Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167907.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_172, 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: 59215
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
File 1 of 2
Found at i:345 original size:23 final size:23
Alignment explanation
Indices: 319--385 Score: 55
Period size: 23 Copynumber: 2.9 Consensus size: 23
309 GCAATTATTT
319 AAATTAAAAATAAATAATTAAGG
1 AAATTAAAAATAAATAATTAAGG
* * * **
342 AAA-TAGATAATCATTAATTAATT
1 AAATTA-AAAATAAATAATTAAGG
*
365 AAATATAAAACTAAATAATTA
1 AAAT-TAAAAATAAATAATTA
386 TATTATTATC
Statistics
Matches: 32, Mismatches: 9, Indels: 5
0.70 0.20 0.11
Matches are distributed among these distances:
22 2 0.06
23 18 0.56
24 10 0.31
25 2 0.06
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATTAAAAATAAATAATTAAGG
Found at i:553 original size:21 final size:20
Alignment explanation
Indices: 506--554 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
496 CATAATACTA
*
506 ATTTTAATCTATTATAATTT
1 ATTTTAATCAATTATAATTT
526 A-TTTAAT-AATTATAATTAAT
1 ATTTTAATCAATTATAATT--T
546 ATTTTAATC
1 ATTTTAATC
555 TTTATTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 9 0.38
19 6 0.25
20 3 0.12
21 6 0.25
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTAATCAATTATAATTT
Found at i:816 original size:28 final size:28
Alignment explanation
Indices: 736--816 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 28
726 TCCTTATTAA
*
736 TTAATTA-ATTATTAATATTTATTATAAT
1 TTAATTAGATTATTAATATATATTA-AAT
* ** *
764 GTAA-TAGAAAATTAATATATGTTAAATT
1 TTAATTAGATTATTAATATATATTAAA-T
792 TTAATTAGATTATTAA-ATATATTAA
1 TTAATTAGATTATTAATATATATTAA
817 TAATATGATA
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
27 4 0.10
28 28 0.68
29 9 0.22
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (28 bp):
TTAATTAGATTATTAATATATATTAAAT
Found at i:948 original size:10 final size:10
Alignment explanation
Indices: 903--946 Score: 56
Period size: 9 Copynumber: 4.5 Consensus size: 10
893 TTTTACTTAG
903 TTAAATAAT-
1 TTAAATAATA
*
912 TTAAATATTA
1 TTAAATAATA
922 TTTAAATAATA
1 -TTAAATAATA
933 TTAAATAA-A
1 TTAAATAATA
942 TTAAA
1 TTAAA
947 ATGATAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 14 0.45
10 8 0.26
11 9 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
TTAAATAATA
Found at i:948 original size:20 final size:20
Alignment explanation
Indices: 905--948 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
895 TTACTTAGTT
* *
905 AAATAATTTAAATATTATTT
1 AAATAATTTAAATATAATTA
925 AAATAATATTAAATA-AATTA
1 AAATAAT-TTAAATATAATTA
945 AAAT
1 AAAT
949 GATAAAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATAATTTAAATATAATTA
Found at i:994 original size:13 final size:13
Alignment explanation
Indices: 964--1046 Score: 66
Period size: 13 Copynumber: 6.3 Consensus size: 13
954 AATGTAGACA
*
964 ATTATTAATATGAT
1 ATTATT-ATATAAT
*
978 ATTATTATTTAAT
1 ATTATTATATAAT
991 ATTATTAATATAAT
1 ATTATT-ATATAAT
1005 A-TATTATGAT--T
1 ATTATTAT-ATAAT
*
1016 ATTAATAATATAAT
1 ATT-ATTATATAAT
1030 ATATATTATAT-AT
1 AT-TATTATATAAT
1043 ATTA
1 ATTA
1047 AAAAATATAG
Statistics
Matches: 57, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
11 2 0.04
12 7 0.12
13 25 0.44
14 22 0.39
15 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (13 bp):
ATTATTATATAAT
Found at i:997 original size:27 final size:27
Alignment explanation
Indices: 964--1046 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
954 AATGTAGACA
*
964 ATTATTAATATGATATTATTATTTAAT
1 ATTATTAATATAATATTATTATTTAAT
* *
991 ATTATTAATATAATA-TATTA-TGATT
1 ATTATTAATATAATATTATTATTTAAT
* *
1016 ATTAATAATATAATATATATTATAT-AT
1 ATTATTAATATAATAT-TATTATTTAAT
1043 ATTA
1 ATTA
1047 AAAAATATAG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
25 17 0.37
26 5 0.11
27 24 0.52
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (27 bp):
ATTATTAATATAATATTATTATTTAAT
Found at i:1047 original size:27 final size:28
Alignment explanation
Indices: 964--1079 Score: 82
Period size: 27 Copynumber: 4.2 Consensus size: 28
954 AATGTAGACA
* * *
964 ATTATTAATATGATAT-TATTAT-TTAAT
1 ATTAATAATATAATATATATTATAAT-AT
* *
991 ATTATTAATAT-A-ATATATTATGAT-T
1 ATTAATAATATAATATATATTATAATAT
1016 ATTAATAATATAATATATATTAT-ATAT
1 ATTAATAATATAATATATATTATAATAT
* * *
1043 ATTAAAAAATATAGATATAATATAATAATTT
1 ATT-AATAATATA-ATAT-ATATTATAATAT
1074 ATTAAT
1 ATTAAT
1080 TTATTATATA
Statistics
Matches: 74, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
25 13 0.18
26 10 0.14
27 25 0.34
28 8 0.11
29 4 0.05
30 8 0.11
31 6 0.08
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (28 bp):
ATTAATAATATAATATATATTATAATAT
Found at i:1351 original size:17 final size:17
Alignment explanation
Indices: 1331--1365 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1321 ATTAATGATT
*
1331 ATATTAATTTAAAATGA
1 ATATTAATTAAAAATGA
1348 ATATTAATTAAAAATGA
1 ATATTAATTAAAAATGA
1365 A
1 A
1366 CAATTTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (17 bp):
ATATTAATTAAAAATGA
Found at i:1524 original size:24 final size:24
Alignment explanation
Indices: 1497--1561 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 24
1487 TAATAATTTC
1497 AATTATA-AAATAATCATAGTTATA
1 AATTATATAAATAATCA-AGTTATA
* *
1521 AATTATATTTTAATAATCAAGTTATT
1 AATTATA--TAAATAATCAAGTTATA
*
1547 AATTATATATATAAT
1 AATTATATAAATAAT
1562 TATCAAGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 13 0.38
26 13 0.38
27 8 0.24
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (24 bp):
AATTATATAAATAATCAAGTTATA
Found at i:1561 original size:27 final size:27
Alignment explanation
Indices: 1500--1589 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
1490 TAATTTCAAT
* *
1500 TATAAAATAATCATAGTTATAAATTATA
1 TATATAATAATCA-AGTTATTAATTATA
*
1528 T-TTTAATAATCAAGTTATTAATTATA
1 TATATAATAATCAAGTTATTAATTATA
* *
1554 TATATAATTATCAAGTTATTATACTATTA
1 TATATAATAATCAAGTTATTA-ATTA-TA
1583 TATATAA
1 TATATAA
1590 AATAATTTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
26 14 0.26
27 26 0.49
28 4 0.08
29 9 0.17
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (27 bp):
TATATAATAATCAAGTTATTAATTATA
Found at i:1679 original size:25 final size:24
Alignment explanation
Indices: 1644--1714 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 24
1634 ATTTATGATA
*
1644 AATATTATATTAAATAATTTAATT
1 AATATAATATTAAATAATTTAATT
1668 AATATAATTATTAAATATATTATAATT
1 AATATAA-TATTAAATA-ATT-TAATT
* *
1695 ATTATAA-ATTATATAATTTA
1 AATATAATATTAAATAATTTA
1715 CATTTACTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 2 0.05
24 9 0.22
25 16 0.39
26 3 0.07
27 11 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
AATATAATATTAAATAATTTAATT
Found at i:1699 original size:9 final size:9
Alignment explanation
Indices: 1651--1712 Score: 60
Period size: 9 Copynumber: 7.1 Consensus size: 9
1641 ATAAATATTA
1651 TATTA-AAT
1 TATTATAAT
*
1659 AATT-TAAT
1 TATTATAAT
*
1667 TAATATAAT
1 TATTATAAT
1676 TATTA-AAT
1 TATTATAAT
1684 ATATTATAAT
1 -TATTATAAT
1694 TATTATAAAT
1 TATTAT-AAT
1704 TA-TATAAT
1 TATTATAAT
1712 T
1 T
1713 TACATTTACT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
8 15 0.33
9 22 0.49
10 8 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
TATTATAAT
Found at i:1709 original size:18 final size:18
Alignment explanation
Indices: 1614--1712 Score: 62
Period size: 18 Copynumber: 5.3 Consensus size: 18
1604 AGTTATTTGC
*
1614 TAATTATAATAAATTATAA
1 TAATTATTATAAATTAT-A
* *
1633 TATTTATGATAAATATTATA
1 TAATTATTAT-AA-ATTATA
*
1653 TTAAATAATT-T-AATTAATA
1 -T-AATTATTATAAATT-ATA
1672 TAATTA-T-TAAATATATTA
1 TAATTATTATAAAT-TA-TA
1690 TAATTATTATAAATTATA
1 TAATTATTATAAATTATA
1708 TAATT
1 TAATT
1713 TACATTTACT
Statistics
Matches: 64, Mismatches: 6, Indels: 21
0.70 0.07 0.23
Matches are distributed among these distances:
16 2 0.03
17 8 0.12
18 20 0.31
19 15 0.23
20 8 0.12
21 7 0.11
22 4 0.06
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (18 bp):
TAATTATTATAAATTATA
Found at i:2163 original size:23 final size:23
Alignment explanation
Indices: 2120--2186 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
2110 AATAATAATT
* * *
2120 TAATTGTTAATTATATAATATAA
1 TAATTATTAATAATATTATATAA
*
2143 TAATT-TTAATAAGTATTATATCA
1 TAATTATTAATAA-TATTATATAA
2166 -AATTATCTAATAATATTATAT
1 TAATTAT-TAATAATATTATAT
2187 TATTCGTATA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
22 10 0.26
23 22 0.58
24 6 0.16
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (23 bp):
TAATTATTAATAATATTATATAA
Found at i:2459 original size:112 final size:112
Alignment explanation
Indices: 2325--2554 Score: 426
Period size: 112 Copynumber: 2.1 Consensus size: 112
2315 AAATCATATT
*
2325 TATTAA-CATAGTTTTAAGGATTAATACTTTATTAATTACAACTTTATAATTATATTATTATAAT
1 TATTAATCATAGTTTTAAGGATTAATACTTTATTAATTACAACTTTATAACTATATTATTATAAT
2389 ATTAATATTATATTAATATCAATTATTAAATAAATATGGTTTTGTAA
66 ATTAATATTATATTAATATCAATTATTAAATAAATATGGTTTTGTAA
2436 TATTAATCATAGTTTTAAGGATTAATACTTTATTAATTACAACTTTATAACTATATTATTATAAT
1 TATTAATCATAGTTTTAAGGATTAATACTTTATTAATTACAACTTTATAACTATATTATTATAAT
* *
2501 ATTGATATTATATTGATATCAATTATTAAATAAATATGGTTTTGTAA
66 ATTAATATTATATTAATATCAATTATTAAATAAATATGGTTTTGTAA
2548 TATTAAT
1 TATTAAT
2555 TAATAATAAA
Statistics
Matches: 115, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
111 6 0.05
112 109 0.95
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (112 bp):
TATTAATCATAGTTTTAAGGATTAATACTTTATTAATTACAACTTTATAACTATATTATTATAAT
ATTAATATTATATTAATATCAATTATTAAATAAATATGGTTTTGTAA
Found at i:2595 original size:112 final size:112
Alignment explanation
Indices: 2343--2596 Score: 332
Period size: 112 Copynumber: 2.3 Consensus size: 112
2333 TAGTTTTAAG
* * * *
2343 GATTAATACTTTATTAATTACAACTTTATAATTATATTATTATAATATTAATATTATATTAATAT
1 GATTAATACTTTATCAAATACAAATTTATAACTATATTATTATAATATTAATATTATATTAATAT
* * ** *
2408 CAATTATTAAATAAATATGGTTTTGTAATATTAATCATAGTTTTAAG
66 CAATTATTAAATAAATATGGTTTTGTAATATTAATAATAGATAAAAC
* * * * *
2455 GATTAATACTTTATTAATTACAACTTTATAACTATATTATTATAATATTGATATTATATTGATAT
1 GATTAATACTTTATCAAATACAAATTTATAACTATATTATTATAATATTAATATTATATTAATAT
2520 CAATTATTAAATAAATATGGTTTTGTAATATTAATTAATA-ATAAAAC
66 CAATTATTAAATAAATATGGTTTTGTAATATTAA-TAATAGATAAAAC
* *
2567 TATTAATTATTTTATCAAATA-AAATTTATA
1 GATTAA-TACTTTATCAAATACAAATTTATA
2597 TTATTTATAG
Statistics
Matches: 127, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
112 112 0.88
113 15 0.12
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (112 bp):
GATTAATACTTTATCAAATACAAATTTATAACTATATTATTATAATATTAATATTATATTAATAT
CAATTATTAAATAAATATGGTTTTGTAATATTAATAATAGATAAAAC
Found at i:2735 original size:21 final size:22
Alignment explanation
Indices: 2697--2751 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
2687 TTCATTGATG
*
2697 ATTTAATTAATAAT-TTTACA-A
1 ATTTAA-TAATTATATTTACATA
*
2718 ATTTAATAATTATATTTATATA
1 ATTTAATAATTATATTTACATA
2740 A-TTAAT-ATTATA
1 ATTTAATAATTATA
2752 ATATGAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 12 0.40
21 16 0.53
22 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTAATAATTATATTTACATA
Found at i:3026 original size:21 final size:21
Alignment explanation
Indices: 2980--3045 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 21
2970 ATATTATATT
*
2980 ATAA-TAT-TAATTGTAATTA
1 ATAATTATATAATTATAATTA
2999 CATAATTATATATATTAT-ATTA
1 -ATAATTATATA-ATTATAATTA
3021 ATAATTATATAATTTATAATTA
1 ATAATTATATAA-TTATAATTA
3043 ATA
1 ATA
3046 TATTGCTAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
20 5 0.12
21 18 0.45
22 13 0.32
23 4 0.10
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
ATAATTATATAATTATAATTA
Found at i:3056 original size:30 final size:29
Alignment explanation
Indices: 2967--3057 Score: 82
Period size: 30 Copynumber: 3.1 Consensus size: 29
2957 TAATAATTGG
*
2967 ATTATATTATATTATAA-TATTA-ATTGTA
1 ATTATATAAT-TTATAATTATTATATTGTA
* *
2995 ATTACATAA-TTAT-ATATATTATATTAATA
1 ATTATATAATTTATAAT-TATTATATT-GTA
*
3024 ATTATATAATTTATAATTAATATATTGCTA
1 ATTATATAATTTATAATTATTATATTG-TA
3054 ATTA
1 ATTA
3058 ATTTTTTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
25 1 0.02
26 4 0.08
27 5 0.10
28 10 0.20
29 10 0.20
30 18 0.36
31 2 0.04
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (29 bp):
ATTATATAATTTATAATTATTATATTGTA
Found at i:3070 original size:50 final size:50
Alignment explanation
Indices: 3016--3110 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
3006 ATATATATTA
*
3016 TATTAATAATTATATAATTTATAAT-TAA-TATATTGCTAATTAATTTTTTT
1 TATT-ATAATT-TATAATTTATAATATAATTATATAGCTAATTAATTTTTTT
* * * *
3066 TATTATTATTTTTATTTTATAATATAATTATATAGTTAATTAATT
1 TATTATAATTTATAATTTATAATATAATTATATAGCTAATTAATT
3111 AATTAAATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 11 0.29
49 8 0.21
50 19 0.50
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (50 bp):
TATTATAATTTATAATTTATAATATAATTATATAGCTAATTAATTTTTTT
Found at i:3171 original size:21 final size:21
Alignment explanation
Indices: 3139--3223 Score: 61
Period size: 21 Copynumber: 4.0 Consensus size: 21
3129 TTAAATAACT
3139 ATTTA-TATGTTATTAATAATA
1 ATTTATTA-GTTATTAATAATA
*
