Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168185.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_422, 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: 27437
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.45
File 1 of 2
Found at i:103 original size:14 final size:14
Alignment explanation
Indices: 86--133 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 14
76 TAAGTAATTA
86 ATAATTTAATATTT
1 ATAATTTAATATTT
100 ATAATTTATTATATATT
1 ATAATTTA--ATAT-TT
*
117 ATAAATTAATAATTT
1 ATAATTTAAT-ATTT
132 AT
1 AT
134 TATTAGTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 8 0.28
15 6 0.21
16 6 0.21
17 9 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
ATAATTTAATATTT
Found at i:110 original size:25 final size:26
Alignment explanation
Indices: 73--135 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
63 TCATAATTAA
* *
73 TTATAAGTAATTAATA-ATT-TAATAT
1 TTATAATTTATTAATATATTATAA-AT
98 TTATAATTTATT-ATATATTATAAAT
1 TTATAATTTATTAATATATTATAAAT
*
123 TAATAATTTATTA
1 TTATAATTTATTA
136 TTAGTAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
24 3 0.09
25 26 0.81
26 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
TTATAATTTATTAATATATTATAAAT
Found at i:138 original size:14 final size:14
Alignment explanation
Indices: 82--138 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
72 ATTATAAGTA
*
82 ATTAATAATTTAAT
1 ATTAATAATTTATT
*
96 ATTTATAATTTATT
1 ATTAATAATTTATT
*
110 A-T-AT-A-TTATAA
1 ATTAATAATTTAT-T
121 ATTAATAATTTATT
1 ATTAATAATTTATT
135 ATTA
1 ATTA
139 GTAAATATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
10 4 0.12
11 2 0.06
12 3 0.09
13 3 0.09
14 18 0.53
15 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTAATAATTTATT
Found at i:393 original size:15 final size:15
Alignment explanation
Indices: 373--404 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
363 AATTATACTA
*
373 TAATAATATATTAAT
1 TAATAATATATAAAT
388 TAATAATATATAAAT
1 TAATAATATATAAAT
403 TA
1 TA
405 TATTAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATAATATATAAAT
Found at i:411 original size:24 final size:24
Alignment explanation
Indices: 360--457 Score: 101
Period size: 24 Copynumber: 4.0 Consensus size: 24
350 AATATAAGCT
*
360 ATTAATTATACTATAATAATATATTA
1 ATTAATTATA-TATAA-ATTATATTA
*
386 ATTAATAATATATAAATTATATTA
1 ATTAATTATATATAAATTATATTA
* *
410 ATTATTTATATAT-GATTAATATTA
1 ATTAATTATATATAAATT-ATATTA
*
434 TTTAATTATA-ATATAATTATATTA
1 ATTAATTATATATA-AATTATATTA
458 GTAAAATTAC
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
23 5 0.08
24 39 0.64
25 8 0.13
26 9 0.15
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (24 bp):
ATTAATTATATATAAATTATATTA
Found at i:415 original size:7 final size:8
Alignment explanation
Indices: 322--448 Score: 54
Period size: 8 Copynumber: 15.9 Consensus size: 8
312 TAAGAGAAAA
322 TAATATAT
1 TAATATAT
* *
330 TATTATAA
1 TAATATAT
338 TAA-ATA-
1 TAATATAT
344 TAATATAAT
1 TAATAT-AT
**
353 ATAAGCTAT
1 -TAATATAT
362 TAAT-TA-
1 TAATATAT
* *
368 TACTATAA
1 TAATATAT
376 TAATATAT
1 TAATATAT
*
384 TAAT-TAA
