAAG
* * *
6627215 ATTATTTAAGGTGTTTTTAACCAAAAACACCTTAAATAATCTCCTTTAAAAAAATATTAAAG
1 ATTATTTAAGGTATTTTTGA-TAAAAACACCTTAAATAATC-CCTTT-AAAAAATATTAAAG
6627277 ATTATTTAAGGTATTTTTGGATAAAAA-ATGCCTTAAATAATCCC
1 ATTATTTAAGGTATTTTT-GATAAAAACA--CCTTAAATAATCCC
6627321 CTCATATTTT
Statistics
Matches: 192, Mismatches: 27, Indels: 31
0.77 0.11 0.12
Matches are distributed among these distances:
61 14 0.07
62 59 0.31
63 48 0.25
64 58 0.30
65 2 0.01
66 6 0.03
67 5 0.03
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (59 bp):
ATTATTTAAGGTATTTTTGATAAAAACACCTTAAATAATCCCTTTAAAAAATATTAAAG
Found at i:6627460 original size:127 final size:126
Alignment explanation
Indices: 6627229--6627458 Score: 277
Period size: 127 Copynumber: 1.8 Consensus size: 126
6627219 TTTAAGGTGT
* ** * *
6627229 TTTTAACCAAAAACACCTTAAATAATCTCCTTTAAAAAAATATTAAAGATTATTTAAGGTATTTT
1 TTTTAACCAAAAACACCTTAAATAATCTCATTTAAAAAAATAAAAAAGATTATTTAAAGCATTTT
* * *
6627294 TGGATAAAAAATGCCTTAAATAATCCCCTCATATTTTTTAAATGGCATTTATTTAAAGCAC
66 TGAATAAAAAACGCCTTAAATAATCCCCTAATATTTTTTAAATGGCATTTATTTAAAGCAC
* * *
6627355 TTTTAGACCAAAAATATCTTAAATAAT-TCATTTCTAAAAAATAAAAAAGATTATTTAAAGCATT
1 TTTTA-ACCAAAAACACCTTAAATAATCTCATTT-AAAAAAATAAAAAAGATTATTTAAAGCATT
* * * *
6627419 TTCT-AATTAGAAACGTCTTAAATAATCTCC-AATATTTTTT
64 TT-TGAATAAAAAACGCCTTAAATAATCCCCTAATATTTTTT
6627459 TATTGATGAT
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
126 19 0.22
127 66 0.77
128 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (126 bp):
TTTTAACCAAAAACACCTTAAATAATCTCATTTAAAAAAATAAAAAAGATTATTTAAAGCATTTT
TGAATAAAAAACGCCTTAAATAATCCCCTAATATTTTTTAAATGGCATTTATTTAAAGCAC
Found at i:6628900 original size:25 final size:24
Alignment explanation
Indices: 6628851--6628910 Score: 79
Period size: 23 Copynumber: 2.5 Consensus size: 24
6628841 ATTTATATTA
6628851 TTTTAACATATAAATTCATAATTT
1 TTTTAACATATAAATTCATAATTT
6628875 TTTTAA-ATATATAA-TCATAATTT
1 TTTTAACATATA-AATTCATAATTT
* *
6628898 TTTAAAAATATAA
1 TTTTAACATATAA
6628911 CTTATTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
23 20 0.61
24 13 0.39
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTTAACATATAAATTCATAATTT
Found at i:6628901 original size:22 final size:24
Alignment explanation
Indices: 6628851--6628910 Score: 81
Period size: 22 Copynumber: 2.6 Consensus size: 24
6628841 ATTTATATTA
6628851 TTTTAACATATA-AATTCATAATTT
1 TTTTAA-ATATATAATTCATAATTT
6628875 TTTTAAATATATAA-TCATAA-TT
1 TTTTAAATATATAATTCATAATTT
*
6628897 TTTTAAAAATATAA
1 TTTTAAATATATAA
6628911 CTTATTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
22 15 0.44
23 11 0.32
24 8 0.24
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTTAAATATATAATTCATAATTT
Found at i:6630768 original size:86 final size:86
Alignment explanation
Indices: 6630669--6630848 Score: 206
Period size: 86 Copynumber: 2.1 Consensus size: 86
6630659 GTAATTTTTG
* ** * *
6630669 TAATTATAATTAGAAG-GTATCATAGTAATTTT-AGTTAATTATAATATGATGGGTATTTTTGTA
1 TAATTATGATTAG-AGTGTATCATAGTAATTTTGA-CAAATTATAATATGAGGGGTATTTTTCTA
6630732 ATTAT-GAT-AAGAGAGCATTTTCA
64 ATTATGGATGAAG-G-GCATTTTCA
* * *
6630755 TAATTATGCTTAGAGTGTATTATAGTGATTTTGACAAATTATAATATGAGGGGTATTTTTCTAAT
1 TAATTATGATTAGAGTGTATCATAGTAATTTTGACAAATTATAATATGAGGGGTATTTTTCTAAT
* *
6630820 TATGGTTGAAGGGTATTTTCA
66 TATGGATGAAGGGCATTTTCA
6630841 TAATTATG
1 TAATTATG
6630849 GTTGTAAAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
85 2 0.03
86 71 0.89
87 4 0.05
88 3 0.04
ACGTcount: A:0.34, C:0.04, G:0.18, T:0.44
Consensus pattern (86 bp):
TAATTATGATTAGAGTGTATCATAGTAATTTTGACAAATTATAATATGAGGGGTATTTTTCTAAT
TATGGATGAAGGGCATTTTCA
Found at i:6630821 original size:26 final size:25
Alignment explanation
Indices: 6630791--6630847 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
6630781 GATTTTGACA
*
6630791 AATTATAATATGAGGGGTATTTTTC-T
1 AATTATAAT-TGAAGGGTA-TTTTCAT
**
6630817 AATTATGGTTGAAGGGTATTTTCAT
1 AATTATAATTGAAGGGTATTTTCAT
6630842 AATTAT
1 AATTAT
6630848 GGTTGTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 5 0.19
25 15 0.56
26 7 0.26
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.46
Consensus pattern (25 bp):
AATTATAATTGAAGGGTATTTTCAT
Found at i:6630844 original size:25 final size:25
Alignment explanation
Indices: 6630805--6630852 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
6630795 ATAATATGAG
6630805 GGGTATTTTTCTAATTATGGTTGAA
1 GGGTATTTTTCTAATTATGGTTGAA
6630830 GGGTA-TTTTCATAATTATGGTTG
1 GGGTATTTTTC-TAATTATGGTTG
6630853 TAAAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.23, C:0.04, G:0.25, T:0.48
Consensus pattern (25 bp):
GGGTATTTTTCTAATTATGGTTGAA
Found at i:6630928 original size:26 final size:26
Alignment explanation
Indices: 6630877--6630928 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
6630867 AACTTTGGCC
* *
6630877 AATTATGATAATAAAGGTATTTTAGT
1 AATTATGATAATAAAGGCATTATAGT
*
6630903 AATTATGTTAA-AAAGGGCATTATAGT
1 AATTATGATAATAAA-GGCATTATAGT
6630929 CATTTTAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.38
Consensus pattern (26 bp):
AATTATGATAATAAAGGCATTATAGT
Found at i:6631331 original size:25 final size:24
Alignment explanation
Indices: 6631303--6631357 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
6631293 AATTTTAACA
*
6631303 AATTATAATATGAGAGGTATTTCGT
1 AATTATAATAAGAGAGG-ATTTCGT
**
6631328 AATTACGATAAGAGAGGATTTCGT
1 AATTATAATAAGAGAGGATTTCGT
6631352 AATTAT
1 AATTAT
6631358 GGTTAAAAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.36
Consensus pattern (24 bp):
AATTATAATAAGAGAGGATTTCGT
Found at i:6633944 original size:60 final size:62
Alignment explanation
Indices: 6633859--6633974 Score: 157
Period size: 60 Copynumber: 1.9 Consensus size: 62
6633849 ATGATTAAAG
* * *
6633859 GGTATTATAGTAATTTTATCCAATTAT-A-ATGA-GTGGCATTTTCATAATTATAGTTAAAAA
1 GGTATTATAATAATTTTAGCAAATTATAATATGATG-GGCATTTTCATAATTATAGTTAAAAA
* *
6633919 GGTATTATAATATTTTTAGCAAATTATAATATGATGGGTATTTTCATAATTATAGT
1 GGTATTATAATAATTTTAGCAAATTATAATATGATGGGCATTTTCATAATTATAGT
6633975 AAGGAGCATC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
60 23 0.48
61 1 0.02
62 23 0.48
63 1 0.02
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.44
Consensus pattern (62 bp):
GGTATTATAATAATTTTAGCAAATTATAATATGATGGGCATTTTCATAATTATAGTTAAAAA
Found at i:6633999 original size:60 final size:60
Alignment explanation
Indices: 6633865--6634002 Score: 147
Period size: 60 Copynumber: 2.3 Consensus size: 60
6633855 AAAGGGTATT
* * * *
6633865 ATAGTAATTTTATCCAATTATAATGAGTGGCATTTTCATAATTATAGTTAAAAAGGTATT
1 ATAGTAATTTTAGCAAATTATAATGAGTGGCATTTTCATAATTATAGTTAAAAAGGCATC
* * * **
6633925 ATAATATTTTTAGCAAATTATAAT-ATGATGGGTATTTTCATAATTATAG-TAAGGA-GCATC
