Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 64 of 106
Found at i:11658338 original size:19 final size:19
Alignment explanation
Indices: 11658314--11658355 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
11658304 TGGTTCTGTA
11658314 GGAATATCCCTTCAAAATG
1 GGAATATCCCTTCAAAATG
*
11658333 GGAATATCCCTTTAAAATG
1 GGAATATCCCTTCAAAATG
11658352 GGAA
1 GGAA
11658356 CACTGTGTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (19 bp):
GGAATATCCCTTCAAAATG
Found at i:11660602 original size:11 final size:11
Alignment explanation
Indices: 11660586--11660648 Score: 54
Period size: 11 Copynumber: 5.3 Consensus size: 11
11660576 TTTTTTATTT
11660586 AATTTAAATTA
1 AATTTAAATTA
11660597 AATTTAAATATTA
1 AATTT-AA-ATTA
*
11660610 AATGTATATATTA
1 AAT-T-TAAATTA
*
11660623 AGTTTAAATTGA
1 AATTTAAATT-A
*
11660635 ATTTTAAATTA
1 AATTTAAATTA
11660646 AAT
1 AAT
11660649 ATTGAAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
11 13 0.31
12 13 0.31
13 13 0.31
14 2 0.05
15 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (11 bp):
AATTTAAATTA
Found at i:11660603 original size:6 final size:6
Alignment explanation
Indices: 11660582--11660662 Score: 51
Period size: 6 Copynumber: 13.2 Consensus size: 6
11660572 GATTTTTTTT
* * *
11660582 ATTT-A ATTTAA A-TTAA ATTTAA ATATTAA ATGTAT ATATTAA GTTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA AT-TTAA ATTTAA
* *
11660630 ATTGAA TTTTAA A-TTAA ATATTGAAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA AT-TT--AA ATTTAA A
11660663 AAAAATGAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
5 14 0.24
6 27 0.47
7 11 0.19
8 2 0.03
9 4 0.07
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (6 bp):
ATTTAA
Found at i:11660611 original size:13 final size:13
Alignment explanation
Indices: 11660581--11660631 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
11660571 TGATTTTTTT
*
11660581 TATTTAATTT-AA
1 TATTAAATTTAAA
11660593 -ATTAAATTTAAA
1 TATTAAATTTAAA
* *
11660605 TATTAAATGTATA
1 TATTAAATTTAAA
*
11660618 TATTAAGTTTAAA
1 TATTAAATTTAAA
11660631 T
1 T
11660632 TGAATTTTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
11 8 0.26
12 2 0.06
13 21 0.68
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (13 bp):
TATTAAATTTAAA
Found at i:11660702 original size:21 final size:19
Alignment explanation
Indices: 11660677--11660719 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
11660667 ATGAATTGAA
11660677 TTATATAT-TTTTTAAATTT
1 TTATATATATTTTT-AATTT
11660696 TTATATATATTTTTAATTT
1 TTATATATATTTTTAATTT
11660715 TTATA
1 TTATA
11660720 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATATATATTTTTAATTT
Found at i:11660856 original size:22 final size:23
Alignment explanation
Indices: 11660831--11660877 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
11660821 TTTAATTGAA
11660831 TTGATTCAAA-TCAAATAAAATT
1 TTGATTCAAATTCAAATAAAATT
* * *
11660853 TTGATTTAAATTTAAATCAAATT
1 TTGATTCAAATTCAAATAAAATT
11660876 TT
1 TT
11660878 AAATTTTTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (23 bp):
TTGATTCAAATTCAAATAAAATT
Found at i:11663169 original size:15 final size:16
Alignment explanation
Indices: 11663151--11663184 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
11663141 TAATTTTTAT
11663151 TTTTTTAAT-CCTTAA
1 TTTTTTAATACCTTAA
11663166 TTTTTTAATACCTTAA
1 TTTTTTAATACCTTAA
11663182 TTT
1 TTT
11663185 AAAAAAAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTTTAATACCTTAA
Found at i:11667979 original size:20 final size:20
Alignment explanation
Indices: 11667956--11667995 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
11667946 AATTTAAAAT
*
11667956 AAAATTTATATTATTAAATAA
1 AAAATTAAT-TTATTAAATAA
11667977 AAAATTAATTTATTAAATA
1 AAAATTAATTTATTAAATA
11667996 TATATAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATTAATTTATTAAATAA
Found at i:11668912 original size:15 final size:15
Alignment explanation
Indices: 11668889--11668919 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11668879 TTTTCTCACA
11668889 TTTTCTCTCTATCTC
1 TTTTCTCTCTATCTC
*
11668904 TTTTTTCTCTATCTC
1 TTTTCTCTCTATCTC
11668919 T
1 T
11668920 AAATCCTTTC
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:0.06, C:0.29, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTCTCTCTATCTC
Found at i:11669765 original size:70 final size:70
Alignment explanation
Indices: 11669552--11669930 Score: 249
Period size: 70 Copynumber: 5.4 Consensus size: 70
11669542 AAAAGTGTAT
* ** * * * **
11669552 TTGTAAAAATTTTAGAA-TTAAAAA-AAAAATTCAACATCTACAATATTTTTTATGCTCAAAATG
1 TTGTTAAAATTTTAGAATTTAAAAATAAAGTTTCAACATCTACTACATTTTCTATGCTCAAAAAC
*
11669615 AGATTT
66 AGA-TC
* * * * * *
11669621 TTGTTAAAATCTTAGAATTGTAAAAATAACGTTTTAATATCCACTAC-GTTT-TATGCT-AAAGA
1 TTGTTAAAATTTTAGAATT-TAAAAATAAAGTTTCAACATCTACTACATTTTCTATGCTCAAA-A
** *
11669683 AGTGATAT
64 ACAGAT-C
11669691 TTGTTAAAATTTTAGAATTTCAAAAATAAAGTTTCAACATCTACTACATTTTCTATGCTCAAAAA
1 TTGTTAAAATTTTAGAATTT-AAAAATAAAGTTTCAACATCTACTACATTTTCTATGCTCAAAAA
11669756 CAG-TC
65 CAGATC
* * * * * * *
11669761 TTGTTAAAATTTCAAAATTATGAAAATAAAGTTTCAACATCCACTATA-TTTCT-TAACTTAAAA
1 TTGTTAAAATTTTAGAATT-TAAAAATAAAGTTTCAACATCTACTACATTTTCTAT-GCTCAAAA
11669824 ACATGATC
64 ACA-GATC
* * ** * *
11669832 TTTGTTAAAATTATAGAATTTCGAGTATAAAGTTTCAACATCTGCTACA-TTTCTTAT-CTTAAA
1 -TTGTTAAAATTTTAGAATTT-AAAAATAAAGTTTCAACATCTACTACATTTTC-TATGCTCAAA
*
11669895 AACATGATTT
63 AACA-GA-TC
* *
11669905 TTGTT-AAATTTTCATAATTTCAAAAT
1 TTGTTAAAATTTT-AGAATTTAAAAAT
11669931 TTTAAGTTTC
Statistics
Matches: 248, Mismatches: 43, Indels: 36
0.76 0.13 0.11
Matches are distributed among these distances:
68 1 0.00
69 34 0.14
70 94 0.38
71 26 0.10
72 87 0.35
73 5 0.02
74 1 0.00
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (70 bp):
TTGTTAAAATTTTAGAATTTAAAAATAAAGTTTCAACATCTACTACATTTTCTATGCTCAAAAAC
AGATC
Found at i:11669838 original size:142 final size:139
Alignment explanation
Indices: 11669516--11670013 Score: 404
Period size: 142 Copynumber: 3.5 Consensus size: 139
11669506 TTATAAGTAG
* * *
11669516 CAACATTCACTATATTTTTATTTTAAAAAAGTG-TATTTGTAAAAATTTTAGAA-TT-AAAAA-A
1 CAACATCCACTATATTTTTATCTTAAAAAA-TGATATTTGTTAAAATTTTAGAATTTCAAAAATA
* * * * * * *
11669577 AAAATTCAACATCTACAATATTTTTTATGCTCAAAATGAGATTTTTGTTAAAATCTT-AGAATTG
65 AAATTTCAACATCTACTACATTTTCTATGCTCAAAA--ACAGTTTTGTTAAAAT-TTCAAAATT-
*
11669641 TAAAAATAACGTTT
126 TAAAAATAAAGTTT
* * ** *
11669655 TAATATCCACTA-CGTTTTATGC-TAAAGAAGTGATATTTGTTAAAATTTTAGAATTTCAAAAAT
1 CAACATCCACTATATTTTTAT-CTTAAA-AAATGATATTTGTTAAAATTTTAGAATTTCAAAAAT
* * *
11669718 AAAGTTTCAACATCTACTACATTTTCTATGCTCAAAAACAGTCTTGTTAAAATTTCAAAATTATG
64 AAAATTTCAACATCTACTACATTTTCTATGCTCAAAAACAGTTTTGTTAAAATTTCAAAATT-TA
11669783 AAAATAAAGTTT
128 AAAATAAAGTTT
* * * * **
11669795 CAACATCCACTATATTTCTTAACTTAAAAACATGATCTTTGTTAAAATTATAGAATTTCGAGTAT
1 CAACATCCACTATATTT-TTATCTTAAAAA-ATGATATTTGTTAAAATTTTAGAATTTCAAAAAT
* * * * *
11669860 AAAGTTTCAACATCTGCTACA-TTTCTTAT-CTTAAAAACATGATTTTTGTTAAATTTTCATAAT
64 AAAATTTCAACATCTACTACATTTTC-TATGCTCAAAAACA-G--TTTTGTTAAAATTTCAAAAT
* *
11669923 TTCAAAATTTTAAGTTT
125 TT-AAAA-ATAAAGTTT
** * * * * *
11669940 CAATGTTCATTATATTTCTTATCTTAAAAATGTGATCTTTGTTAAAATTCTA-AATTTTCAAAAA
1 CAACATCCACTATATTT-TTATCTTAAAAA-ATGATATTTGTTAAAATTTTAGAA-TTTCAAAAA
11670004 TAAAATTTCA
63 TAAAATTTCA
11670014 TCACCCACTA
Statistics
Matches: 290, Mismatches: 51, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
138 12 0.04
139 32 0.11
140 42 0.14
141 23 0.08
142 91 0.31
143 1 0.00
144 23 0.08
145 66 0.23
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (139 bp):
CAACATCCACTATATTTTTATCTTAAAAAATGATATTTGTTAAAATTTTAGAATTTCAAAAATAA
AATTTCAACATCTACTACATTTTCTATGCTCAAAAACAGTTTTGTTAAAATTTCAAAATTTAAAA
ATAAAGTTT
Found at i:11669865 original size:72 final size:72
Alignment explanation
Indices: 11669516--11670054 Score: 382
Period size: 72 Copynumber: 7.6 Consensus size: 72
11669506 TTATAAGTAG
* * * *
11669516 CAACATTCACTATATTT-TTATTTTAAAAA-AGTG-TATTTGTAAAAATTTTAGAA-TT-AAAAA
1 CAACATCCACTATATTTCTTATCTTAAAAACA-TGATCTTTGTTAAAATTTTAGAATTTCAAAAA
**
11669576 -AAAAATT
65 TAAAGTTT
* * * * ** * *
11669583 CAACATCTACAATATTTTTTATGCTCAAAATGA-GATTTTTGTTAAAATCTTAGAATTGT-AAAA
1 CAACATCCACTATATTTCTTAT-CTTAAAAACATGATCTTTGTTAAAATTTTAGAATT-TCAAAA
*
11669646 ATAACGTTT
64 ATAAAGTTT
* * ** * *
11669655 TAATATCCACTA-CGTT-TTATGC-TAAAGAA-GTGATATTTGTTAAAATTTTAGAATTTCAAAA
1 CAACATCCACTATATTTCTTAT-CTTAAA-AACATGATCTTTGTTAAAATTTTAGAATTTCAAAA
11669716 ATAAAGTTT
64 ATAAAGTTT
* * * * * *
11669725 CAACATCTACTACATTT-TCTATGCTCAAAAACA-G-TC-TTGTTAAAATTTCAAAATTAT-GAA
1 CAACATCCACTATATTTCT-TAT-CTTAAAAACATGATCTTTGTTAAAATTTTAGAATT-TCAAA
11669785 AATAAAGTTT
63 AATAAAGTTT
* * * **
11669795 CAACATCCACTATATTTCTTAACTTAAAAACATGATCTTTGTTAAAATTATAGAATTTCGAGTAT
1 CAACATCCACTATATTTCTTATCTTAAAAACATGATCTTTGTTAAAATTTTAGAATTTCAAAAAT
11669860 AAAGTTT
66 AAAGTTT
** * * *
11669867 CAACATCTGCTACATTTCTTATCTTAAAAACATGATTTTTGTT-AAATTTTCATAATTTCAAAAT
1 CAACATCCACTATATTTCTTATCTTAAAAACATGATCTTTGTTAAAATTTT-AGAATTTCAAAA-
* *
11669931 TTTAAGTTT
64 ATAAAGTTT
** * * ** *
11669940 CAATGTTCATTATATTTCTTATCTTAAAAATGTGATCTTTGTTAAAATTCTA-AATTTTCAAAAA
1 CAACATCCACTATATTTCTTATCTTAAAAACATGATCTTTGTTAAAATTTTAGAA-TTTCAAAAA
*
11670004 TAAAATTT
65 TAAAGTTT
* * *
11670012 CATCACCCACTATGTTT-TTATCTTAAAAACATGATC-TTGTTAA
1 CAACATCCACTATATTTCTTATCTTAAAAACATGATCTTTGTTAA
11670055 TATCATAATT
Statistics
Matches: 369, Mismatches: 79, Indels: 45
0.75 0.16 0.09
Matches are distributed among these distances:
67 14 0.04
68 5 0.01
69 35 0.09
70 106 0.29
71 40 0.11
72 111 0.30
73 52 0.14
74 6 0.02
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (72 bp):
CAACATCCACTATATTTCTTATCTTAAAAACATGATCTTTGTTAAAATTTTAGAATTTCAAAAAT
AAAGTTT
Found at i:11670155 original size:31 final size:31
Alignment explanation
Indices: 11670117--11670175 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
11670107 TTTAAAATAA
*
11670117 TTTTAATTTCAAATAATTTAATATTATTGTT