1 TAATATAT
391 TAATATAT
1 TAATATAT
*
399 AAATTATAT
1 TAA-TATAT
408 TAAT-TATT
1 TAATATA-T
416 TATATATGAT
1 TA-ATAT-AT
426 TAATATTATT
1 TAATA-TA-T
436 TAAT-TA-
1 TAATATAT
442 TAATATA
1 TAATATA
449 ATTATATTAG
Statistics
Matches: 91, Mismatches: 13, Indels: 31
0.67 0.10 0.23
Matches are distributed among these distances:
6 10 0.11
7 19 0.21
8 32 0.35
9 15 0.16
10 14 0.15
11 1 0.01
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (8 bp):
TAATATAT
Found at i:819 original size:20 final size:20
Alignment explanation
Indices: 796--837 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
786 ATTAATTTTA
796 AAATATTTAATGAAATTATT
1 AAATATTTAATGAAATTATT
* *
816 AAATATTTATTGATATTATT
1 AAATATTTAATGAAATTATT
836 AA
1 AA
838 TTAATTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (20 bp):
AAATATTTAATGAAATTATT
Found at i:1148 original size:36 final size:40
Alignment explanation
Indices: 1066--1150 Score: 97
Period size: 39 Copynumber: 2.2 Consensus size: 40
1056 TTTACCCATT
* *
1066 ATAATTATAATTTATAAATTATAATATTTTATTTATTAAC
1 ATAAATATAATTTATAAATTATAATATATTATTTATTAAC
* * *
1106 AAAAATATAA-TTATCAATTATATTATATT-TTTATT-A-
1 ATAAATATAATTTATAAATTATAATATATTATTTATTAAC
1142 ATAAATATA
1 ATAAATATA
1151 GAAATTAGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
36 8 0.21
37 1 0.03
38 6 0.15
39 16 0.41
40 8 0.21
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.49
Consensus pattern (40 bp):
ATAAATATAATTTATAAATTATAATATATTATTTATTAAC
Found at i:1157 original size:39 final size:39
Alignment explanation
Indices: 1077--1178 Score: 100
Period size: 39 Copynumber: 2.6 Consensus size: 39
1067 TAATTATAAT
* *
1077 TTATAAATTATAATATTTTATTTATTAACAAAAATATAA
1 TTATAAATTATAATATATTATTTATTAACAAAAATAAAA
* * * *
1116 TTATCAATTATATTATATT-TTTATTAATAAATATAGAAA
1 TTATAAATTATAATATATTATTTATTAACAAAAATA-AAA
*
1155 TTAGTTAAATTA-AATATTTTATTT
1 TTA--TAAATTATAATATATTATTT
1179 TGAATATAGA
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
38 14 0.28
39 21 0.42
40 6 0.12
41 9 0.18
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (39 bp):
TTATAAATTATAATATATTATTTATTAACAAAAATAAAA
Found at i:1528 original size:19 final size:20
Alignment explanation
Indices: 1500--1543 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 20
1490 TAACTAAGAT
*
1500 TAAATAATAATTTATTTAATA
1 TAAATAATAA-TAATTTAATA
1521 -AAAT-ATAATAATTTAATA
1 TAAATAATAATAATTTAATA
1539 TAAAT
1 TAAAT
1544 TAGTTATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.43
19 8 0.38
20 4 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAATAATAATAATTTAATA
Found at i:1552 original size:18 final size:16
Alignment explanation
Indices: 1511--1588 Score: 61
Period size: 18 Copynumber: 4.6 Consensus size: 16
1501 AAATAATAAT
1511 TTATTTAATAAAATATAA
1 TTATTTAATAAAAT-T-A
*
1529 TAATTTAATATAAATTA
1 TTATTTAATA-AAATTA
* *
1546 GTTATTTGTATAATATTA
1 -TTATTT-AATAAAATTA
1564 TTAATTT-ATAAAATTA
1 TT-ATTTAATAAAATTA
1580 -TATTTAATA
1 TTATTTAATA
1589 GATAATTAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
14 4 0.08
15 4 0.08
16 8 0.16
17 3 0.06
18 24 0.48