1 ATAGTAATTTTAGCAAATTATAATGA-G-T-GGCATTTTCATAATTATAGTTAAAAAGGCATC
6633985 ATAGTAATTTTAGCAAAT
1 ATAGTAATTTTAGCAAAT
6634003 GATGGTAGGA
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
59 1 0.02
60 40 0.62
61 5 0.08
62 18 0.28
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.41
Consensus pattern (60 bp):
ATAGTAATTTTAGCAAATTATAATGAGTGGCATTTTCATAATTATAGTTAAAAAGGCATC
Found at i:6634928 original size:6 final size:6
Alignment explanation
Indices: 6634917--6634956 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
6634907 AGTAGGTTTT
* *
6634917 TTTTAA TTTTAA TTTTAA TTTTAT TTTTTA TTTT-A TTTTA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTA
6634957 TTGATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTAA
Found at i:6636323 original size:9 final size:10
Alignment explanation
Indices: 6636291--6636351 Score: 54
Period size: 10 Copynumber: 5.9 Consensus size: 10
6636281 AACTGTTCTT
6636291 AAATA-TTAA
1 AAATATTTAA
6636300 AAATATTTAA
1 AAATATTTAA
6636310 AAATATTTATA
1 AAATATTTA-A
*
6636321 ATAATAATTTTAT
1 A-AAT-A-TTTAA
6636334 AAAT-TTTAA
1 AAATATTTAA
*
6636343 AAGTATTTA
1 AAATATTTA
6636352 TTAAATAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
9 12 0.28
10 17 0.40
11 2 0.05
12 6 0.14
13 2 0.05
14 4 0.09
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (10 bp):
AAATATTTAA
Found at i:6636364 original size:32 final size:34
Alignment explanation
Indices: 6636300--6636364 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
6636290 TAAATATTAA
6636300 AAATATTTAAAAATATTTATAATAATAATTTTAT
1 AAATATTTAAAAATATTTATAATAATAATTTTAT
* *
6636334 AAAT-TTTAAAAGTATTTATTA-AATAATTTTA
1 AAATATTTAAAAATATTTATAATAATAATTTTA
6636365 AGGAAAAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 10 0.34
33 15 0.52
34 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (34 bp):
AAATATTTAAAAATATTTATAATAATAATTTTAT
Found at i:6638740 original size:16 final size:16
Alignment explanation
Indices: 6638719--6638759 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
6638709 TAAGTAGTGA
6638719 TTTTCTCTTTT-CTTCT
1 TTTTCTCTTTTCCTT-T
6638735 TTTTCT-TTTTCCTTT
1 TTTTCTCTTTTCCTTT
6638750 TTTT-TCTTTT
1 TTTTCTCTTTT
6638760 TATCTTTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 13 0.57
16 9 0.39
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTCTTTTCCTTT
Found at i:6638760 original size:16 final size:15
Alignment explanation
Indices: 6638719--6638760 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
6638709 TAAGTAGTGA
6638719 TTTTCTCTTTTCTTCT
1 TTTTCT-TTTTCTTCT
*
6638735 TTTTCTTTTTCCTTTT
1 TTTTCTTTTT-CTTCT
6638751 TTTTCTTTTT
1 TTTTCTTTTT
6638761 ATCTTTTGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTCTTTTTCTTCT
Found at i:6638767 original size:16 final size:15
Alignment explanation
Indices: 6638719--6638767 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
6638709 TAAGTAGTGA
*
6638719 TTTTCTCTTTTCTTCT
1 TTTTCTTTTTTCTT-T
*
6638735 TTTTCTTTTTCCTTTT
1 TTTTCTTTTTTC-TTT
6638751 TTTTCTTTTTATCTTT
1 TTTTCTTTTT-TCTTT
6638767 T
1 T
6638768 GCTTGCTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 25 0.89
17 3 0.11
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTCTTTTTTCTTT
Found at i:6640422 original size:25 final size:23
Alignment explanation
Indices: 6640383--6640437 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
6640373 TTAATAAAGT
6640383 TAATTATTTTAAAAATATTATCAAA
1 TAATT-TTTTAAAAATATTAT-AAA
*
6640408 TAATTTTTTAAAAAATTTTATAAA
1 TAATTTTTT-AAAAATATTATAAA
6640432 -AATTTT
1 TAATTTT
6640438 ATATTAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 6 0.21
24 7 0.25
25 15 0.54
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATTTTTTAAAAATATTATAAA
Found at i:6640448 original size:12 final size:11
Alignment explanation
Indices: 6640392--6640440 Score: 53
Period size: 11 Copynumber: 4.2 Consensus size: 11
6640382 TTAATTATTT
*
6640392 TAAAAATATTA
1 TAAAAATTTTA
*
6640403 TCAAATAATTTTT
1 T-AAA-AATTTTA
6640416 TAAAAAATTTTA
1 T-AAAAATTTTA
6640428 TAAAAATTTTA
1 TAAAAATTTTA
6640439 TA
1 TA
6640441 TTAAATTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 13 0.41
12 10 0.31
13 9 0.28
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (11 bp):
TAAAAATTTTA
Found at i:6643029 original size:2 final size:2
Alignment explanation
Indices: 6643022--6643048 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6643012 CACATTCAAC
6643022 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6643049 GAAAACATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6644622 original size:430 final size:426
Alignment explanation
Indices: 6643952--6644802 Score: 1225
Period size: 433 Copynumber: 2.0 Consensus size: 426
6643942 AGTTTTAATT
* * * * *
6643952 GATTTGATTATCTTTAAATCATTTTGAAATTAATATAAATACATATTAAACATGTATATATAGCT
1 GATTTGATCATCTTTAAATCATTTTAAAATCAATATAAATACATATTAAACATATATACATAGCT
* * * *
6644017 TAAATGTGGAATAAATAATAGGCCATTGATTAAAAAATTGGAAAGTGGATTTTTTTTACATAAAT
66 TAAAAGTGGAATAAATAATAGACCATAGATTAAAAAATTGGAAAGTGGATTTTTTTTACACAAAT
* *
6644082 TTAATTTAAGAGTTGAATATTATAATTGAAAAAAGAGAACATAAAATTATTCTATGATAGCAATT
131 GTAATTTAAGAGTTGAATATTATAATTGAAAAAAGAGAACACAAAATTATTCTATGATAGCAATT
*
6644147 AAAGTTTTATTATCTTTAATATAAATTTAATTGAGAGTGATTTAAAGTAAATAATAA-A-AAATA
196 AAAGTTTTATTATCTTTAATATAAATTTAATTGAAAGTGATTTAAAGTAAATAATAATACAAATA
6644210 AATGTAATTAATTT-ATTTTTTAAAAAAATAATTCAAATAAAATAAAATATA-AGACACAT-CGA
261 AATGTAATTAATTTAATTTTTT--AAAAATAATTCAAATAAAATAAAATATACAG-CACATACGA
* * *
6644272 TTTTCAAAATTATCCACATATCAATAATATA-AATAATTCACATTGAAAATTTTTCCTTTTTTAC
323 TTTTCAAAATCATCCACATATCAATAATATAGAACAATTCACATTGAAAA-TTTTCCTCTTTTA-
6644336 CAAATG-CTTTGACTTTTATATATTTATATAAGATAAGATA
386 CAAATGACTTTGACTTTTATATATTTATATAAGATAAGATA
* * * *
6644376 GATTTGATCATCTTTTAATTATTTTAAAATCAATATATATACATATTAAACATATATGCATAGCT
1 GATTTGATCATCTTTAAATCATTTTAAAATCAATATAAATACATATTAAACATATATACATAGCT
* * *
6644441 TAAAAGTTTGAGTAAATAAATAGACCATAGATTAAAAAATTGGAAAGTGAATATTTTTTTTACAC
66 TAAAAG-TGGAATAAAT-AATAGACCATAGATTAAAAAATTGGAAAGTG--GATTTTTTTTACAC
*
6644506 AAATGTAATTTAAGAGTTGAATATTATAATTGGAAAAAGAG-ACACAAAATTATTCTATGATAAT
127 AAATGTAATTTAAGAGTTGAATATTATAATTGAAAAAAGAGAACACAAAATTATTCTATGAT-A-
6644570 GACAATTAAAGTTTTATTA-CTTTTAATATAAATTTAATTGAAAGTGATTTAAAGTAAATAATAA
190 G-CAATTAAAGTTTTATTATC-TTTAATATAAATTTAATTGAAAGTGATTTAAAGTAAATAATAA
6644634 TACAAATAAATGTAATTAATTTAATTTTTTAAAAATAATTCAAATAAAATAAAATATACAGCACA
253 TACAAATAAATGTAATTAATTTAATTTTTTAAAAATAATTCAAATAAAATAAAATATACAGCACA
* * * * * *
6644699 TGATGATTTTCAAAATCGTCTACATATTAATAATATAGACCATTTCACATTGAAAATTTTCCTCT
318 T-ACGATTTTCAAAATCATCCACATATCAATAATATAGAACAATTCACATTGAAAATTTTCCTCT
* * *
6644764 TTTACTAATGATTTTGGCTTTTATATATTTATATAAGAT