1 TTTTAATTTCAAATAATGTAATATTATTGTT
*
11670148 TTTTAATTTTAAATAATGTAATATTATT
1 TTTTAATTTCAAATAATGTAATATTATT
11670176 TAAAAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (31 bp):
TTTTAATTTCAAATAATGTAATATTATTGTT
Found at i:11670236 original size:24 final size:26
Alignment explanation
Indices: 11670195--11670245 Score: 88
Period size: 24 Copynumber: 2.0 Consensus size: 26
11670185 ACATATGTTA
11670195 ATGTGAAAAAACTAAAAAATAAAACT
1 ATGTGAAAAAACTAAAAAATAAAACT
11670221 ATGTG-AAAAACT-AAAAATAAAACT
1 ATGTGAAAAAACTAAAAAATAAAACT
11670245 A
1 A
11670246 AATGTATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 13 0.52
25 7 0.28
26 5 0.20
ACGTcount: A:0.65, C:0.08, G:0.08, T:0.20
Consensus pattern (26 bp):
ATGTGAAAAAACTAAAAAATAAAACT
Found at i:11674437 original size:22 final size:22
Alignment explanation
Indices: 11674410--11674454 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
11674400 ATTTTCTATC
11674410 TTTAATTTTAGAAATACAAATA
1 TTTAATTTTAGAAATACAAATA
* *
11674432 TTTAATTTTAGATATATAAATA
1 TTTAATTTTAGAAATACAAATA
11674454 T
1 T
11674455 GAATATACAG
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:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (22 bp):
TTTAATTTTAGAAATACAAATA
Found at i:11677209 original size:18 final size:18
Alignment explanation
Indices: 11677186--11677347 Score: 95
Period size: 18 Copynumber: 9.7 Consensus size: 18
11677176 AATTTTACTT
11677186 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
11677204 ATAAAT-A-A-TATATTA
1 ATAAATAATATTATATTA
11677219 AT--AT-ATA-T-TATT-
1 ATAAATAATATTATATTA
11677231 ATAAATAAATATTATATTA
1 ATAAAT-AATATTATATTA
** * *
11677250 ATATCTTAATTTTA-ATAA
1 ATA-AATAATATTATATTA
*
11677268 ATAATATTATATTATATTA
1 ATAA-ATAATATTATATTA
**
11677287 ATAAATAATAAAATATTA
1 ATAAATAATATTATATTA
* *
11677305 ATAAATTATA-CACTATTA
1 ATAAATAATATTA-TATTA
11677323 AT--ATAATA-T-T-TTA
1 ATAAATAATATTATATTA
11677336 ATAAATAATATT
1 ATAAATAATATT
11677348 TTAATATTTT
Statistics
Matches: 113, Mismatches: 16, Indels: 32
0.70 0.10 0.20
Matches are distributed among these distances:
12 2 0.02
13 12 0.11
14 5 0.04
15 15 0.13
16 10 0.09
17 3 0.03
18 49 0.43
19 16 0.14
20 1 0.01
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAAATAATATTATATTA
Found at i:11677215 original size:15 final size:15
Alignment explanation
Indices: 11677192--11677353 Score: 90
Period size: 15 Copynumber: 11.0 Consensus size: 15
11677182 ACTTATAAAT
*
11677192 AATATTATATTAATA
1 AATAATATATTAATA
11677207 AATAATATATTAATA
1 AATAATATATTAATA
* * *
11677222 TATATTATTATAAATA
1 AATAATA-TATTAATA
*
11677238 AATATTATATTAATA
1 AATAATATATTAATA
**
11677253 TCTTAAT-T-TTAATA
1 -AATAATATATTAATA
11677267 AAT-A-ATATT-AT-
1 AATAATATATTAATA
11677278 -AT--TATATTAATA
1 AATAATATATTAATA
11677290 AATAATAAAATATTAATA
1 AATAAT---ATATTAATA
* * * *
11677308 AATTATACACTATTA
1 AATAATATATTAATA
*
11677323 ATATAATATTTTAATA
1 A-ATAATATATTAATA
*
11677339 AATAATATTTTAATA
1 AATAATATATTAATA
11677354 TTTTAATAAA
Statistics
Matches: 113, Mismatches: 20, Indels: 28
0.70 0.12 0.17
Matches are distributed among these distances:
10 7 0.06
11 2 0.02
12 4 0.04
13 5 0.04
14 6 0.05
15 49 0.43
16 26 0.23
18 14 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
AATAATATATTAATA
Found at i:11677226 original size:10 final size:10
Alignment explanation
Indices: 11677211--11677253 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
11677201 TTAATAAATA
11677211 ATATATTAAT
1 ATATATTAAT
*
11677221 ATATATTATT
1 ATATATTAAT
* *
11677231 ATAAATAAAT
1 ATATATTAAT
11677241 ATTATATTAAT
1 A-TATATTAAT
11677252 AT
1 AT
11677254 CTTAATTTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
10 18 0.69
11 8 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
ATATATTAAT
Found at i:11677290 original size:23 final size:23
Alignment explanation
Indices: 11677186--11677369 Score: 97
Period size: 23 Copynumber: 7.5 Consensus size: 23
11677176 AATTTTACTT
*
11677186 ATAAATAATATTATATTA-ATAA
1 ATAAATAATATTATATTATATTA
* *
11677208 ATAATATATTAATATATATTATTATAA
1 ATAA-ATAAT-AT-TATATTA-TATTA
11677235 ATAAATATTATATTAATATCT-TAATTTTA
1 ATAAATA--ATATT-ATAT-TAT-AT--TA
11677264 ATAAATAATATTATATTATATTA
1 ATAAATAATATTATATTATATTA
** *
11677287 ATAAATAATAAAATATTA-ATAA
1 ATAAATAATATTATATTATATTA
* *
11677309 AT-TATACACTATTAATATAATATTTTA
1 ATAAATA-A-TATT-ATAT--TATATTA
* * *
11677336 ATAAATAATATTTTAATATTTTA
1 ATAAATAATATTATATTATATTA
11677359 ATAAATAATAT
1 ATAAATAATAT
11677370 AAAGAATAAT
Statistics
Matches: 128, Mismatches: 14, Indels: 39
0.71 0.08 0.22
Matches are distributed among these distances:
21 3 0.02
22 10 0.08
23 42 0.33
24 6 0.05
25 12 0.09
26 16 0.12
27 26 0.20
28 5 0.04
29 8 0.06
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
ATAAATAATATTATATTATATTA
Found at i:11677465 original size:15 final size:16
Alignment explanation
Indices: 11677445--11677474 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11677435 ATAATTATTT
11677445 TTTAAT-ATTAATAAA
1 TTTAATAATTAATAAA
11677460 TTTAATAATTAATAA
1 TTTAATAATTAATAA
11677475 TTACAATAGA
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTAATAATTAATAAA
Found at i:11677655 original size:14 final size:14
Alignment explanation
Indices: 11677636--11677669 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
11677626 AAAATACAAA
11677636 TATTTTTTAAAAAT
1 TATTTTTTAAAAAT
11677650 TATTTTTTAAAAAT
1 TATTTTTTAAAAAT
*
11677664 GATTTT
1 TATTTT
11677670 CTGTAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (14 bp):
TATTTTTTAAAAAT
Found at i:11679646 original size:60 final size:61
Alignment explanation
Indices: 11679582--11679701 Score: 138
Period size: 60 Copynumber: 2.0 Consensus size: 61
11679572 TAATTATTAT
* *
11679582 TTTATTATAATCAAA-TAAATCTTCATAAT-TTATTTTTTTATTTAATTAAAT-TTTTAAAAC
1 TTTATTATAATCAAATTAAATATTCA-AATATT-TATTTTTATTTAATTAAATATTTTAAAAC
* * * * *
11679642 TTTATTTTTATTAAATTAAATATTTAAATATTTATTTTTATTTAATTAATTATTTTAAAA
1 TTTATTATAATCAAATTAAATATTCAAATATTTATTTTTATTTAATTAAATATTTTAAAA
11679702 AATAAATCTT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
60 32 0.64
61 18 0.36
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (61 bp):
TTTATTATAATCAAATTAAATATTCAAATATTTATTTTTATTTAATTAAATATTTTAAAAC
Found at i:11679652 original size:30 final size:29
Alignment explanation
Indices: 11679616--11679701 Score: 118
Period size: 30 Copynumber: 2.9 Consensus size: 29
11679606 ATAATTTATT
11679616 TTTTTATTTAATTAAATTTTTAAAACTTTA
1 TTTTTATTTAATTAAATTTTTAAAA-TTTA
* *
11679646 TTTTTATTAAATTAAATATTTAAATATTTA
1 TTTTTATTTAATTAAATTTTTAAA-ATTTA
*
11679676 TTTTTATTTAATTAATTATTTTAAAA
1 TTTTTATTTAATTAAAT-TTTTAAAA
11679702 AATAAATCTT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
30 42 0.86
31 7 0.14
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTTTATTTAATTAAATTTTTAAAATTTA
Found at i:11679683 original size:18 final size:18
Alignment explanation
Indices: 11679662--11679697 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11679652 TTAAATTAAA
*
11679662 TATTTAAATATTTATTTT
1 TATTTAAATAATTATTTT
*
11679680 TATTTAATTAATTATTTT
1 TATTTAAATAATTATTTT
11679698 AAAAAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTTAAATAATTATTTT
Found at i:11680222 original size:20 final size:19
Alignment explanation
Indices: 11680199--11680248 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 19
11680189 TATTAATAAG
11680199 TAATTTAAATAAAATTTATA
1 TAATTTAAATAAAATTT-TA
*
11680219 TAA--TAAGTAAAATTTTA
1 TAATTTAAATAAAATTTTA
*
11680236 AAATATTAAATAA
1 TAAT-TTAAATAA
11680249 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
17 4 0.17
18 11 0.46
20 9 0.38
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
TAATTTAAATAAAATTTTA
Found at i:11683770 original size:21 final size:21
Alignment explanation
Indices: 11683744--11683790 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
11683734 ACAAAATTTC
*
11683744 AAAAAAATTTAAAATT-TTTTT
1 AAAAAAATCT-AAATTATTTTT
*
11683765 AAAAAACTCTAAATTATTTTT
1 AAAAAAATCTAAATTATTTTT
11683786 AAAAA
1 AAAAA
11683791 TTAAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAAAATCTAAATTATTTTT
Found at i:11684055 original size:22 final size:22
Alignment explanation
Indices: 11684012--11684053 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11684002 AATAATTATA
*
11684012 AAAATTAAAAAATTCTGAAAAT
1 AAAATTAAAAAATTCTAAAAAT
11684034 AAAATTAAAAAA-TCTAAAAA
1 AAAATTAAAAAATTCTAAAAA
11684054 ATTTATTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (22 bp):
AAAATTAAAAAATTCTAAAAAT
Found at i:11684159 original size:18 final size:18
Alignment explanation
Indices: 11684118--11684160 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
11684108 TAAAAATTTT
* * *
11684118 ATTTTTTAATTTTTTGTA
1 ATTTTTTAATATCTTATA
*
11684136 AATTTTTAATATCTTATA
1 ATTTTTTAATATCTTATA
11684154 ATTTTTT
1 ATTTTTT
11684161 TAAAATGTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
ATTTTTTAATATCTTATA
Found at i:11684293 original size:17 final size:18
Alignment explanation
Indices: 11684257--11684302 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
11684247 CTTTTGGAGT
11684257 TTTTTATTTTTAAGAAAA
1 TTTTTATTTTTAAGAAAA
** *
11684275 -TTTTATTTTTATTACAA
1 TTTTTATTTTTAAGAAAA
11684292 TTTTTATTTTT
1 TTTTTATTTTT
11684303 TATACTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTTATTTTTAAGAAAA
Found at i:11685299 original size:24 final size:25
Alignment explanation
Indices: 11685239--11685314 Score: 66
Period size: 24 Copynumber: 3.0 Consensus size: 25
11685229 TATTTGTTAG
*
11685239 CATATAAAATAT-TAAAATTTATATATT
1 CATATAAAAAATAT-AAA-TTATA-ATT
* * *
11685266 TATATAAAAATTATATATTATAATT
1 CATATAAAAAATATAAATTATAATT
*
11685291 CATAT-AAAAATATAAAATATAATT
1 CATATAAAAAATATAAATTATAATT
11685315 TTTTTATTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
24 16 0.40
25 7 0.17
26 5 0.12
27 11 0.28
28 1 0.03
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (25 bp):
CATATAAAAAATATAAATTATAATT