19 7 0.14
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TTATTTAATAAAATTA
Found at i:1718 original size:20 final size:19
Alignment explanation
Indices: 1699--1799 Score: 52
Period size: 17 Copynumber: 5.3 Consensus size: 19
1689 TAAGTAATTA
1699 ATATATTAAATATAATATT
1 ATATATTAAATATAATATT
*
1718 ATAGAATTAAA-AT-A-ATT
1 ATA-TATTAAATATAATATT
* * *
1735 ATAGTAATAATATATATTTTTT
1 ATA-TATTAA-ATATA-ATATT
1757 AATTATAATTAAA-AT-ATATT
1 -A-TAT-ATTAAATATAATATT
*
1777 ATAT-TTAAATATAATATA
1 ATATATTAAATATAATATT
1795 ATATA
1 ATATA
1800 CATGTCAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 24
0.65 0.10 0.26
Matches are distributed among these distances:
16 5 0.08
17 13 0.21
18 13 0.21
19 8 0.13
20 9 0.15
22 4 0.07
23 3 0.05
24 6 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
ATATATTAAATATAATATT
Found at i:1779 original size:16 final size:16
Alignment explanation
Indices: 1758--1796 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
1748 ATATTTTTTA
1758 ATTATAATTAAAATAT
1 ATTATAATTAAAATAT
*
1774 ATTAT-ATTTAAATAT
1 ATTATAATTAAAATAT
*
1789 AATATAAT
1 ATTATAAT
1797 ATACATGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTATAATTAAAATAT
Found at i:1783 original size:26 final size:23
Alignment explanation
Indices: 1739--1799 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
1729 ATAATTATAG
* *
1739 TAATAATATATATTTTTTAATTA
1 TAATAAAATATATTTTTTAAATA
1762 TAATTAAAATATATTATATTTAAATA
1 TAA-TAAAATATATT-T-TTTAAATA
*
1788 TAATATAATATA
1 TAATAAAATATA
1800 CATGTCAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 3 0.09
24 10 0.31
25 9 0.28
26 10 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATAAAATATATTTTTTAAATA
Found at i:2165 original size:23 final size:24
Alignment explanation
Indices: 2102--2165 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 24
2092 AATAGTAATT
*
2102 ATTAATATTTAATGATAAATTAAA
1 ATTAATATTTAATTATAAATTAAA
* * *
2126 TTTATATAATTTTATTATTAA-TAAA
1 ATTA-AT-ATTTAATTATAAATTAAA
2151 ATTAATATTTAATTA
1 ATTAATATTTAATTA
2166 AATTTAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
23 8 0.25
24 5 0.16
25 9 0.28
26 10 0.31
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
ATTAATATTTAATTATAAATTAAA
Found at i:2167 original size:17 final size:17
Alignment explanation
Indices: 2102--2175 Score: 57
Period size: 17 Copynumber: 4.5 Consensus size: 17
2092 AATAGTAATT
*
2102 ATTAATATTTAATGATAA
1 ATTAATATTTAATTA-AA
*
2120 ATTAA-ATTT-ATATAAT
1 ATTAATATTTAAT-TAAA
* *
2136 TTTATTA-TTAA-TAAA
1 ATTAATATTTAATTAAA
2151 ATTAATATTTAATTAAA
1 ATTAATATTTAATTAAA
*
2168 TTTAATAT
1 ATTAATAT
2176 AATTATTATT
Statistics
Matches: 43, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
15 8 0.19
16 12 0.28
17 18 0.42
18 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (17 bp):
ATTAATATTTAATTAAA
Found at i:2197 original size:38 final size:38
Alignment explanation
Indices: 2081--2202 Score: 99
Period size: 42 Copynumber: 3.1 Consensus size: 38
2071 ATATTAATTG
* *
2081 AATTGAATATTAATAGTAATTATTA--ATATTTAATGA-TA
1 AATTAAAT-TTAATA-TAATTATTATTATATTTAAT-ATTT