382 TTTACAAATGACTTTGACTTTTATATATTTATATAAGAT
6644803 GTAAGGTACA
Statistics
Matches: 379, Mismatches: 32, Indels: 23
0.87 0.07 0.05
Matches are distributed among these distances:
424 61 0.16
425 8 0.02
426 29 0.08
427 19 0.05
428 52 0.14
429 2 0.01
430 59 0.16
431 34 0.09
432 26 0.07
433 74 0.20
434 15 0.04
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (426 bp):
GATTTGATCATCTTTAAATCATTTTAAAATCAATATAAATACATATTAAACATATATACATAGCT
TAAAAGTGGAATAAATAATAGACCATAGATTAAAAAATTGGAAAGTGGATTTTTTTTACACAAAT
GTAATTTAAGAGTTGAATATTATAATTGAAAAAAGAGAACACAAAATTATTCTATGATAGCAATT
AAAGTTTTATTATCTTTAATATAAATTTAATTGAAAGTGATTTAAAGTAAATAATAATACAAATA
AATGTAATTAATTTAATTTTTTAAAAATAATTCAAATAAAATAAAATATACAGCACATACGATTT
TCAAAATCATCCACATATCAATAATATAGAACAATTCACATTGAAAATTTTCCTCTTTTACAAAT
GACTTTGACTTTTATATATTTATATAAGATAAGATA
Found at i:6646453 original size:525 final size:505
Alignment explanation
Indices: 6645562--6646594 Score: 1333
Period size: 525 Copynumber: 2.0 Consensus size: 505
6645552 TTTTGCTTCT
* *
6645562 ATATATTTATATAAGATATTATGTATTTAACTTATTTAGGAGAAATGGAAAATAAGGATTTTGAT
1 ATATATTTATATAAGATATTATGTATTTAACTTATTTAGGAGAAATGAAAAATAAGGATTTCGAT
*
6645627 ATATTCCAAAATTAATTGTAATTGATTTGATCACTTTTTAATCATTTTAAAATTAATATATATAT
66 ATATTCCAAAATTAATTGTAATTGATTTGATCACTTTTTAAACATTTTAAAATTAATATATATAT
** *
6645692 ACATATTAAACGTATATACATAGTTTAAAAAGTGGAGTAAATAAATAGGCCATAGATAAAAAAAT
131 ACATATTAAACGTATATACATAACTTAAAAAGTGAAGTAAATAAATAGGCCATAGATAAAAAAAT
6645757 TGAAAAGTGAATTTTTTTTACATAAATATAATTTAAGAGTTAAATATTATAATTGAAAAAAGAGA
196 TGAAAAGTGAATTTTTTTTACATAAATATAATTTAAGAGTTAAATATTATAATTGAAAAAAGAGA
* * * * *
6645822 ACACAAGATTATTCTATGATAGCAATTAAATTTTTATTACCTTTAATATGAATTTAATTTAGAGT
261 ACACAAAATTATTCTATAATAGCAATTAAAGTTTTATTACCTTTAATATGAATTTAATTGAAAGT
6645887 GACTTAAAATAAATAATAATATAAAATAAATGTAATTAATTTAATTTTTTAAAAATAATTCAAAT
326 GACTTAAAATAAATAATAATATAAAATAAATGT-A-T--TTTAA-TTTTTAAAAATAATTCAAAT
* * *
6645952 AAAATAAAATGCAAGACACAT-AGCAATTTTCAAAATTGTCCACATATCAATAATATAAACCATC
386 AAAATAAAATACAAAACAAATGAG--ATTTTCAAAATTGTCCACATATCAATAATATAAACCATC
* ** * ** *
6646016 CACATTGGAAATTTT-TTTTTTTACTAAAAGTTTTGGGTTTTTTATATTTATATAAGA
449 CAAATTACAAATTTTCTTTTTTTACCAAAAGTTTTGACTTTTATATATTTATATAA-A
* *
6646073 ATATATCTATATATAAGATATTATGTATTTAACTTGTTTGGGAGAAATGAAAAATAAGGATTTCG
1 ATATAT-T-TATATAAGATATTATGTATTTAACTTATTTAGGAGAAATGAAAAATAAGGATTTCG
* * *
6646138 ATATATTTCAAAATTAATTTTAATTGATTTGAT-ATTTTTTAAAACATTTTAAAATTAATATTTA
64 ATATATTCCAAAATTAATTGTAATTGATTTGATCACTTTTT-AAACATTTT---A--AA-A-TTA
* * * *
6646202 TATATATATATACACACATATTAAATGTGTATACATAACTTAAAAGGTGAAGTAAATAAATAGGT
121 -ATATATATAT----ACATATTAAACGTATATACATAACTTAAAAAGTGAAGTAAATAAATAGGC
* * * *
6646267 TATAGATTACAAAATTGAAAAGTGAATTTTTTTTACATAAATATAATTTAAGAGTTGAATATTAT
181 CATAGATAAAAAAATTGAAAAGTGAATTTTTTTTACATAAATATAATTTAAGAGTTAAATATTAT
* * **
6646332 AATTGAAAAAAGA-AACTATAAAATTATTCTATAATGGCAATTAAAGTTTTATT-TTTTTAATAT
246 AATTGAAAAAAGAGAAC-ACAAAATTATTCTATAATAGCAATTAAAGTTTTATTACCTTTAATAT
* * *
6646395 GAATTTAATTGAAAGTGATTTAAGATAAATAATAATA-ATAAATATCAT-TATTTTAATTTTTAA
310 GAATTTAATTGAAAGTGACTTAAAATAAATAATAATATA-AAATA-AATGTATTTTAATTTTTAA
* * * * *
6646458 AAATAATTTAAATAAAATAAAATATAAAACAAATGATGATTTTCAAAATTGTTCACATGTTAATA
373 AAATAATTCAAATAAAATAAAATACAAAACAAATGA-GATTTTCAAAATTGTCCACATATCAATA
* * *
6646523 ATATAAGCCATTCAAATTACAAATTTTCTTTTTTTACCAAAGGTTTTGACTTTTATATATTTATA
437 ATATAAACCATCCAAATTACAAATTTTCTTTTTTTACCAAAAGTTTTGACTTTTATATATTTATA
6646588 TAAA
502 TAAA
6646592 ATA
1 ATA
6646595 AGATTGATTT
Statistics
Matches: 452, Mismatches: 49, Indels: 34
0.84 0.09 0.06
Matches are distributed among these distances:
511 6 0.01
512 7 0.02
513 91 0.20
516 1 0.00
518 2 0.00
519 87 0.19
520 44 0.10
521 11 0.02
522 1 0.00
523 2 0.00
524 50 0.11
525 150 0.33
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (505 bp):
ATATATTTATATAAGATATTATGTATTTAACTTATTTAGGAGAAATGAAAAATAAGGATTTCGAT
ATATTCCAAAATTAATTGTAATTGATTTGATCACTTTTTAAACATTTTAAAATTAATATATATAT
ACATATTAAACGTATATACATAACTTAAAAAGTGAAGTAAATAAATAGGCCATAGATAAAAAAAT
TGAAAAGTGAATTTTTTTTACATAAATATAATTTAAGAGTTAAATATTATAATTGAAAAAAGAGA
ACACAAAATTATTCTATAATAGCAATTAAAGTTTTATTACCTTTAATATGAATTTAATTGAAAGT
GACTTAAAATAAATAATAATATAAAATAAATGTATTTTAATTTTTAAAAATAATTCAAATAAAAT
AAAATACAAAACAAATGAGATTTTCAAAATTGTCCACATATCAATAATATAAACCATCCAAATTA
CAAATTTTCTTTTTTTACCAAAAGTTTTGACTTTTATATATTTATATAAA
Found at i:6653270 original size:6 final size:6
Alignment explanation
Indices: 6653259--6653320 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 6
6653249 ATATTATTTT
* *
6653259 TAAATA TAAATA TAAAAA T-AA-A TAAATG TAAAATA TAAATA TAAA-A
1 TAAATA TAAATA TAAATA TAAATA TAAATA T-AAATA TAAATA TAAATA
*
6653305 TTAAATA -AAAAA TAAA
1 -TAAATA TAAATA TAAA
6653321 AAATATTATA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
4 2 0.04
5 9 0.20
6 29 0.63
7 6 0.13
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (6 bp):
TAAATA
Found at i:6653270 original size:19 final size:18
Alignment explanation
Indices: 6653222--6653271 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 18
6653212 TGACTTGAAA
6653222 TTAATA-AAATATTATTT
1 TTAATATAAATATTATTT
6653239 TTAATATATAATATTATTT
1 TTAATATA-AATATTATTT
6653258 TTAAATATAAATAT
1 TT-AATATAAATAT
6653272 AAAAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.20
18 1 0.03
19 17 0.57
20 6 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTAATATAAATATTATTT
Found at i:6653296 original size:23 final size:24
Alignment explanation
Indices: 6653258--6653325 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 24
6653248 AATATTATTT
*
6653258 TTAAAT-ATAAATATAAAAATAAA
1 TTAAATAAAAAATATAAAAATAAA
** *
6653281 -TAAATGTAAAATATAAATATAAAA
1 TTAAATAAAAAATATAAAAAT-AAA
6653305 TTAAATAAAAAATA-AAAAATA
1 TTAAATAAAAAATATAAAAATA
6653326 TTATATATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
22 5 0.14
23 12 0.33
24 8 0.22
25 11 0.31
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (24 bp):
TTAAATAAAAAATATAAAAATAAA
Found at i:6653297 original size:7 final size:7
Alignment explanation
Indices: 6653260--6653326 Score: 52
Period size: 7 Copynumber: 9.9 Consensus size: 7
6653250 TATTATTTTT
6653260 AAATAT-
1 AAATATA
6653266 AAATATAA
1 AAATAT-A
*
6653274 AAATAAA
1 AAATATA
*
6653281 TAAATGTA
1 -AAATATA
6653289 AAATAT-
1 AAATATA
6653295 AAATATA
1 AAATATA
6653302 AAAT-T-
1 AAATATA
*
6653307 AAATAAA
1 AAATATA
*
6653314 AAATAAA
1 AAATATA
6653321 AAATAT
1 AAATAT
6653327 TATATATATA
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
5 4 0.08
6 13 0.27
7 22 0.45
8 10 0.20
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.27
Consensus pattern (7 bp):
AAATATA
Found at i:6657702 original size:218 final size:218