Found at i:11685353 original size:24 final size:23
Alignment explanation
Indices: 11685247--11685353 Score: 69
Period size: 24 Copynumber: 4.6 Consensus size: 23
11685237 AGCATATAAA
11685247 ATATTAAAA-TTTATATAT--TT
1 ATATTAAAATTTTATATATAATT
* *
11685267 ATATAAAAATTATATATTATAATT
1 ATATTAAAATTTTATA-TATAATT
* * * *
11685291 CATATAAAAATATAAAATATAATT
1 -ATATTAAAATTTTATATATAATT
* *
11685315 TTTTTATTAAA-TTTATATATAATT
1 ATATTA--AAATTTTATATATAATT
11685339 ATTATTAAAATTTTA
1 A-TATTAAAATTTTA
11685354 AGTCATATTA
Statistics
Matches: 64, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
20 8 0.12
21 5 0.08
22 3 0.05
23 6 0.09
24 23 0.36
25 19 0.30
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.50
Consensus pattern (23 bp):
ATATTAAAATTTTATATATAATT
Found at i:11685367 original size:51 final size:50
Alignment explanation
Indices: 11685307--11685404 Score: 117
Period size: 51 Copynumber: 1.9 Consensus size: 50
11685297 AAAATATAAA
* *
11685307 ATATAATTTTTTTATTAAATTTATA-TATAATTATTATTAAAATTTTAAGTC
1 ATATAATTTTTATATTAAATCTATATTATAATTA-TATT-AAATTTTAAGTC
* * * *
11685358 ATATTATTTTTATATTATATCTATATTATCATTATATTATATTTTAA
1 ATATAATTTTTATATTAAATCTATATTATAATTATATTAAATTTTAA
11685405 ATTATCAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
50 8 0.20
51 25 0.62
52 7 0.17
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (50 bp):
ATATAATTTTTATATTAAATCTATATTATAATTATATTAAATTTTAAGTC
Found at i:11685374 original size:11 final size:11
Alignment explanation
Indices: 11685358--11685409 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
11685348 ATTTTAAGTC
11685358 ATATTATTTTT
1 ATATTATTTTT
* *
11685369 ATATTATATCT
1 ATATTATTTTT
**
11685380 ATATTATCATT
1 ATATTATTTTT
11685391 ATATTATATTTT
1 ATATTAT-TTTT
*
11685403 AAATTAT
1 ATATTAT
11685410 CAAATTGATT
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
11 24 0.75
12 8 0.25
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:11685377 original size:5 final size:5
Alignment explanation
Indices: 11685367--11685400 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
11685357 CATATTATTT
11685367 TTATA TTATA TCTATA TTATCA TTATA TTATA TT
1 TTATA TTATA T-TATA TTAT-A TTATA TTATA TT
11685401 TTAAATTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 17 0.63
6 10 0.37
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:11685386 original size:22 final size:22
Alignment explanation
Indices: 11685358--11685399 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11685348 ATTTTAAGTC
**
11685358 ATATTATTTTTATATTATATCT
1 ATATTATCATTATATTATATCT
11685380 ATATTATCATTATATTATAT
1 ATATTATCATTATATTATAT
11685400 TTTAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTATCATTATATTATATCT
Found at i:11690637 original size:23 final size:22
Alignment explanation
Indices: 11690611--11690663 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
11690601 AATTATTTTT
*
11690611 TTAAATTAATAAAATGGATTTAA
1 TTAAATTAATAAAAT-AATTTAA
*
11690634 TTAATATAAATAAAATAATTTAA
1 TTAA-ATTAATAAAATAATTTAA
*
11690657 TTTAATT
1 TTAAATT
11690664 TAAAATTAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 2 0.08
23 13 0.52
24 10 0.40
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
TTAAATTAATAAAATAATTTAA
Found at i:11690649 original size:24 final size:24
Alignment explanation
Indices: 11690610--11690667 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
11690600 CAATTATTTT
* *
11690610 TTTAA-ATTAATAAAATGGATTTAA
1 TTTAATATAAATAAAAT-AATTTAA
11690634 -TTAATATAAATAAAATAATTTAA
1 TTTAATATAAATAAAATAATTTAA
*
11690657 TTTAATTTAAA
1 TTTAATATAAA
11690668 ATTAACCAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 10 0.34
24 19 0.66
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (24 bp):
TTTAATATAAATAAAATAATTTAA
Found at i:11694267 original size:28 final size:27
Alignment explanation
Indices: 11694204--11694261 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 27
11694194 GTGGTAAGTA
11694204 AAGATATCAATTTTATTTGCATTAAAAC
1 AAGATATCAATTTTATTT-CATTAAAAC
11694232 AAGATATCAATTTTATTT-ATTTAAAA-
1 AAGATATCAATTTTATTTCA-TTAAAAC
11694258 AAGA
1 AAGA
11694262 ACTATCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 5 0.17
27 6 0.21
28 18 0.62
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (27 bp):
AAGATATCAATTTTATTTCATTAAAAC
Found at i:11698034 original size:17 final size:18
Alignment explanation
Indices: 11698012--11698053 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
11698002 TTATTTGAAT
*
11698012 AAATAAAG-TATAAAAGA
1 AAATAAAGTTATAAAACA
*
11698029 AAAT-AAGTTATAATACA
1 AAATAAAGTTATAAAACA
11698046 AAATAAAG
1 AAATAAAG
11698054 AAACTTAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 3 0.14
17 15 0.71
18 3 0.14
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.21
Consensus pattern (18 bp):
AAATAAAGTTATAAAACA
Found at i:11701837 original size:2 final size:2
Alignment explanation
Indices: 11701830--11701870 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
11701820 TTGATTTCTC
11701830 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT A
11701871 AACGAGATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11702024 original size:2 final size:2
Alignment explanation
Indices: 11702017--11702050 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11702007 GATCAATTCC
11702017 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11702051 GTTTTTGGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11702247 original size:21 final size:21
Alignment explanation
Indices: 11702221--11702342 Score: 113
Period size: 21 Copynumber: 5.7 Consensus size: 21
11702211 TGTTGATAAC
11702221 CTTTGATAAAATTTTGGTAAT
1 CTTTGATAAAATTTTGGTAAT
**
11702242 CTTTGATACTATTTTGGTAA-
1 CTTTGATAAAATTTTGGTAAT
*
11702262 CTTATGATATAATTTTGGTAA-
1 CTT-TGATAAAATTTTGGTAAT
**
11702283 CTATTGATGCAATTTTGGTAATT
1 CT-TTGATAAAATTTTGGTAA-T
* * *
11702306 TTTTTATAAAATTTTAGTAAT
1 CTTTGATAAAATTTTGGTAAT
*
11702327 CTCTTGATATAATTTT
1 CT-TTGATAAAATTTT
11702343 AATAATTTTT
Statistics
Matches: 82, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
20 3 0.04
21 52 0.63
22 26 0.32
23 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.51
Consensus pattern (21 bp):
CTTTGATAAAATTTTGGTAAT
Found at i:11702290 original size:42 final size:42
Alignment explanation
Indices: 11702224--11702342 Score: 132
Period size: 42 Copynumber: 2.8 Consensus size: 42
11702214 TGATAACCTT
*
11702224 TGATAAAATTTTGGTAATCTTTGATACTATTTTGGTAACTTA
1 TGATAAAATTTTGGTAATCTTTGATACAATTTTGGTAACTTA
* * * *
11702266 TGATATAATTTTGGTAA-CTATTGATGCAATTTTGGTAATTTTT
1 TGATAAAATTTTGGTAATCT-TTGATACAATTTTGGTAA-CTTA
* * *
11702309 TTATAAAATTTTAGTAATCTCTTGATATAATTTT
1 TGATAAAATTTTGGTAATCT-TTGATACAATTTT
11702343 AATAATTTTT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.03
42 32 0.51
43 16 0.25
44 13 0.21
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (42 bp):
TGATAAAATTTTGGTAATCTTTGATACAATTTTGGTAACTTA
Found at i:11702325 original size:22 final size:22
Alignment explanation
Indices: 11702293--11702358 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
11702283 CTATTGATGC
* *
11702293 AATTTTGGTAATTTTTTTATAA
1 AATTTTAGTAATTTTTTAATAA
* * * *
11702315 AATTTTAGTAATCTCTTGATAT
1 AATTTTAGTAATTTTTTAATAA
*
11702337 AATTTTAATAATTTTTTAATAA
1 AATTTTAGTAATTTTTTAATAA
11702359 CTTATGATAT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (22 bp):
AATTTTAGTAATTTTTTAATAA
Found at i:11702768 original size:22 final size:22
Alignment explanation
Indices: 11702706--11702770 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
11702696 GACATATTGT
* * *
11702706 TAAATTATCAATGATTTAATAC
1 TAAATTAGCATTGATTTACTAC
*
11702728 TAAATAAGCATTGATTTACTAC
1 TAAATTAGCATTGATTTACTAC
11702750 TAAATTAGCATTGATTTACTA
1 TAAATTAGCATTGATTTACTA
11702771 TAAGTTATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.40
Consensus pattern (22 bp):
TAAATTAGCATTGATTTACTAC
Found at i:11702831 original size:22 final size:21
Alignment explanation
Indices: 11702784--11702866 Score: 76
Period size: 22 Copynumber: 3.8 Consensus size: 21
11702774 GTTATGACTC
* *
11702784 ATTTATTATTAAATTGTTGATA
1 ATTTATTATTAAATT-ATAATA
*
11702806 ATTTATTATTAAATTACTAATG
1 ATTTATTATTAAATTA-TAATA
* *
11702828 ATTTGTTATAAAATTATAATTA
1 ATTTATTATTAAATTATAA-TA
* *
11702850 ATTTACTATTAATTTAT
1 ATTTATTATTAAATTAT
11702867 CGATGATTTA
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
21 3 0.06
22 46 0.94
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (21 bp):
ATTTATTATTAAATTATAATA
Found at i:11702927 original size:22 final size:22
Alignment explanation
Indices: 11702898--11703006 Score: 105
Period size: 22 Copynumber: 5.0 Consensus size: 22
11702888 TTAATGATTA
*
11702898 ACTAATTTGCTACTAAATTATC
1 ACTAATTTACTACTAAATTATC
* * *
11702920 ACTTATTTACAACTAAATTATT
1 ACTAATTTACTACTAAATTATC
* *
11702942 AGTAATTTACTACTAAATTATT
1 ACTAATTTACTACTAAATTATC
*
11702964 AATAATTTAC-ATCTAAATTATC
1 ACTAATTTACTA-CTAAATTATC
* *
11702986 AATGATTTACTA-TAATATTAT
1 ACTAATTTACTACTAA-ATTAT
11703007 TCATTTATTA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
21 4 0.05
22 69 0.93
23 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (22 bp):
ACTAATTTACTACTAAATTATC
Found at i:11702972 original size:44 final size:44
Alignment explanation
Indices: 11702900--11703007 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 44
11702890 AATGATTAAC
* * * * * *
11702900 TAATTTGCTACTAAATTATCACTTATTTACAACTAAATTATTAG
1 TAATTTACTACTAAATTATTAATAATTTACAACTAAATTATCAA
*
11702944 TAATTTACTACTAAATTATTAATAATTTACATCTAAATTATCAA
1 TAATTTACTACTAAATTATTAATAATTTACAACTAAATTATCAA
*
11702988 TGATTTACTA-TAATATTATT
1 TAATTTACTACTAA-ATTATT
11703008 CATTTATTAC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 3 0.05
44 52 0.95
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.45
Consensus pattern (44 bp):
TAATTTACTACTAAATTATTAATAATTTACAACTAAATTATCAA
Found at i:11703253 original size:22 final size:22
Alignment explanation