3160 ATTTATTAGTTA-TAAT-ATT
1 ATTTATTAGTTATTAATAATA
*
3179 ATATTACTTAG-TATAAATATTATA
1 AT-TTA-TTAGTTATTAATA--ATA
*
3203 ATTTATTATTATATTAATAAT
1 ATTTATTAGT-TATTAATAAT
3224 TATTAATAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 17
0.69 0.07 0.24
Matches are distributed among these distances:
19 4 0.08
20 9 0.18
21 16 0.32
22 7 0.14
23 3 0.06
24 11 0.22
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (21 bp):
ATTTATTAGTTATTAATAATA
Found at i:3284 original size:13 final size:13
Alignment explanation
Indices: 3256--3340 Score: 52
Period size: 13 Copynumber: 6.7 Consensus size: 13
3246 GTTAATTTTA
**
3256 ATATTAATTATTT
1 ATATTAATTAAAT
3269 ATATTAATTAAAT
1 ATATTAATTAAAT
* *
3282 ATATTTATTTTAA-
1 ATA-TTAATTAAAT
3295 AT-TTAATT-AA-
1 ATATTAATTAAAT
*
3305 ATATTAATTTAAT
1 ATATTAATTAAAT
* *
3318 ATACTAATATAATT
1 ATATTAAT-TAAAT
*
3332 ATTTTAATT
1 ATATTAATT
3341 TTAAATAATA
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
10 4 0.07
11 11 0.19
12 2 0.04
13 24 0.42
14 16 0.28
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (13 bp):
ATATTAATTAAAT
Found at i:3301 original size:38 final size:36
Alignment explanation
Indices: 3250--3320 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
3240 AAACTTGTTA
*
3250 ATTTTAATATTAATTATTTATATTAATTAAATATATTT
1 ATTTTAATATTAATTA--AATATTAATTAAATATATTT
*
3288 ATTTTAA-ATTTAATTAAATATTAATTTAATATA
1 ATTTTAATA-TTAATTAAATATTAATTAAATATA
3321 CTAATATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 15 0.50
37 1 0.03
38 14 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (36 bp):
ATTTTAATATTAATTAAATATTAATTAAATATATTT
Found at i:3518 original size:13 final size:14
Alignment explanation
Indices: 3500--3542 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
3490 AATTATTCAA
3500 TAAATTATTATA-T
1 TAAATTATTATATT
3513 TAAATTA-TATATT
1 TAAATTATTATATT
3526 TATAATTATTA-ATT
1 TA-AATTATTATATT
3540 TAA
1 TAA
3543 TAATAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 4 0.15
13 11 0.41
14 10 0.37
15 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAAATTATTATATT
Found at i:3589 original size:30 final size:28
Alignment explanation
Indices: 3472--3592 Score: 85
Period size: 27 Copynumber: 4.4 Consensus size: 28
3462 TAATTGTAAA
*
3472 TATAATTAATT-ATTTAATAAT--TATT
1 TATAATTATTTAATTTAATAATAATATT
* * *
3497 CAATAAATTA-TTATATTAAATTAT-ATATT
1 -TAT-AATTATTTA-ATTTAATAATAATATT
3526 TATAATTA-TTAATTTAATAATAATATT
1 TATAATTATTTAATTTAATAATAATATT
* *
3553 TTTAATTATTTAATATTACATATTAATGA-T
1 TATAATTATTTAAT-TTA-ATAATAAT-ATT
3583 TATAATTATT
1 TATAATTATT
3593 AAAAAGTAGA
Statistics
Matches: 77, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
26 12 0.16
27 25 0.32
28 15 0.19
29 7 0.09
30 17 0.22
31 1 0.01
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.53
Consensus pattern (28 bp):
TATAATTATTTAATTTAATAATAATATT
Found at i:3846 original size:22 final size:22
Alignment explanation
Indices: 3800--3861 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 22
3790 TATTAACCAG
*
3800 AATAATAATTGTAAATTGTATT
1 AATAATAATTGTAAATTGTAAT
3822 AATAACTAATT-TAAATAT-TAAT
1 AATAA-TAATTGTAAAT-TGTAAT
* *
3844 AATATATATTTATAAATT
1 AATA-ATAATTGTAAATT
3862 AAAATATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
22 22 0.65
23 12 0.35
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (22 bp):
AATAATAATTGTAAATTGTAAT
Found at i:3862 original size:21 final size:20
Alignment explanation
Indices: 3830--3868 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
3820 TTAATAACTA
3830 ATTTAAATATTAATAATATAT
1 ATTTAAATATTAA-AATATAT
3851 ATTTATAA-ATTAAAATAT
1 ATTTA-AATATTAAAATAT
3869 TTATATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 10 0.59
22 2 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTTAAATATTAAAATATAT
Found at i:3879 original size:18 final size:20
Alignment explanation
Indices: 3836--3928 Score: 58
Period size: 18 Copynumber: 4.8 Consensus size: 20
3826 ACTAATTTAA
3836 ATATTAA-TAATATATATTT
1 ATATTAATTAATATATATTT
3855 ATA--AATTAA-A-ATATTT
1 ATATTAATTAATATATATTT
* **
3871 ATATTAATTTATATTAATATAA
1 ATATTAATTAATA-T-ATATTT
3893 ATAATTAATTTAAT-TA-ATTT
1 AT-ATTAA-TTAATATATATTT
3913 A-ATTTAATTAATATAT
1 ATA-TTAATTAATATAT
3929 TATCAATTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 23
0.66 0.07 0.27
Matches are distributed among these distances:
16 9 0.16
17 3 0.05
18 14 0.25
19 10 0.18
20 3 0.05
21 1 0.02
22 7 0.12
23 5 0.09
24 4 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTAATTAATATATATTT
Found at i:4178 original size:15 final size:15
Alignment explanation
Indices: 4127--4180 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
4117 TGATTATTTA
4127 AAAT-TATT-ATATT
1 AAATATATTAATATT
*
4140 AAA-AAATATAATATT
1 AAATATAT-TAATATT
* *
4155 AATTGTATTAATATT
1 AAATATATTAATATT
4170 AAATATATTAA
1 AAATATATTAA
4181 ATTCTTAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
13 5 0.16
14 1 0.03
15 23 0.74
16 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
AAATATATTAATATT
Found at i:4245 original size:26 final size:22
Alignment explanation
Indices: 4204--4253 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 22
4194 TATTCATTTT
4204 TTATTAATTATTAATACTAATATA
1 TTATTAATTATTAATA-TAA-ATA
4228 TTATTATATCTATTAATATAAATA
1 TTATTA-AT-TATTAATATAAATA
4252 TT
1 TT
4254 TCACATGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 11 0.46
25 5 0.21
26 8 0.33
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATTAATTATTAATATAAATA
Found at i:4377 original size:19 final size:20
Alignment explanation
Indices: 4337--4409 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 20
4327 TACCTTATAA
4337 AATAATATTTTATTAATTTATT
1 AATAATA-TTTATTAA-TTATT
4359 AATAATATTTATTAA-TATT
1 AATAATATTTATTAATTATT
* ** *
4378 AATTATATTTTATTTGTTACT
1 AATAATA-TTTATTAATTATT
4399 AAT-ATATTTAT
1 AATAATATTTAT
4410 ATTATATAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
19 15 0.33
20 9 0.20
21 14 0.31
22 7 0.16
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (20 bp):
AATAATATTTATTAATTATT
Found at i:4682 original size:18 final size:15
Alignment explanation
Indices: 4660--4697 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
4650 TAGTATGATA
*
4660 ATAATTAATTATTAT
1 ATAATTAATTATTTT
4675 -TAATTAA-TATTTT
1 ATAATTAATTATTTT
4688 ATAATTAATT
1 ATAATTAATT
4698 TATAATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
13 5 0.25
14 14 0.70
15 1 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATAATTAATTATTTT
Found at i:4706 original size:18 final size:18
Alignment explanation
Indices: 4668--4708 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4658 TAATAATTAA
* *
4668 TTATTATTAATTAATATT
1 TTATAATTAATTAATAAT
*
4686 TTATAATTAATTTATAAT
1 TTATAATTAATTAATAAT
4704 TTATA
1 TTATA
4709 TTATAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATAATTAATTAATAAT
Found at i:4765 original size:14 final size:14
Alignment explanation
Indices: 4746--4778 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
4736 TATTATGATT
4746 TATTAATAATATAA
1 TATTAATAATATAA
*
4760 TATTAATAATATTA
1 TATTAATAATATAA
4774 TATTA
1 TATTA
4779 TTTTAAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TATTAATAATATAA
Found at i:6504 original size:17 final size:17
Alignment explanation
Indices: 6463--6504 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
6453 AACAATTATC
6463 AATATT-ATTTAATATT
1 AATATTAATTTAATATT
*
6479 AATACTAATTTAATATT
1 AATATTAATTTAATATT
*
6496 GATATTAAT
1 AATATTAAT
6505 ATGAAGCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
AATATTAATTTAATATT
Found at i:6601 original size:13 final size:13
Alignment explanation
Indices: 6585--6617 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
6575 ATTAACAAGG
6585 ATTATTATATTAA
1 ATTATTATATTAA
*
6598 ATTATTATATTGA
1 ATTATTATATTAA
6611 ATTATTA
1 ATTATTA
6618 AAAGTATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
ATTATTATATTAA
Found at i:6842 original size:17 final size:16
Alignment explanation
Indices: 6822--6853 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
6812 TAAAATATTT
6822 ATAATATTTAAATAATA
1 ATAATATTT-AATAATA
6839 ATAATATTTAATAAT
1 ATAATATTTAATAAT
6854 TATTAGTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATATTTAATAATA
Found at i:8058 original size:7 final size:7
Alignment explanation
Indices: 8040--8085 Score: 55
Period size: 7 Copynumber: 7.1 Consensus size: 7
8030 ATAATATGCA
8040 ATTATA-
1 ATTATAT
8046 ATTATAT
1 ATTATAT
8053 ATTATAT
1 ATTATAT
8060 ATTATAT
1 ATTATAT
8067 A--ATA-
1 ATTATAT
*
8071 ATTATTT
1 ATTATAT
8078 ATTATAT
1 ATTATAT
8085 A
1 A
8086 ATTTAATTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
4 1 0.03
5 3 0.09
6 8 0.24
7 22 0.65
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
ATTATAT
Found at i:8061 original size:25 final size:24
Alignment explanation
Indices: 8010--8085 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 24
8000 AATAATATTT
8010 TATGAATTAT-ATTA-ATTATTATAA
1 TATGAATTATAATTATA-TATTAT-A
8034 TATGCAATTATAATTATATATTATA
1 TATG-AATTATAATTATATATTATA
* * *
8059 TATTATATAATAATTATTTATTATA
1 TATGA-ATTATAATTATATATTATA
8084 TA
1 TA
8086 ATTTAATTGG
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
24 5 0.11
25 29 0.64
26 10 0.22
27 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (24 bp):
TATGAATTATAATTATATATTATA
Found at i:8080 original size:18 final size:18
Alignment explanation
Indices: 8053--8087 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8043 ATAATTATAT
8053 ATTATATATTATATAATA
1 ATTATATATTATATAATA
*
8071 ATTATTTATTATATAAT
1 ATTATATATTATATAAT
8088 TTAATTGGAC
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTATATATTATATAATA
Found at i:8388 original size:13 final size:13
Alignment explanation
Indices: 8370--8394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8360 ATACTCTATT
8370 AATAATTAGATTA
1 AATAATTAGATTA
8383 AATAATTAGATT
1 AATAATTAGATT
8395 TATTTGTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
AATAATTAGATTA
Found at i:8519 original size:13 final size:13
Alignment explanation
Indices: 8501--8525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8491 TATATTAGTT
8501 TTAATATTTAAAA
1 TTAATATTTAAAA
8514 TTAATATTTAAA
1 TTAATATTTAAA
8526 TTTTAAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAATATTTAAAA
Found at i:8520 original size:27 final size:28
Alignment explanation
Indices: 8472--8538 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 28
8462 TTTAAACAAA
*
8472 TTAATATATTAAAACAATATATATT-AGTT
1 TTAATAT-TTAAAACAATATAT-TTAAATT
**
8501 TTAATATTTAAAATTA-ATATTTAAATT
1 TTAATATTTAAAACAATATATTTAAATT
8528 TTAAATATTTA
1 TT-AATATTTA
8539 TATATATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
26 2 0.06
27 9 0.27
28 15 0.45
29 7 0.21
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
TTAATATTTAAAACAATATATTTAAATT
Found at i:8913 original size:41 final size:38
Alignment explanation
Indices: 8855--8930 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 38
8845 CTTAATCATA
* * *
8855 ATATAATTTATCTAATAATTATGGTTTAATTAATAAAAT
1 ATATAATTTATCGAATAATT-GGGTTTAATAAATAAAAT
8894 ATATAATTGTTATCGAATAATTGGGTTTAATAAATAA
1 ATATAA-T-TTATCGAATAATTGGGTTTAATAAATAA
8931 GCATATTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 6 0.19
40 14 0.44
41 12 0.38
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (38 bp):
ATATAATTTATCGAATAATTGGGTTTAATAAATAAAAT
Found at i:9643 original size:180 final size:179
Alignment explanation
Indices: 9342--9754 Score: 457
Period size: 180 Copynumber: 2.3 Consensus size: 179
9332 GATCGATAAT
* * * *
9342 AAACAATTGTTTTACAACAAAATAAAATGTCA-AACAATTTGAAATAAATAATCTTTCAAACGGA
1 AAACAATTGTTTTATAACAAAACAAAA-GTCATAACGATTTGAAATAAATAATCTTTCAAACGAA
** **
9406 CATGGCTATTTGAACTGGTTCGATAAACTAATTAATTTTTAAAATTTTCAACTTATTAATTTTGA
65 CATAACTATTTGAACTACTTCGATAAACTAATTAATTTTTAAAATTTTCAACTTATTAATTTTG-
* * * *
9471 GAATGTTAA-TATATTAGTATTATTTTATTCCAAA-AAAATTGTATGAATAG
129 GAATATTAATTA-ATTAGAATTATTATATTCCAAATAAAATTATATGAATAG
*
9521 AAACAATTGTTTTATAACAAAACAAAAGATCATAACGATTTGAAATAAATAAT-TGTTCAAA-TA
1 AAACAATTGTTTTATAACAAAACAAAAG-TCATAACGATTTGAAATAAATAATCT-TTCAAACGA
* * *
9584 ATCATAACTATTTGAACTCACTT-GATAAA-TAAATTTATTTTTTAAATCTTT-TACTTATTAAT
64 A-CATAACTATTTGAACT-ACTTCGATAAACT-AATTAATTTTTAAAAT-TTTCAACTTATTAAT
** *
9646 TTTGGAATATTAATTAATTAGAATTATTATATTCCAAATAAGCTTATTTGAATAG
125 TTTGGAATATTAATTAATTAGAATTATTATATTCCAAATAAAATTATATGAATAG
* * * *
9701 AAACAATTAG-TTTATGACAAAACAAATGGTCATAATGATTTGAAATAGATAATC
1 AAACAATT-GTTTTATAACAAAACAAA-AGTCATAACGATTTGAAATAAATAATC
9755 ATAACTATTT
Statistics
Matches: 199, Mismatches: 23, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
178 1 0.01
179 59 0.30
180 132 0.66
181 7 0.04
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (179 bp):
AAACAATTGTTTTATAACAAAACAAAAGTCATAACGATTTGAAATAAATAATCTTTCAAACGAAC
ATAACTATTTGAACTACTTCGATAAACTAATTAATTTTTAAAATTTTCAACTTATTAATTTTGGA
ATATTAATTAATTAGAATTATTATATTCCAAATAAAATTATATGAATAG
Found at i:9885 original size:168 final size:168
Alignment explanation
Indices: 9617--9921 Score: 445
Period size: 168 Copynumber: 1.8 Consensus size: 168
9607 GATAAATAAA
* * * *