Alignment explanation
Indices: 6657315--6657943 Score: 503
Period size: 219 Copynumber: 2.8 Consensus size: 218
6657305 ATTTCCCATT
* * * **
6657315 AAATAAATTTGAAGGTAAAAGTTTATGACATTCATGTTATCATCATATAACACTATAAATTGACG
1 AAATAAAATTGAAGGTAAAAGTTTATGACATTCATATTATCATCATATAACACCATAAATAAACG
* * *
6657380 TGACGAAATTGCAATGTCATTAATAGTTAACTAAAGTATTCAATCTATTACAAAAATTAATAACG
66 TGACGAAATTGCAATATCATTAATAGTTAAATAAAGTATTCAATCTATGACAAAAATTAATAACG
** *
6657445 TTTCATAAAATCTATCAGAAAACATTCGTCATAAATAAAATTTTAAAGTCACTTAAAATATAAAA
131 TCACATAAAATCTATCAGAAAACATTCGTCACAAATAAAATTTTAAAGTCACTTAAAATATAAAA
6657510 ATGTCACAAAATTTTTTTTTACC
196 ATGTCACAAAATTTTTTTTTACC
* * ** *
6657533 AAATAAAATTGATA-GTAAAAGTTTGTGACATTTATATTATTGTCATATAATACCATAAAATAAA
1 AAATAAAATTGA-AGGTAAAAGTTTATGACATTCATATTATCATCATATAACACCAT-AAATAAA
* * * * * * *
6657597 GGTGATGGAATTGCAATATCATTAATAGTTAAATAAAGTGTT-ACATTTATGACAAAATTTGATA
64 CGTGACGAAATTGCAATATCATTAATAGTTAAATAAAGTATTCA-ATCTATGACAAAAATTAATA
* * * * * *
6657661 ATGTCACCTAAAATCTATTAGAAAA-TTTTGTCACAAATAAAATTTTAAATTAGTGACAAAATTT
128 ACGTCACATAAAATCTATCAGAAAACATTCGTCACAAATAAAATTTT-AA--AGT--C---ACTT
* ** *
6657725 AAATGTTACCTAAAATAAAAAACGTCACAAAA--AATTTTCACC
185 AAA----A--T---AT-AAAAATGTCACAAAATTTTTTTTTACC
* ** * * * * * * ** *
6657767 AAATAAATTTGGCGGTAAAAGTCTGTAACATTTATATTATTATCATATAACACCATACATTGATG
1 AAATAAAATTGAAGGTAAAAGTTTATGACATTCATATTATCATCATATAACACCATAAATAAACG
* ** * * * * * *
6657832 TGACAAAATTTTAATGTCATTAATAGTTAACTAAAGTGTTCAATTTGTGACAAAAATTAATAATG
66 TGACGAAATTGCAATATCATTAATAGTTAAATAAAGTATTCAATCTATGACAAAAATTAATAACG
* * * * *
6657897 TCACCTAAAATCTATAAAAAAAAATTCATCACAAATAAAATTTTAAA
131 TCACATAAAATCTATCAGAAAACATTCGTCACAAATAAAATTTTAAA
6657944 TTGGTGACAA
Statistics
Matches: 328, Mismatches: 59, Indels: 35
0.78 0.14 0.08
Matches are distributed among these distances:
218 65 0.20
219 80 0.24
221 3 0.01
223 1 0.00
226 6 0.02
230 1 0.00
231 1 0.00
232 1 0.00
233 80 0.24
234 74 0.23
235 2 0.01
236 14 0.04
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (218 bp):
AAATAAAATTGAAGGTAAAAGTTTATGACATTCATATTATCATCATATAACACCATAAATAAACG
TGACGAAATTGCAATATCATTAATAGTTAAATAAAGTATTCAATCTATGACAAAAATTAATAACG
TCACATAAAATCTATCAGAAAACATTCGTCACAAATAAAATTTTAAAGTCACTTAAAATATAAAA
ATGTCACAAAATTTTTTTTTACC
Found at i:6657899 original size:233 final size:237
Alignment explanation
Indices: 6657529--6658022 Score: 624
Period size: 234 Copynumber: 2.1 Consensus size: 237
6657519 AATTTTTTTT
* ** * * * *
6657529 TACCAAATAAAATTGATAGTAAAAGTTTGTGACATTTATATTATTGTCATATAATACCATAAAAT
1 TACCAAATAAATTTGACGGTAAAAGTCTGTAACATTTATATTATTATCATATAACACCATAAAAT
*** * *
6657594 AAAGGTGATGGAATTGCAATATCATTAATAGTTAAATAAAGTGTTACATTTATGACAAAATTTGA
66 AAAGGTGACAAAATTGCAATATCATTAATAGTTAAATAAAGTGTTACATTTATGACAAAAATTAA
* * * **
6657659 TAATGTCACCTAAAATCTAT-TAGAAAATTTTGTCACAAATAAAATTTTAAATTAGTGACAAAAT
131 TAATGTCACCTAAAATCTATAAAAAAAAATTCATCACAAATAAAATTTTAAATTAGTGACAAAAT
* * *
6657723 T-TAA-ATGTTACCTAAAATAAAAAACGTCACAAAAA-ATTTTC
196 TATAACA--TTACATAAAATAAAAAACATCACAAAAATATTTCC
* *
6657764 -ACCAAATAAATTTGGCGGTAAAAGTCTGTAACATTTATATTATTATCATATAACACCAT-ACAT
1 TACCAAATAAATTTGACGGTAAAAGTCTGTAACATTTATATTATTATCATATAACACCATAAAAT
** * ** * * *
6657827 TGATGTGACAAAATTTTAATGTCATTAATAGTTAACTAAAGTGTT-CAATTTGTGACAAAAATTA
66 AAAGGTGACAAAATTGCAATATCATTAATAGTTAAATAAAGTGTTAC-ATTTATGACAAAAATTA
*
6657891 ATAATGTCACCTAAAATCTATAAAAAAAAATTCATCACAAATAAAATTTTAAATTGGTGACAAAA
130 ATAATGTCACCTAAAATCTATAAAAAAAAATTCATCACAAATAAAATTTTAAATTAGTGACAAAA
*
6657956 TTATAACATTGCATAAAATAAAAAACATCACAAAAATATTTCC
195 TTATAACATTACATAAAATAAAAAACATCACAAAAATATTTCC
6657999 TACCAAATAAATTTGACGGTAAAA
1 TACCAAATAAATTTGACGGTAAAA
6658023 TTTGGCGACA
Statistics
Matches: 220, Mismatches: 33, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
232 1 0.00
233 73 0.33
234 115 0.52
235 8 0.04
236 23 0.10
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.33
Consensus pattern (237 bp):
TACCAAATAAATTTGACGGTAAAAGTCTGTAACATTTATATTATTATCATATAACACCATAAAAT
AAAGGTGACAAAATTGCAATATCATTAATAGTTAAATAAAGTGTTACATTTATGACAAAAATTAA
TAATGTCACCTAAAATCTATAAAAAAAAATTCATCACAAATAAAATTTTAAATTAGTGACAAAAT
TATAACATTACATAAAATAAAAAACATCACAAAAATATTTCC
Found at i:6661865 original size:19 final size:19
Alignment explanation
Indices: 6661832--6661868 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6661822 GTATTTTATT
**
6661832 AGTATTTTTTTTCTTTTCA
1 AGTATTTTTAATCTTTTCA
6661851 AGTATTTTTAATCTTTTC
1 AGTATTTTTAATCTTTTC
6661869 TTTCCTAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.11, G:0.05, T:0.65
Consensus pattern (19 bp):
AGTATTTTTAATCTTTTCA
Found at i:6664264 original size:20 final size:20
Alignment explanation
Indices: 6664227--6664264 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6664217 TTTCAATTTA
*
6664227 AAATAAGAAATAATAAAAGT
1 AAATAAGAAATAACAAAAGT
6664247 AAATAA-AAATAAACAAAA
1 AAATAAGAAAT-AACAAAA
6664265 TAGGAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (20 bp):
AAATAAGAAATAACAAAAGT
Found at i:6664283 original size:20 final size:17
Alignment explanation
Indices: 6664251--6664291 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 17
6664241 AAAAGTAAAT
6664251 AAAAATAAACAAAATAGG
1 AAAAATAAACAAAATA-G
6664269 AAAAATAGAATCAAAATAG
1 AAAAATA-AA-CAAAATAG
6664288 AAAA
1 AAAA
6664292 TGAAGTGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.33
19 7 0.33
20 7 0.33
ACGTcount: A:0.73, C:0.05, G:0.10, T:0.12
Consensus pattern (17 bp):
AAAAATAAACAAAATAG
Found at i:6664826 original size:49 final size:51
Alignment explanation
Indices: 6664773--6664916 Score: 150
Period size: 52 Copynumber: 2.8 Consensus size: 51
6664763 TGATTTCCAT
*
6664773 TTTAATGAGAATTGATTCTGAAATCAAATCCTAAAATCTCTCC-C-T-ATAA
1 TTTAATGAGAATTGATTCTGAAATTAAATCCTAAAATCTCTCCACATCAT-A
* * * * * *
6664822 TTTAATGTGAATTGATTATGGAATTAAATCCTGACAATCTTTCCACATCATT
1 TTTAATGAGAATTGATTCTGAAATTAAATCCT-AAAATCTCTCCACATCATA
** *
6664874 TTTAATGCCAATTGATTCTGAAATTAAATCCCAAAAATCTCTC
1 TTTAATGAGAATTGATTCTGAAATTAAAT-CCTAAAATCTCTC
6664917 TATTATGGTT
Statistics
Matches: 76, Mismatches: 14, Indels: 7
0.78 0.14 0.07
Matches are distributed among these distances:
49 28 0.37
50 9 0.12
51 1 0.01
52 34 0.45
53 4 0.05
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (51 bp):
TTTAATGAGAATTGATTCTGAAATTAAATCCTAAAATCTCTCCACATCATA
Found at i:6665395 original size:118 final size:118
Alignment explanation
Indices: 6665164--6665825 Score: 530
Period size: 118 Copynumber: 5.7 Consensus size: 118
6665154 AAGTTATAAG
* * * * *
6665164 AAATGATCTAGACTAAGCCAAGATC-AGTGA-CTAGGATGAAACCACGAGTC-AAAAATTAAGCG
1 AAATGATCTGGACTAAGCCAAGATCAAGTGATCGA-GATGAAACCATGAGTCAAAAAATGAAGTG
* * * * * * **