Indices: 11703214--11703269 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
11703204 ATTGATACAC
*
11703214 TTTTAAATT-TTCAATGA-TTAA
1 TTTTAAATTATT-ATTGATTTAA
*
11703235 TTATTAAATTATTATTGATTTAC
1 TT-TTAAATTATTATTGATTTAA
11703258 TTTTAAATTATT
1 TTTTAAATTATT
11703270 TATTATTCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 2 0.07
22 21 0.70
23 7 0.23
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (22 bp):
TTTTAAATTATTATTGATTTAA
Found at i:11703340 original size:22 final size:22
Alignment explanation
Indices: 11703315--11703417 Score: 118
Period size: 22 Copynumber: 4.7 Consensus size: 22
11703305 TTAAATTGTA
11703315 ACTAATTTATTATTAAGTTATC
1 ACTAATTTATTATTAAGTTATC
* *
11703337 ACTAATTTACTATTAAGTTAAC
1 ACTAATTTATTATTAAGTTATC
*
11703359 ACTAATTTGTTA-TAAGTTATC
1 ACTAATTTATTATTAAGTTATC
* * * *
11703380 AATTATTAATTACTAAGTTATC
1 ACTAATTTATTATTAAGTTATC
* *
11703402 ACTTATTTTTTATTAA
1 ACTAATTTATTATTAA
11703418 CCTAACATTG
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
21 16 0.24
22 51 0.76
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.49
Consensus pattern (22 bp):
ACTAATTTATTATTAAGTTATC
Found at i:11703397 original size:43 final size:43
Alignment explanation
Indices: 11703315--11703414 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 43
11703305 TTAAATTGTA
* * *
11703315 ACTAATTTATTATTAAGTTATCACTAATTTACTATTAAGTTAAC
1 ACTAATTTATTA-TAAGTTATCAATAATTAACTACTAAGTTAAC
* * * *
11703359 ACTAATTTGTTATAAGTTATCAATTATTAATTACTAAGTTATC
1 ACTAATTTATTATAAGTTATCAATAATTAACTACTAAGTTAAC
* *
11703402 ACTTATTTTTTAT
1 ACTAATTTATTAT
11703415 TAACCTAACA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 36 0.77
44 11 0.23
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (43 bp):
ACTAATTTATTATAAGTTATCAATAATTAACTACTAAGTTAAC
Found at i:11704201 original size:37 final size:38
Alignment explanation
Indices: 11704160--11704232 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
11704150 TAATGTATTC
*
11704160 TCAAAAA-TATATTCTAATATGTTGGTAAGATTTTTCG
1 TCAAAAATTATATTCCAATATGTTGGTAAGATTTTTCG
* * * *
11704197 TCAAAAATTATCTTCCAATTTGTTTGTAGGATTTTT
1 TCAAAAATTATATTCCAATATGTTGGTAAGATTTTT
11704233 AAAAAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 7 0.23
38 23 0.77
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.47
Consensus pattern (38 bp):
TCAAAAATTATATTCCAATATGTTGGTAAGATTTTTCG
Found at i:11705192 original size:18 final size:18
Alignment explanation
Indices: 11705169--11705214 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
11705159 AACTAATTCA
*
11705169 AAAAAAATCCCAAAAAAT
1 AAAAAAATCCCAAAAAAC
* *
11705187 AAAAAATTCCCAAAAACC
1 AAAAAAATCCCAAAAAAC
11705205 AAAAAAATCC
1 AAAAAAATCC
11705215 TAGATTAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.67, C:0.22, G:0.00, T:0.11
Consensus pattern (18 bp):
AAAAAAATCCCAAAAAAC
Found at i:11705858 original size:23 final size:22
Alignment explanation
Indices: 11705815--11705861 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
11705805 AAAAATCAAA
*
11705815 AATTTAAAATTCAAAGTTTCAC
1 AATTTAAAATTCAAAGGTTCAC
* *
11705837 AATTTGAAAATTTAAGGGTTCAC
1 AATTT-AAAATTCAAAGGTTCAC
11705860 AA
1 AA
11705862 AATTTCAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.34
Consensus pattern (22 bp):
AATTTAAAATTCAAAGGTTCAC
Found at i:11706062 original size:18 final size:18
Alignment explanation
Indices: 11706020--11706065 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
11706010 TTCTAAAAAT
* *
11706020 TTTCAAAATTCGTAAAGG
1 TTTCAAGATTCATAAAGG
11706038 TTTCAAGATTCATAAAGG
1 TTTCAAGATTCATAAAGG
11706056 TTTCAAGATT
1 TTTCAAGATT
11706066 AGCAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (18 bp):
TTTCAAGATTCATAAAGG
Found at i:11706154 original size:35 final size:34
Alignment explanation
Indices: 11706115--11706199 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 34
11706105 TAAGATTTTT
11706115 AGAGGTTTCAAATTCGCAAAGGTT-ACATGTTTTGC
1 AGAGGTTTCAAATTCGC-AAGGTTCACA-GTTTTGC
* * * *
11706150 AGAGGTTCCAAATTCACAAGGTTCCCAGTTTTGT
1 AGAGGTTTCAAATTCGCAAGGTTCACAGTTTTGC
* *
11706184 ATAGGTTTCAGATTCG
1 AGAGGTTTCAAATTCG
11706200 TAAGAATGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
34 24 0.59
35 17 0.41
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.34
Consensus pattern (34 bp):
AGAGGTTTCAAATTCGCAAGGTTCACAGTTTTGC
Found at i:11706350 original size:17 final size:17
Alignment explanation
Indices: 11706328--11706368 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
11706318 GGATTTATAA
*
11706328 TCACAAGAATGTAAGAT
1 TCACAAGAATGAAAGAT
11706345 TCACAAGAATGAAAGAT
1 TCACAAGAATGAAAGAT
11706362 TCACAAG
1 TCACAAG
11706369 GATTCAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (17 bp):
TCACAAGAATGAAAGAT
Found at i:11706362 original size:82 final size:82
Alignment explanation
Indices: 11706212--11706362 Score: 185
Period size: 82 Copynumber: 1.8 Consensus size: 82
11706202 AGAATGAAAG
* * * * * ** ***
11706212 ATTTGTAAGACTTCAGATTTGGAAGAATTTAAAATCAAAAGAATGTAAGATTCGCAAGGTTTTTA
1 ATTTGCAAGAATTCAGATTCGCAAGAATTTAAAATCAAAAGAATGTAAGATTCACAAGAATGAAA
11706277 GATTTGCAATAATAAAA
66 GATTTGCAATAATAAAA
* * *
11706294 ATTTGCAAGAATTCAGATTCGCAAGGATTTATAATCACAAGAATGTAAGATTCACAAGAATGAAA
1 ATTTGCAAGAATTCAGATTCGCAAGAATTTAAAATCAAAAGAATGTAAGATTCACAAGAATGAAA
11706359 GATT
66 GATT
11706363 CACAAGGATT
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
82 56 1.00
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.30
Consensus pattern (82 bp):
ATTTGCAAGAATTCAGATTCGCAAGAATTTAAAATCAAAAGAATGTAAGATTCACAAGAATGAAA
GATTTGCAATAATAAAA
Found at i:11706449 original size:34 final size:34
Alignment explanation
Indices: 11706349--11706455 Score: 101
Period size: 34 Copynumber: 3.2 Consensus size: 34
11706339 TAAGATTCAC
* * * *
11706349 AAGAATGAAAGATTCACAAGGATTCAAATTT-GC
1 AAGAATAAAAGATTCACAAGGATTTAAGTTTCGT
* ** * * *
11706382 AAGGATTTAAGTTTCACAA-GATTTTCAGATTCGT
1 AAGAATAAAAGATTCACAAGGA-TTTAAGTTTCGT
11706416 AAGAATAAAAGATTCACAAGGATTTAAGTTTCGT
1 AAGAATAAAAGATTCACAAGGATTTAAGTTTCGT
11706450 AAGAAT
1 AAGAAT
11706456 TTCATATGCA
Statistics
Matches: 56, Mismatches: 15, Indels: 5
0.74 0.20 0.07
Matches are distributed among these distances:
32 2 0.04
33 20 0.36
34 32 0.57
35 2 0.04
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (34 bp):
AAGAATAAAAGATTCACAAGGATTTAAGTTTCGT
Found at i:11706559 original size:102 final size:102
Alignment explanation
Indices: 11706453--11706644 Score: 226
Period size: 102 Copynumber: 1.9 Consensus size: 102
11706443 GTTTCGTAAG
*
11706453 AATTTCATATGCACAAGAACTTCAGGTT-TGCAAGAATTTAAAGTTCACAAAAACTGT-AAATTC
1 AATTTCAGATGCACAAGAACTTCAGGTTCT-CAAGAATTTAAAGTTCACAAAAACT-TCAAATTC
*
11706516 ATAAGAACTTCAAGTTTGCAAAAGTTTCAAGTTTTCCAA
64 ACAAGAACTTCAAGTTTGCAAAAGTTTCAAGTTTTCCAA
** * * * * * * * *
11706555 AATTTTGGGTTCACAAGAATTTTAGGTTCTCAAGATTTTTAGGTTCACAAAAACTTCAAATTCCC
1 AATTTCAGATGCACAAGAACTTCAGGTTCTCAAGAATTTAAAGTTCACAAAAACTTCAAATTCAC
* *
11706620 AAGAACTTCAGGTTTGCAAGAGTTT
66 AAGAACTTCAAGTTTGCAAAAGTTT
11706645 TAGTTTCACA
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
101 1 0.01
102 72 0.97
103 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (102 bp):
AATTTCAGATGCACAAGAACTTCAGGTTCTCAAGAATTTAAAGTTCACAAAAACTTCAAATTCAC
AAGAACTTCAAGTTTGCAAAAGTTTCAAGTTTTCCAA
Found at i:11706577 original size:17 final size:17
Alignment explanation
Indices: 11706555--11706662 Score: 81
Period size: 17 Copynumber: 6.4 Consensus size: 17
11706545 AGTTTTCCAA
*
11706555 AATTTTGGGTTCACAAG
1 AATTTTAGGTTCACAAG
*
11706572 AATTTTAGGTTCTCAAG
1 AATTTTAGGTTCACAAG
* *
11706589 ATTTTTAGGTTCACAAA
1 AATTTTAGGTTCACAAG
* * ** *
11706606 AACTTCAAATTCCCAAG
1 AATTTTAGGTTCACAAG
* * **
11706623 AACTTCAGGTTTGCAAG
1 AATTTTAGGTTCACAAG
* *
11706640 AGTTTTAGTTTCACAAG
1 AATTTTAGGTTCACAAG
11706657 AATTTT
1 AATTTT
11706663 CATCATTATA
Statistics
Matches: 68, Mismatches: 23, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 68 1.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (17 bp):
AATTTTAGGTTCACAAG
Found at i:11706646 original size:51 final size:50
Alignment explanation
Indices: 11706464--11706655 Score: 165
Period size: 51 Copynumber: 3.8 Consensus size: 50
11706454 ATTTCATATG
* *
11706464 CACAAGAACTTCAGGTTTGCAAGAATTTAAAGTTCACAAAAACTGTAAATT
1 CACAAGAACTTCAGGTTTGCAAGAGTTTTAAGTTCACAAAAACT-TAAATT
* * * * ** ***
11706515 CATAAGAACTTCAAGTTTGCAAAAGTTTCAAGTTTTC-CAAAATTTTGGGTT
1 CACAAGAACTTCAGGTTTGCAAGAGTTTTAAG--TTCACAAAAACTTAAATT
* * * *
11706566 CACAAGAATTTTAGGTTCT-CAAGATTTTTAGGTTCACAAAAACTTCAAATT
1 CACAAGAACTTCAGGTT-TGCAAGAGTTTTAAGTTCACAAAAACTT-AAATT
*
11706617 CCCAAGAACTTCAGGTTTGCAAGAGTTTT-AGTTTCACAA
1 CACAAGAACTTCAGGTTTGCAAGAGTTTTAAG-TTCACAA
11706656 GAATTTTCAT
Statistics
Matches: 106, Mismatches: 28, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
49 3 0.03
50 9 0.08
51 84 0.79
52 7 0.07
53 3 0.03
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (50 bp):
CACAAGAACTTCAGGTTTGCAAGAGTTTTAAGTTCACAAAAACTTAAATT
Found at i:11706971 original size:68 final size:68
Alignment explanation
Indices: 11706899--11707107 Score: 169
Period size: 68 Copynumber: 3.1 Consensus size: 68
11706889 GATTTTCATC
* ** * *
11706899 CAAAATTTTAAAGATTTATATTTGAAAAATTTTAGAGATTCACATCCAAAATTTCAAAAATTCAC
1 CAAAATTTTAAAGATTTACATTAAAAAAATTTTAGAGATTCACATCAAAAATTTCAAAGATTCAC
11706964 ATT
66 ATT
* * ** * * * *
11706967 CAAAAACTTT-AATATTTCACA--ACCAAAATTTTA-AGTTTCTCATCTAAAAAATTTCAAGGTT
1 C-AAAATTTTAAAGATTT-ACATTAAAAAAATTTTAGAGATTCACATC--AAAAATTTCAAAGAT
*
11707028 TCACATC
62 TCACATT
* * *
11707035 CAAAATTTTAAAGATTCT-CATTCAAAAAATTTTAGTGATTCACAT-ATAAAATTTTAAAGATTC
1 CAAAATTTTAAAGATT-TACATTAAAAAAATTTTAGAGATTCACATCA-AAAATTTCAAAGATTC
11707098 ACATT
64 ACATT
11707103 CAAAA
1 CAAAA
11707108 GATTTTAGAA
Statistics
Matches: 106, Mismatches: 25, Indels: 20
0.70 0.17 0.13
Matches are distributed among these distances:
66 9 0.08
67 19 0.18
68 52 0.49
69 19 0.18
70 7 0.07