9617 TTTATTTTTTAAATCTTTTACTTATTAATTTTGGAATATTAATTAATTAGAATTATTATATTCCA
1 TTTATTTTTTAAATATTATACTTATTAATTTTGGAATATTAATAAATTAGAATTATTATATTCAA
** *
9682 AATAAGCTTATTTGAATAGAAACAATTAGTTTATGACAAAAC-AAATGGTCATAATGATTTGAAA
66 AATAAGCTTACATGAACAGAAACAATTAGTTTATGACAAAACAAAAT-GTCATAATGATTTGAAA
9746 TAGATAATCATAACTATTTGAATGTGTTTAGAAAATAGC
130 TAGATAATCATAACTATTTGAATGTGTTTAGAAAATAGC
* *
9785 TTTATTTTTTAAA-ATTATACTTATTAATTTTTGGAATATTAATAAATTTA-TATTATTTTATTC
1 TTTATTTTTTAAATATTATACTTATTAA-TTTTGGAATATTAATAAA-TTAGAATTATTATATTC
* * * *
9848 AAAATACGCTTACATGAACAGAACCAATTATTTTATGACAAAACAAAATGTCATAATGTTTTGAA
64 AAAATAAGCTTACATGAACAGAAACAATTAGTTTATGACAAAACAAAATGTCATAATGATTTGAA
9913 ATAGATAAT
129 ATAGATAAT
9922 TGTTTAGATA
Statistics
Matches: 121, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
167 12 0.10
168 102 0.84
169 7 0.06
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (168 bp):
TTTATTTTTTAAATATTATACTTATTAATTTTGGAATATTAATAAATTAGAATTATTATATTCAA
AATAAGCTTACATGAACAGAAACAATTAGTTTATGACAAAACAAAATGTCATAATGATTTGAAAT
AGATAATCATAACTATTTGAATGTGTTTAGAAAATAGC
Found at i:10550 original size:15 final size:16
Alignment explanation
Indices: 10523--10590 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 16
10513 AATTTATTTC
10523 AATTAGTTATTATAAT
1 AATTAGTTATTATAAT
10539 AATTAG-TATTAT--T
1 AATTAGTTATTATAAT
*
10552 -ATAAGTTATTAACTAAT
1 AATTAGTTATT-A-TAAT
*
10569 AATTA-TTAATA-AAT
1 AATTAGTTATTATAAT
10583 AATT-GTTA
1 AATTAGTTA
10591 ATAGATTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
12 4 0.10
13 5 0.12
14 11 0.26
15 7 0.17
16 7 0.17
17 5 0.12
18 3 0.07
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.47
Consensus pattern (16 bp):
AATTAGTTATTATAAT
Found at i:10657 original size:20 final size:20
Alignment explanation
Indices: 10629--10689 Score: 79
Period size: 19 Copynumber: 3.0 Consensus size: 20
10619 AAATTAATCT
10629 AATTCATTTTAAATTAATAAC
1 AATT-ATTTTAAATTAATAAC
*
10650 AATTATTTTAAA-TATTAAC
1 AATTATTTTAAATTAATAAC
10669 AATTATTATTAAATATAATAA
1 AATTATT-TTAAAT-TAATAA
10690 TTAAATTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 13 0.37
20 13 0.37
21 4 0.11
22 5 0.14
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTATTTTAAATTAATAAC
Found at i:10670 original size:19 final size:19
Alignment explanation
Indices: 10616--10684 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 19
10606 TGATTAATCC
10616 TTAAA-ATTAATCTAATTCATT
1 TTAAATATTAA-C-AATT-ATT
*
10637 TTAAATTAATAACAATTATT
1 TTAAA-TATTAACAATTATT
10657 TTAAATATTAACAATTATT
1 TTAAATATTAACAATTATT
10676 ATTAAATAT
1 -TTAAATAT
10685 AATAATTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
19 13 0.30
20 16 0.37
21 9 0.21
22 1 0.02
23 4 0.09
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAAATATTAACAATTATT
Found at i:10876 original size:21 final size:22
Alignment explanation
Indices: 10852--10912 Score: 52
Period size: 24 Copynumber: 2.6 Consensus size: 22
10842 ATAAAATATT
10852 ATAATATTATATAATTA-TAAC
1 ATAATATTATATAATTATTAAC
* *
10873 ATAAATAATTAATATTATTATTAAT
1 AT-AAT-ATT-ATATAATTATTAAC
*
10898 ATAATTGTTATATAA
1 ATAA-TATTATATAA
10913 ATAAATGACT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
21 2 0.06
22 3 0.10
23 8 0.26
24 12 0.39
25 6 0.19
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
ATAATATTATATAATTATTAAC
Found at i:11017 original size:25 final size:25
Alignment explanation
Indices: 10989--11043 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
10979 ATTTGACATG
*
10989 TATATTAT-ATTATATTTAAATATAA
1 TATATTATAATTATAATTAAA-ATAA
*
11014 TATATTTTAATTATAATTAAAATAA
1 TATATTATAATTATAATTAAAATAA
11039 TATAT
1 TATAT
11044 ATTATTACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 16 0.59
26 11 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TATATTATAATTATAATTAAAATAA
Found at i:11028 original size:16 final size:15
Alignment explanation
Indices: 10992--11030 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
10982 TGACATGTAT
*
10992 ATTATATTATATTTA
1 ATTATAATATATTTA
*
11007 AATATAATATATTTTA
1 ATTATAATATA-TTTA
11023 ATTATAAT
1 ATTATAAT
11031 TAAAATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATAATATATTTA
Found at i:11044 original size:27 final size:25
Alignment explanation
Indices: 10989--11048 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
10979 ATTTGACATG
*
10989 TATATTATATTATATTTAAATATAA
1 TATATTATATTATATTAAAATATAA
*
11014 TATATTTTAATTATAATTAAAATA-ATA
1 TATATTAT-ATTAT-ATTAAAATATA-A
11041 TATATTAT
1 TATATTAT
11049 TACTATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 7 0.24
26 6 0.21
27 16 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TATATTATATTATATTAAAATATAA
Found at i:11055 original size:27 final size:28
Alignment explanation
Indices: 10989--11058 Score: 85
Period size: 26 Copynumber: 2.6 Consensus size: 28
10979 ATTTGACATG
*
10989 TATATTA-TATTATATTTAAATATAATA
1 TATATTATTATTATAATTAAATATAATA
*
11016 TAT-TT-TAATTATAATTAAA-ATAATA
1 TATATTATTATTATAATTAAATATAATA
*
11041 TATATTATTACTATAATT
1 TATATTATTATTATAATT
11059 GTTTTAATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 9 0.25
26 15 0.42
27 12 0.33
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (28 bp):
TATATTATTATTATAATTAAATATAATA
Found at i:11178 original size:6 final size:6
Alignment explanation
Indices: 11162--11205 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
11152 TATTAGTTTT
* *
11162 ATTATTA ATTATA ATTATA ATTATA ATTATA TTTATA TTTATA A
1 ATTA-TA ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA A
11206 ACTATTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 31 0.89
7 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (6 bp):
ATTATA
Found at i:12375 original size:181 final size:179
Alignment explanation
Indices: 11534--12611 Score: 853
Period size: 181 Copynumber: 6.1 Consensus size: 179
11524 ATTTAACATG
* * * **
11534 ACTATTTGAACTTGTTCGATAAGCATATTTATTTTTTAAATCTCTTAATTATTAATTTTCAAAAT
1 ACTATTTGAACTAGTTCGATAAACAGATTTATTTTTTAAATCTCTT--TTATTAATTTTTGAAAT
* * * ** *
11599 ATTAATAACTTAATATTATTTTATTTCAAATAAGCTTATATGAATTGAAATAATTTTTTTATGAC
64 ATTAATAAATTTATATTATTTTATTTCAAATAAGCTTGTATGAACAGAAATAATTATTTTATGAC
* * ** * *
11664 AGAAGAAAAGGTCATAATGATTTGAAATAGATAACTATTCAAATAGTCATG
129 AAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
* * * * * * ** *
11715 ATTGTTTGATCTAGTTC-AGTGAACATATTTATTTTTT--A-----TTTATTAATTGTCAAAACA
1 ACTATTTGAACTAGTTCGA-TAAACAGATTTATTTTTTAAATCTCTTTTATTAATTTTTGAAATA
* * * * * * * * *
11772 TTAATAAATTTATATTATTTTAATCCGAATAAGCTTGAATAAATAGAAACT-ATTATCTTATAAT
65 TTAATAAATTTATATTATTTTATTTCAAATAAGCTTGTATGAACAGAAA-TAATTATTTTATGAC
* * ** ** * * *
11836 AGAATAAAAAATCATAATGATTTGAAATAAATAATTGCTT-AAATAGTC-TT
129 AAAACAAAAGGTCATAACAATTTGAAATAGATAATT-ATTCAAATAGTCATA
* * * *
11886 A--ATTTGAACCAATTTGATAAACAGATTTATTTTTTAAA-AT-TTTTATTAATTTTTGAAATAT
1 ACTATTTGAACTAGTTCGATAAACAGATTTATTTTTTAAATCTCTTTTATTAATTTTTGAAATAT
* * * *
11947 TAATAAA-TTAGTATTATTTTATTTCGAACAAACTTATATGAACA-AAA-ACATTAGTTTTATGA
66 TAATAAATTTA-TATTATTTTATTTCAAATAAGCTTGTATGAACAGAAATA-ATTA-TTTTATGA
*
12009 CAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATAGTCATA
128 CAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
* * * * * * * *
12061 ATTATTTGAACTGGTTAGGTAAACAGAATTATTTCTT-AAT-TCTCTTATTAATTTTTGAAATTT
1 ACTATTTGAACTAGTTCGATAAACAGATTTATTTTTTAAATCTCTTTTATTAATTTTTGAAATAT
* * ** *
12124 TAATAAATTTATTTTATTTTA-TTCTAAATAAGCTAGTATGAATTGAAA-ATATTGTTTTATGAC
66 TAATAAATTTATATTATTTTATTTC-AAATAAGCTTGTATGAACAGAAATA-ATTATTTTATGAC
* ** * **
12187 AAAACAAAAGGTTATAATGATTTGAAATAGATAATTATTCATATAGTTTTA
129 AAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
*
12238 ACTATTTGAACTAGTTCGACAAACA-ATTTTATTTTTTAAATCTCTTAATTATTAATTTTT-AGA
1 ACTATTTGAACTAGTTCGATAAACAGA-TTTATTTTTTAAATCTCTT--TTATTAATTTTTGA-A
* * *
12301 ATATTATTAGA-TTACTTTTATTTTATTTCAAATAAGCTTGTATGAACAGAAATAATTATTTTAT
62 ATATTAATAAATTTA-TATTATTTTATTTCAAATAAGCTTGTATGAACAGAAATAATTATTTTAT
* * * * * * *
12365 GATAAAACAAAAGGTTATAACAATTT-AAAGTATACAACTACTCTAATAGTCATA
126 GACAAAACAAAAGGTCATAACAATTTGAAA-TAGATAATTATTCAAATAGTCATA
* * * *
12419 ACTATTTGAATTGGTTTTG-TAAACAGATTTATTTCTTAAATCTCTTACTTATTAATTTTTGAAA
1 ACTATTTGAACTAG-TTCGATAAACAGATTTATTTTTTAAATCTCTT--TTATTAATTTTTGAAA
* * * * * * * **
12483 GATTAATAAATTAATATTATTTTATTCCGAATAAGCTTGTATGATCCA-AAACAATTGTCATATG
63 TATTAATAAATTTATATTATTTTATTTCAAATAAGCTTGTATGA-ACAGAAATAATTATTTTATG
* * * * * *
12547 ACCAAACAAAAGGTAAGAACAATTTGAAATAGATAATTATTGAAATGGCCATA
127 ACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
*
12600 ATTATTTGAACT
1 ACTATTTGAACT
12612 GATTTGGTAA
Statistics
Matches: 716, Mismatches: 143, Indels: 76
0.77 0.15 0.08
Matches are distributed among these distances:
169 25 0.03
170 1 0.00
171 3 0.00
172 104 0.15
173 15 0.02
174 92 0.13
175 2 0.00
176 7 0.01
177 155 0.22
178 13 0.02
179 4 0.01
180 8 0.01
181 271 0.38
182 16 0.02
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (179 bp):
ACTATTTGAACTAGTTCGATAAACAGATTTATTTTTTAAATCTCTTTTATTAATTTTTGAAATAT
TAATAAATTTATATTATTTTATTTCAAATAAGCTTGTATGAACAGAAATAATTATTTTATGACAA
AACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
Found at i:12867 original size:229 final size:228
Alignment explanation
Indices: 12421--12881 Score: 523
Period size: 229 Copynumber: 2.0 Consensus size: 228
12411 TAGTCATAAC
* * * *
12421 TATTTGAATTGGTTTTGTAAACAGATTTATTTCTTAAATCTCTTACTTATTAATTTTTGAAAGAT
1 TATTTGAATTGGTTTCGTAAACAAATTTATTTCTTAAATCTCTTACATATTAATTTTTCAAAGAT
* *
12486 TAATAAATTAATATTATTTTATTCCGAATAAGCTTGTATGATCCAAAACAATTGTCATATGACCA
66 TAATAAATTAATATTAATTTATTCCGAATAAGCTTGTATGAACCAAAACAATTGTCATATGACCA
* * * ** **
12551 AACAAAAGGTAAGAACAATTTGAAATAGATAATTATTGAAATGGCCATAATTATTTGAACTGATT
131 AACAAAAGATAAGAACAATATGAAATAGATAATTATTCAAATAACCATAACCATTTGAACTGATT
* **
12616 TGGTAAACTTATTCACTTTTTAAATCACTTACT
196 TAGTAAACAAATTCACTTTTTAAATCACTTACT
* * *
12649 TATTTGAATTTG-TTCGATAAACAAATTTATTTTTTAAAATCTCTTTCATATTAATTTTTCAAAT
1 TATTTGAATTGGTTTCG-TAAACAAATTTATTTCTT-AAATCTCTTACATATTAATTTTTCAAA-
* ** * * **
12713 G-TTAATAAATTAGTATTAATTTATTTTGAATAAGCTTGTATGAACTAAAATAATTGTTTTATGA
63 GATTAATAAATTAATATTAATTTATTCCGAATAAGCTTGTATGAACCAAAACAATTGTCATATGA
* ** * * *** *
12777 CTAAACAAAAGATCAA-AATGATATGTAATAGATAATTATTCTAATAATTTTAACCATTTGATCT
128 CCAAACAAAAGAT-AAGAACAATATGAAATAGATAATTATTCAAATAACCATAACCATTTGAACT
* * *
12841 GATTTAGTAAACAAATTTATTTTTTAAATCTCTTACT
192 GATTTAGTAAACAAATTCACTTTTTAAATCACTTACT
12878 TATT
1 TATT
12882 AATTTTCAAA
Statistics
Matches: 191, Mismatches: 38, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
227 3 0.02
228 27 0.14
229 158 0.83
230 3 0.02
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (228 bp):
TATTTGAATTGGTTTCGTAAACAAATTTATTTCTTAAATCTCTTACATATTAATTTTTCAAAGAT
TAATAAATTAATATTAATTTATTCCGAATAAGCTTGTATGAACCAAAACAATTGTCATATGACCA
AACAAAAGATAAGAACAATATGAAATAGATAATTATTCAAATAACCATAACCATTTGAACTGATT
TAGTAAACAAATTCACTTTTTAAATCACTTACT
Found at i:13218 original size:180 final size:180
Alignment explanation
Indices: 12855--13287 Score: 406
Period size: 180 Copynumber: 2.4 Consensus size: 180
12845 TAGTAAACAA
*
12855 ATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAGTATTATTTTAATC
1 ATTTATTTTTTAAATCTCTTACTTATTAAGTTTCAAAATATTATTAAATTAGTATTATTTTAATC
** *
12920 CAAATAAGCTTGTACAAACAAAACAATTGTTTTACATTAAAAGAAAAGGTCATAACAATTTGAAA
66 CAAATAAAATAGTACAAACAAAACAATTGTTTTACATTAAAAGAAAAGGTCATAACAATTTGAAA
* * ** * * *
12985 TAGATAATCATCCATAGAGTCTTAACTATATGAACTGGTTCGACAATTAG
131 TAAATAATCATCCAAAGAGTCAAAACTATATGAAATGATTCGACAAGTAG
* * ** *
13035 ATTTATTTTTTAATTTTCTTGGTTATTAAGTTTC-AAATATTATTAAATTAGTATTATTTTATTC
1 ATTTATTTTTTAAATCTCTTACTTATTAAGTTTCAAAATATTATTAAATTAGTATTATTTTAATC
* ** * * * * * * *
13099 TAAATAAAATAGTATGAATAGAACCGATTGTTTT-GATGATAAAA-TAAAGGTTATAACGATTTG
66 CAAATAAAATAGTACAAACA-AAACAATTGTTTTACAT--TAAAAGAAAAGGTCATAACAATTTG
* ** * * **
13162 AAATAAATAATTATTGAAAGAGTCAAAACTATTTGAAATGATTTGGTAAGTAG
128 AAATAAATAATCATCCAAAGAGTCAAAACTATATGAAATGATTCGACAAGTAG
** * * * * ** * *
13215 ATTT-TCTTTTTAAATCTCTTACAGATTTATTTTCTAAATATTAATAAAACAATATTATTTTATT
1 ATTTAT-TTTTTAAATCTCTTACTTATTAAGTTTCAAAATATTATTAAATTAGTATTATTTTAAT
*
13279 TCAAATAAA
65 CCAAATAAA
13288 CTTATATTAA
Statistics
Matches: 201, Mismatches: 47, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
179 45 0.22
180 119 0.59
181 37 0.18
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (180 bp):
ATTTATTTTTTAAATCTCTTACTTATTAAGTTTCAAAATATTATTAAATTAGTATTATTTTAATC
CAAATAAAATAGTACAAACAAAACAATTGTTTTACATTAAAAGAAAAGGTCATAACAATTTGAAA
TAAATAATCATCCAAAGAGTCAAAACTATATGAAATGATTCGACAAGTAG
Found at i:13561 original size:18 final size:16
Alignment explanation
Indices: 13538--13637 Score: 75
Period size: 18 Copynumber: 6.3 Consensus size: 16
13528 GTTATTAATG
13538 ATATTTATATTCATTTAT
1 ATATTTATATT-A-TTAT
13556 ATATTTATATTATTAT
1 ATATTTATATTATTAT
* *
13572 AT-TTTAAAAT-TTAT
1 ATATTTATATTATTAT
*
13586 A-ATTTAT-TTATTTT
1 ATATTTATATTATTAT
*
13600 AATATTATATCTTATTAT
1 -ATATT-TATATTATTAT
* *
13618 -TATATCTATTATTAT
1 ATATTTATATTATTAT
13633 ATATT
1 ATATT
13638 AGTATTCATA
Statistics
Matches: 65, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