6665226 ACCATGATCGAGTTGAGGTC--GA-GAATGACCGAGACAAAACCATGAATCATA
65 ACCAAGATCGAGTCGAGATCAAAATAAATGATCGAGATGAAACCATGAATCATA
* * * * *
6665277 AAATAATTTGGACTTAGCCAAGATCAAGTGATTGAGATGAAACCATGAGTCAAAAAATAAAGTGA
1 AAATGATCTGGACTAAGCCAAGATCAAGTGATCGAGATGAAACCATGAGTCAAAAAATGAAGTGA
* *
6665342 CCAGGA-CTGAGTCGAGATCAAAATAAATGATCGAGATGAAACCACGAATCATA
66 CCAAGATC-GAGTCGAGATCAAAATAAATGATCGAGATGAAACCATGAATCATA
* * * * ** * *
6665395 AAATGATTTGGACTAAGTCAAGATTAGGTGA-CTGAGACAAAACTATGAGTCAAAAAATGAAGTT
1 AAATGATCTGGACTAAGCCAAGATCAAGTGATC-GAGATGAAACCATGAGTCAAAAAATGAAGTG
* * * *
6665459 ACCAAGATCGAGTCGAGGTCAAAATAAATGACCGGGATGAAATCATGAATCATA
65 ACCAAGATCGAGTCGAGATCAAAATAAATGATCGAGATGAAACCATGAATCATA
** *
6665513 AAATGATCTAAACTAAGCTAAGATC-AGTTGATCGAGATGAAACCATGAGTC--AAAATGAAGTG
1 AAATGATCTGGACTAAGCCAAGATCAAG-TGATCGAGATGAAACCATGAGTCAAAAAATGAAGTG
* * * * * * * ** * * *
6665575 ACCAAGACCAAGTCAAGGTAAAAAATAAATGATTGAAACAAAATCACGAGTCATAA
65 ACCAAGATCGAGTCGAGAT-CAAAATAAATGATCGAGATGAAACCATGAATCAT-A
* * * * * ** *
6665631 GAAATGAACTAGACTGAGCCAAGATCAAGTGACCG-GAACGAAGTCACGAGTC--AAAATGAAGT
1 -AAATGATCTGGACTAAGCCAAGATCAAGTGATCGAG-ATGAAACCATGAGTCAAAAAATGAAGT
* * * *
6665693 AACCAAGATCGAGTTGAGATCGAAAATAAATGATC-AGGATGAAACCATGAGTTATAA
64 GACCAAGATCGAGTCGAGATC-AAAATAAATGATCGA-GATGAAACCATGAATCAT-A
* *
6665750 GAAATGATCTGGACTAAGCTAAGATCAAGTGATCGAGATGAAACCCTGAGTC--AAAATGAAGTG
1 -AAATGATCTGGACTAAGCCAAGATCAAGTGATCGAGATGAAACCATGAGTCAAAAAATGAAGTG
* *
6665813 ATCGAGATCGAGT
65 ACCAAGATCGAGT
6665826 TGAGGTAAAA
Statistics
Matches: 436, Mismatches: 94, Indels: 32
0.78 0.17 0.06
Matches are distributed among these distances:
113 21 0.05
114 21 0.05
115 26 0.06
116 26 0.06
117 27 0.06
118 162 0.37
119 150 0.34
120 3 0.01
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.20
Consensus pattern (118 bp):
AAATGATCTGGACTAAGCCAAGATCAAGTGATCGAGATGAAACCATGAGTCAAAAAATGAAGTGA
CCAAGATCGAGTCGAGATCAAAATAAATGATCGAGATGAAACCATGAATCATA
Found at i:6665538 original size:236 final size:238
Alignment explanation
Indices: 6665159--6665805 Score: 615
Period size: 236 Copynumber: 2.7 Consensus size: 238
6665149 ACCACAAGTT
* * ** *
6665159 ATAAGAAATGATCTAGACTAAGCCAAGATC-AGTGACTAGGATGAAAC-CACGAGTCAAAAATTA
1 ATAAGAAATGAACTAGACTAAGCCAAGATCAAGTGAC-CGGAACAAACTCACGAGTC-AAAATGA
** * * * * ** *
6665222 AGCGACCATGATCGAGTTGAGGTCG---A-GAATGACC-GAGACAAAACCATGAATCATAAAATA
64 AGTAACCAAGATCGAGTCGAGATCGAAAATAAATGACCAG-GATGAAACCATGAATCATAAAATG
* * * * *
6665282 ATTTGGACTTAGCCAAGATCAAGTGATTGAGATGAAACCATGAGTCAAAAAATAAAGTGACCAGG
128 ATCTGGACTAAGCTAAGATCAAGTGATCGAGATGAAACCATGAGTCAAAAAATAAAGTGACCAAG
** * * * **
6665347 ACTGAGTCGAGAT-CAAAATAAATGATCGAGATGAAACCACGAATC
193 ACCAAGTCAAGATAAAAAATAAATGATCGAAACAAAACCACGAATC
** * * * * * *
6665392 AT-A-AAATGATTTGGACTAAGTCAAGATTAGGTGA-CTGAGACAAAACT-ATGAGTCAAAAAAT
1 ATAAGAAATGAACTAGACTAAGCCAAGATCAAGTGACCGGA-AC-AAACTCACGAGTC--AAAAT
* * * *
6665453 GAAGTTACCAAGATCGAGTCGAGGTC-AAAATAAATGACCGGGATGAAATCATGAATCATAAAAT
62 GAAGTAACCAAGATCGAGTCGAGATCGAAAATAAATGACCAGGATGAAACCATGAATCATAAAAT
** *
6665517 GATCTAAACTAAGCTAAGATC-AGTTGATCGAGATGAAACCATGAGTC--AAAATGAAGTGACCA
127 GATCTGGACTAAGCTAAGATCAAG-TGATCGAGATGAAACCATGAGTCAAAAAATAAAGTGACCA
* * * *
6665579 AGACCAAGTCAAGGTAAAAAATAAATGATTGAAACAAAATCACGAGTC
191 AGACCAAGTCAAGATAAAAAATAAATGATCGAAACAAAACCACGAATC
* * *
6665627 ATAAGAAATGAACTAGACTGAGCCAAGATCAAGTGACCGGAACGAAGTCACGAGTCAAAATGAAG
1 ATAAGAAATGAACTAGACTAAGCCAAGATCAAGTGACCGGAACAAACTCACGAGTCAAAATGAAG
* * * *
6665692 TAACCAAGATCGAGTTGAGATCGAAAATAAATGATCAGGATGAAACCATGAGTTATAAGAAATGA
66 TAACCAAGATCGAGTCGAGATCGAAAATAAATGACCAGGATGAAACCATGAATCAT-A-AAATGA
*
6665757 TCTGGACTAAGCTAAGATCAAGTGATCGAGATGAAACCCTGAGTCAAAA
129 TCTGGACTAAGCTAAGATCAAGTGATCGAGATGAAACCATGAGTCAAAA
6665806 TGAAGTGATC
Statistics
Matches: 331, Mismatches: 61, Indels: 37
0.77 0.14 0.09
Matches are distributed among these distances:
230 2 0.01
231 21 0.06
232 15 0.05
233 29 0.09
234 24 0.07
235 58 0.18
236 96 0.29
237 34 0.10
238 48 0.15
239 2 0.01
240 2 0.01
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.19
Consensus pattern (238 bp):
ATAAGAAATGAACTAGACTAAGCCAAGATCAAGTGACCGGAACAAACTCACGAGTCAAAATGAAG
TAACCAAGATCGAGTCGAGATCGAAAATAAATGACCAGGATGAAACCATGAATCATAAAATGATC
TGGACTAAGCTAAGATCAAGTGATCGAGATGAAACCATGAGTCAAAAAATAAAGTGACCAAGACC
AAGTCAAGATAAAAAATAAATGATCGAAACAAAACCACGAATC
Found at i:6665858 original size:119 final size:119
Alignment explanation
Indices: 6665143--6665859 Score: 447
Period size: 119 Copynumber: 6.1 Consensus size: 119
6665133 AAATGGCTAA
** * * *
6665143 GATGAAACCACAAGTTATAAGAAATGATCTAGACTAAGCCAAGATC-AGTGA-CTAGGATGAAAC
1 GATGAAACCATGAGTCATAAGAAATGATCTAGACTAAGCTAAGATCAAGTGATCGA-GATGAAAC
* * * * ** * * *
6665206 CAC-GAGTCAAAAATTAAGCGACCATGATCGAGTTGAGGT---CGA-GAATGACCGA
65 C-CTGAGTC-AAAATGAAGTGACCAAGATCGAGTCGAGGTAAAAAATAAATGACTGG
** * * * * * * *
6665258 GACAAAACCATGAATCAT-A-AAATAATTTGGACTTAGCCAAGATCAAGTGATTGAGATGAAACC
1 GATGAAACCATGAGTCATAAGAAATGATCTAGACTAAGCTAAGATCAAGTGATCGAGATGAAACC
* * * * * *
6665321 ATGAGTCAAAAAATAAAGTGACCAGGA-CTGAGTCGAGAT-CAAAATAAATGA-TCGA
66 CTGAGTC--AAAATGAAGTGACCAAGATC-GAGTCGAGGTAAAAAATAAATGACT-GG
* * * * * * **
6665376 GATGAAACCACGAATCAT-A-AAATGATTTGGACTAAG-TCAAGATTAGGTGA-CTGAGACAAAA
1 GATGAAACCATGAGTCATAAGAAATGATCTAGACTAAGCT-AAGATCAAGTGATC-GAGATGAAA
** * * *
6665437 CTATGAGTCAAAAAATGAAGTTACCAAGATCGAGTCGAGGT-CAAAATAAATGACCGG
64 CCCTGAGTC--AAAATGAAGTGACCAAGATCGAGTCGAGGTAAAAAATAAATGACTGG
* * *
6665494 GATGAAATCATGAATCAT-A-AAATGATCTAAACTAAGCTAAGATC-AGTTGATCGAGATGAAAC
1 GATGAAACCATGAGTCATAAGAAATGATCTAGACTAAGCTAAGATCAAG-TGATCGAGATGAAAC
* * * * * *
6665556 CATGAGTCAAAATGAAGTGACCAAGACCAAGTCAAGGTAAAAAATAAATGATTGA
65 CCTGAGTCAAAATGAAGTGACCAAGATCGAGTCGAGGTAAAAAATAAATGACTGG
* ** * * * * * * * *
6665611 AACAAAATCACGAGTCATAAGAAATGAACTAGACTGAGCCAAGATCAAGTGACCG-GAACGAAGT
1 GATGAAACCATGAGTCATAAGAAATGATCTAGACTAAGCTAAGATCAAGTGATCGAG-ATGAA-A
* * * * ** *
6665675 CAC-GAGTCAAAATGAAGTAACCAAGATCGAGTTGAGATCGAAAATAAATGA-TCAG
64 CCCTGAGTCAAAATGAAGTGACCAAGATCGAGTCGAGGTAAAAAATAAATGACT-GG
* *
6665730 GATGAAACCATGAGTTATAAGAAATGATCTGGACTAAGCTAAGATCAAGTGATCGAGATGAAACC
1 GATGAAACCATGAGTCATAAGAAATGATCTAGACTAAGCTAAGATCAAGTGATCGAGATGAAACC
* * * *
6665795 CTGAGTCAAAATGAAGTGATCGAGATCGAGTTGAGGTAAAAAATAAACGACTGG
66 CTGAGTCAAAATGAAGTGACCAAGATCGAGTCGAGGTAAAAAATAAATGACTGG
6665849 GAT-AGAACCAT
1 GATGA-AACCAT
6665860 AGGTCGAATA
Statistics
Matches: 471, Mismatches: 104, Indels: 50
0.75 0.17 0.08
Matches are distributed among these distances:
113 21 0.04
114 21 0.04
115 37 0.08
116 26 0.06
117 27 0.06
118 162 0.34
119 172 0.37
120 5 0.01
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.20
Consensus pattern (119 bp):