*
2119 AATTAAATTT-ATATAATTTTATTATTAATAAAATTAATATTT
1 AATTAAATTTAATATAA--TTATTATT-AT--ATTTAATATTT
*
2161 AATTAAATTTAATATAATTATTATTATATTTCATATTGT
1 AATTAAATTTAATATAATTATTATTATATTTAATATT-T
2200 AAT
1 AAT
2203 ATTATAATTA
Statistics
Matches: 69, Mismatches: 5, Indels: 19
0.74 0.05 0.20
Matches are distributed among these distances:
35 3 0.04
36 3 0.04
37 8 0.12
38 15 0.22
39 4 0.06
40 4 0.06
41 9 0.13
42 17 0.25
43 6 0.09
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (38 bp):
AATTAAATTTAATATAATTATTATTATATTTAATATTT
Found at i:2245 original size:9 final size:8
Alignment explanation
Indices: 2173--2263 Score: 57
Period size: 8 Copynumber: 11.2 Consensus size: 8
2163 TTAAATTTAA
2173 TATAATTAT
1 TATAA-TAT
*
2182 TATTATAT
1 TATAATAT
*
2190 T-TCATAT
1 TATAATAT
*
2197 TGTAATAT
1 TATAATAT
2205 TATAAT-T
1 TATAATAT
*
2212 AATTAATAT
1 TA-TAATAT
2221 TATAACTAT
1 TATAA-TAT
2230 TATTAATAGT
1 TA-TAATA-T
2240 TATAAT-T
1 TATAATAT
2247 TAATAAT-T
1 T-ATAATAT
2255 TAT-ATAT
1 TATAATAT
2262 TA
1 TA
2264 ATAGTAATAA
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
6 2 0.03
7 15 0.22
8 28 0.41
9 17 0.25
10 6 0.09
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (8 bp):
TATAATAT
Found at i:2272 original size:35 final size:34
Alignment explanation
Indices: 2198--2272 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 34
2188 ATTTCATATT
*
2198 GTAATATTATAATTAATTAATATTATAACTATTA
1 GTAATATTATAATTAATTAATATTATAACTAATA
* *
2232 TTAATAGTTATAATTTAA-TAAT-TTATATATTAATA
1 GTAATA-TTATAA-TTAATTAATATTATA-ACTAATA
2267 GTAATA
1 GTAATA
2273 ATTTATACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
34 10 0.29
35 20 0.59
36 4 0.12
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (34 bp):
GTAATATTATAATTAATTAATATTATAACTAATA
Found at i:2436 original size:16 final size:16
Alignment explanation
Indices: 2402--2459 Score: 77
Period size: 16 Copynumber: 3.7 Consensus size: 16
2392 CTTTATACAT
2402 TATACATTAATTATAATA
1 TATACATTAA-TAT-ATA
2420 TATACATTAATATATA
1 TATACATTAATATATA
2436 TATACATT-AT-TAT-
1 TATACATTAATATATA
2449 TATACATTAAT
1 TATACATTAAT
2460 TATTAATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
13 8 0.21
14 5 0.13
15 2 0.05
16 11 0.28
17 3 0.08
18 10 0.26
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (16 bp):
TATACATTAATATATA
Found at i:2463 original size:14 final size:15
Alignment explanation
Indices: 2400--2464 Score: 73
Period size: 16 Copynumber: 4.3 Consensus size: 15
2390 TACTTTATAC
2400 ATTATACATTAATTAT
1 ATTATACATTAA-TAT
2416 AATATATACATTAATAT
1 -AT-TATACATTAATAT
2433 ATATATACATT-AT-T
1 AT-TATACATTAATAT
2447 ATTATACATTAAT-T
1 ATTATACATTAATAT
2461 ATTA
1 ATTA
2465 ATATACTTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
13 8 0.17
14 10 0.22
15 2 0.04
16 11 0.24
17 5 0.11
18 10 0.22
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATACATTAATAT
Found at i:2474 original size:29 final size:29
Alignment explanation
Indices: 2419--2496 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
2409 TAATTATAAT
2419 ATATACATTAA-TA-TATATATACATTATTA