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.36
Consensus pattern (68 bp):
CAAAATTTTAAAGATTTACATTAAAAAAATTTTAGAGATTCACATCAAAAATTTCAAAGATTCAC
ATT
Found at i:11707034 original size:24 final size:23
Alignment explanation
Indices: 11706923--11707066 Score: 66
Period size: 23 Copynumber: 6.3 Consensus size: 23
11706913 TTTATATTTG
* *
11706923 AAAAATTTTAGAGATTCACATCC-
1 AAAAATTTCA-AGTTTCACATCCA
** *
11706946 -AAAATTTCAAAAATTCACATTCA
1 AAAAATTTC-AAGTTTCACATCCA
* * *
11706969 AAAACTTT-AATATTTCACAACC-
1 AAAAATTTCAA-GTTTCACATCCA
* * *
11706991 -AAAATTTTAAGTTTCTCATCTA
1 AAAAATTTCAAGTTTCACATCCA
11707013 AAAAATTTCAAGGTTTCACATCC-
1 AAAAATTTCAA-GTTTCACATCCA
* * * * *
11707036 AAAATTTTAAAGATTCTCATTCA
1 AAAAATTTCAAGTTTCACATCCA
11707059 AAAAATTT
1 AAAAATTT
11707067 TAGTGATTCA
Statistics
Matches: 91, Mismatches: 21, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
21 13 0.14
22 29 0.32
23 34 0.37
24 15 0.16
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.35
Consensus pattern (23 bp):
AAAAATTTCAAGTTTCACATCCA
Found at i:11707039 original size:23 final size:22
Alignment explanation
Indices: 11706937--11707039 Score: 68
Period size: 23 Copynumber: 4.6 Consensus size: 22
11706927 ATTTTAGAGA
*
11706937 TTCACATCC-AAAATTTCAAAAA
1 TTCACATCCAAAAATTTC-AAAT
*
11706959 TTCACATTCAAAAACTTT-AATAT
1 TTCACATCCAAAAA-TTTCAA-AT
* * *
11706982 TTCACAACC-AAAATTTTAAGT
1 TTCACATCCAAAAATTTCAAAT
* * *
11707003 TTCTCATCTAAAAAATTTCAAGGT
1 TTCACATC-CAAAAATTTCAA-AT
11707027 TTCACATCCAAAA
1 TTCACATCCAAAA
11707040 TTTTAAAGAT
Statistics
Matches: 63, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
21 10 0.16
22 16 0.25
23 25 0.40
24 12 0.19
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.33
Consensus pattern (22 bp):
TTCACATCCAAAAATTTCAAAT
Found at i:11707067 original size:24 final size:23
Alignment explanation
Indices: 11706900--11707160 Score: 128
Period size: 22 Copynumber: 11.4 Consensus size: 23
11706890 ATTTTCATCC
* * *
11706900 AAAATTTTAAAGATTTATATTTGA
1 AAAATTTTAAAGATTCACA-TTAA
* **
11706924 AAAATTTTAGAGATTCACA-TCC
1 AAAATTTTAAAGATTCACATTAA
* * *
11706946 AAAATTTCAAAAATTCACATTCA
1 AAAATTTTAAAGATTCACATTAA
* * *
11706969 AAAACTTTAATA-TTTCACA--ACC
1 AAAATTTTAA-AGATTCACATTA-A
* *
11706991 AAAATTTT-AAGTTTCTCATCTAA
1 AAAATTTTAAAGATTCACAT-TAA
* * * **
11707014 AAAATTTCAAGGTTTCACA-TCC
1 AAAATTTTAAAGATTCACATTAA
*
11707036 AAAATTTTAAAGATTCTCATTCAA
1 AAAATTTTAAAGATTCACATT-AA
** *
11707060 AAAATTTTAGTGATTCACA-TAT
1 AAAATTTTAAAGATTCACATTAA
11707082 AAAATTTTAAAGATTCACATTCAA
1 AAAATTTTAAAGATTCACATT-AA
*
11707106 AAGATTTTAGAA-ATTCACAATT--
1 AAAATTTTA-AAGATTCAC-ATTAA
* * *
11707128 AAAATTTCAAATATTCTCATTAA
1 AAAATTTTAAAGATTCACATTAA
11707151 AAAGATTTTA
1 AAA-ATTTTA
11707161 GTGATTATGC
Statistics
Matches: 179, Mismatches: 40, Indels: 36
0.70 0.16 0.14
Matches are distributed among these distances:
20 1 0.01
21 12 0.07
22 70 0.39
23 29 0.16
24 62 0.35
25 5 0.03
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.37
Consensus pattern (23 bp):
AAAATTTTAAAGATTCACATTAA
Found at i:11707131 original size:46 final size:45
Alignment explanation
Indices: 11706835--11707166 Score: 228
Period size: 46 Copynumber: 7.4 Consensus size: 45
11706825 TTCTGATTTG
* * ** ***
11706835 AAAAA-TTTAGAAATTCACA-CAAAAAAGTTAAAGATTCTTTTTC
1 AAAAATTTTAGAGATTCACATCCAAAATTTTAAAGATTCACATTC
* * ** * * *
11706878 AAAAACTTAAG-GATTTTCATCCAAAATTTTAAAGATTTATATTTG
1 AAAAATTTTAGAGATTCACATCCAAAATTTTAAAGATTCACA-TTC
* *
11706923 AAAAATTTTAGAGATTCACATCCAAAATTTCAAAAATTCACATTC
1 AAAAATTTTAGAGATTCACATCCAAAATTTTAAAGATTCACATTC
* * * * * *
11706968 AAAAACTTTA-ATATTTCACAACCAAAATTTT-AAGTTTCTCATCTA
1 AAAAATTTTAGAGA-TTCACATCCAAAATTTTAAAGATTCACAT-TC
* * *
11707013 AAAAATTTCA-AGGTTTCACATCCAAAATTTTAAAGATTCTCATTC
1 AAAAATTTTAGA-GATTCACATCCAAAATTTTAAAGATTCACATTC
* **
11707058 AAAAAATTTTAGTGATTCACATATAAAATTTTAAAGATTCACATTC
1 -AAAAATTTTAGAGATTCACATCCAAAATTTTAAAGATTCACATTC
* * * * * *
11707104 AAAAGATTTTAGAAATTCACAAT-TAAAATTTCAAATATTCTCATTA
1 AAAA-ATTTTAGAGATTCAC-ATCCAAAATTTTAAAGATTCACATTC
*
11707150 AAAAGATTTTAGTGATT
1 AAAA-ATTTTAGAGATT
11707167 ATGCCAGAAA
Statistics
Matches: 228, Mismatches: 49, Indels: 21
0.77 0.16 0.07
Matches are distributed among these distances:
43 10 0.04
44 29 0.13
45 68 0.30
46 119 0.52
47 2 0.01
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (45 bp):
AAAAATTTTAGAGATTCACATCCAAAATTTTAAAGATTCACATTC
Found at i:11707132 original size:68 final size:66
Alignment explanation
Indices: 11706924--11707134 Score: 169
Period size: 68 Copynumber: 3.1 Consensus size: 66
11706914 TTATATTTGA
* ** * * *
11706924 AAAATTTTAGAGATTCACATCCAAAATTTCAAAAATTCACATTCAAAAACTTTAATATTTCACAA
1 AAAATTTTAGTGATTCACATAAAAAATTTCAAAGATTCACATTCAAAAATTTTAA-AATTCACAA
**
11706989 CC
65 TT
* * * * *
11706991 AAAATTTTAAGT--TTCTCATCTAAAAAATTTCAAGGTTTCACA-TCCAAAATTTTAAAGATTCT
1 AAAATTTT-AGTGATTCACA--TAAAAAATTTCAAAGATTCACATTCAAAAATTTTAAA-ATTCA
11707053 C-ATT
62 CAATT
* *
11707057 CAAAAAATTTTAGTGATTCACATATAAAATTTTAAAGATTCACATTCAAAAGATTTTAGAAATTC
1 ---AAAATTTTAGTGATTCACATAAAAAATTTCAAAGATTCACATTCAAAA-ATTTTA-AAATTC
11707122 ACAATT
61 ACAATT
11707128 AAAATTT
1 AAAATTT
11707135 CAAATATTCT
Statistics
Matches: 111, Mismatches: 20, Indels: 25
0.71 0.13 0.16
Matches are distributed among these distances:
66 7 0.06
67 23 0.21
68 47 0.42
69 13 0.12
70 16 0.14
71 5 0.05
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.36
Consensus pattern (66 bp):
AAAATTTTAGTGATTCACATAAAAAATTTCAAAGATTCACATTCAAAAATTTTAAAATTCACAAT
T
Found at i:11710058 original size:34 final size:34
Alignment explanation
Indices: 11710012--11710084 Score: 121
Period size: 34 Copynumber: 2.1 Consensus size: 34
11710002 TGGCCCCCCG
11710012 ATTGAATCTGTCTCATTTAAAGAGGAGT-TCCAAA
1 ATTGAATCTGTCTCATTTAAAGAGGAGTCT-CAAA
*
11710046 ATTGAATTTGTCTCATTTAAAGAGGAGTCTCAAA
1 ATTGAATCTGTCTCATTTAAAGAGGAGTCTCAAA
11710080 ATTGA
1 ATTGA
11710085 CTTAGATATA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (34 bp):
ATTGAATCTGTCTCATTTAAAGAGGAGTCTCAAA
Found at i:11710098 original size:34 final size:34
Alignment explanation
Indices: 11710024--11710100 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
11710014 TGAATCTGTC
* *
11710024 TCATTTAAAGAGGAGTTCCAAAATTGAATTTGTC
1 TCATTTAAAGAGGAGTTCCAAAATTGAATTAGTA
*
11710058 TCATTTAAAGAGGAG-TCTCAAAATTGACTTAGATA
1 TCATTTAAAGAGGAGTTC-CAAAATTGAATTAG-TA
11710093 T-ATTTAAA
1 TCATTTAAA
11710101 TAGTAAATTC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 2 0.05
34 34 0.89
35 2 0.05
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (34 bp):
TCATTTAAAGAGGAGTTCCAAAATTGAATTAGTA
Found at i:11711378 original size:11 final size:10
Alignment explanation
Indices: 11711353--11711386 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
11711343 TAAATGGATT
11711353 AAATAAAAAA
1 AAATAAAAAA
*
11711363 AAATAAAACCA
1 AAATAAAA-AA
11711374 AAATAAAAAA
1 AAATAAAAAA
11711384 AAA
1 AAA
11711387 ACCCTCATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.85, C:0.06, G:0.00, T:0.09
Consensus pattern (10 bp):
AAATAAAAAA
Found at i:11714385 original size:22 final size:22
Alignment explanation
Indices: 11714357--11714399 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11714347 CCTTAATCCA
*
11714357 TTCCTTCCTTCGCTTCATTCCC
1 TTCCTTCCTTCACTTCATTCCC
*
11714379 TTCCTTCCTTCACTTTATTCC
1 TTCCTTCCTTCACTTCATTCC
11714400 GTTTATTCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.07, C:0.42, G:0.02, T:0.49
Consensus pattern (22 bp):
TTCCTTCCTTCACTTCATTCCC
Found at i:11715917 original size:3 final size:3
Alignment explanation
Indices: 11715906--11715951 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
11715896 CACCATTTTT
*
11715906 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA CTT- TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TT-A TTA TTA TTA
11715952 CTTTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 32 0.84
4 4 0.11
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:11715947 original size:16 final size:16
Alignment explanation
Indices: 11715911--11715960 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
11715901 TTTTTTTATC
11715911 ATTATTATTA-TTATT-
1 ATTATTATTACTT-TTA
11715926 ATTATTATTACTTTTA
1 ATTATTATTACTTTTA
11715942 ATTATTATTACTTTTA
1 ATTATTATTACTTTTA
11715958 ATT
1 ATT
11715961 TTAATTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
15 12 0.36
16 21 0.64
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTATTATTACTTTTA
Found at i:11715948 original size:22 final size:21
Alignment explanation
Indices: 11715920--11715987 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 21
11715910 CATTATTATT
*
11715920 ATTATTATTATTATTACTTTTA
1 ATTATTATTATT-TTAATTTTA
11715942 ATTATTATTACTTTTAATTTTA
1 ATTATTATTA-TTTTAATTTTA
*
11715964 ATT-TTTTTATTTTAATTTTTA
1 ATTATTATTATTTTAA-TTTTA
11715985 ATT
1 ATT
11715988 TTTAATTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
20 6 0.14
21 13 0.31
22 21 0.50
23 2 0.05
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (21 bp):
ATTATTATTATTTTAATTTTA
Found at i:11715968 original size:28 final size:26
Alignment explanation
Indices: 11715912--11715996 Score: 75
Period size: 28 Copynumber: 3.1 Consensus size: 26
11715902 TTTTTTATCA
*
11715912 TTATTATTATTATTATT-ATTATTACTT
1 TTATTATTATTATT-TTAATT-TTAATT
11715939 TTAATTATTATTACTTTTAATTTTAATT
1 TT-ATTATTATTA-TTTTAATTTTAATT
*
11715967 TTTTTATT-TTAATTTTTAATTTTTAATT
1 TTATTATTATT-A-TTTTAA-TTTTAATT
11715995 TT
1 TT
11715997 TCTTTCTTTC
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
26 2 0.04
27 14 0.28
28 29 0.58
29 5 0.10
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.69
Consensus pattern (26 bp):
TTATTATTATTATTTTAATTTTAATT
Found at i:11715975 original size:14 final size:14
Alignment explanation
Indices: 11715953--11715997 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
11715943 TTATTATTAC
11715953 TTTTAATTTTAATT
1 TTTTAATTTTAATT
*
11715967 TTTTTATTTTAA-T