13 1 0.02
14 12 0.18
15 16 0.25
16 15 0.23
17 4 0.06
18 17 0.26
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATTTATATTATTAT
Found at i:13563 original size:8 final size:8
Alignment explanation
Indices: 13515--13598 Score: 52
Period size: 8 Copynumber: 10.5 Consensus size: 8
13505 ATTATTATTA
13515 ATTTATATT
1 ATTTATA-T
*
13524 ATTTGT-T
1 ATTTATAT
*
13531 ATTAATGAT
1 ATTTAT-AT
13540 ATTTATATT
1 ATTTATA-T
13549 CATTTATAT
1 -ATTTATAT
13558 ATTTATAT
1 ATTTATAT
13566 -TATTATAT
1 AT-TTATAT
*
13574 -TTTA-AA
1 ATTTATAT
13580 ATTTATA-
1 ATTTATAT
*
13587 ATTTATTT
1 ATTTATAT
13595 ATTT
1 ATTT
13599 TAATATTATA
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
6 1 0.02
7 19 0.31
8 21 0.34
9 13 0.21
10 7 0.11
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (8 bp):
ATTTATAT
Found at i:13583 original size:22 final size:22
Alignment explanation
Indices: 13558--13617 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
13548 TCATTTATAT
13558 ATTTATATTATTATATTTTAAA
1 ATTTATATTATTATATTTTAAA
*
13580 ATTTATAATTTATT-TATTTTAAT
1 ATTTAT-A-TTATTATATTTTAAA
*
13603 ATTATATCTTATTAT
1 ATT-TATATTATTAT
13618 TATATCTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 11 0.34
23 13 0.41
24 8 0.25
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTATATTATTATATTTTAAA
Found at i:13629 original size:12 final size:13
Alignment explanation
Indices: 13589--13648 Score: 61
Period size: 13 Copynumber: 4.7 Consensus size: 13
13579 AATTTATAAT
*
13589 TTATT-TATTTTA
1 TTATTATATCTTA
*
13601 ATATTATATCTTA
1 TTATTATATCTTA
13614 TTATTATATC-TA
1 TTATTATATCTTA
*
13626 TTATTATATATTA
1 TTATTATATCTTA
*
13639 GTATTCATAT
1 TTATT-ATAT
13649 ATTTAGTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
12 15 0.38
13 21 0.52
14 4 0.10
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (13 bp):
TTATTATATCTTA
Found at i:13656 original size:15 final size:15
Alignment explanation
Indices: 13627--13666 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
13617 TTATATCTAT
13627 TATT-ATATA-TTAG
1 TATTCATATATTTAG
13640 TATTCATATATTTAG
1 TATTCATATATTTAG
13655 TATTCATATATT
1 TATTCATATATT
13667 AAACAATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 4 0.16
14 5 0.20
15 16 0.64
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (15 bp):
TATTCATATATTTAG
Found at i:14150 original size:11 final size:10
Alignment explanation
Indices: 14116--14165 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 10
14106 TTTATTAATA
14116 ATAATTA-AT
1 ATAATTATAT
*
14125 ATTAATTGTATT
1 A-TAATTATA-T
14137 ATAATTATTAT
1 ATAATTA-TAT
14148 ATAATTA-AT
1 ATAATTATAT
14157 ATAATTATA
1 ATAATTATA
14166 ATAGTATAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
9 10 0.29
10 6 0.18
11 14 0.41
12 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (10 bp):
ATAATTATAT
Found at i:14870 original size:22 final size:22
Alignment explanation
Indices: 14834--14877 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14824 TTTATTAAAA
**
14834 TATAAATATTTATAAACTATAT
1 TATAAATATAGATAAACTATAT
*
14856 TATAAATATAGATAATCTATAT
1 TATAAATATAGATAAACTATAT
14878 ACAATTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (22 bp):
TATAAATATAGATAAACTATAT
Found at i:15604 original size:181 final size:180
Alignment explanation
Indices: 14939--16053 Score: 803
Period size: 181 Copynumber: 6.2 Consensus size: 180
14929 ATTTAACATG
* * * **
14939 ACTATTTGAACTT-GTTTGGTAAACAAATTCATTTTTTAAATCTCTTAATTATTAATTTTAAAAA
1 ACTATTTGAA-TTAGTTTGGTAAACAGATTTATTTTTT-AATCTCTTACTTATTAATTTTTGAAA
* * * *
15003 TATTAATAACTTAATATTATTTTATT-TCGAATAAGCTTA-TATGAATTG-AAATAATT-TTTTG
64 TATTAATAAATTTATATTATTTTATTCT-AAATAAGC-TAGTATGAATAGAAAAT-ATTGTTTT-
* * * * * *
15064 ATGATAGAAGAAAAGGTTATAACGATTTGAAATAGATAACTATTCAAATAGTCATG
125 ATGACAAAACAAAAGGTTATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
* ** * * * * **
15120 ACTGTTTG-ATCTAGTTCAGTAAACATATTTAATTTTTTACATTTTTTACTTATTAATTGTCAAA
1 ACTATTTGAAT-TAGTTTGGTAAACAGATTT-ATTTTTTA-ATCTCTTACTTATTAATTTTTGAA
* * * * * * * * * *
15184 ATATTAATAAATTTGTATTATTTTAATCCAAATAAGCTTGAATAAATAGAAACTATTATCTTATA
63 ATATTAATAAATTTATATTATTTTATTCTAAATAAGCTAGTATGAATAGAAAATATTGTTTTATG
* * * ** * * *
15249 ACATAACAAAAAGTCATAATGATTTGAAATAAATAATTGCTT-AAATAGTC-TT
128 ACAAAACAAAAGGTTATAACAATTTGAAATAGATAATT-ATTCAAATAGTCATA
* ** * * **
15301 A--ATTTGTACCAGTTTGATAAATAGATTTATTTTTTAAAAT-TT--TTATTAATTTTTGAAATA
1 ACTATTTGAATTAGTTTGGTAAACAGATTTATTTTTTAATCTCTTACTTATTAATTTTTGAAATA
* * * * * *
15361 TTAATAGATTAATTTTATTTTATTTCGAACA-AA-CTTA-TATGAACA-AAAACATTAGTTTTAT
66 TTAATAAATTTATATTATTTTA-TTCTAA-ATAAGC-TAGTATGAATAGAAAATATT-GTTTTAT
* *
15422 GACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATAGTCATA
127 GACAAAACAAAAGGTTATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
* * * *
15476 ATTATTTGAATTGGTTAGGTAAACAGAATTATTTTTTAATTCTCTTACTTATTAATTTTTGAAAT
1 ACTATTTGAATTAGTTTGGTAAACAGATTTATTTTTTAA-TCTCTTACTTATTAATTTTTGAAAT
* * *
15541 TTTAATAAATTTATTTTATTTTATTCTAAATAAGCTAGTATGAATTGAAAATATTGTTTTATGAC
65 ATTAATAAATTTATATTATTTTATTCTAAATAAGCTAGTATGAATAGAAAATATTGTTTTATGAC
** * * **
15606 AAAACAAAAGGTTATAATGATTTGAAATAGATAATCATTCATATAGTTTTA
130 AAAACAAAAGGTTATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
* * *
15657 ACTATTTGAACTAGTTTGGCAAACA-ATTTTATTTTTTAAATCTCTTAGTTATTAATTTTT-AGA
1 ACTATTTGAATTAGTTTGGTAAACAGA-TTTATTTTTT-AATCTCTTACTTATTAATTTTTGA-A
* * * * *
15720 ATATTATTAGA-TTAGTTTTATTTTATT-TCAAATAAGCTTGTATGAATAG-AAATAATTATTTT
63 ATATTAATAAATTTA-TATTATTTTATTCT-AAATAAGCTAGTATGAATAGAAAAT-ATTGTTTT
* * * ** *
15782 ATGACAAAACAAAAGGTTATAACAATTTGAAGTATACAGCTGTT-ATAATAGTCATA
125 ATGACAAAACAAAAGGTTATAACAATTTGAAATAGATAATTATTCA-AATAGTCATA
* * * * * *
15838 ACTATTTGAATTGGTTTTGTAAATAGATTTATTTTTTAA-ATC-T-CTTATTAATTTTGGAAAGA
1 ACTATTTGAATTAGTTTGGTAAACAGATTTATTTTTTAATCTCTTACTTATTAATTTTTGAAATA
* * * * * * * **
15900 TTAATAAA-TTAGTATTATTTTATTTTGAGTAAGCTTGTATG-ATAAAAAACAATAGTCATATGA
66 TTAATAAATTTA-TATTATTTTATTCTAAATAAGCTAGTATGAATAGAAAA-TATTGTTTTATGA
* * * * * * *
15963 CCAAACAAATGGTAAGAACAATTTGAAATAGATAATTATTGAAATGGCCATA
129 CAAAACAAAAGGTTATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
* * * * *
16015 ATTATTTGAACT-GATTTGGTAAACATATTCAGTTTTTAA
1 ACTATTTGAATTAG-TTTGGTAAACAGATTTATTTTTTAA
16054 ATCACTTATT
Statistics
Matches: 737, Mismatches: 157, Indels: 84
0.75 0.16 0.09
Matches are distributed among these distances:
173 8 0.01
174 85 0.12
175 9 0.01
176 7 0.01
177 157 0.21
178 13 0.02
179 23 0.03
180 25 0.03
181 287 0.39
182 115 0.16
183 8 0.01
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.42
Consensus pattern (180 bp):
ACTATTTGAATTAGTTTGGTAAACAGATTTATTTTTTAATCTCTTACTTATTAATTTTTGAAATA
TTAATAAATTTATATTATTTTATTCTAAATAAGCTAGTATGAATAGAAAATATTGTTTTATGACA
AAACAAAAGGTTATAACAATTTGAAATAGATAATTATTCAAATAGTCATA
Found at i:16038 original size:539 final size:536
Alignment explanation
Indices: 14941--16061 Score: 1267
Period size: 539 Copynumber: 2.1 Consensus size: 536
14931 TTAACATGAC
14941 TATTTGAACTTGTTTGGTAAACAAATTCATTTTTTAAATCTCTTAATTATTAATTTTAAAAATAT
1 TATTTGAAC-TGTTTGGTAAACAAATTCATTTTTTAAATCTCTTAATTATTAATTTTAAAAATAT
* * * *
15006 TAATAACTTAATATTATTTTATTTCGAATAAGCTTATATGAATTGAAATAATTTTTTGATGATAG
65 TAATAAATTAATATTATTTTATTTCAAATAAGCTTATATGAATTGAAATAATTTTTTGATGACAA
* * * *
15071 AAGAAAAGGTTATAACGATTTGAAATAGATAACTATTCAAATAGTCATGACTGTTTGATCTAGTT
130 AACAAAAGGTTATAACGATTTGAAATAGATAACTATTCAAATAGTCATAACTATTTGAACTAGTT
* * * * *
15136 CAGTAAACATATTTAATTTTTTACATTTTTTACTTATTAATTGTCAAAATATTAATAAATTTGTA
195 CAGCAAACATATTTAATTTTTTAAATCTCTTACTTATTAATTGTCAAAATATTAATAAATTAGTA
*
15201 TTATTTTAATCCAAATAAGCTTGAATAAATAGAAACTATTATCTTATAACATAACAAAAAGTCAT
260 TTATTTTAATCCAAATAAGCTTGAATAAATAGAAACTATTATCTTATAACAAAACAAAAAGTCAT
** * * * *
15266 AATGATTTGAAATAAATAATTGCTTAAATAGTCTTAATTTGTACCAGTTTGATAAATAGATTTAT
325 AACAATTTGAAATAAACAACTGCTTAAATAGTCTAAATTTGAACCAGTTTGATAAATAGATTTAT
* * * * *
15331 TTTTTAAAATTTTTATTAATTTTTGAAATATTAATAGATTAATTTTATTTTATTTCGAACAAACT
390 TTTTTAAAATTCTTATTAATTTTGGAAAGATTAATAAATTAATATTATTTTATTTCGAACAAACT
* ** * *
15396 TATATGAACAAAAACATTAGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATT
455 TATATGAACAAAAACAATAGTCATATGACAAAACAAAAGGTAAGAACAATTTGAAATAGATAATT
* *
15461 GTTCAAATAGTCATAAT
520 ATTCAAATAGCCATAAT
* * * * ** *
15478 TATTTGAATTGGTTAGGTAAACAGAATT-ATTTTTTAATTCTCTTACTTATTAATTTTTGAAATT
1 TATTTGAACT-GTTTGGTAAACA-AATTCATTTTTTAAATCTCTTAATTATTAATTTTAAAAATA
* *
15542 TTAATAAATTTATTTTATTTTA-TTCTAAATAAGC-TAGTATGAATTGAAA-ATATTGTTTT-AT
64 TTAATAAATTAATATTATTTTATTTC-AAATAAGCTTA-TATGAATTGAAATA-ATT-TTTTGAT
* * **
15603 GACAAAACAAAAGGTTATAATGATTTGAAATAGATAA-TCATTCATATAGTTTTAACTATTTGAA
125 GACAAAACAAAAGGTTATAACGATTTGAAATAGATAACT-ATTCAAATAGTCATAACTATTTGAA
** * * * * * * *
15667 CTAGTTTGGCAAACA-ATTTTATTTTTTAAATCTCTTAGTTATTAATTTTTAGAATATTATTAGA
189 CTAGTTCAGCAAACATATTTAATTTTTTAAATCTCTTACTTATTAATTGTCAAAATATTAATAAA
* * * * * * *
15731 TTAGTTTTATTTTATTTCAAATAAGCTTGTATGAATAGAAA-TAATTATTTTATGACAAAACAAA
254 TTAGTATTATTTTAATCCAAATAAGCTTGAATAAATAGAAACT-ATTATCTTATAACAAAACAAA
* * * * * ***
15795 AGGTTATAACAATTTGAAGTATACAGCTG-TTATAATAGTCATAACTATTTGAATTGGTTTTG-T
318 AAGTCATAACAATTTGAAATAAACAACTGCTTA-AATAGTC-TAA--ATTTGAACCAG-TTTGAT
*
15858 AAATAGATTTATTTTTT-AAATCTCTTATTAATTTTGGAAAGATTAATAAATTAGTATTATTTTA
378 AAATAGATTTATTTTTTAAAAT-TCTTATTAATTTTGGAAAGATTAATAAATTAATATTATTTTA
* ** * * * *
15922 TTTTGAGTAAGCTTGTATGATA-AAAAACAATAGTCATATGACCAAACAAATGGTAAGAACAATT
442 TTTCGAACAAACTTATATGA-ACAAAAACAATAGTCATATGACAAAACAAAAGGTAAGAACAATT
* *
15986 TGAAATAGATAATTATTGAAATGGCCATAAT
506 TGAAATAGATAATTATTCAAATAGCCATAAT
* * *
16017 TATTTGAACTGATTTGGTAAACATATTCAGTTTTTAAATCACTTA
1 TATTTGAACTG-TTTGGTAAACAAATTCATTTTTTAAATCTCTTA
16062 TTTGAATTTG
Statistics
Matches: 482, Mismatches: 85, Indels: 32
0.80 0.14 0.05
Matches are distributed among these distances:
535 4 0.01
536 127 0.26
537 159 0.33
538 16 0.03
539 171 0.35
540 5 0.01
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.42
Consensus pattern (536 bp):
TATTTGAACTGTTTGGTAAACAAATTCATTTTTTAAATCTCTTAATTATTAATTTTAAAAATATT
AATAAATTAATATTATTTTATTTCAAATAAGCTTATATGAATTGAAATAATTTTTTGATGACAAA
ACAAAAGGTTATAACGATTTGAAATAGATAACTATTCAAATAGTCATAACTATTTGAACTAGTTC
AGCAAACATATTTAATTTTTTAAATCTCTTACTTATTAATTGTCAAAATATTAATAAATTAGTAT
TATTTTAATCCAAATAAGCTTGAATAAATAGAAACTATTATCTTATAACAAAACAAAAAGTCATA
ACAATTTGAAATAAACAACTGCTTAAATAGTCTAAATTTGAACCAGTTTGATAAATAGATTTATT
TTTTAAAATTCTTATTAATTTTGGAAAGATTAATAAATTAATATTATTTTATTTCGAACAAACTT
ATATGAACAAAAACAATAGTCATATGACAAAACAAAAGGTAAGAACAATTTGAAATAGATAATTA
TTCAAATAGCCATAAT
Found at i:16278 original size:225 final size:220
Alignment explanation
Indices: 15840--16286 Score: 477
Period size: 225 Copynumber: 2.0 Consensus size: 220
15830 TAGTCATAAC
** * **
15840 TATTTGAATTGGTTTTGTAAATAGATTTATTTTTTAAATCTCTTATTAATTTTGGAAAGATTAAT
1 TATTTGAATTGGTTCGGTAAACAGATTTATTTTTTAAATCTCTTATTAATTTTCCAAAGATTAAT
* * *
15905 AAATTAGTATTATTTTATTTTGAGTAAGCTTGTATGATAAAAAACAATAGTCATATGACCAAACA
66 AAATTAGTATTAATTTATTCTGAATAAGCTTGTATGATAAAAAACAATAGTCATATGACCAAACA
* * * ** * **
15970 AATGGTAAGAACAATTTGAAATAGATAATTATTGAAATGGCCATAATTATTTGAACTGATTTGGT
131 AAAGGTAAGAACAATATGAAATAGATAATTATTCAAATAACCATAACTATTTGAACTGATTCAGT
*
16035 AAACATATTCAGTTTTTAAATCACT
196 AAACAAATTCAGTTTTTAAATCACT
*
16060 TATTTGAATTTGTTCGGTAAACAGATTTATTTTTCTAAATCTCTTTCATATTAATTTTCCAAATG
1 TATTTGAATTGGTTCGGTAAACAGATTTATTTTT-TAAATCTC--T--TATTAATTTTCCAAA-G
* ** * * **
16125 -TTAATAAATTAGTATTAATTTATTCTGAATAAGCTTGTGTGA-ACTGAAATAATTGTTTTATGA
60 ATTAATAAATTAGTATTAATTTATTCTGAATAAGCTTGTATGATA-AAAAACAATAGTCATATGA
* * ** * ***
16188 CTAAACAAAAGATTAA-AATGATATGAAATAGATAATTATTCTAATAATTTTAACTATTTGAACT
124 CCAAACAAAAG-GTAAGAACAATATGAAATAGATAATTATTCAAATAACCATAACTATTTGAACT
* * *
16252 GATTCAGTAAACAAATTTATTTTTTAAATCTCT
188 GATTCAGTAAACAAATTCAGTTTTTAAATCACT
16285 TA
1 TA
16287 CTTATTAATT
Statistics
Matches: 183, Mismatches: 36, Indels: 11
0.80 0.16 0.05
Matches are distributed among these distances:
220 30 0.16
221 8 0.04
223 1 0.01
224 1 0.01
225 139 0.76
226 4 0.02
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.42
Consensus pattern (220 bp):
TATTTGAATTGGTTCGGTAAACAGATTTATTTTTTAAATCTCTTATTAATTTTCCAAAGATTAAT
AAATTAGTATTAATTTATTCTGAATAAGCTTGTATGATAAAAAACAATAGTCATATGACCAAACA
AAAGGTAAGAACAATATGAAATAGATAATTATTCAAATAACCATAACTATTTGAACTGATTCAGT
AAACAAATTCAGTTTTTAAATCACT
Found at i:16639 original size:181 final size:181
Alignment explanation
Indices: 16060--16775 Score: 624
Period size: 181 Copynumber: 4.0 Consensus size: 181
16050 TTAAATCACT
* * * * * *
16060 TATTTGAATTTGTTCGGTAAACAGATTTATTTTTCTAAATCTCTTTCATATTAA-TTTTCCAAAT
1 TATTTGAACTGGTTCAGTAAACAGATTTATTTTT-TAAATCTCTTACTTATTAAGTTTT-AAAAT
* * * * * * *
16124 GTTAATAAATTAGTATTAATTTATTCTGAATAAGCTTGTGTGAACTGAAATAATTGTTTTATGAC
64 ATTATTAAATTAGTATTATTTTATTCTAAATAAGCTTGTATGAACAGAAACAATTGTTTTATGAC
* * * * * *
16189 T-AAACAAAAGATTAAAATGATATGAAATAGATAATTATTCTAATAATTTTAAC
129 TAAAAAAAAAG-TTATAATGATTTGAAATAGATAATTATTCAAATAATCTAAAC
* * *
16242 TATTTGAACTGATTCAGTAAACAAATTTATTTTTTAAATCTCTTACTTATTAATTTTTAAAATAT