GATGAAACCATGAGTCATAAGAAATGATCTAGACTAAGCTAAGATCAAGTGATCGAGATGAAACC
CTGAGTCAAAATGAAGTGACCAAGATCGAGTCGAGGTAAAAAATAAATGACTGG
Found at i:6666300 original size:17 final size:17
Alignment explanation
Indices: 6666276--6666328 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
6666266 ATAAAAAAGA
6666276 AAGATTCACAAAGTTTC
1 AAGATTCACAAAGTTTC
* *
6666293 AAGTTTCACAAAGGTTC
1 AAGATTCACAAAGTTTC
* *
6666310 TAGATTCGCAAAGATTTC
1 AAGATTCACAAAG-TTTC
6666328 A
1 A
6666329 TAACAAAATT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 25 0.89
18 3 0.11
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (17 bp):
AAGATTCACAAAGTTTC
Found at i:6667269 original size:29 final size:28
Alignment explanation
Indices: 6667210--6667278 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 28
6667200 TTTGTCTCTT
* *
6667210 TTTTTTTC-TTTTTAATTTTTTTTTTAG
1 TTTTTTTCTTTTTTAATTTTTTTCTCAG
6667237 TTTTTTTCTTTTTGTACATTTTTTTCTCA-
1 TTTTTTTCTTTTT-TA-ATTTTTTTCTCAG
6667266 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
6667279 CTCCTTTGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 8 0.22
28 4 0.11
29 15 0.41
30 10 0.27
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.80
Consensus pattern (28 bp):
TTTTTTTCTTTTTTAATTTTTTTCTCAG
Found at i:6667277 original size:19 final size:18
Alignment explanation
Indices: 6667186--6667278 Score: 59
Period size: 18 Copynumber: 5.0 Consensus size: 18
6667176 AATTTAAGTA
*
6667186 TTCTTTTTTTCTCATTTGT
1 TTCTTTTTTT-TCATTTTT
*
6667205 CTCTTTTTTTTTC-TTTTT
1 TTC-TTTTTTTTCATTTTT
6667223 AATT-TTTTTTTT-AGTTTTT
1 --TTCTTTTTTTTCA-TTTTT
* *
6667242 TTCTTTTTGTACATTTTT
1 TTCTTTTTTTTCATTTTT
6667260 TTCTCATTTTTTTC-TTTTT
1 TTCT--TTTTTTTCATTTTT
6667279 CTCCTTTGCT
Statistics
Matches: 58, Mismatches: 7, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
17 2 0.03
18 27 0.47
19 15 0.26
20 14 0.24
ACGTcount: A:0.08, C:0.12, G:0.03, T:0.77
Consensus pattern (18 bp):
TTCTTTTTTTTCATTTTT
Found at i:6667546 original size:18 final size:16
Alignment explanation
Indices: 6667523--6667564 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
6667513 ACCCCATCAA
6667523 TTTTTTTT-CTTCTTTT
1 TTTTTTTTGCTT-TTTT
*
6667539 TTTCTTTTAGCTTTTTT
1 TTT-TTTTTGCTTTTTT
6667556 TTTTTTTTG
1 TTTTTTTTG
6667565 GTAAAGCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.36
17 11 0.50
18 3 0.14
ACGTcount: A:0.02, C:0.10, G:0.05, T:0.83
Consensus pattern (16 bp):
TTTTTTTTGCTTTTTT
Found at i:6671232 original size:9 final size:8
Alignment explanation
Indices: 6671215--6671239 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6671205 AGGATAAAAA
6671215 TTATTTTT
1 TTATTTTT
6671223 TTATTTTT
1 TTATTTTT
6671231 TTATTTTT
1 TTATTTTT
6671239 T
1 T
6671240 GAAAATGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTATTTTT
Found at i:6671531 original size:27 final size:26
Alignment explanation
Indices: 6671473--6671541 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
6671463 TTTTTTCAAT
* ** *
6671473 TTAAAATAAGAAATAATAAAAGTAAA
1 TTAAAATAAAAAATAGGAAAAATAAA
*
6671499 TAAAAATAAAAAATAGGAAAAATAGAA
1 TTAAAATAAAAAATAGGAAAAATA-AA
*
6671526 TTAAAATAGAAAATAG
1 TTAAAATAAAAAATAG
6671542 ATTGGGAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
26 19 0.54
27 16 0.46
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (26 bp):
TTAAAATAAAAAATAGGAAAAATAAA
Found at i:6672097 original size:50 final size:51
Alignment explanation
Indices: 6672018--6672161 Score: 141
Period size: 50 Copynumber: 2.8 Consensus size: 51
6672008 TGATTTCCAT
* * * * *
6672018 TTTAATGAGAATTGATTTTAAAATCAAATCCCAAAATCTCTTCC-TATCAA
1 TTTAATGTGAATTGATTTTGAAATTAAATCCAAAAATCTCTTCCACATCAA
* * * *
6672068 TTTAATGTGAATTGATTATGTAATTAAATCCTAACAATCTC-TCCACATCAT
1 TTTAATGTGAATTGATTTTGAAATTAAATCC-AAAAATCTCTTCCACATCAA
*
6672119 TTTTA-GTGCCAATTGATTTTGAAATTAAATCTCAAAAATCTCT
1 TTTAATGTG--AATTGATTTTGAAATTAAATC-CAAAAATCTCT
6672162 CCATTATGGT
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
50 32 0.43
51 15 0.20
52 27 0.36
53 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.39
Consensus pattern (51 bp):
TTTAATGTGAATTGATTTTGAAATTAAATCCAAAAATCTCTTCCACATCAA
Found at i:6672340 original size:14 final size:16
Alignment explanation
Indices: 6672310--6672341 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
6672300 CTATTTTTTA
6672310 CTTAAAATGTCAATTG
1 CTTAAAATGTCAATTG
6672326 CTTAAAA-GT-AATTG
1 CTTAAAATGTCAATTG
6672340 CT
1 CT
6672342 AGGGCAGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 2 0.12
16 7 0.44
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (16 bp):
CTTAAAATGTCAATTG
Found at i:6673273 original size:29 final size:29
Alignment explanation
Indices: 6673238--6673306 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 29
6673228 TATGAATAAT
6673238 ACAAATATATATAAATAGACACAACTAAC
1 ACAAATATATATAAATAGACACAACTAAC
* * *
6673267 ATAAATATATATGAATAGACACGACTAAC
1 ACAAATATATATAAATAGACACAACTAAC
*
6673296 ACGAATATATA
1 ACAAATATATA
6673307 CAAGAACACA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.55, C:0.14, G:0.07, T:0.23
Consensus pattern (29 bp):
ACAAATATATATAAATAGACACAACTAAC
Found at i:6676462 original size:28 final size:29
Alignment explanation
Indices: 6676430--6676490 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
6676420 CAAAAGAGTC
**
6676430 AAAAGTTAAAAA-AAAGTCAAAAA-AAAAA
1 AAAAG-TAAAAACAAAAACAAAAACAAAAA
6676458 AAAAGTAAAAACAAAAACAAAAACAAAAA
1 AAAAGTAAAAACAAAAACAAAAACAAAAA
6676487 AAAA
1 AAAA
6676491 TGGGAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 6 0.21
28 14 0.48
29 9 0.31
ACGTcount: A:0.82, C:0.07, G:0.05, T:0.07
Consensus pattern (29 bp):
AAAAGTAAAAACAAAAACAAAAACAAAAA
Found at i:6677499 original size:40 final size:45
Alignment explanation
Indices: 6677454--6677554 Score: 113
Period size: 48 Copynumber: 2.3 Consensus size: 45
6677444 TTTTTCCTTT
*
6677454 TATTTTTGTTTTTG-A-TTT-TCATTT-ATTTTTCTA-ATTTTTC
1 TATTTTTGTTTTTGTATTTTGTCATTTAATTTTTCTATATTTTTA
* *
6677494 TATTTTTCAGTTTTTGTTATTTTGTTATTTAATTTTTTTATATTTTTA
1 TATTTTT--GTTTTTG-TATTTTGTCATTTAATTTTTCTATATTTTTA
6677542 TATTTTTGTTTTT
1 TATTTTTGTTTTT
6677555 TTTTATATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
40 7 0.14
42 7 0.14
44 1 0.02
45 3 0.06
46 11 0.22
47 8 0.16
48 13 0.26
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.74
Consensus pattern (45 bp):
TATTTTTGTTTTTGTATTTTGTCATTTAATTTTTCTATATTTTTA
Found at i:6677514 original size:17 final size:17
Alignment explanation
Indices: 6677475--6677516 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
6677465 TTGATTTTCA
6677475 TTTATTTTTCTAATTTT
1 TTTATTTTTCTAATTTT
* *
6677492 TCTATTTTTC-AGTTTT
1 TTTATTTTTCTAATTTT
6677508 TGTTATTTT