1 TTTTAATTTTAATT
11715980 TTTTAATTTTTAATT
1 TTTTAA-TTTTAATT
11715995 TTT
1 TTT
11715998 CTTTCTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 6 0.22
14 17 0.63
15 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTAATTTTAATT
Found at i:11715976 original size:7 final size:7
Alignment explanation
Indices: 11715953--11715997 Score: 58
Period size: 7 Copynumber: 6.6 Consensus size: 7
11715943 TTATTATTAC
11715953 TTTTAA-
1 TTTTAAT
11715959 TTTTAAT
1 TTTTAAT
*
11715966 TTTT-TT
1 TTTTAAT
11715972 ATTTTAAT
1 -TTTTAAT
11715980 TTTTAAT
1 TTTTAAT
11715987 TTTTAAT
1 TTTTAAT
11715994 TTTT
1 TTTT
11715998 CTTTCTTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 7 0.21
7 26 0.76
8 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTAAT
Found at i:11715985 original size:21 final size:21
Alignment explanation
Indices: 11715937--11715990 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 21
11715927 TTATTATTAC
*
11715937 TTTTAATTATTATTACTTTTAA
1 TTTTAATT-TTTTTACTTTTAA
11715959 TTTTAATTTTTTTA-TTTTAA
1 TTTTAATTTTTTTACTTTTAA
11715979 TTTTTAATTTTT
1 -TTTTAATTTTT
11715991 AATTTTTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 6 0.20
21 16 0.53
22 8 0.27
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTAATTTTTTTACTTTTAA
Found at i:11715995 original size:20 final size:20
Alignment explanation
Indices: 11715937--11715996 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
11715927 TTATTATTAC
*
11715937 TTTTAATTATTATTACTTTTAA
1 TTTTAATT-TT-TTAATTTTAA
*
11715959 TTTTAATTTTTTTATTTTAA
1 TTTTAATTTTTTAATTTTAA
11715979 TTTTTAA-TTTTTAATTTT
1 -TTTTAATTTTTTAATTTT
11715997 TCTTTCTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 18 0.53
21 8 0.24
22 8 0.24
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTAATTTTTTAATTTTAA
Found at i:11717231 original size:16 final size:16
Alignment explanation
Indices: 11717185--11717231 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
11717175 TAATTTTTAA
*
11717185 AATAAAAAATAA-AAT
1 AATACAAAATAATAAT
* *
11717200 AAAACAAACTTAATAAT
1 AATACAAA-ATAATAAT
11717217 AATACAAAATAATAA
1 AATACAAAATAATAA
11717232 AAATGTAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 6 0.24
16 9 0.36
17 10 0.40
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.21
Consensus pattern (16 bp):
AATACAAAATAATAAT
Found at i:11717409 original size:25 final size:25
Alignment explanation
Indices: 11717380--11717428 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
11717370 ATAATAAAAA
* *
11717380 AATTTTTTAATAAAA-AATATTAATT
1 AATTTATTAA-AAAATAATAGTAATT
11717405 AATTTATTAAAAAATAATAGTAAT
1 AATTTATTAAAAAATAATAGTAAT
11717429 AAAAAAGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
AATTTATTAAAAAATAATAGTAATT
Found at i:11717428 original size:21 final size:22
Alignment explanation
Indices: 11717385--11717428 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
11717375 AAAAAAATTT
* *
11717385 TTTAATAAAAAATATTAATTAA
1 TTTAATAAAAAATAATAAGTAA
*
11717407 TTTATTAAAAAATAAT-AGTAA
1 TTTAATAAAAAATAATAAGTAA
11717428 T
1 T
11717429 AAAAAAGAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
TTTAATAAAAAATAATAAGTAA
Found at i:11720770 original size:6 final size:6
Alignment explanation
Indices: 11720742--11720805 Score: 50
Period size: 6 Copynumber: 11.3 Consensus size: 6
11720732 TTTTTTTATT
*
11720742 ATTTTC ATCTTC ATTTTGC -TTTTC ATTTTC TATTTTC A---TC ATTTTC
1 ATTTTC ATTTTC ATTTT-C ATTTTC ATTTTC -ATTTTC ATTTTC ATTTTC
*
11720788 -TTGTC A-TTTC ATTTTC AT
1 ATTTTC ATTTTC ATTTTC AT
11720806 GTGCCAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
3 3 0.07
5 9 0.20
6 27 0.59
7 7 0.15
ACGTcount: A:0.16, C:0.19, G:0.03, T:0.62
Consensus pattern (6 bp):
ATTTTC
Found at i:11725101 original size:15 final size:15
Alignment explanation
Indices: 11725083--11725112 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11725073 AAGATGAATT
*
11725083 TTAAAGTTGTTGAGC
1 TTAAAGTTATTGAGC
11725098 TTAAAGTTATTGAGC
1 TTAAAGTTATTGAGC
11725113 CTCTGCTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (15 bp):
TTAAAGTTATTGAGC
Found at i:11725178 original size:49 final size:48
Alignment explanation
Indices: 11725098--11725818 Score: 614
Period size: 49 Copynumber: 14.8 Consensus size: 48
11725088 GTTGTTGAGC
* * * *
11725098 TTAAAGTTATTGAGCCTCTGCTAATAAGAGCTTTTTCAAGATAAAATTT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAAGAT-AAATTT
* * * *
11725147 TTAAAGTCGTTGAGCCTCTACTTAGATGAGCTTTTTCTCAAGTTGAATTT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGC-TTTT-TCAAGATAAATTT
* * * *
11725197 TTAAAGTTGTTGAGCCACTG-TTGAGAGGAGCTTTTTTTCAAGATGAA-GT
1 TTAAAGTTGTTGAGCCTCTGCTT-AGATGAGC--TTTTTCAAGATAAATTT
** * *
11725246 TTAAAGTTGTTGAGTTTCTACTTAGAAGAGCTTTTTCAAGATAAA-TT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAAGATAAATTT
* * *
11725293 TTAAAGTTGTTGAGCCTCTG-TTGAGAAGAGTTTTTTCAAGATGAGATTT
1 TTAAAGTTGTTGAGCCTCTGCTT-AGATGAGCTTTTTCAAGAT-AAATTT
* * **
11725342 TTAAAGTTGTTGAGCTTCTGCTTAAATGAGCTTTTTCTCAAGATGATTTTT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGC-TTTT-TCAAGAT-AAATTT
* *** * *
11725393 TTAAAGTTATTGAGCCTCCATTTAGAGGAG-TTTTTAAAAGATGAAATTT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTT-CAAGAT-AAATTT
** * * * *
11725442 TTAAAGTCATTGAGCCTTTACTTAGAAGAGCTTTTTCTCAAGATGAATTT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGC-TTTT-TCAAGATAAATTT
* * *
11725492 TTAAAGTTGTTGAGCCTTTGCTTAAATGAGCTTTTTCAAGATGAA-TT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAAGATAAATTT
** * *
11725539 TTAAAGTTGTTGAGTTTCTGCTGAGATGGGCTTTTTCAAGATAAGA-TT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAAGATAA-ATTT
** * *
11725587 TTAAAGTCATTGAGCCTCTACTTAGATGAGCTTTTTCTCAAGATGAATTT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGC-TTTT-TCAAGATAAATTT
* * * *
11725637 TTAAAGTTATTGAGCCTTTGCTTAAATGAGCTTTTTCAAGATGAA-TT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAAGATAAATTT
* * * * *
11725684 TTAAAGTTGTTAAGCCTTTG-TTGAGAGGAGCTTTTTCAAAATGAGATTT
1 TTAAAGTTGTTGAGCCTCTGCTT-AGATGAGCTTTTTCAAGAT-AAATTT
* * * *
11725733 TTAAAGTCGTTGAGCCTTTGCTTAAAAGAGCTTTTTTTCAAGATAAATTT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGC--TTTTTCAAGATAAATTT
* * * *
11725783 TTAAAGTTGTTGAGCTTCTGCTCAGAGGAGCCTTTT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTT
11725819 AAATTTTTAA
Statistics
Matches: 554, Mismatches: 93, Indels: 51
0.79 0.13 0.07
Matches are distributed among these distances:
46 4 0.01
47 124 0.22
48 55 0.10
49 155 0.28
50 150 0.27
51 65 0.12
52 1 0.00
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.41
Consensus pattern (48 bp):
TTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAAGATAAATTT
Found at i:11725212 original size:50 final size:49
Alignment explanation
Indices: 11725098--11725818 Score: 673
Period size: 50 Copynumber: 14.7 Consensus size: 49
11725088 GTTGTTGAGC
* * * * *
11725098 TTAAAGTTATTGAGCCTCTGCTAATAAGAGC-TTTTTCAAGATAAAATTT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTTCAAGAT-GAATTT
* * *
11725147 TTAAAGTCGTTGAGCCTCTACTTAGATGAGCTTTTTCTCAAGTTGAATTT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTT-TCAAGATGAATTT
* * *
11725197 TTAAAGTTGTTGAGCCACTG-TTGAGAGGAGCTTTTTTTCAAGATGAA-GT
1 TTAAAGTTGTTGAGCCTCTGCTT-AGATGAGC-TTTTTTCAAGATGAATTT
** * * *
11725246 TTAAAGTTGTTGAGTTTCTACTTAGAAGAGC-TTTTTCAAGAT-AAATT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTTCAAGATGAATTT
*
11725293 TTAAAGTTGTTGAGCCTCTG-TTGAGAAGAG-TTTTTTCAAGATGAGATTT
1 TTAAAGTTGTTGAGCCTCTGCTT-AGATGAGCTTTTTTCAAGATGA-ATTT
* * *
11725342 TTAAAGTTGTTGAGCTTCTGCTTAAATGAGCTTTTTCTCAAGATGATTTTT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTT-TCAAGATGA-ATTT
* *** * **
11725393 TTAAAGTTATTGAGCCTCCATTTAGAGGAG-TTTTTAAAAGATGAAATTT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTTCAAGATG-AATTT
** * * *
11725442 TTAAAGTCATTGAGCCTTTACTTAGAAGAGCTTTTTCTCAAGATGAATTT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTT-TCAAGATGAATTT
* *
11725492 TTAAAGTTGTTGAGCCTTTGCTTAAATGAGC-TTTTTCAAGATGAA-TT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTTCAAGATGAATTT
** * * *
11725539 TTAAAGTTGTTGAGTTTCTGCTGAGATGGGC-TTTTTCAAGAT-AAGATT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTTCAAGATGAA-TTT
** *
11725587 TTAAAGTCATTGAGCCTCTACTTAGATGAGCTTTTTCTCAAGATGAATTT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTT-TCAAGATGAATTT
* * *
11725637 TTAAAGTTATTGAGCCTTTGCTTAAATGAGC-TTTTTCAAGATGAA-TT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTTCAAGATGAATTT
* * * *
11725684 TTAAAGTTGTTAAGCCTTTG-TTGAGAGGAGC-TTTTTCAAAATGAGATTT
1 TTAAAGTTGTTGAGCCTCTGCTT-AGATGAGCTTTTTTCAAGATGA-ATTT
* * * * *
11725733 TTAAAGTCGTTGAGCCTTTGCTTAAAAGAGCTTTTTTTCAAGATAAATTT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGC-TTTTTTCAAGATGAATTT
* * * *
11725783 TTAAAGTTGTTGAGCTTCTGCTCAGAGGAGCCTTTT
1 TTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTT
11725819 AAATTTTTAA
Statistics
Matches: 558, Mismatches: 87, Indels: 54
0.80 0.12 0.08
Matches are distributed among these distances:
46 8 0.01
47 123 0.22
48 48 0.09
49 154 0.28
50 160 0.29
51 65 0.12
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.41
Consensus pattern (49 bp):
TTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTTCAAGATGAATTT
Found at i:11725377 original size:145 final size:145
Alignment explanation
Indices: 11725123--11725804 Score: 783
Period size: 145 Copynumber: 4.7 Consensus size: 145
11725113 CTCTGCTAAT
* *
11725123 AAGAGCTTTTTCAAGATAAAATTTTTAAAGTCGTTGAGCCTCTACTTAGATGAGCTTTTTCTCAA
1 AAGAGCTTTTTCAAGATGAAA-TTTTAAAGTCGTTGAGCCTCTACTTAGAAGAGCTTTTTCTCAA
* ** * * *
11725188 GTTGAATTTTTAAAGTTGTTGAGCCACTG-TTGAGAGGAGCTTTTTTTCAAGATGAAGTTTAAAG
65 GATGAATTTTTAAAGTTGTTGAGCTTCTGCTT-AAATGAGC--TTTTTCAAGATGAATTTTAAAG
*
11725252 TTGTTGAGTTTCTACTTAG
127 TTGTTGAGTTTCTACTGAG
* *
11725271 AAGAGCTTTTTCAAGAT-AAATTTTAAAGTTGTTGAGCCTCT-GTTGAGAAGAG-TTTTT-TCAA
1 AAGAGCTTTTTCAAGATGAAATTTTAAAGTCGTTGAGCCTCTACTT-AGAAGAGCTTTTTCTCAA