1 TATTTGAACTGGTTCAGTAAACAGATTTATTTTTTAAATCTCTTACTTATTAAGTTTTAAAATAT
* * * * * *
16307 TATTAAATTAGTATTATTTTAATCCAAATAAGCTTGTACGAACA-AAGCAATTGTTTTA-CATTA
66 TATTAAATTAGTATTATTTTATTCTAAATAAGCTTGTATGAACAGAAACAATTGTTTTATGACTA
* * * * *
16370 AAAGAAAAAGTCATAATGATTTGAAATAGATAATCATTCATAGAGTCTTAAA-
131 AAA-AAAAAGTTATAATGATTTGAAATAGATAATTATTCAAATAATC-TAAAC
** ** * * ** *
16422 TATTTGAACTGGTTCAACAATTAGATTTATTTTTTAATTTTCTTGGTTATTAAGTTTTGAAATAT
1 TATTTGAACTGGTTCAGTAAACAGATTTATTTTTTAAATCTCTTACTTATTAAGTTTTAAAATAT
** * * *
16487 TATTAAATTAGTATTATTTTATTCTAAATAAAATAGTATGAACAGAACCAATTGTTTGATGA-TA
66 TATTAAATTAGTATTATTTTATTCTAAATAAGCTTGTATGAACAGAAACAATTGTTTTATGACTA
* * *
16551 AAATAAAAAGTTATAATGATTTGAAATAAATAATTATTGAAATAATCAAAAC
131 AAA-AAAAAGTTATAATGATTTGAAATAGATAATTATTCAAATAATCTAAAC
* ** * ** * *
16603 TATTTGAAATGGTTTGGTAAGCAGATTT-TCTTTTTAAATCTCTTACAGATTTA-TTTTCTAAAT
1 TATTTGAACTGGTTCAGTAAACAGATTTAT-TTTTTAAATCTCTTACTTATTAAGTTTT-AAAAT
* ** * * * * * *
16666 ATTAATAAAACAATATTATTTTATT-TCAAACAAACTTATATCAACAAAAACAATTGTTTTATGA
64 ATTATTAAATTAGTATTATTTTATTCT-AAATAAGCTTGTATGAACAGAAACAATTGTTTTATGA
* * * * *
16730 C-AAAACAAAAAATAATAACGATTTAAAATAGATAATTGTTCAAATA
128 CTAAAA-AAAAAGTTATAATGATTTGAAATAGATAATTATTCAAATA
16776 GTTATAATTA
Statistics
Matches: 426, Mismatches: 97, Indels: 23
0.78 0.18 0.04
Matches are distributed among these distances:
179 2 0.00
180 143 0.34
181 247 0.58
182 34 0.08
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.41
Consensus pattern (181 bp):
TATTTGAACTGGTTCAGTAAACAGATTTATTTTTTAAATCTCTTACTTATTAAGTTTTAAAATAT
TATTAAATTAGTATTATTTTATTCTAAATAAGCTTGTATGAACAGAAACAATTGTTTTATGACTA
AAAAAAAAGTTATAATGATTTGAAATAGATAATTATTCAAATAATCTAAAC
Found at i:17529 original size:31 final size:28
Alignment explanation
Indices: 17456--17512 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
17446 TATTATTATT
*
17456 ATTT-TAATCTATACAGTTAATAATTTA
1 ATTTATAATCTATACAGTAAATAATTTA
17483 ATTTATAATCTATACAGTAAATAATTTA
1 ATTTATAATCTATACAGTAAATAATTTA
17511 AT
1 AT
17513 AAATTATAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 4 0.14
28 24 0.86
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.46
Consensus pattern (28 bp):
ATTTATAATCTATACAGTAAATAATTTA
Found at i:18090 original size:7 final size:7
Alignment explanation
Indices: 18074--18195 Score: 61
Period size: 7 Copynumber: 16.7 Consensus size: 7
18064 TTAATTAGTT
18074 TTAATAA
1 TTAATAA
*
18081 TTAATTA
1 TTAATAA
*
18088 TTAAACATA
1 TT-AATA-A
18097 TTAATAA
1 TTAATAA
* *
18104 TTATTAT
1 TTAATAA
18111 TTAATAA
1 TTAATAA
18118 TTAAT-A
1 TTAATAA
*
18124 TCAATAATA
1 TTAAT-A-A
18133 TTAA-AA
1 TTAATAA
*
18139 TTGATAA
1 TTAATAA
* *
18146 TATAGTTA
1 T-TAATAA
18154 TTAAT-A
1 TTAATAA
18160 TTAATAAA
1 TTAAT-AA
*
18168 TTATTAA
1 TTAATAA
*
18175 TTAATAT
1 TTAATAA
18182 TTCAATATA
1 TT-AATA-A
18191 TTAAT
1 TTAAT
18196 TTTATTCGAA
Statistics
Matches: 85, Mismatches: 19, Indels: 21
0.68 0.15 0.17
Matches are distributed among these distances:
6 15 0.18
7 40 0.47
8 21 0.25
9 9 0.11
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (7 bp):
TTAATAA
Found at i:18098 original size:33 final size:33
Alignment explanation
Indices: 18031--18115 Score: 84
Period size: 33 Copynumber: 2.5 Consensus size: 33
18021 ATTAAATAAG
*
18031 TTAATTATTTTAATTAATGAATAAATTCAAATA
1 TTAATTATTTTAATTAATGAATAAATTAAAATA
* *
18064 TTAATTAGTTTTAA-TAATTAAT-TATTAAACATA
1 TTAATTA-TTTTAATTAATGAATAAATTAAA-ATA
* *
18097 TTAATAATTATTATTTAAT
1 TTAATTATT-TTAATTAAT
18116 AATTAATATC
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
32 7 0.16
33 26 0.60
34 10 0.23
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (33 bp):
TTAATTATTTTAATTAATGAATAAATTAAAATA
Found at i:18122 original size:21 final size:21
Alignment explanation
Indices: 18074--18180 Score: 69
Period size: 21 Copynumber: 5.0 Consensus size: 21
18064 TTAATTAGTT
* *
18074 TTAATAATTAATTATTAAACATA
1 TTAATAATT-ATTATTTAATA-A
18097 TTAATAATTATTATTTAATAA
1 TTAATAATTATTATTTAATAA
* *
18118 TTAAT-ATCAATAATATTAA-AA
1 TTAATAAT-TATTAT-TTAATAA
*
18139 TTGATAATATAGTTA-TTAAT-A
1 TTAATAAT-TA-TTATTTAATAA
*
18160 TTAATAAATTATTAATTAATA
1 TTAAT-AATTATTATTTAATA
18181 TTTCAATATA
Statistics
Matches: 67, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
20 5 0.07
21 32 0.48
22 19 0.28
23 11 0.16
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
TTAATAATTATTATTTAATAA
Found at i:18134 original size:36 final size:36
Alignment explanation
Indices: 18065--18195 Score: 117
Period size: 36 Copynumber: 3.6 Consensus size: 36
18055 ATTCAAATAT
*
18065 TAATTAGT-TTTAATAATTAATTATTAA-ACATATTAA
1 TAATTATTATTTAATAATTAA-TATTAATA-ATATTAA
*
18101 TAATTATTATTTAATAATTAATATCAATAATATTAA
1 TAATTATTATTTAATAATTAATATTAATAATATTAA
* * * * *
18137 -AATTGATAATATAGTTATTAATATTAATAA-ATTAT
1 TAATT-ATTATTTAATAATTAATATTAATAATATTAA
*
18172 TAATTAATATTTCAATATATTAAT
1 TAATTATTATTT-AATA-ATTAAT
18196 TTTATTCGAA
Statistics
Matches: 76, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
35 12 0.16
36 45 0.59
37 19 0.25
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.47
Consensus pattern (36 bp):
TAATTATTATTTAATAATTAATATTAATAATATTAA
Found at i:18181 original size:21 final size:20
Alignment explanation
Indices: 18062--18182 Score: 68
Period size: 21 Copynumber: 5.7 Consensus size: 20
18052 TAAATTCAAA
* *
18062 TATTAATTAGTTTTAATAAT
1 TATTAATTAATATTAATAAT
18082 TAATT-ATTAAACATATTAATAAT
1 T-ATTAATT--A-ATATTAATAAT
*
18105 TATTATTTAATAATTAAT-AT
1 TATTAATTAAT-ATTAATAAT
* * * *
18125 CAATAATATTAAAATTGATAAT
1 -TATTA-ATTAATATTAATAAT
18147 ATAGTT-ATTAATATTAATAAAT
1 -TA-TTAATTAATATTAAT-AAT
18169 TATTAATTAATATT
1 TATTAATTAATATT
18183 TCAATATATT
Statistics
Matches: 76, Mismatches: 13, Indels: 23
0.68 0.12 0.21
Matches are distributed among these distances:
20 10 0.13
21 39 0.51
22 14 0.18
23 13 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (20 bp):
TATTAATTAATATTAATAAT
Found at i:19185 original size:182 final size:181
Alignment explanation
Indices: 18360--19944 Score: 1270
Period size: 182 Copynumber: 8.8 Consensus size: 181
18350 ATTATGTCAA
* * * * * *
18360 AATACTAATTTGTTAATATTTTGACAATTAATAAGTAAAAAATTTTAAAAATAAATATGTTTACC
1 AATACTAATTTATTAATATTCTGAAAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACC
* * * * * *
18425 ACACTAGATCAAATAATTACGA-TAATTTGAATAATTATCTA-TT----TCA--ATGACCTTTTG
66 AAACAAGTTCAAATAGTTATGACT-ATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTG
* * * * * ** **
18482 CTTTGTCATAAAAGAATTGTTTCAATTCATATAAACTTATTCAAAATAAAAT
130 TTTTGTCATAAAACAATTATTTCTATTCATACAAGTTTATTTGAAATAAAAT
* ** * * * * * *
18534 AATACTAATTTATTAATAATCCAAAAATTTATAA-TAAAGAGATTTAAAAAATGACTCTGTTTTC
1 AATACTAATTTATTAATATTCTGAAAATTAATAAGTAAA-AGATTTAAAAAATAAATATATTTAC
* * * * * * * * * * *
18598 TAAACAAATTTAAATAATTAGGACTGTTTAAATAATTATCTATTTGAAAT-AGCTATAACCTTTT
65 CAAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA-TTATGACCTTTT
* * * * * * *
18662 GTTTTGTCATACAAGAATTTTTTTTGTTTGTTCAT-CTAAGCTTATTTCAAATAAAAT
129 GTTTTGTCATAAAACAA---TTATT-TCTATTCATAC-AAGTTTATTTGAAATAAAAT
** * * *
18719 AATAC-ATATTTATTAATATTAAGACAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTAC
1 AATACTA-ATTTATTAATATTCTGAAAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTAC
* * * * * ** *
18783 CAAACAAGTTCAAATCA-TTATGGCAATTTGAGCAATTATTTATTTCAACTTGTTATGACTTTTT
65 CAAACAAGTTCAAAT-AGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTT
* *
18847 GTTTTGTCATAAAACAATTATTTCTATTCATACAAGTTTA-TTCAGATTAAAAT
129 GTTTTGTCATAAAACAATTATTTCTATTCATACAAGTTTATTTGA-AATAAAAT
* * * ** *
18900 AATATTAATTTATAAATATTTTGATGATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACT
1 AATACTAATTTATTAATATTCTGAAAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACC
* * * *
18965 AAACAAGTTCAAATAGTCATGAATATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTCT
66 AAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGT
* * * * * * * *
19030 TTTGTAATAAAAACACTTGTTTCAATTCTTAGAAGTTTATTTGAAGTAAGAT
131 TTTGTCAT-AAAACAATTATTTCTATTCATACAAGTTTATTTGAAATAAAAT
* * * * *
19082 AATACTAATTCATTAATATTCTGAAAATTAATGAGTAAGAGAATTAAAAAA-AGAATATGTTTAC
1 AATACTAATTTATTAATATTCTGAAAATTAATAAGTAAAAGATTTAAAAAATA-AATATATTTAC
* * * * * *
19146 CGAATAAGTTCAAATAGTTATGACTATCTGAACAATTATCTATTTCAAAACATTACGATCTTTTG
65 CAAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTG
* * ** * * * * * *
19211 TTTTGTCATTAAACAGTTGGTTATGCTT-ATGCAAGCTTATTTCAAATAAAGT
130 TTTTGTCATAAAACAATTATTTCT-ATTCATACAAGTTTATTTGAAATAAAAT
* ** * * * *
19263 AAT-TTAAATTTATTAATATTCCAAAAATTAATAAGTAAAA-CTTAAAAAAATACATATATTTTC
1 AATACT-AATTTATTAATATTCTGAAAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTAC
* * * **
19326 TAAACAATTTCAAATAGTTATGACTATTTGAAGAATTATCTATTTCAAATTGTTATGACCTTTTG
65 CAAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTG
* * * *
19391 TTTTGTCATAAACCAACTGTTTCTATTCATAAAAGCTTT-TTTGAAATAAAAT
130 TTTTGTCATAAAACAATTATTTCTATTCATACAAG-TTTATTTGAAATAAAAT
* * * * *
19443 AATACTAATTTTTTAAAATTCTAAAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTTTTTAC
1 AATACTAATTTATTAATATTCT-GAAAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTAC
* * * * * * *
19508 CGAGCAAGTTCAAATAGTTATGACTATTGGAATAATTTTTTATTTCAAATCATTATGATCTTTTG
65 CAAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTG
* *
19573 -TTTGTCAT-AAACAATTATTTCTATTCACACAATTTTATTTGAAATAAAAT
130 TTTTGTCATAAAACAATTATTTCTATTCATACAAGTTTATTTGAAATAAAAT
* * *** * *
19623 AATACTAATTTATTAGTATTCTAAAAATTAATAAGTTTGAGATTTAAAAAATAAATTTGTTTTAC
1 AATACTAATTTATTAATATTCTGAAAATTAATAAGTAAAAGATTTAAAAAATAAATAT-ATTTAC
* * ** * * * *
19688 CAAACAAGTTTAAATAGTCATGTTTATTTGAACTATTATTTATTTCAAATCATAATGACATTTTG
65 CAAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTG
** * * *
19753 TTTTGTTGTAAAACAATTATTTCTGTTCATGTACAA--TTA-TTCAGAATATAAT
130 TTTTGTCATAAAACAATTATTTCTATTCA--TACAAGTTTATTTGA-AATAAAAT
* * * * *
19805 AATACTGATCTATTAATATTTTGATAATTAATAAG----AGATTTAAAAACA-AAATCTATTTAC
1 AATACTAATTTATTAATATTCTGAAAATTAATAAGTAAAAGATTTAAAAA-ATAAATATATTTAC
* * * * * *
19865 CGAAATAA-TTCAAATATTTATGACTATTTGAATAATTATCTATCTCAAATCTTTATGATC-TTT
65 C-AAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTT
*
19928 ATTTTGTCATAAAACAA
129 GTTTTGTCATAAAACAA
19945 GAGTTTTTTT
Statistics
Matches: 1122, Mismatches: 246, Indels: 84
0.77 0.17 0.06
Matches are distributed among these distances:
173 4 0.00
174 77 0.07
175 3 0.00
176 17 0.02
177 45 0.04
178 22 0.02
179 39 0.03
180 234 0.21
181 254 0.23
182 281 0.25
183 3 0.00
184 9 0.01
185 129 0.11
186 5 0.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (181 bp):
AATACTAATTTATTAATATTCTGAAAATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACC
AAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGT
TTTGTCATAAAACAATTATTTCTATTCATACAAGTTTATTTGAAATAAAAT
Found at i:19493 original size:362 final size:361
Alignment explanation
Indices: 18360--20014 Score: 1199
Period size: 362 Copynumber: 4.6 Consensus size: 361
18350 ATTATGTCAA
* ** * * *
18360 AATACTAATTTGTTAATATT-TTGACAATTAATAAGTAAAAAATTTTAAAAATAAATATGTTTAC
1 AATACTAATTTATTAATATTCTAAAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTAC
* * * * * * *
18424 C-ACACTAGATCAAATAATTACGA-TAATTTGAATAATTATCTA-TT----TCA--ATGACCTTT
66 CGA-ACAAGTTCAAATAGTTATGACT-A-TTGAACAATTATTTATTTCAAATCATTATGATCTTT
* * * * * * *
18480 TGCTTTGTCATAAAAGAATT-GTT-TCAATTCATATAAACTTATTCAAAATAAAATAATACTAAT
128 TGTTTTGTCATTAAACAATTAGTTAT--ATTCATACAAGCTTATTCAGAATAAAATAATATTAAT
* * * *
18543 TTATTAATAATCCAAAAATTTATAA-TAAAGAGATTTAAAAAATGAC-TCTGTTTTCTAAACAAA
191 TTATTAATATTCCAAAAATTAATAAGTAAA-AGATTTAAAAAAT-ACATATATTTTCTAAAC-AA
* * * * * * *
18606 TTT-AAATAATTAGGACTGTTTAAATAATTATCTATTTGAAATAGCTATAACCTTTTGTTTTGTC
253 TTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTC
** * * * ** * *
18670 ATACAAGAATTTTTTTTGTTTGTTCATCTAAGCTTATTTCAAATAAAAT
318 ATA-AA-AA--ACTGTT-TCTATTCATAAAAGCTTTTTTGAAATAAAAT
* *
18719 AATAC-ATATTTATTAATA-T-TAAGACAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTT
1 AATACTA-ATTTATTAATATTCTAA-AAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTT
* * * * * **
18781 ACCAAACAAGTTCAAATCA-TTATGGCAATTTGAGCAATTATTTATTTCAACTTGTTATGA-CTT
64 ACCGAACAAGTTCAAAT-AGTTATGACTA-TTGAACAATTATTTATTTCAAATCATTATGATC-T
* * * * *
18844 TTTGTTTTGTCATAAAACAATTATTTCTATTCATACAAGTTTATTCAGATTAAAATAATATTAAT
126 TTTGTTTTGTCATTAAACAATTAGTTATATTCATACAAGCTTATTCAGAATAAAATAATATTAAT
* *** ** * * *
18909 TTATAAATATTTTGATGATTAATAAGTAAAAGATTTAAAAAATAAATATATTTACTAAACAAGTT
191 TTATTAATATTCCAAAAATTAATAAGTAAAAGATTTAAAAAATACATATATTTTCTAAACAATTT
* * * *
18974 CAAATAGTCATGAATATTTGAATAATTATCTATTTCAAATCA-TTATGACCTTTTCTTTTGTAAT
256 CAAATAGTTATGACTATTTGAATAATTATCTATTTCAAAT-AGTTATGACCTTTTGTTTTGTCAT
* * * * *
19038 AAAAACACTTGTTTCAATTCTTAGAAG-TTTATTTGAAGTAAGAT
320 AAAAA-AC-TGTTTCTATTCATAAAAGCTTT-TTTGAAATAAAAT
* * * * *
19082 AATACTAATTCATTAATATTCT-GAAAATTAATGAGTAAGAGAATTAAAAAA-AGAATATGTTTA
1 AATACTAATTTATTAATATTCTAAAAAATTAATAAGTAAAAGATTTAAAAAATA-AATATGTTTA
* * * *
19145 CCGAATAAGTTCAAATAGTTATGACTATCTGAACAATTATCTATTTCAAAACATTACGATCTTTT
65 CCGAACAAGTTCAAATAGTTATGACTAT-TGAACAATTATTTATTTCAAATCATTATGATCTTTT