1 T-TTATTTT
6677517 GTTATTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.14, C:0.07, G:0.05, T:0.74
Consensus pattern (17 bp):
TTTATTTTTCTAATTTT
Found at i:6677548 original size:18 final size:18
Alignment explanation
Indices: 6677521--6677563 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
6677511 TATTTTGTTA
6677521 TTTA-ATTTTT-TTATATT
1 TTTATATTTTTGTT-TATT
*
6677538 TTTATATTTTTGTTTTTT
1 TTTATATTTTTGTTTATT
6677556 TTTATATT
1 TTTATATT
6677564 ATTTAGTGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 17 0.74
19 2 0.09
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (18 bp):
TTTATATTTTTGTTTATT
Found at i:6677638 original size:19 final size:19
Alignment explanation
Indices: 6677614--6677690 Score: 66
Period size: 19 Copynumber: 3.8 Consensus size: 19
6677604 AGAAAATTAG
6677614 TTTATTTTTGCATGATGTT
1 TTTATTTTTGCATGATGTT
*
6677633 TTTATTTTAGCATGA-GTT
1 TTTATTTTTGCATGATGTT
* * *
6677651 TAATATATTTGCATGACTTTTT
1 T-TTATTTTTGCATGA--TGTT
6677673 TTTAATTATTTGCATGAT
1 TTT-ATT-TTTGCATGAT
6677691 TGACTTGCAT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
18 4 0.09
19 25 0.56
21 2 0.04
22 5 0.11
23 9 0.20
ACGTcount: A:0.23, C:0.06, G:0.13, T:0.57
Consensus pattern (19 bp):
TTTATTTTTGCATGATGTT
Found at i:6677811 original size:20 final size:21
Alignment explanation
Indices: 6677786--6677835 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
6677776 TATTTAATTG
6677786 CATGATAATTAATA-TATTTA
1 CATGATAATTAATATTATTTA
* *
6677806 CATGAT-ATTTATATTATTTG
1 CATGATAATTAATATTATTTA
6677826 CATGATAATT
1 CATGATAATT
6677836 TTTTGTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 6 0.23
20 17 0.65
21 3 0.12
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (21 bp):
CATGATAATTAATATTATTTA
Found at i:6682262 original size:20 final size:21
Alignment explanation
Indices: 6682213--6682264 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
6682203 ATTTTTATTT
* *
6682213 TTTATATATTATTTAATATAAT
1 TTTAAATA-TATTTAATATAAA
*
6682235 TTTTAATATATTTAA-ATAAA
1 TTTAAATATATTTAATATAAA
6682255 TTTAAATATA
1 TTTAAATATA
6682265 AATAATTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 13 0.50
21 7 0.27
22 6 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTAAATATATTTAATATAAA
Found at i:6682277 original size:19 final size:19
Alignment explanation
Indices: 6682235--6682291 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
6682225 TTAATATAAT
** *
6682235 TTTTAATATATTTAAATAA
1 TTTTAATATATAAAAATTA
*
6682254 ATTTAA-ATATAAATAATTA
1 TTTTAATATATAAA-AATTA
*
6682273 TTTTAATTTATAAAAATTA
1 TTTTAATATATAAAAATTA
6682292 ATAAAAATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
18 5 0.17
19 19 0.63
20 6 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTTAATATATAAAAATTA
Found at i:6682388 original size:11 final size:11
Alignment explanation
Indices: 6682340--6682382 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
6682330 TTTTTATCTA
6682340 AAATTTAATTC
1 AAATTTAATTC
6682351 AAATTTAATAT-
1 AAATTTAAT-TC
*
6682362 ATATTTAAATTC
1 AAATTT-AATTC
6682374 AAATTTAAT
1 AAATTTAAT
6682383 CTAAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (11 bp):
AAATTTAATTC
Found at i:6682691 original size:17 final size:14
Alignment explanation
Indices: 6682654--6682681 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6682644 TTTGGATAAC
6682654 TTGATATATTATTA
1 TTGATATATTATTA
6682668 TTGATATATTATTA
1 TTGATATATTATTA
6682682 AAGTTGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (14 bp):
TTGATATATTATTA
Found at i:6688874 original size:21 final size:22
Alignment explanation
Indices: 6688831--6688874 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6688821 GCTTTGTTTA
* *
6688831 AGATTTGTTAGAGAATTGTTTG
1 AGATTTGTCAGAGAATTGCTTG
*
6688853 AGATTTGTCAGA-TATTGCTTG
1 AGATTTGTCAGAGAATTGCTTG
6688874 A
1 A
6688875 TGGATAAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.27, C:0.05, G:0.25, T:0.43
Consensus pattern (22 bp):
AGATTTGTCAGAGAATTGCTTG
Found at i:6689037 original size:52 final size:52
Alignment explanation
Indices: 6688886--6689040 Score: 156
Period size: 52 Copynumber: 3.0 Consensus size: 52
6688876 GGATAAGAAG
*
6688886 ACTTACAA-AAGAAGAATTCTAAGAGAAAGGAGATTCTTAATAGGTAAGTTTG
1 ACTTACAAGAA-AAGAATTCTAAGAGAAAGGAGATTCTTAATAGGTAAGTTTA
* * * * *
6688938 ATTTGCAAGAGAAA-AATTCTAAAAGGAAATG-GATTCTTAACAGGTAAGTTTA
1 ACTTACAAGA-AAAGAATTCTAAGA-GAAAGGAGATTCTTAATAGGTAAGTTTA
* * * *
6688990 ACTTACAAGAAAAGAATTTTAAGACGAGA-GAGATTTTTAATAAGTAAGTTT
1 ACTTACAAGAAAAGAATTCTAAGA-GAAAGGAGATTCTTAATAGGTAAGTTT
6689041 GTATGGTTAT
Statistics
Matches: 83, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
51 4 0.05
52 70 0.84
53 8 0.10
54 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.29
Consensus pattern (52 bp):
ACTTACAAGAAAAGAATTCTAAGAGAAAGGAGATTCTTAATAGGTAAGTTTA
Found at i:6690874 original size:2 final size:2
Alignment explanation
Indices: 6690867--6690904 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6690857 TTTCAGCAGA
6690867 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6690905 TGTTAAAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6699014 original size:20 final size:20
Alignment explanation
Indices: 6698991--6699031 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
6698981 AAACATGACC
6698991 ATATTAATTTCATGAAGATT
1 ATATTAATTTCATGAAGATT
6699011 ATATTAATTTCATGAAGATT
1 ATATTAATTTCATGAAGATT
6699031 A
1 A
6699032 CATAATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (20 bp):
ATATTAATTTCATGAAGATT
Found at i:6707336 original size:17 final size:17
Alignment explanation
Indices: 6707314--6707348 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
6707304 AGAGGCACAG
6707314 GGCAACAAGTTTGGAAT
1 GGCAACAAGTTTGGAAT
6707331 GGCAACAAGTTTGGAAT
1 GGCAACAAGTTTGGAAT
6707348 G
1 G
6707349 TGTAAAGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.31, T:0.23
Consensus pattern (17 bp):
GGCAACAAGTTTGGAAT
Found at i:6712532 original size:22 final size:22
Alignment explanation
Indices: 6712506--6712549 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
6712496 TGTATATTTA
6712506 TATTTGTATCTC-TAGAATTAAG
1 TATTTGTATC-CATAGAATTAAG
6712528 TATTTGTATCCATAGAATTAAG
1 TATTTGTATCCATAGAATTAAG
6712550 GACAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCATAGAATTAAG
Found at i:6712814 original size:25 final size:25
Alignment explanation
Indices: 6712780--6712842 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
6712770 TGACTTTTAT
* *
6712780 TTTAAGCCTTCATTGTTGAACCCTG
1 TTTAGGCCTTCATTGTCGAACCCTG
* * *
6712805 TTTAGGCCTTTATTGTCGAGCCTTG
1 TTTAGGCCTTCATTGTCGAACCCTG
*
6712830 TTAAGGCCTTCAT
1 TTTAGGCCTTCAT