*
11725332 GATGAGATTTTTAAAGTTGTTGAGCTTCTGCTTAAATGAGCTTTTTCTCAAGATGATTTTTTTAA
65 GATGA-ATTTTTAAAGTTGTTGAGCTTCTGCTTAAATGAGC-TTTT-TCAAGATGA--ATTTTAA
* ** * * *
11725397 AGTTATTGAGCCTCCATTTAG
125 AGTTGTTGAGTTTCTACTGAG
* * * *
11725418 AGGAG-TTTTTAAAAGATGAAATTTTTAAAGTCATTGAGCCTTTACTTAGAAGAGCTTTTTCTCA
1 AAGAGCTTTTT-CAAGATGAAA-TTTTAAAGTCGTTGAGCCTCTACTTAGAAGAGCTTTTTCTCA
11725482 AGATGAATTTTTAAAGTTGTTGAGCCTT-TGCTTAAATGAGCTTTTTCAAGATGAATTTTAAAGT
64 AGATGAATTTTTAAAGTTGTTGAG-CTTCTGCTTAAATGAGCTTTTTCAAGATGAATTTTAAAGT
*
11725546 TGTTGAGTTTCTGCTGAG
128 TGTTGAGTTTCTACTGAG
* * * *
11725564 ATGGGCTTTTTCAAGAT-AAGATTTTAAAGTCATTGAGCCTCTACTTAGATGAGCTTTTTCTCAA
1 AAGAGCTTTTTCAAGATGAA-ATTTTAAAGTCGTTGAGCCTCTACTTAGAAGAGCTTTTTCTCAA
*
11725628 GATGAATTTTTAAAGTTATTGAGCCTT-TGCTTAAATGAGCTTTTTCAAGATGAATTTTAAAGTT
65 GATGAATTTTTAAAGTTGTTGAG-CTTCTGCTTAAATGAGCTTTTTCAAGATGAATTTTAAAGTT
* *
11725692 GTTAAGCCTTTGT--TGAG
129 GTTGAG--TTTCTACTGAG
* * * * * * *
11725709 AGGAGCTTTTTCAAAATGAGATTTTTAAAGTCGTTGAGCCTTTGCTTAAAAGAGCTTTTTTTCAA
1 AAGAGCTTTTTCAAGATGA-AATTTTAAAGTCGTTGAGCCTCTACTTAGAAGAGCTTTTTCTCAA
*
11725774 GATAAATTTTTAAAGTTGTTGAGCTTCTGCT
65 GATGAATTTTTAAAGTTGTTGAGCTTCTGCT
11725805 CAGAGGAGCC
Statistics
Matches: 465, Mismatches: 49, Indels: 42
0.84 0.09 0.08
Matches are distributed among these distances:
144 13 0.03
145 176 0.38
146 125 0.27
147 43 0.09
148 29 0.06
149 29 0.06
150 38 0.08
151 12 0.03
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.41
Consensus pattern (145 bp):
AAGAGCTTTTTCAAGATGAAATTTTAAAGTCGTTGAGCCTCTACTTAGAAGAGCTTTTTCTCAAG
ATGAATTTTTAAAGTTGTTGAGCTTCTGCTTAAATGAGCTTTTTCAAGATGAATTTTAAAGTTGT
TGAGTTTCTACTGAG
Found at i:11725877 original size:3 final size:3
Alignment explanation
Indices: 11725866--11725895 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
11725856 CATAATTTTT
*
11725866 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11725896 CTTTTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:11725913 original size:7 final size:7
Alignment explanation
Indices: 11725897--11725926 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
11725887 TTATTATTAC
11725897 TTTTAAT
1 TTTTAAT
11725904 TTTT-AT
1 TTTTAAT
11725910 TTTTAAT
1 TTTTAAT
11725917 TTTTAAT
1 TTTTAAT
11725924 TTT
1 TTT
11725927 ATTTTTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTAAT
Found at i:11725915 original size:13 final size:13
Alignment explanation
Indices: 11725897--11725932 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
11725887 TTATTATTAC
*
11725897 TTTTAATTTTTAT
1 TTTTAATTTTTAA
11725910 TTTTAATTTTTAA
1 TTTTAATTTTTAA
11725923 TTTT-ATTTTT
1 TTTTAATTTTT
11725933 CTTTCTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:11725932 original size:6 final size:6
Alignment explanation
Indices: 11725875--11725932 Score: 53
Period size: 6 Copynumber: 9.3 Consensus size: 6
11725865 TTTATCATTA
* * * * *
11725875 TTATTA TTATTA TTATTA TTACTTT TAATTT TTATTT TTAATTT TTAATT
1 TTATTT TTATTT TTATTT TTA-TTT TTATTT TTATTT TT-ATTT TTATTT
11725925 TTATTT TT
1 TTATTT TT
11725933 CTTTCTTTCT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
6 35 0.78
7 10 0.22
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (6 bp):
TTATTT
Found at i:11728693 original size:41 final size:40
Alignment explanation
Indices: 11728631--11728716 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 40
11728621 TCATTTTGTT
* *
11728631 ATTGTATTACTTGCATGGAATTGTTGTACTAAAACAGTCA
1 ATTGTATTACTTGCATGGAATTATTGTACTAAAACAATCA
* *
11728671 ATTGTATTACTTTGCATGGAATTATTGTACTGAAACAATCC
1 ATTGTATTAC-TTGCATGGAATTATTGTACTAAAACAATCA
11728712 ATTGT
1 ATTGT
11728717 TATTGAATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 10 0.24
41 31 0.76
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (40 bp):
ATTGTATTACTTGCATGGAATTATTGTACTAAAACAATCA
Found at i:11728795 original size:14 final size:14
Alignment explanation
Indices: 11728778--11728811 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
11728768 AAATATAAAT
11728778 ATTTAT-AATATTTA
1 ATTTATGAAT-TTTA
11728792 ATTTATGAATTTTA
1 ATTTATGAATTTTA
11728806 ATTTAT
1 ATTTAT
11728812 TTTAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (14 bp):
ATTTATGAATTTTA
Found at i:11732324 original size:3 final size:3
Alignment explanation
Indices: 11732316--11732368 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
11732306 ATGAAAACAA
11732316 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11732364 AAT AA
1 AAT AA
11732369 AGACAATATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11734116 original size:26 final size:24
Alignment explanation
Indices: 11734083--11734134 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
11734073 TTTAAAAAAT
* * *
11734083 AAAAATTAATTAAAATTTTTATTTA
1 AAAAATT-ATGAAAATCTTTAATTA
11734108 AAAATATTATGAAAATCTTTAATTA
1 AAAA-ATTATGAAAATCTTTAATTA
11734133 AA
1 AA
11734135 GGACTACCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
AAAAATTATGAAAATCTTTAATTA
Found at i:11734813 original size:19 final size:19
Alignment explanation
Indices: 11734791--11734938 Score: 88
Period size: 19 Copynumber: 7.8 Consensus size: 19
11734781 AGGTTTCGCT
*
11734791 TAGGGTTTTGGATTTCACA
1 TAGGGTTTAGGATTTCACA
*
11734810 TAGGGTTTAAGG-TTTCATA
1 TAGGGTTT-AGGATTTCACA
** * *
11734829 TAGAATTTAGGGTTTCACC
1 TAGGGTTTAGGATTTCACA
* * * *
11734848 TAAGATTTCGGATTTCACT
1 TAGGGTTTAGGATTTCACA
*
11734867 TAGGGTTTAGGGTTTCAC-
1 TAGGGTTTAGGATTTCACA
* * *
11734885 TAAGGTTTAAGG-TTTTACC
1 TAGGGTTT-AGGATTTCACA
* * *
11734904 TAGGGATTAAGATTGT-ACC
1 TAGGGTTTAGGATT-TCACA
11734923 TAGGGTTTAGGATTTC
1 TAGGGTTTAGGATTTC
11734939 GTTTAGAGTT
Statistics
Matches: 100, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
18 18 0.18
19 79 0.79
20 3 0.03
ACGTcount: A:0.24, C:0.11, G:0.25, T:0.40
Consensus pattern (19 bp):
TAGGGTTTAGGATTTCACA
Found at i:11734845 original size:38 final size:37
Alignment explanation
Indices: 11734769--11734899 Score: 104
Period size: 38 Copynumber: 3.5 Consensus size: 37
11734759 TAAGGCTTCA
* * ** * *
11734769 ACTAAGGTTTTGAGGTTTCGCTTAGGGTTTTGGATTTC
1 ACTAAGG-TTTAAGGTTTCACTTAGAATTTAGGGTTTC
*
11734807 ACATAGGGTTTAAGGTTTCA-TATAGAATTTAGGGTTTC
1 AC-TAAGGTTTAAGGTTTCACT-TAGAATTTAGGGTTTC
* * **
11734845 ACCTAAGATTT-CGGATTTCACTTAGGGTTTAGGGTTTC
1 A-CTAAGGTTTAAGG-TTTCACTTAGAATTTAGGGTTTC
11734883 ACTAAGGTTTAAGGTTT
1 ACTAAGGTTTAAGGTTT
11734900 TACCTAGGGA
Statistics
Matches: 73, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
37 14 0.19
38 53 0.73
39 6 0.08
ACGTcount: A:0.23, C:0.11, G:0.25, T:0.41
Consensus pattern (37 bp):
ACTAAGGTTTAAGGTTTCACTTAGAATTTAGGGTTTC
Found at i:11734980 original size:18 final size:18
Alignment explanation
Indices: 11734957--11734991 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11734947 TTTCCTTTTG
11734957 GGGTTTCATTTGAGGTTA
1 GGGTTTCATTTGAGGTTA
*
11734975 GGGTTTCATTTGGGGTT
1 GGGTTTCATTTGAGGTT
11734992 TTGTTTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.06, G:0.37, T:0.46
Consensus pattern (18 bp):
GGGTTTCATTTGAGGTTA
Found at i:11740602 original size:16 final size:16
Alignment explanation
Indices: 11740581--11740611 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11740571 TGTGATTAAG
11740581 TCACTTATGCCAAAAA
1 TCACTTATGCCAAAAA
11740597 TCACTTATGCCAAAA
1 TCACTTATGCCAAAA
11740612 CTCAATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.26, G:0.06, T:0.26
Consensus pattern (16 bp):
TCACTTATGCCAAAAA
Found at i:11744313 original size:12 final size:13
Alignment explanation
Indices: 11744265--11744312 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
11744255 ATTCTCATAT
*
11744265 TTATATTTTTTAA
1 TTATATTTTTTAC
*
11744278 TGACT-TTTTTT-C
1 TTA-TATTTTTTAC
11744290 TTATATTTTTTAC
1 TTATATTTTTTAC
11744303 TTATATTTTT
1 TTATATTTTT
11744313 ATTTTAGATC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
11 1 0.03
12 8 0.28
13 19 0.66
14 1 0.03
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (13 bp):
TTATATTTTTTAC
Found at i:11751142 original size:12 final size:12
Alignment explanation
Indices: 11751125--11751165 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
11751115 GGCTTTAGCT
*
11751125 GCAGCAGTTGCA
1 GCAGCAGCTGCA
*
11751137 GCAGCAGCTGCG
1 GCAGCAGCTGCA
*
11751149 GCAGCTGCTGCA
1 GCAGCAGCTGCA
11751161 GCAGC
1 GCAGC
11751166 CACAGATGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.20, C:0.32, G:0.37, T:0.12
Consensus pattern (12 bp):
GCAGCAGCTGCA
Found at i:11752873 original size:2 final size:2
Alignment explanation
Indices: 11752866--11752896 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11752856 AAAGGTATTT
11752866 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
11752897 TTTATCAAAT
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:11754575 original size:19 final size:19
Alignment explanation
Indices: 11754528--11754581 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
11754518 AAAGTTGGAT
*
11754528 TCCGAGGGAAAGTGTGTTA
1 TCCGAGGGAAAGTGTGATA
* *
11754547 TTC-A-GGAAAGTGTGATC
1 TCCGAGGGAAAGTGTGATA
11754564 TCCGAGGGAAAGTGTGAT
1 TCCGAGGGAAAGTGTGAT
11754582 TTTCATGGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 13 0.45
18 2 0.07
19 14 0.48
ACGTcount: A:0.28, C:0.11, G:0.35, T:0.26
Consensus pattern (19 bp):
TCCGAGGGAAAGTGTGATA
Found at i:11759897 original size:18 final size:18
Alignment explanation
Indices: 11759876--11759912 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11759866 AGATTAATTT
*
11759876 TAATGAAAGTAAAAATAA
1 TAATAAAAGTAAAAATAA
*
11759894 TAATAAAAGTAAAATTAA
1 TAATAAAAGTAAAAATAA
11759912 T
1 T
11759913 TATTATAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (18 bp):
TAATAAAAGTAAAAATAA
Found at i:11759947 original size:21 final size:21
Alignment explanation
Indices: 11759903--11759953 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
11759893 ATAATAAAAG
**
11759903 TAAAATTAATTATTATAATGA
1 TAAAATTAATTATTATAACAA
* *
11759924 TAAGATTAATTATTGTAACAA