* * * * *
19210 GTTTTGTCATTAAACAGTTGGTTATGCTT-ATGCAAGCTTATTTCA-AATAAAGTAAT-TTAAAT
129 GTTTTGTCATTAAACAATTAGTTAT-ATTCATACAAGCTTA-TTCAGAATAAAATAATATT-AAT
* *
19272 TTATTAATATTCCAAAAATTAATAAGTAAAA-CTTAAAAAAATACATATATTTTCTAAACAATTT
191 TTATTAATATTCCAAAAATTAATAAGTAAAAGATTTAAAAAATACATATATTTTCTAAACAATTT
* *
19336 CAAATAGTTATGACTATTTGAAGAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCATA
256 CAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATA
*
19401 AACCAACTGTTTCTATTCATAAAAGCTTTTTTGAAATAAAAT
321 AA-AAACTGTTTCTATTCATAAAAGCTTTTTTGAAATAAAAT
* * * *
19443 AATACTAATTTTTTAAAATTCTAAAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTTTTTAC
1 AATACTAATTTATTAATATTCTAAAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTAC
* * *
19508 CGAGCAAGTTCAAATAGTTATGACTATTGGAATAATTTTTTATTTCAAATCATTATGATCTTTTG
66 CGAACAAGTTCAAATAGTTATGACTATT-GAACAATTATTTATTTCAAATCATTATGATCTTTTG
* * * ** * *
19573 -TTTGTCA-TAAACAATTATTTCTATTCACACAATTTTATT-TGAAATAAAATAATACTAATTTA
130 TTTTGTCATTAAACAATTAGTTATATTCATACAAGCTTATTCAG-AATAAAATAATATTAATTTA
* * *** * * * *
19635 TTAGTATTCTAAAAATTAATAAGTTTGAGATTTAAAAAATAAATTTGTTTTACCAAACAAGTTT-
194 TTAATATTCCAAAAATTAATAAGTAAAAGATTTAAAAAATACATATATTTT-CTAAACAA-TTTC
* ** * * * **
19699 AAATAGTCATGTTTATTTGAACT-ATTATTTATTTCAAATCA-TAATGACATTTTGTTTTGTTGT
257 AAATAGTTATGACTATTTGAA-TAATTATCTATTTCAAAT-AGTTATGACCTTTTGTTTTGTCAT
* * * * * * *
19762 AAAACAATTATTTCTGTTCATGTACAA---TTATTCAGAATATAAT
320 AAAA-AACTGTTTCTATTCA--TAAAAGCTTTTTTGA-AATAAAAT
* * ** * * *
19805 AATACTGATCTATTAATATT-TTGATAATTAATAAG----AGATTTAAAAACA-AAATCTATTTA
1 AATACTAATTTATTAATATTCTAAAAAATTAATAAGTAAAAGATTTAAAAA-ATAAATATGTTTA
* * * * * *
19864 CCGAA-ATAATTCAAATATTTATGACTATTTGAATAATTATCTATCTCAAATCTTTATGATC-TT
65 CCGAACA-AGTTCAAATAGTTATGACTA-TTGAACAATTATTTATTTCAAATCATTATGATCTTT
* * * * * *** * * * *
19927 TATTTTGTCATAAAACAA-GAGTTTTTTTTCATATTGGCTTCTTCA-ATTCAAATAATACTAATT
128 TGTTTTGTCATTAAACAATTAG-TTATATTCATACAAGCTTATTCAGAATAAAATAATATTAATT
* *
19990 TAATAATATTCCAAAAATTAGTAAG
192 TATTAATATTCCAAAAATTAATAAG
20015 AGATTTAAAA
Statistics
Matches: 1033, Mismatches: 206, Indels: 116
0.76 0.15 0.09
Matches are distributed among these distances:
356 4 0.00
357 115 0.11
358 24 0.02
359 86 0.08
360 61 0.06
361 88 0.09
362 286 0.28
363 185 0.18
364 19 0.02
365 9 0.01
366 148 0.14
367 7 0.01
368 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (361 bp):
AATACTAATTTATTAATATTCTAAAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTAC
CGAACAAGTTCAAATAGTTATGACTATTGAACAATTATTTATTTCAAATCATTATGATCTTTTGT
TTTGTCATTAAACAATTAGTTATATTCATACAAGCTTATTCAGAATAAAATAATATTAATTTATT
AATATTCCAAAAATTAATAAGTAAAAGATTTAAAAAATACATATATTTTCTAAACAATTTCAAAT
AGTTATGACTATTTGAATAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAAAA
CTGTTTCTATTCATAAAAGCTTTTTTGAAATAAAAT
Found at i:20544 original size:22 final size:22
Alignment explanation
Indices: 20518--20564 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
20508 TAATTTACTA
20518 ATATTCTAA-ATATTAATTAAAG
1 ATATTCTAATATATTAATT-AAG
* *
20540 ATATTTTAATTTATTAATTAAG
1 ATATTCTAATATATTAATTAAG
20562 ATA
1 ATA
20565 ATAATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (22 bp):
ATATTCTAATATATTAATTAAG
Found at i:20586 original size:19 final size:18
Alignment explanation
Indices: 20562--20604 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
20552 ATTAATTAAG
*
20562 ATAATAATTAAATTACTAT
1 ATAATAATTAAA-TAATAT
20581 ATAATAA-TAAATAATAT
1 ATAATAATTAAATAATAT
20598 -TAATAAT
1 ATAATAAT
20605 ATTTAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.27
17 5 0.23
18 4 0.18
19 7 0.32
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAATAATTAAATAATAT
Found at i:20610 original size:10 final size:9
Alignment explanation
Indices: 20582--20652 Score: 55
Period size: 9 Copynumber: 8.3 Consensus size: 9
20572 AATTACTATA
20582 TAATAATA-
1 TAATAATAT
20590 -AATAATAT
1 TAATAATAT
20598 TAATAATAT
1 TAATAATAT
20607 T--TAATAAT
1 TAATAAT-AT
*
20615 TATTAAT-T
1 TAATAATAT
20623 TAATAATAT
1 TAATAATAT
* *
20632 TACTAACATT
1 TAATAATA-T
20642 TAATAAT-T
1 TAATAATAT
20650 TAA
1 TAA
20653 GTACTACTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
7 11 0.22
8 14 0.27
9 16 0.31
10 10 0.20
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (9 bp):
TAATAATAT
Found at i:20879 original size:14 final size:15
Alignment explanation
Indices: 20860--20896 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
20850 TATAATTAAT
20860 TTAATTAATAT-TTA
1 TTAATTAATATATTA
20874 TTAATTAA-ATATTA
1 TTAATTAATATATTA
20888 TT-ATTAATA
1 TTAATTAATA
20897 AAATAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTAATTAATATATTA
Found at i:20893 original size:17 final size:15
Alignment explanation
Indices: 20860--20901 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
20850 TATAATTAAT
20860 TTAATT-AATATTTA
1 TTAATTAAATATTTA
20874 TTAATTAAATATTATTA
1 TTAATTAAATA-T-TTA
*
20891 TTAATAAAATA
1 TTAATTAAATA
20902 ATAGTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 4 0.17
16 1 0.04
17 13 0.54
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAATTAAATATTTA
Found at i:20909 original size:17 final size:17
Alignment explanation
Indices: 20872--20910 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
20862 AATTAATATT
* * *
20872 TATTAATTAAATATTAT
1 TATTAATAAAATAATAG
20889 TATTAATAAAATAATAG
1 TATTAATAAAATAATAG
20906 TATTA
1 TATTA
20911 TTTTAAATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
TATTAATAAAATAATAG
Found at i:21287 original size:19 final size:18
Alignment explanation
Indices: 21255--21293 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
21245 ATGTTATTTT
21255 ATTAAAAATAAATTATTA
1 ATTAAAAATAAATTATTA
* *
21273 ATTAAAATATTAATTGTTA
1 ATTAAAA-ATAAATTATTA
21292 AT
1 AT
21294 ATTTCAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
ATTAAAAATAAATTATTA
Found at i:21654 original size:11 final size:11
Alignment explanation
Indices: 21611--21654 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
21601 ACAAAATTAT
21611 TAATATTATAA
1 TAATATTATAA
*
21622 AAATATTATAA
1 TAATATTATAA
21633 TTATTATATTATAA
1 -TA--ATATTATAA
21647 TAATATTA
1 TAATATTA
21655 ATTATTAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 16 0.57
12 1 0.04
13 2 0.07
14 9 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TAATATTATAA
Found at i:21656 original size:23 final size:25
Alignment explanation
Indices: 21605--21679 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
21595 TGGATAACAA
21605 AATTATTAATATTATAAAAATATTAT
1 AATTATT-ATATTATAAAAATATTAT
*
21631 AATTATTATATTATAATAATA-T-T
1 AATTATTATATTATAAAAATATTAT
* *
21654 AATTATTAGTAATAGTATAAATATTA
1 AATTATTA-TATTA-TAAAAATATTA
21680 ATATAATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
23 9 0.22
24 5 0.12
25 19 0.46
26 8 0.20
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (25 bp):
AATTATTATATTATAAAAATATTAT
Found at i:21678 original size:18 final size:18
Alignment explanation
Indices: 21622--21679 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
21612 AATATTATAA
21622 AAATATTATAAT--TATT
1 AAATATTATAATAATATT
21638 --ATATTATAATAATATT
1 AAATATTATAATAATATT
* *
21654 AATTATTAGTAATAGTA-T
1 AAATATTA-TAATAATATT
21672 AAATATTA
1 AAATATTA
21680 ATATAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 10 0.29
16 4 0.12
18 13 0.38
19 7 0.21
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
AAATATTATAATAATATT
Found at i:21796 original size:13 final size:14
Alignment explanation
Indices: 21762--21810 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 14
21752 TTATTAAACT
21762 ATTAATAATAAATA
1 ATTAATAATAAATA
21776 ATCATAATAATAAA-A
1 AT--TAATAATAAATA
*
21791 ATTAATCAGTAAATA
1 ATTAAT-AATAAATA
21806 ATTAA
1 ATTAA
21811 ATGTTATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 4 0.13
14 7 0.23
15 9 0.30
16 10 0.33
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (14 bp):
ATTAATAATAAATA
Found at i:21810 original size:44 final size:45
Alignment explanation
Indices: 21718--21803 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 45
21708 AATCAGTAGT
* * * * * *
21718 TTAATAATAATATAATAATACTAATTACAATTGATTATTAAACTA
1 TTAATAATAATATAATAATAATAATAAAAATTAATCAGTAAACTA
*
21763 TTAATAATAA-ATAATCATAATAATAAAAATTAATCAGTAAA
1 TTAATAATAATATAATAATAATAATAAAAATTAATCAGTAAA
21804 TAATTAAATG
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
44 24 0.71
45 10 0.29
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (45 bp):
TTAATAATAATATAATAATAATAATAAAAATTAATCAGTAAACTA
Found at i:22567 original size:178 final size:180
Alignment explanation
Indices: 22189--22573 Score: 392
Period size: 178 Copynumber: 2.1 Consensus size: 180
22179 TTTTAAATTT
*
22189 GTTCGATAAACAAATTTATTTTTTAAAACTTTTGCTTATTAATTTTGGAAATATTAAGAAATTAG
1 GTTCGATAAACAAATTTATTTTTTAAAACTTTTGCTTATTAATTTTGCAAATATTAAGAAATTAG
* * * * * * *
22254 TATTATTTTATTCTAGATAAGTTTTAATAAATTGAAACTATTCTTTTATGTGAAAACAAAAGGTC
66 AATTATTTTATTCTAGATAACTTGTAAGAAATTGAAACTAATCTTTGATCT-AAAACAAAAGGTC
* * *
22319 ATAAGAATTTTAAATAATTAATTATTTAAATAGTCATAACTATTTGAACTT
130 AAAAGAATTTCAAATAATTAATTATTTAAATAGTCATAACTATTTGAACTG
* * *** * * * * *
22370 GCTCAATAAAGGGATTTATTTTTTCAAATCTTTTGCTTATTAATTTTTCAAATGTTAATAAATTT
1 GTTCGATAAACAAATTTATTTTTT-AAAACTTTTGCTTATTAATTTTGCAAATATTAAGAAATTA
* *
22435 GAATTATTTTATT-TTGAATAAACTTGTAAGATA-TGAAA-TAAAT-TTTGA-CT-AAACAAAAG
65 GAATTATTTTATTCTAG-AT-AACTTGTAAGAAATTGAAACT-AATCTTTGATCTAAAACAAAAG
** *
22494 GTCAAAA-AGATTTCAAATTAA-TAATTATTCT-AATAGTTTTAATTATTTGAACTG
127 GTCAAAAGA-ATTTCAAA-TAATTAATTATT-TAAATAGTCATAACTATTTGAACTG
*
22548 GTTCGATAAACATATTTATTTTTTAA
1 GTTCGATAAACAAATTTATTTTTTAA
22574 TCTATATATC
Statistics
Matches: 166, Mismatches: 31, Indels: 18
0.77 0.14 0.08
Matches are distributed among these distances:
177 3 0.02
178 68 0.41
179 4 0.02
180 1 0.01
181 26 0.16
182 55 0.33
183 9 0.05
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (180 bp):
GTTCGATAAACAAATTTATTTTTTAAAACTTTTGCTTATTAATTTTGCAAATATTAAGAAATTAG
AATTATTTTATTCTAGATAACTTGTAAGAAATTGAAACTAATCTTTGATCTAAAACAAAAGGTCA
AAAGAATTTCAAATAATTAATTATTTAAATAGTCATAACTATTTGAACTG
Found at i:22901 original size:162 final size:163
Alignment explanation
Indices: 22727--23044 Score: 435
Period size: 164 Copynumber: 2.0 Consensus size: 163
22717 ATAATTTTGC
* * * * *
22727 ATGAATAGAAACAATTGTTTTATGAC-AAA-AAAAGGTCATAATTATTTGAAATAGATAATTGTT
1 ATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGATCATAACTATTTGAAATAAAAAATTGTT
* * * * * **
22790 CAAATGGACATGACTATTTGGACTTA-TTCAGTAAATAGATTTATTTTTTAAATTTCTTACTTAC
66 CAAATAGACATAACGATTT-GAATTAGTTCAGTAAACAGATTTATTTTAAAAATTTCTTACTTAC
*
22854 TAACTTTCAAAGTATTAATCAATTAGTATTATTGT
130 TAACTTTCAAA-TATTAATAAATTAGTATTATTGT
22889 ATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGATCATAACTATTTGAAATAAAAAATTGTT
1 ATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGATCATAACTATTTGAAATAAAAAATTGTT
* * *
22954 CAAATAGCCATAACGATTTGAATTAGTTCAGTAAACAGATTTATTTTAAAAATTTTTTACTTATT
66 CAAATAGACATAACGATTTGAATTAGTTCAGTAAACAGATTTATTTTAAAAATTTCTTACTTACT
* *
23019 AATTTTGAAATATTAATAAATTAGTA
131 AACTTTCAAATATTAATAAATTAGTA
23045 CATTTTATTT
Statistics
Matches: 135, Mismatches: 18, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
162 25 0.19
163 23 0.17
164 87 0.64
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (163 bp):
ATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGATCATAACTATTTGAAATAAAAAATTGTT
CAAATAGACATAACGATTTGAATTAGTTCAGTAAACAGATTTATTTTAAAAATTTCTTACTTACT
AACTTTCAAATATTAATAAATTAGTATTATTGT
Found at i:23192 original size:179 final size:179
Alignment explanation
Indices: 22885--23459 Score: 603
Period size: 179 Copynumber: 3.2 Consensus size: 179
22875 ATTAGTATTA
* * *
22885 TTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGATCATAACTATTTGAAATAAAAAAT
1 TTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGGTCATAACTATTTGAAATAGATAAT
* * * * * * **
22950 TGTTCAAATAGCCATAACGATTTGA-ATTAGTTCAGTAAACAGATT-TATTTTAAAAATTTTTTA
66 TGTTCAAAGAGACATAACTATTTGATA-T-GTTTAGAAAACAAATTAT-TTTTTTAAA-TTTTTA
* *
23013 CTTATTAA-TTTTGAAATATTAATAAATTAGTA-CATTTTATTTCAAATATGC
127 CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATAAGC
* * *
23064 TTGTATGAATAGAAACAATTGGTTTATGACAAAACAAAGGGTCATAACTATTTGAAATAGATAAT
1 TTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGGTCATAACTATTTGAAATAGATAAT
*
23129 TGTTCAAAGAGTCATAACTATTTGATCATGTTTAGAAAACATAATTATTTTTTTAAATTTTTACT
66 TGTTCAAAGAGACATAACTATTTGAT-ATGTTTAGAAAACA-AATTATTTTTTTAAATTTTTACT
*
23194 TATTAATTTTTGAAATATTAATAAATTTA-TATTATTTT-CTTCAGAATAAGC
129 TATTAATTTTTGAAATATTAATAAA-TTAGTATTATTTTATTTCA-AATAAGC
* * * * *
23245 TTATTTGAATAGAAACAATTGTTTTAGGACGAAACAAAATGTCATAACAATTTGAAATAGATAAT
1 TTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGGTCATAACTATTTGAAATAGATAAT
* * * * * ***
23310 AGTTCAAATG-GACATGACTATTTAAATTTGTTT-GATAAAC-AATTTTTTTTTTAAATCTCCAA
66 TGTTCAAA-GAGACATAACTATTT-GATATGTTTAGA-AAACAAATTATTTTTTTAAAT-TTTTA
* ** * * * *
23372 CTTATTAATTTTTAAAATATTAATTGACTAGCATTATTTTATTTCGAATAAAC
127 CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATAAGC
* *