6712843 AGCCATTCTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.41
Consensus pattern (25 bp):
TTTAGGCCTTCATTGTCGAACCCTG
Found at i:6717775 original size:2 final size:2
Alignment explanation
Indices: 6717764--6717795 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
6717754 GCTCTCGAGC
6717764 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6717796 TGAGCCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6721150 original size:14 final size:13
Alignment explanation
Indices: 6721117--6721166 Score: 52
Period size: 12 Copynumber: 4.0 Consensus size: 13
6721107 ATAATATTAA
* *
6721117 ATTTAAGTTTAAT
1 ATTTAAATTTGAT
6721130 -TTTAAATTTGAT
1 ATTTAAATTTGAT
6721142 ATTTGAAATTTG--
1 ATTT-AAATTTGAT
6721154 ATTTAAATTTGAT
1 ATTTAAATTTGAT
6721167 TAAATTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
11 7 0.23
12 14 0.45
13 3 0.10
14 7 0.23
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (13 bp):
ATTTAAATTTGAT
Found at i:6721171 original size:10 final size:11
Alignment explanation
Indices: 6721130--6721178 Score: 55
Period size: 11 Copynumber: 4.3 Consensus size: 11
6721120 TAAGTTTAAT
6721130 TTTAAATTTGATA
1 TTTAAATTTG--A
6721143 TTTGAAATTTGA
1 TTT-AAATTTGA
6721155 TTTAAATTTGA
1 TTTAAATTTGA
*
6721166 -TTAAATTTTA
1 TTTAAATTTGA
6721176 TTT
1 TTT
6721179 TTTTTATTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 9 0.27
11 10 0.30
12 4 0.12
13 3 0.09
14 7 0.21
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (11 bp):
TTTAAATTTGA
Found at i:6721297 original size:26 final size:24
Alignment explanation
Indices: 6721268--6721323 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 24
6721258 TTATATTTGA
*
6721268 TAAAATTT-AATTATTTGTATTCGAAT
1 TAAAATTTAAAATATTT-TA-TC-AAT
6721294 TAAAATTTAAAATATTTTATCAAT
1 TAAAATTTAAAATATTTTATCAAT
6721318 TAAAAT
1 TAAAAT
6721324 ATATTAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 9 0.32
25 2 0.07
26 10 0.36
27 7 0.25
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (24 bp):
TAAAATTTAAAATATTTTATCAAT
Found at i:6721396 original size:32 final size:31
Alignment explanation
Indices: 6721342--6721432 Score: 103
Period size: 32 Copynumber: 2.9 Consensus size: 31
6721332 ATATAATAAT
* * * *
6721342 TTAAATCAGATATAAAAATATTTAAATTTAA
1 TTAAATAATATATTAAATTATTTAAATTTAA
*
6721373 TTTAATTAATATATTAAATTATTTAAATTTAA
1 -TTAAATAATATATTAAATTATTTAAATTTAA
6721405 TTAAATAATA-ATTAAATTAAATTTAAAT
1 TTAAATAATATATTAAATT--ATTTAAAT
6721433 AATTTATAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
30 8 0.16
31 9 0.18
32 34 0.67
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (31 bp):
TTAAATAATATATTAAATTATTTAAATTTAA
Found at i:6721397 original size:53 final size:52
Alignment explanation
Indices: 6721332--6721443 Score: 122
Period size: 53 Copynumber: 2.2 Consensus size: 52
6721322 ATATATTAAA
* * * *
6721332 ATAT-AATAATTTAAA-TCAGATATAAA-AATATTTAAATTTAATTTAATTAAT
1 ATATAAATTATTTAAATTCA-AT-TAAATAATAATTAAATTAAATTTAAATAAT
*
6721383 ATATTAAATTATTTAAATTTAATTAAATAATAATTAAATTAAATTTAAATAAT
1 ATA-TAAATTATTTAAATTCAATTAAATAATAATTAAATTAAATTTAAATAAT
*
6721436 TTATAAAT
1 ATATAAAT
6721444 ATTAATATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
51 3 0.06
52 10 0.20
53 36 0.71
54 2 0.04
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.45
Consensus pattern (52 bp):
ATATAAATTATTTAAATTCAATTAAATAATAATTAAATTAAATTTAAATAAT
Found at i:6721441 original size:26 final size:26
Alignment explanation
Indices: 6721363--6721441 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
6721353 ATAAAAATAT
* *
6721363 TTAAATTTAATTTAATTAATATATTAAA
1 TTAAATTAAATTTAATTAATTTA-T-AA
* * *
6721391 TT-ATTTAAATTTAATTAAATAATAA
1 TTAAATTAAATTTAATTAATTTATAA
*
6721416 TTAAATTAAATTTAAATAATTTATAA
1 TTAAATTAAATTTAATTAATTTATAA
6721442 ATATTAATAT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
25 4 0.10
26 20 0.49
27 15 0.37
28 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
TTAAATTAAATTTAATTAATTTATAA
Found at i:6721443 original size:22 final size:21
Alignment explanation
Indices: 6721395--6721435 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
6721385 ATTAAATTAT
*
6721395 TTAAATTTAATTAAATAATAA
1 TTAAATTAAATTAAATAATAA
6721416 TTAAATTAAATTTAAATAAT
1 TTAAATTAAA-TTAAATAAT
6721436 TTATAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TTAAATTAAATTAAATAATAA
Found at i:6722388 original size:6 final size:6
Alignment explanation
Indices: 6722377--6722414 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
6722367 ATTAATTTTT
*
6722377 TATTTA TATTTA TA-TAA T-TTTA TATTTA TATTTA TATT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATT
6722415 AAAAATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 6 0.21
6 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TATTTA
Found at i:6722394 original size:22 final size:22
Alignment explanation
Indices: 6722351--6722413 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
6722341 ATATATAATT
* *
6722351 ATTTTTTAATTA-ATTAAT-TA
1 ATTTTTTATTTATATTTATATA
6722371 ATTTTTTATTTATATTTATATA
1 ATTTTTTATTTATATTTATATA
*
6722393 ATTTTATATTTATATTTATAT
1 ATTTTTTATTTATATTTATAT
6722414 TAAAAATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 11 0.29
21 5 0.13
22 22 0.58
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
ATTTTTTATTTATATTTATATA
Found at i:6723078 original size:23 final size:24
Alignment explanation
Indices: 6723048--6723093 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
6723038 TAAATTAAAA
6723048 TATATATTT-ATTTTTATTAAATT
1 TATATATTTAATTTTTATTAAATT
6723071 TATATATTTAAATTTTTATTAAA
1 TATATATTT-AATTTTTATTAAA
6723094 AATCTTAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 9 0.43
25 12 0.57
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TATATATTTAATTTTTATTAAATT
Found at i:6723217 original size:27 final size:27
Alignment explanation
Indices: 6723187--6723251 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
6723177 TTGATAGATT
*
6723187 ATAAAATTAATTGTGATAA-AATTAACA
1 ATAAAATTAATTATGATAATAA-TAACA
* *
6723214 ATAAAATTAATTATTATAATAATAAGA
1 ATAAAATTAATTATGATAATAATAACA
*
6723241 TTAAAATTAAT
1 ATAAAATTAAT
6723252 ATAAAAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 31 0.94
28 2 0.06
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (27 bp):
ATAAAATTAATTATGATAATAATAACA
Found at i:6723516 original size:21 final size:22
Alignment explanation
Indices: 6723484--6723530 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
6723474 TTATCTTATA
6723484 ATTATAAAAAATTCTTTACTAT
1 ATTATAAAAAATTCTTTACTAT
*
6723506 ATTAT-AAAAATTCTTTATTAT
1 ATTATAAAAAATTCTTTACTAT
6723527 ATTA
1 ATTA
6723531 AATTAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTATAAAAAATTCTTTACTAT
Done.