1 TAAAATTAATTATTATAACAA
11759945 TAAAATTAA
1 TAAAATTAA
11759954 AATTAAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (21 bp):
TAAAATTAATTATTATAACAA
Found at i:11761119 original size:2 final size:2
Alignment explanation
Indices: 11761109--11761141 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
11761099 CTCTCCCCTC
11761109 AT AT A- 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
11761142 TCAATTACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11764293 original size:12 final size:12
Alignment explanation
Indices: 11764278--11764336 Score: 57
Period size: 12 Copynumber: 4.7 Consensus size: 12
11764268 AATTATATTT
11764278 TTTAATTTTATA
1 TTTAATTTTATA
*
11764290 TTTAATTATATA
1 TTTAATTTTATA
*
11764302 TAT-ATTTATATA
1 TTTAATTT-TATA
11764314 TTTTTAATTTTATA
1 --TTTAATTTTATA
11764328 TTTATATTT
1 TTTA-ATTT
11764337 AAAATAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
11 3 0.08
12 21 0.55
13 4 0.11
14 6 0.16
15 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTAATTTTATA
Found at i:11764312 original size:22 final size:22
Alignment explanation
Indices: 11764284--11764338 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
11764274 ATTTTTTAAT
11764284 TTTATATTTAATT-ATATATATA
1 TTTATATTTAATTAAT-TATATA
* *
11764306 TTTATATATT-TTTAATTTTATA
1 TTTATAT-TTAATTAATTATATA
11764328 TTTATATTTAA
1 TTTATATTTAA
11764339 AATAATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
21 2 0.07
22 21 0.78
23 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTATATTTAATTAATTATATA
Found at i:11764313 original size:8 final size:8
Alignment explanation
Indices: 11764270--11764334 Score: 52
Period size: 8 Copynumber: 8.8 Consensus size: 8
11764260 TATTTTTTAA
11764270 TTATAT-T
1 TTATATAT
*
11764277 TTTTA-AT
1 TTATATAT
11764284 TT-TATAT
1 TTATATAT
11764291 TTA-ATTAT
1 TTATA-TAT
*
11764299 ATATATAT
1 TTATATAT
11764307 TTATATAT
1 TTATATAT
*
11764315 TTTTA-AT
1 TTATATAT
11764322 TT-TATAT
1 TTATATAT
11764329 TTATAT
1 TTATAT
11764335 TTAAAATAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
6 4 0.09
7 20 0.43
8 22 0.47
9 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
TTATATAT
Found at i:11765558 original size:101 final size:101
Alignment explanation
Indices: 11765314--11765758 Score: 427
Period size: 101 Copynumber: 4.4 Consensus size: 101
11765304 TTATTTTACG
* * * * *
11765314 AAAATTCATTAAA-CCTTCAAATAGTTTGATAAGATCTAATTTTAT-ATTTAAATATTCTAATAG
1 AAAATTCATTAAATCATTC-AATAGTTTGATAAAATTTAA-TTCATGATTTAAATCTTCTAATAG
* * *
11765377 TTTAGTAGGATTGAAAATTTTATTTTTATTTTTTTACCAA
64 TTTAGTAAGATTAAAAATTTTATTATTATTTTTTT--CAA
* * * * * *
11765417 AAAATTCATTAAGTCATCCAATA-TTTGATAAGACTTAATTCATGATTTAAATCTTCCAATAATT
1 AAAATTCATTAAATCATTCAATAGTTTGATAAAATTTAATTCATGATTTAAATCTTCTAATAGTT
* *
11765481 TGGTAAGATTAAAAACTTTATTATTATTATTTTT-AA
66 TAGTAAGATTAAAAATTTTATTATTATT-TTTTTCAA
* * * *
11765517 AAAATTCATTAAATCTTTCAATAATTTGATAAAATTTAATTCAAGATTTAAATCATCTAATAGTT
1 AAAATTCATTAAATCATTCAATAGTTTGATAAAATTTAATTCATGATTTAAATCTTCTAATAGTT
* *
11765582 TGGTTAGATTAAAAATTTTATTATTATTATTTTT-AA
66 TAGTAAGATTAAAAATTTTATTATTATT-TTTTTCAA
* * * * * * *
11765618 AAAATTCATTAAGTCATCCAATGGTTTGGTAATATTTAATT--TAATCCTTAAATCCTCTAATAG
1 AAAATTCATTAAATCATTCAATAGTTTGATAAAATTTAATTCATGAT--TTAAATCTTCTAATAG
* *
11765681 TTTAGTAAGATTGAAAATTTTTTTATTATTTTTTTCAAA
64 TTTAGTAAGATTAAAAATTTTATTATTATTTTTTTC-AA
** *
11765720 AAAATTCATTATGAAATTTTTCAATAGTTTGATAGAATT
1 AAAATTCA-T-T-AAATCATTCAATAGTTTGATAAAATT
11765759 CATAATTTAA
Statistics
Matches: 284, Mismatches: 47, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
99 2 0.01
100 27 0.10
101 148 0.52
102 63 0.22
103 22 0.08
104 4 0.01
105 18 0.06
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (101 bp):
AAAATTCATTAAATCATTCAATAGTTTGATAAAATTTAATTCATGATTTAAATCTTCTAATAGTT
TAGTAAGATTAAAAATTTTATTATTATTTTTTTCAA
Found at i:11765724 original size:203 final size:200
Alignment explanation
Indices: 11765314--11765758 Score: 497
Period size: 203 Copynumber: 2.2 Consensus size: 200
11765304 TTATTTTACG
* * * ** *
11765314 AAAATTCATTAAA-CCTTCAAATAGTTTGATAAGATCTAATTTTATATTTAAATATTCTAATAGT
1 AAAATTCATTAAATCTTTC-AATAGTTTGATAAAATTTAATTCAAGATTTAAATATTCTAATAGT
* *
11765378 TTAGTAGGATTGAAAATTTTATTTTTATTTTTTTACCAAAAAATTCATTAAGTCATCCAATATTT
65 TTAGTAGGATTAAAAATTTTATTATTATTTTTTT--CAAAAAATTCATTAAGTCATCCAATATTT
* * *
11765443 GATAAGACTTAATTCATGATTTAAATCTTCCAATAATTTGGTAAGATTAAAAACTTTATTATTAT
128 GATAAGACTTAATT-ATAATTTAAATCCTCCAATAATTTAGTAAGATTAAAAACTTTATTATTAT
11765508 TATTTTTAA
192 TATTTTTAA
*
11765517 AAAATTCATTAAATCTTTCAATAATTTGATAAAATTTAATTCAAGATTTAAATCA-TCTAATAGT
1 AAAATTCATTAAATCTTTCAATAGTTTGATAAAATTTAATTCAAGATTTAAAT-ATTCTAATAGT
* *
11765581 TTGGTTA-GATTAAAAATTTTATTATTATTATTTTT-AAAAAATTCATTAAGTCATCCAATGGTT
65 TTAG-TAGGATTAAAAATTTTATTATTATT-TTTTTCAAAAAATTCATTAAGTCATCCAAT-ATT
* * * * * * * *
11765644 TGGTAATATTTAATT-TAATCCTTAAATCCTCTAATAGTTTAGTAAGATTGAAAATTTTTTTATT
127 TGATAAGACTTAATTATAAT--TTAAATCCTCCAATAATTTAGTAAGATTAAAAACTTTATTATT
11765708 ATT-TTTTTCAAA
190 ATTATTTTT--AA
* *
11765720 AAAATTCATTATGAAATTTTTCAATAGTTTGATAGAATT
1 AAAATTCA-T-T-AAATCTTTCAATAGTTTGATAAAATT
11765759 CATAATTTAA
Statistics
Matches: 205, Mismatches: 25, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
200 3 0.01
201 29 0.14
202 53 0.26
203 83 0.40
204 13 0.06
205 1 0.00
206 23 0.11
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (200 bp):
AAAATTCATTAAATCTTTCAATAGTTTGATAAAATTTAATTCAAGATTTAAATATTCTAATAGTT
TAGTAGGATTAAAAATTTTATTATTATTTTTTTCAAAAAATTCATTAAGTCATCCAATATTTGAT
AAGACTTAATTATAATTTAAATCCTCCAATAATTTAGTAAGATTAAAAACTTTATTATTATTATT
TTTAA
Found at i:11767334 original size:18 final size:18
Alignment explanation
Indices: 11767300--11767352 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 18
11767290 AGATTCGTAA
*
11767300 AAAATTTGTAATA-ATTTT
1 AAAATTTGCAA-AGATTTT
11767318 AAAATTTGCAAAGA-TTT
1 AAAATTTGCAAAGATTTT
* *
11767335 AAAATTCGCAAAGGTTTT
1 AAAATTTGCAAAGATTTT
11767353 CAGATTCTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (18 bp):
AAAATTTGCAAAGATTTT
Found at i:11767337 original size:17 final size:17
Alignment explanation
Indices: 11767315--11767347 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11767305 TTGTAATAAT
*
11767315 TTTAAAATTTGCAAAGA
1 TTTAAAATTCGCAAAGA
11767332 TTTAAAATTCGCAAAG
1 TTTAAAATTCGCAAAG
11767348 GTTTTCAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.33
Consensus pattern (17 bp):
TTTAAAATTCGCAAAGA
Found at i:11767532 original size:16 final size:17
Alignment explanation
Indices: 11767511--11767555 Score: 74
Period size: 16 Copynumber: 2.7 Consensus size: 17
11767501 CAAGGTTTTC
*
11767511 AAATTCGCAAGAATG-A
1 AAATTCACAAGAATGAA
11767527 AAATTCACAAGAATGAA
1 AAATTCACAAGAATGAA
11767544 AAATTCACAAGA
1 AAATTCACAAGA
11767556 TTTTTAGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.56, C:0.13, G:0.13, T:0.18
Consensus pattern (17 bp):
AAATTCACAAGAATGAA
Found at i:11768001 original size:45 final size:44
Alignment explanation
Indices: 11767909--11768002 Score: 102
Period size: 45 Copynumber: 2.1 Consensus size: 44
11767899 GTTTTAAGAC
* *
11767909 TCACAACCAAAATTCAAATATTTTCATTTGAAAATTTCAGGGTT
1 TCACAACCAAAATTCAAATATTTTCATTCGAAAATTTCAGGGAT
* * *
11767953 TCACAACCAAAGTTTTAAA-ATTTCTCATTCGAAAAATTT-TGGGAT
1 TCACAACCAAA-ATTCAAATATTT-TCATTCG-AAAATTTCAGGGAT
11767998 TCACA
1 TCACA
11768003 TATAAACTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
44 15 0.36
45 20 0.48
46 7 0.17
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (44 bp):
TCACAACCAAAATTCAAATATTTTCATTCGAAAATTTCAGGGAT
Found at i:11768100 original size:46 final size:46
Alignment explanation
Indices: 11767909--11768105 Score: 138
Period size: 46 Copynumber: 4.3 Consensus size: 46
11767899 GTTTTAAGAC
* * ** *
11767909 TCACAACCAAA-ATTCAAATATTTTCATT-TGAAAATTTCAGGGTT
1 TCACAACCAAATTTTCAAAGATTTTCATTCAAAAAATTTCAGAGTT
* * * *
11767953 TCACAACCAAAGTTTT-AAA-ATTTCTCATTCGAAAAATTT-TGGGAT
1 TCACAACCAAA-TTTTCAAAGATTT-TCATTCAAAAAATTTCAGAGTT
* * * * *
11767998 TCACATA-TAAACTTTCAAAGATTTACATTCAAAAAATGTTAATA-TT
1 TCACA-ACCAAATTTTCAAAGATTTTCATTCAAAAAAT-TTCAGAGTT
* * *
11768044 TCATAACCAAATTTTCAAAGATTTTTATCCAAAAAATTTCAGAGTT
1 TCACAACCAAATTTTCAAAGATTTTCATTCAAAAAATTTCAGAGTT
*
11768090 TCACATCCAAAATTTT
1 TCACAACC-AAATTTT
11768106 GAAGATTCAC
Statistics
Matches: 118, Mismatches: 23, Indels: 21
0.73 0.14 0.13
Matches are distributed among these distances:
44 18 0.15
45 39 0.33
46 54 0.46
47 7 0.06
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.37
Consensus pattern (46 bp):
TCACAACCAAATTTTCAAAGATTTTCATTCAAAAAATTTCAGAGTT
Found at i:11768294 original size:22 final size:22
Alignment explanation
Indices: 11768256--11768304 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
11768246 TCTAATTCAA
*
11768256 AAAATTTATGAGTTTCACATCC
1 AAAATTTATGAGATTCACATCC
* *
11768278 AAAATTT-TGAAGATTCACCTTC
1 AAAATTTATG-AGATTCACATCC
11768300 AAAAT
1 AAAAT
11768305 GCTCATGTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (22 bp):
AAAATTTATGAGATTCACATCC
Found at i:11769522 original size:17 final size:16
Alignment explanation
Indices: 11769500--11769531 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
11769490 AATGTTCTTC
11769500 TTTCATTTTTTATTTCA
1 TTTCATTTTTT-TTTCA
11769517 TTTCATTTTTTTTTC
1 TTTCATTTTTTTTTC
11769532 TATTCCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTCATTTTTTTTTCA
Found at i:11769834 original size:13 final size:13
Alignment explanation
Indices: 11769791--11769838 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
11769781 TACATTTTCA
11769791 TCTTTTTTTC-TT
1 TCTTTTTTTCTTT
* *
11769803 TCATTTCTTTTATTA
1 TC-TTT-TTTTCTTT
11769818 TCTTTTTTTCTTT
1 TCTTTTTTTCTTT
11769831 TCTTTTTT
1 TCTTTTTT
11769839 CTTCATGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
12 2 0.07
13 17 0.59
14 7 0.24
15 3 0.10
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (13 bp):
TCTTTTTTTCTTT
Done.