23425 TTGTATGAACAGAAAC-ATATGTTTTATGACAAAAC
1 TTGTATGAATAGAAACAAT-TGTTTTAGGACAAAAC
23460 CTAACTATTT
Statistics
Matches: 334, Mismatches: 47, Indels: 29
0.81 0.11 0.07
Matches are distributed among these distances:
179 124 0.37
180 104 0.31
181 103 0.31
182 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.40
Consensus pattern (179 bp):
TTGTATGAATAGAAACAATTGTTTTAGGACAAAACAAAAGGTCATAACTATTTGAAATAGATAAT
TGTTCAAAGAGACATAACTATTTGATATGTTTAGAAAACAAATTATTTTTTTAAATTTTTACTTA
TTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATAAGC
Found at i:24124 original size:181 final size:180
Alignment explanation
Indices: 23846--24701 Score: 815
Period size: 181 Copynumber: 4.8 Consensus size: 180
23836 TCCTGCCTAC
* * *
23846 TAATTTTTAGAGTATTAATCAATTAGTATTATTTTA-TTCAAAATAAACTTGTATGAATAGAAAC
1 TAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTC-TAATAAACTTGTATGAATAGAAAC
* * * *
23910 AATTGTTTTAGGGCAAAACAAAAGATCATAACTATTTGAAATAAATAATTGTTCAAATAGTCATG
65 AATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAAATAATTGTTCAAATAGTCATA
* * * * *
23975 ATGATTTAAACTAACTCGGTAAACATATTTA-TTTATAAAATTTTTTACTCAT
130 ATTATTTAAACT-ATTCGGTAAACATATTTAGTTT-TTAAATCTTTTACTTAT
* * * *
24027 TAATTTTTGGAATATTAAGAAATTAGTATTATTTTATTTCTAATACATTTGTATGAATAGAAACA
1 TAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTCTAATAAACTTGTATGAATAGAAACA
* * * * *
24092 ATTGGTTTATGATAAAACAAAGGGTCATAACTATTTGAAATAGATAATTGTTCAAAAAGTCATAA
66 ATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAAATAATTGTTCAAATAGTCATAA
* * ** * * *
24157 CTATTTGAACGTGGTCAGAAAATATATTTAGTTTTTAAAT-TTTTACTTAT
131 TTATTTAAAC-TATTCGGTAAACATATTTAGTTTTTAAATCTTTTACTTAT
* * * * * *
24207 TAATTTTT-GAAAAATCAATAAATTTA-TATTATTTTA-TTCGAAATCAGCTTGTTTGAATAGAA
1 TAATTTTTAG-AATATTAATAAA-TTAGTATTATTTTATTTC-TAATAAACTTGTATGAATAGAA
* * * * * * *
24269 ACAATTATTTTATGAC-AAA-AATATGTCAT-AGTGATTTGAAATAAATAATAGTTCAAATGGAC
63 ACAATTGTTTTATGACAAAACAAAAGGTCATAACT-ATTTGAAATAAATAATTGTTCAAATAGTC
* * * ** ***
24331 ATGATTATTTAAACTTGTTTGGTAAAC-TATTTTTTTTTTAAATCTCCAACTTAT
127 ATAATTATTTAAAC-TATTCGGTAAACATATTTAGTTTTTAAATCTTTTACTTAT
** *
24385 TAATTTTTAGAATATTAATTTATTAGTATTATCTTATTT-TGAATAAACTTGTATGAATAGAAAC
1 TAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTCT-AATAAACTTGTATGAATAGAAAC
* * * *
24449 -ATACGTTTTATGACAAAACAAAAGATCATAA-TGATTTGAAATAAATAATTGTTTAAATAGTTA
65 AAT-TGTTTTATGACAAAACAAAAGGTCATAACT-ATTTGAAATAAATAATTGTTCAAATAGTCA
* * *
24512 TAATTATTTGAACTCATTCGGTAAACAAATTTAGTTTTTAAATCTTTTGCTTAT
128 TAATTATTTAAACT-ATTCGGTAAACATATTTAGTTTTTAAATCTTTTACTTAT
* * * * * *
24566 TAATTTTTAAAATTTTAATAAATTAGTATTATTTTATTT-TGAATAAATTTTTATGCACAGAAAC
1 TAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTCT-AATAAACTTGTATGAATAGAAAC
* * * * ** *
24630 AATTAG-TTTATGACAAAACAAAAGGTAATAACAATTAGAAATAGATAATCATTAAAATAGTCAT
65 AATT-GTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAAATAATTGTTCAAATAGTCAT
*
24694 AACTATTT
129 AATTATTT
24702 GAATATGTTT
Statistics
Matches: 543, Mismatches: 111, Indels: 42
0.78 0.16 0.06
Matches are distributed among these distances:
177 21 0.04
178 110 0.20
179 14 0.03
180 119 0.22
181 269 0.50
182 10 0.02
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (180 bp):
TAATTTTTAGAATATTAATAAATTAGTATTATTTTATTTCTAATAAACTTGTATGAATAGAAACA
ATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAAATAATTGTTCAAATAGTCATAA
TTATTTAAACTATTCGGTAAACATATTTAGTTTTTAAATCTTTTACTTAT
Found at i:24461 original size:358 final size:362
Alignment explanation
Indices: 23846--24678 Score: 896
Period size: 358 Copynumber: 2.3 Consensus size: 362
23836 TCCTGCCTAC
* * * *
23846 TAATTTTTAGAGTATTAATCAATTAGTATTATTTTATTCAAAATAAACTTGTATGAATAGAAACA
1 TAATTTTTAAAATATCAATAAATTAGTATTATTTTATTCAAAATAAACTTGTATGAATAGAAACA
* * * *
23911 ATTGTTTTAGGGCAAAACAAAAGATCATAACTATTTGAAATAAATAATTGTTCAAATAGTCATGA
66 ATTATTTTAGGACAAAACAAAAGATCATAACTATTTGAAATAAATAATAGTTCAAATAGACATGA
* *** *
23976 TGATTTAAACTAACTCGGTAAACATATTTATTTATAAAATTTTTTACTCATTAATTTTTGGAATA
131 TGATTTAAACTAACTCGGTAAACATATTTATTTATAAAATCTCCAACTCATTAATTTTTAGAATA
* * * * *
24041 TTAAGAAATTAGTATTATTTTATTTCTAATACATTTGTATGAATAGAAACAATTGGTTTATGATA
196 TTAAGAAATTAGTATTATCTTATTTCTAATAAACTTGTATGAATAGAAACAATCGGTTTATGACA
* * *
24106 AAACAAAGGGTCATAACT-ATTTGAAATAGATAATTGTTCAAAAAGTCATAACTATTTGAACGT-
261 AAACAAAAGATCATAA-TGATTTGAAATAAATAATTGTTCAAAAAGTCATAACTATTTGAAC-TC
* * *
24169 GGTCAGAAAATATATTTAGTTTTTAAAT-TTTTACTTAT
324 AGTCAGAAAACAAATTTAGTTTTTAAATCTTTTACTTAT
* * * *
24207 TAATTTTTGAAAA-ATCAATAAATTTA-TATTATTTTATTCGAAATCAGCTTGTTTGAATAGAAA
1 TAATTTTT-AAAATATCAATAAA-TTAGTATTATTTTATTCAAAATAAACTTGTATGAATAGAAA
* * * * *
24270 CAATTATTTTATGACAAAA-ATATG-TCAT-AGTGATTTGAAATAAATAATAGTTCAAATGGACA
64 CAATTATTTTAGGACAAAACAAAAGATCATAACT-ATTTGAAATAAATAATAGTTCAAATAGACA
* *** * * * * *
24332 TGATTATTTAAACTTGTTTGGTAAAC-TATTTTTTTTTTAAATCTCCAACTTATTAATTTTTAGA
128 TGATGATTTAAACTAACTCGGTAAACATATTTATTTATAAAATCTCCAACTCATTAATTTTTAGA
*** *
24396 ATATTAATTTATTAGTATTATCTTATTT-TGAATAAACTTGTATGAATAGAAAC-ATACGTTTTA
193 ATATTAAGAAATTAGTATTATCTTATTTCT-AATAAACTTGTATGAATAGAAACAAT-CGGTTTA
* * * *
24459 TGACAAAACAAAAGATCATAATGATTTGAAATAAATAATTGTTTAAATAGTTATAATTATTTGAA
256 TGACAAAACAAAAGATCATAATGATTTGAAATAAATAATTGTTCAAAAAGTCATAACTATTTGAA
* * * *
24524 CTCATTCGGTAAACAAATTTAGTTTTTAAATCTTTTGCTTAT
321 CTCAGTCAGAAAACAAATTTAGTTTTTAAATCTTTTACTTAT
* * *** * * * *
24566 TAATTTTTAAAATTTTAATAAATTAGTATTATTTTATTTTGAATAAATTTTTATGCACAGAAACA
1 TAATTTTTAAAATATCAATAAATTAGTATTATTTTATTCAAAATAAACTTGTATGAATAGAAACA
* * * * * * *
24631 ATTAGTTTATGACAAAACAAAAGGTAATAACAATTAGAAATAGATAAT
66 ATTATTTTAGGACAAAACAAAAGATCATAACTATTTGAAATAAATAAT
24679 CATTAAAATA
Statistics
Matches: 385, Mismatches: 74, Indels: 26
0.79 0.15 0.05
Matches are distributed among these distances:
357 5 0.01
358 166 0.43
359 121 0.31
360 6 0.02
361 81 0.21
362 6 0.02
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (362 bp):
TAATTTTTAAAATATCAATAAATTAGTATTATTTTATTCAAAATAAACTTGTATGAATAGAAACA
ATTATTTTAGGACAAAACAAAAGATCATAACTATTTGAAATAAATAATAGTTCAAATAGACATGA
TGATTTAAACTAACTCGGTAAACATATTTATTTATAAAATCTCCAACTCATTAATTTTTAGAATA
TTAAGAAATTAGTATTATCTTATTTCTAATAAACTTGTATGAATAGAAACAATCGGTTTATGACA
AAACAAAAGATCATAATGATTTGAAATAAATAATTGTTCAAAAAGTCATAACTATTTGAACTCAG
TCAGAAAACAAATTTAGTTTTTAAATCTTTTACTTAT
Found at i:25054 original size:39 final size:39
Alignment explanation
Indices: 24981--25057 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
24971 ATGTAATTAT
* * *
24981 AATATTTAATTATAGTAATAAATTATATTCTATAATTTA
1 AATATTTAATTATAGTAAAAAATTATAATATATAATTTA
25020 AATATTATAATT-TA-TAAAAAATTATAAATATATAATTT
1 AATATT-TAATTATAGTAAAAAATTAT-AATATATAATTT
25058 TTAATAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 10 0.30
39 18 0.55
40 5 0.15
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (39 bp):
AATATTTAATTATAGTAAAAAATTATAATATATAATTTA
Found at i:25185 original size:18 final size:17
Alignment explanation
Indices: 25164--25207 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
25154 ATATTAGTTA
25164 ATTAATTAATATATAAAT
1 ATTAATTAATATAT-AAT
*
25182 ATTAATTAAT-TATAGT
1 ATTAATTAATATATAAT
25198 ATTAA-TAATA
1 ATTAATTAATA
25208 ATTTATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 4 0.17
16 7 0.29
17 3 0.12
18 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
ATTAATTAATATATAAT
Found at i:25204 original size:22 final size:21
Alignment explanation
Indices: 25161--25215 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
25151 TACATATTAG
25161 TTAATTAATTAATATATAAATA
1 TTAATTAATT-ATATATAAATA
*
25183 TTAATTAATTATAGTATTAATA
1 TTAATTAATTATA-TATAAATA
* *
25205 ATAATTTATTA
1 TTAATTAATTA
25216 ATTCAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 3 0.10
22 26 0.90
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TTAATTAATTATATATAAATA
Found at i:25675 original size:15 final size:15
Alignment explanation
Indices: 25641--25685 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
25631 TGGTTATTAT
*
25641 TATTATTAAT-TTAA
1 TATTATTAATAATAA
25655 -ATTATTAATAATAA
1 TATTATTAATAATAA
*
25669 TATTATTATTAATAA
1 TATTATTAATAATAA
25684 TA
1 TA
25686 ACTAATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 9 0.33
14 3 0.11
15 15 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTATTAATAATAA
Found at i:25678 original size:18 final size:19
Alignment explanation
Indices: 25655--25699 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
25645 ATTAATTTAA
*
25655 ATTATTAATAATAA-TATT
1 ATTATTAATAATAACTAAT
25673 ATTATTAATAATAACTAAT
1 ATTATTAATAATAACTAAT
25692 ATTATTAA
1 ATTATTAA
25700 ATATTAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTATTAATAATAACTAAT
Found at i:26967 original size:30 final size:31
Alignment explanation
Indices: 26931--26996 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
26921 AATACTGATA
*
26931 ATTAAATA-ATAAAAATTAAATATTTTTTATT
1 ATTAAATATATAAAAATTAAA-ATTTTTAATT
* *
26962 -TTAAATATTTAAAATTTAAAATTTTTAATT
1 ATTAAATATATAAAAATTAAAATTTTTAATT
26992 ATTAA
1 ATTAA
26997 CATTCAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
30 16 0.53
31 14 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (31 bp):
ATTAAATATATAAAAATTAAAATTTTTAATT
Found at i:26996 original size:23 final size:24
Alignment explanation
Indices: 26960--27005 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
26950 ATATTTTTTA
*
26960 TTTTAAATATTTAAAATTTAAAAT
1 TTTTAAATATTTAAAATTCAAAAT
* *
26984 TTTTAATTA-TTAACATTCAAAA
1 TTTTAAATATTTAAAATTCAAAA
27006 AATTAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTTAAATATTTAAAATTCAAAAT
Found at i:27245 original size:182 final size:179
Alignment explanation
Indices: 26990--27978 Score: 776
Period size: 179 Copynumber: 5.4 Consensus size: 179
26980 AAATTTTTAA
* * * * * *
26990 TTATTAACA-TTCAAAAAATTAATAAACAAAAGTTATGAAAAAATAAATCTGTTTA-TCGATCAA
1 TTATTAATATTTC-AAAAATTAATAAGCAAGAGTT-T-AAAAAATAAATTTGTTTACT-AAACAA
* * * *
27053 GTTCAAATAGTTATGATTATTTGAACAATTATTTATTTAAAATCGTTATGACCTTTTGTTTTGGA
62 GTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGGT
* * *
27118 CAAAAAACAATTGTTTTAGTTCATAAAAGCTTATCCCAAATAATATAATACTAAT
127 CATAAAACAATTGTTTTAGTTCATACAAGCTTAT--CAAATAAAATAATACTAAT
* * *
27173 TTCTTAATATTTCAAAAATTAATAAGCAAGAGTTTAAAAAAATTAATTTGTTTACTAAACAAATT
1 TTATTAATATTTCAAAAATTAATAAGCAAGAGTTT-AAAAAATAAATTTGTTTACTAAACAAGTT
*
27238 CAAATAGTTATAACTATTTGAACAATTATCTATTTAAAATCATTATGACC-TTTGTTTT-GTCAT
65 CAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGGTCAT
* * *
27301 AAAACAATTGTTTCAGTTCATACAAGCTTATTCGAATAAAATAATAGTAAT
130 AAAACAATTGTTTTAGTTCATACAAGCTTA-TCAAATAAAATAATACTAAT
* * * * * **
27352 TTATTAATATTTCAAAAATTAATAAGTAAGTGATTTAAAAAATGATTTTGTTTACCAAATTAGTT
1 TTATTAATATTTCAAAAATTAATAAGCAAGAG-TTTAAAAAATAAATTTGTTTACTAAACAAGTT
* * * * * ** * *
27417 GAAATAATTATGGCTATTTCAATAATTATCTATTCGAAATCAATATTACCTTTTG-TTTGGTCAT
65 CAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGGTCAT
* *
27481 ATAACAATTGTTTTTG-TCATACAAGCTT-T-AGAATAAAATAATACTAAT
130 AAAACAATTGTTTTAGTTCATACAAGCTTATCA-AATAAAATAATACTAAT
* * * * * * * **
27529 TTATTAATCTTTCAAAAGTTAATAAGTAAGAAATTTAAAAAATAAATTTATTTATTGAACCCGTT
1 TTATTAATATTTCAAAAATTAATAAGCAAG-AGTTTAAAAAATAAATTTGTTTACTAAACAAGTT
* * * * * *
27594 TAAATAGTTATGACTATTTGAACAAATGTATAGTTTAAATAAGTTATTTAAAAGATAAACCTTTT
65 CAAATAGTTATGACTATTTGAACAATTATCTA-TTT-AA-AA-TCA-TT-----AT-GACCTTTT
** * * * * *
27659 -TTGTTCTATCATAAAAAAATT-ATTCATGTTCATACAAGCCTATTTGAAATAAAATAATACTAA
119 GTT-TT-GGTCATAAAACAATTGTTTTA-GTTCATACAAG-CT-TATCAAATAAAATAATACTAA
27722 T
179 T
* * * * * *
27723 CTAATAATA-CTCTAAAAATTAATAA-CTAAGAGATTTAAAAAATAAATTTATTTACTGAACCAG
1 TTATTAATATTTC-AAAAATTAATAAGC-AAGAG-TTTAAAAAATAAATTTGTTTACTAAACAAG
* * * * ** *
27786 TTTAAATAGTTAAGACTATATGAACAATTATCTATTTTAAATTGTTATGATCTTTTGTTTT-GTC
63 TTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGGTC
* * * * *
27850 ATAAAACAATT-TTTTCAATTCATACTAGCTTATTTAGAATAAAAGAA-AATGAAT
128 ATAAAACAATTGTTTT-AGTTCATACAAGCTTA-TCA-AATAAAATAATACT-AAT
* * *
27904 TTATTAATATTTCAAAAATTAATAAG--AGA-TTTAACAAAT-AATTCTGCTTACCT-AACCAGT
1 TTATTAATATTTCAAAAATTAATAAGCAAGAGTTTAAAAAATAAATT-TGTTTA-CTAAACAAGT
*
27964 TCAAATAATTATGAC
64 TCAAATAGTTATGAC
27979 CTTTTGTTTT
Statistics
Matches: 651, Mismatches: 115, Indels: 86
0.76 0.13 0.10
Matches are distributed among these distances:
176 4 0.01
177 124 0.19
178 4 0.01
179 128 0.20
180 64 0.10
181 65 0.10
182 73 0.11
183 35 0.05
184 7 0.01
187 2 0.00
188 8 0.01
189 6 0.01
190 14 0.02
191 11 0.02
192 3 0.00
193 7 0.01
194 95 0.15
195 1 0.00
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (179 bp):
TTATTAATATTTCAAAAATTAATAAGCAAGAGTTTAAAAAATAAATTTGTTTACTAAACAAGTTC
AAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGGTCATA
AAACAATTGTTTTAGTTCATACAAGCTTATCAAATAAAATAATACTAAT
Found at i:27446 original size:179 final size:180
Alignment explanation
Indices: 27052--27978 Score: 840
Period size: 177 Copynumber: 5.1 Consensus size: 180
27042 TTATCGATCA
* * *
27052 AGTTCAAATAGTTATGATTATTTGAACAATTATTTATTTAAAATCGTTATGACCTTTTGTTTTGG
1 AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTT-G
* * * * * * *
27117 ACAAAAAACAATTGTTTTAGTTCATAAAAGCTTATCCCA-AATAATATAATACTAATTTCTTAAT
65 TCATAAAACAATTGTTTCAGTTCATACAAGCTTAT--TAGAATAAAATAATACTAATTTATTAAT
* * * *
27181 ATTTCAAAAATTAATAAGCAAGAG-TTTAAAAAAATTAATTTGTTTACTAAACA
128 ATTTCAAAAATTAATAAGTAAGAGATTT-AAAAAATAAATTTATTTACTAAACC
* *
27234 AATTCAAATAGTTATAACTATTTGAACAATTATCTATTTAAAATCATTATGACC-TTTGTTTTGT
1 AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGT
* *
27298 CATAAAACAATTGTTTCAGTTCATACAAGCTTATTCGAATAAAATAATAGTAATTTATTAATATT
66 CATAAAACAATTGTTTCAGTTCATACAAGCTTATTAGAATAAAATAATACTAATTTATTAATATT
* * * * * **
27363 TCAAAAATTAATAAGTAAGTGATTTAAAAAATGATTTTGTTTACCAAATT
131 TCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATTTATTTACTAAACC
* * * * * ** * * *
27413 AGTTGAAATAATTATGGCTATTTCAATAATTATCTATTCGAAATCAATATTACCTTTTGTTTGGT
1 AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGT
* ** *
27478 CATATAACAATTGTTTTTG-TCATACAAGC-T-TTAGAATAAAATAATACTAATTTATTAATCTT
66 CATAAAACAATTGTTTCAGTTCATACAAGCTTATTAGAATAAAATAATACTAATTTATTAATATT
* * * *
27540 TCAAAAGTTAATAAGTAAGAAATTTAAAAAATAAATTTATTTATTGAACC
131 TCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATTTATTTACTAAACC
* * * * * * *
27590 CGTTTAAATAGTTATGACTATTTGAACAAATGTATAGTTTAAATAAGTTATTTAAAAGATAAACC
1 AGTTCAAATAGTTATGACTATTTGAACAATTATCTA-TTT-AA-AA-TCA-TT-----AT-GACC
* * * * * *
27655 TTTTTTGTTCTATCATAAAAAAATT-ATTCATGTTCATACAAGCCTATTTGAAATAAAATAATAC
55 --TTTTGTTTTGTCATAAAACAATTGTTTCA-GTTCATACAAGCTTATTAG-AATAAAATAATAC
* * * * *
27719 TAATCTAATAATA-CTCTAAAAATTAATAACTAAGAGATTTAAAAAATAAATTTATTTACTGAAC
116 TAATTTATTAATATTTC-AAAAATTAATAAGTAAGAGATTTAAAAAATAAATTTATTTACTAAAC
27783 C
180 C
* * * * ** *
27784 AGTTTAAATAGTTAAGACTATATGAACAATTATCTATTTTAAATTGTTATGATCTTTTGTTTTGT
1 AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGT
* * * * *
27849 CATAAAACAATTTTTTCAATTCATACTAGCTTATTTAGAATAAAAGAA-AATGAATTTATTAATA
66 CATAAAACAATTGTTTCAGTTCATACAAGCTTA-TTAGAATAAAATAATACT-AATTTATTAATA
* **
27913 TTTCAAAAA-T--TAA-TAAGAGATTTAACAAAT-AATTCTGCTTACCT-AACC
129 TTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATT-TATTTA-CTAAACC
*
27961 AGTTCAAATAATTATGAC
1 AGTTCAAATAGTTATGAC
27979 CTTTTGTTTT
Statistics
Matches: 607, Mismatches: 110, Indels: 61
0.78 0.14 0.08
Matches are distributed among these distances:
176 4 0.01
177 134 0.22
178 8 0.01
179 118 0.19
180 65 0.11
181 66 0.11
182 59 0.10
183 2 0.00
184 2 0.00
187 2 0.00
188 3 0.00
189 4 0.01
190 21 0.03
191 12 0.02
192 2 0.00
193 8 0.01
194 97 0.16
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.40
Consensus pattern (180 bp):
AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTTGT
CATAAAACAATTGTTTCAGTTCATACAAGCTTATTAGAATAAAATAATACTAATTTATTAATATT
TCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATTTATTTACTAAACC
Found at i:27978 original size:371 final size:368
Alignment explanation
Indices: 27288--27978 Score: 770
Period size: 371 Copynumber: 1.9 Consensus size: 368
27278 CATTATGACC
* * * * * * *
27288 TTTGTTTTGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTCGAATAAAATAATAGTAATT
1 TTTGTTCTATCATAAAAAAATTGATTCAGTTCATACAAGCCTATTCGAATAAAATAATACTAATC
* * * * * * * **
27353 TATTAATATTTCAAAAATTAATAAGTAAGTGATTTAAAAAATGATTTTGTTTACCAAATTAGTTG
66 TAATAATATCTCAAAAATTAATAACTAAGAGATTTAAAAAATAAATTTATTTACCAAACCAGTTG
* * * * * *
27418 AAATAATTATGGCTATTTCAATAATTATCTATTCGAAATCAATATTACCTTTTGTTTGGTCATAT
131 AAATAATTAAGACTATATCAACAATTATCTATTCGAAATCAATATGACCTTTTGTTTGGTCATAA
* * * *
27483 AACAATTGTTTTTGTCATACAAGCTTTAGAATAAAATAATACTAATTTATTAATCTTTCAAAAGT
196 AACAATTGTTTTTGTCATACAAGCTTTAGAATAAAAGAATAATAATTTATTAATATTTCAAAAAT
* * * * *
27548 TAATAAGTAAGAAATTTAAAAAATAAATTTATTTATTGAACCCGTTTAAATAGTTATGACTATTT
261 TAATAAG-AAG-AATTTAAAAAATAAATTTACTTACTGAACCAGTTCAAATAATTATGACTATTT
27613 GAACAAATGTATAGTTTAAATAAGTTATTTAAAAGATAAACCTTT
324 GAACAAATGTATAGTTTAAATAAGTTATTTAAAAGATAAACCTTT
*
27658 TTTGTTCTATCATAAAAAAATT-ATTCATGTTCATACAAGCCTATTTGAAATAAAATAATACTAA
1 TTTGTTCTATCATAAAAAAATTGATTCA-GTTCATACAAGCCTATTCG-AATAAAATAATACTAA
**
27722 TCTAATAATA-CTCTAAAAATTAATAACTAAGAGATTTAAAAAATAAATTTATTTACTGAACCAG
64 TCTAATAATATCTC-AAAAATTAATAACTAAGAGATTTAAAAAATAAATTTATTTACCAAACCAG
* * * ** *** * *
27786 TTTAAATAGTTAAGACTATATGAACAATTATCTATTTTAAATTGTTATGATCTTTTGTTTTGTCA
128 TTGAAATAATTAAGACTATATCAACAATTATCTATTCGAAATCAATATGACCTTTTGTTTGGTCA
*
27851 TAAAACAATT-TTTTCAAT-TCATACTAGCTTATTTAGAATAAAAGAA-AATGAATTTATTAATA
193 TAAAACAATTGTTTT---TGTCATACAAGC---TTTAGAATAAAAGAATAAT-AATTTATTAATA
* *
27913 TTTCAAAAATTAATAAG-AG-ATTTAACAAAT-AATTCTGCTTACCT-AACCAGTTCAAATAATT
251 TTTCAAAAATTAATAAGAAGAATTTAAAAAATAAATT-TACTTA-CTGAACCAGTTCAAATAATT
27974 ATGAC
314 ATGAC
27979 CTTTTGTTTT
Statistics
Matches: 262, Mismatches: 47, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
369 4 0.02
370 46 0.18
371 156 0.60
372 10 0.04
373 3 0.01
374 2 0.01
375 41 0.16
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.40
Consensus pattern (368 bp):
TTTGTTCTATCATAAAAAAATTGATTCAGTTCATACAAGCCTATTCGAATAAAATAATACTAATC
TAATAATATCTCAAAAATTAATAACTAAGAGATTTAAAAAATAAATTTATTTACCAAACCAGTTG
AAATAATTAAGACTATATCAACAATTATCTATTCGAAATCAATATGACCTTTTGTTTGGTCATAA
AACAATTGTTTTTGTCATACAAGCTTTAGAATAAAAGAATAATAATTTATTAATATTTCAAAAAT
TAATAAGAAGAATTTAAAAAATAAATTTACTTACTGAACCAGTTCAAATAATTATGACTATTTGA
ACAAATGTATAGTTTAAATAAGTTATTTAAAAGATAAACCTTT
Found at i:28421 original size:22 final size:23
Alignment explanation
Indices: 28396--28457 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
28386 TTATATTGGA
28396 AATAATTTA-AATAGTTATTAT-T
1 AATAATTTATAATA-TTATTATCT
**
28418 AATAATAGATAATATTATTATCT
1 AATAATTTATAATATTATTATCT
*
28441 ATTAATTTATTAATATT
1 AATAATTTA-TAATATT
28458 TCTAGAATGA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
22 14 0.44
23 11 0.34
24 7 0.22
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (23 bp):
AATAATTTATAATATTATTATCT
Found at i:28714 original size:10 final size:10
Alignment explanation
Indices: 28671--28761 Score: 80
Period size: 10 Copynumber: 9.2 Consensus size: 10
28661 GATAATAACA
28671 ATAATTAT-T
1 ATAATTATAT
*
28680 -TAACTATAT
1 ATAATTATAT
28689 ATAATTA-AT
1 ATAATTATAT
28698 ATAATTATAT
1 ATAATTATAT
* *
28708 TTAATTATTT
1 ATAATTATAT
*
28718 AATTATTTATAT
1 -A-TAATTATAT
28730 ATAATTATAT
1 ATAATTATAT
* * *
28740 ATAATAAAAC
1 ATAATTATAT
28750 ATAATTATAT
1 ATAATTATAT
28760 AT
1 AT
28762 TATTTAGATT
Statistics
Matches: 63, Mismatches: 14, Indels: 9
0.73 0.16 0.10
Matches are distributed among these distances:
8 6 0.10
9 10 0.16
10 39 0.62
11 1 0.02
12 7 0.11
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.49
Consensus pattern (10 bp):
ATAATTATAT
Found at i:28738 original size:8 final size:8
Alignment explanation
Indices: 28671--28740 Score: 54
Period size: 8 Copynumber: 8.4 Consensus size: 8
28661 GATAATAACA
28671 ATAATTAT
1 ATAATTAT
*
28679 TTAACTATAT
1 ATAA-T-TAT
28689 ATAATTAAT
1 ATAATT-AT
28698 ATAATTAT
1 ATAATTAT
28706 ATTTAATTAT
1 A--TAATTAT
*
28716 TTAATTAT
1 ATAATTAT
*
28724 -TTA-TAT
1 ATAATTAT
28730 ATAATTAT
1 ATAATTAT
28738 ATA
1 ATA
28741 TAATAAAACA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
6 3 0.06
7 4 0.08
8 20 0.40
9 10 0.20
10 13 0.26
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (8 bp):
ATAATTAT
Found at i:28764 original size:41 final size:41
Alignment explanation
Indices: 28684--28767 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 41
28674 ATTATTTAAC
* * ** *
28684 TATATATAATTAATATAATTATATTTAATTATTTAATTATT
1 TATATATAATTAATATAATAAAACATAATTATATAATTATT
28725 TATATATAATTATATATAATAAAACATAATTATAT-ATTATT
1 TATATATAATTA-ATATAATAAAACATAATTATATAATTATT
28766 TA
1 TA
28768 GATTATGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 20 0.54
42 17 0.46
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (41 bp):
TATATATAATTAATATAATAAAACATAATTATATAATTATT
Found at i:29059 original size:18 final size:18
Alignment explanation
Indices: 29027--29063 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
29017 ATTTTATTAA
29027 TGTTATGTTATTAATAAT
1 TGTTATGTTATTAATAAT
29045 TGTTCATGTTA-TAATAAT
1 TGTT-ATGTTATTAATAAT
29063 T
1 T
29064 ATATAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.54
Consensus pattern (18 bp):
TGTTATGTTATTAATAAT
Found at i:29114 original size:15 final size:13
Alignment explanation
Indices: 29078--29124 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
29068 AAAATAATTT
29078 TGATTAATTTTTA
1 TGATTAATTTTTA
29091 -GATTTAATTATTTA
1 TGA-TTAATT-TTTA
29105 CTGATTAATTTTTA
1 -TGATTAATTTTTA
*
29119 TAATTA
1 TGATTA
29125 TGAAAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
12 2 0.07
13 11 0.38
14 8 0.28
15 6 0.21
16 2 0.07
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.57
Consensus pattern (13 bp):
TGATTAATTTTTA
Found at i:29429 original size:29 final size:29
Alignment explanation
Indices: 29387--29455 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
29377 TAATATTTGC
*
29387 TAATTATTAAATT-AGTATCTATTAT-TAA
1 TAATTATTAAATTAAAT-TCTATTATATAA
*
29415 TAATTATTTATATTAAATTCTATTATATAA
1 TAATTA-TTAAATTAAATTCTATTATATAA
29445 T-ATTAATTAAA
1 TAATT-ATTAAA
29456 GATAATCATA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 6 0.18
29 21 0.62
30 7 0.21
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (29 bp):
TAATTATTAAATTAAATTCTATTATATAA
Found at i:29559 original size:24 final size:24
Alignment explanation
Indices: 29531--29599 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 24
29521 AATAAAATTA
29531 TATATTAAAATAATTATTATT-AT
1 TATATTAAAATAATTATTATTAAT
* *
29554 CTATA-TAATAATAATAATAATTAAT
1 -TATATTAA-AATAATTATTATTAAT
*
29579 TATATTATAAATTATTTATTA
1 TATATTA-AAA-TAATTATTA
29600 AATTTAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
23 3 0.09
24 19 0.54
25 6 0.17
26 7 0.20
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (24 bp):
TATATTAAAATAATTATTATTAAT
Found at i:29667 original size:21 final size:22
Alignment explanation
Indices: 29643--29689 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
29633 TACAATAGTA
*
29643 TAATATCA-ATATTTGTAA-TAT
1 TAATATAACATATTT-TAATTAT
29664 TAAT-TAACATATTTTAATTAT
1 TAATATAACATATTTTAATTAT
29685 TAATA
1 TAATA
29690 ATTGTTTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (22 bp):
TAATATAACATATTTTAATTAT
Found at i:30016 original size:13 final size:13
Alignment explanation
Indices: 29998--30027 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
29988 TTTCTATTTT
*
29998 ATTATTTTAATTA
1 ATTATTATAATTA
30011 ATTATTATAATTA
1 ATTATTATAATTA
30024 ATTA
1 ATTA
30028 AATATTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATTATTATAATTA
Found at i:30232 original size:21 final size:23
Alignment explanation
Indices: 30208--30250 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
30198 ATTCATAAAT
30208 ATTATAAATA-TAATT-TAATTA
1 ATTATAAATATTAATTATAATTA
30229 ATTATAAATATTAATTATAATT
1 ATTATAAATATTAATTATAATT
30251 GTGAATATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.50
22 5 0.25
23 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTATAAATATTAATTATAATTA
Found at i:30415 original size:10 final size:10
Alignment explanation
Indices: 30387--30425 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
30377 ATATGAAGTA
30387 TTATATA-AT
1 TTATATATAT
30396 TGTATA-ATAT
1 T-TATATATAT
30406 TTATATATAT
1 TTATATATAT
30416 TTATATATAT
1 TTATATATAT
30426 AATATAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 6 0.22
10 21 0.78
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (10 bp):
TTATATATAT
Found at i:30488 original size:10 final size:10
Alignment explanation
Indices: 30402--30502 Score: 59
Period size: 10 Copynumber: 10.0 Consensus size: 10
30392 TAATTGTATA
*
30402 ATATTTATAT
1 ATATTAATAT
*
30412 ATATTTATAT
1 ATATTAATAT
30422 ATA-TAATAT
1 ATATTAATAT
*
30431 A-ATATAAAAT
1 ATAT-TAATAT
30441 A-ATTAATA-
1 ATATTAATAT
*
30449 ATATCCAATTAT
1 ATAT-TAA-TAT
*
30461 ATATTATACAAT
1 ATATTA-A-TAT
30473 ATTATTAATAT
1 A-TATTAATAT
30484 ATATTAAT-T
1 ATATTAATAT
*
30493 AAATTAATAT
1 ATATTAATAT
30503 TTAATTTATT
Statistics
Matches: 73, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
8 2 0.03
9 20 0.27
10 31 0.42
11 6 0.08
12 9 0.12
13 5 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (10 bp):
ATATTAATAT
Found at i:30779 original size:20 final size:20
Alignment explanation
Indices: 30742--30779 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30732 AAAAATTTTA
*
30742 TAATTTATTATTTGTAATTG
1 TAATTTATTATATGTAATTG
30762 TAATTTATATATAT-TAAT
1 TAATTTAT-TATATGTAAT
30780 AAGTTCGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
TAATTTATTATATGTAATTG
Found at i:30968 original size:14 final size:14
Alignment explanation
Indices: 30950--31015 Score: 66
Period size: 14 Copynumber: 4.9 Consensus size: 14
30940 AGTTAATATA
30950 ATAATAATAATTAT
1 ATAATAATAATTAT
*
30964 TTAATAATAATTAT
1 ATAATAATAATTAT
* *
30978 ATAATATTTATTAT
1 ATAATAATAATTAT
* *
30992 AT--TATTTATTA-
1 ATAATAATAATTAT
31003 ATAATAATAATTA
1 ATAATAATAATTA
31016 ATTTATATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
11 2 0.05
12 9 0.20
13 7 0.16
14 26 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATAATAATAATTAT
Done.