1 ATATACATTAATTATTA-ATATACATTA-TA
*
2448 TTATACATTAATTATTAATATAC-TTATA
1 ATATACATTAATTATTAATATACATTATA
2476 ATATTA-A-TAATTATTAATATA
1 ATA-TACATTAATTATTAATATA
2497 AATAGTAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
27 14 0.32
28 5 0.11
29 15 0.34
30 8 0.18
31 2 0.05
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (29 bp):
ATATACATTAATTATTAATATACATTATA
Found at i:2478 original size:47 final size:44
Alignment explanation
Indices: 2400--2496 Score: 124
Period size: 47 Copynumber: 2.1 Consensus size: 44
2390 TACTTTATAC
2400 ATTATACATTAATTATAATATATACATTAATATATATATACATTATT
1 ATTATACATTAATTATAATATATACATTAATAT-TA-ATA-ATTATT
* *
2447 ATTATACATTAATTATTA-ATATACTTATAATATTAATAATTATT
1 ATTATACATTAATTATAATATATACAT-TAATATTAATAATTATT
*
2491 AATATA
1 ATTATA
2497 AATAGTAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
44 11 0.24
45 3 0.07
46 9 0.20
47 23 0.50
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (44 bp):
ATTATACATTAATTATAATATATACATTAATATTAATAATTATT
Found at i:2480 original size:17 final size:17
Alignment explanation
Indices: 2425--2484 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
2415 TAATATATAC
2425 ATTAATATA-TATATACATT
1 ATTAATATACT-TATA-A-T
* *
2444 ATTATTATACATTA-ATT
1 ATTAATATAC-TTATAAT
2461 ATTAATATACTTATAAT
1 ATTAATATACTTATAAT
2478 ATTAATA
1 ATTAATA
2485 ATTATTAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 3 0.09
17 19 0.56
19 9 0.26
20 2 0.06
21 1 0.03
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTAATATACTTATAAT
Found at i:2508 original size:27 final size:27
Alignment explanation
Indices: 2456--2509 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
2446 TATTATACAT
**
2456 TAATTATTAATATACTTATAATATTAA
1 TAATTATTAATATAAATATAATATTAA
2483 TAATTATTAATATAAATAGTAA-ATTAA
1 TAATTATTAATATAAATA-TAATATTAA
2510 AATAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
TAATTATTAATATAAATATAATATTAA
Found at i:2515 original size:22 final size:21
Alignment explanation
Indices: 2490--2543 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
2480 TAATAATTAT
*
2490 TAATATAAATAGTAAATTAAAA
1 TAATATAAATA-TAAACTAAAA
* *
2512 TAATATATATTATAAACTAACA
1 TAATATA-AATATAAACTAAAA
2534 TAAT-TAAATA
1 TAATATAAATA
2544 AATAGATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 3 0.11
21 2 0.07
22 19 0.70
23 3 0.11
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (21 bp):
TAATATAAATATAAACTAAAA
Found at i:2593 original size:21 final size:20
Alignment explanation
Indices: 2549--2590 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 20
2539 AAATAAATAG
2549 ATAATAATTTATTATTATTTT
1 ATAATAATTTATTATTA-TTT
2570 ATAATAATATTATTAATTATT
1 ATAATAAT-TTATT-ATTATT
2591 ATATTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATAATAATTTATTATTATTT
Found at i:3997 original size:27 final size:26
Alignment explanation
Indices: 3921--3997 Score: 66
Period size: 28 Copynumber: 2.8 Consensus size: 26
3911 TATTAAGTAC
*
3921 TATTATTTATATTATATAAATAAATTATA
1 TATTA-TTATA-TATTTAAAT-AATTATA
*
3950 TATTATT-TATATTTCTCAATAATTATCA
1 TATTATTATATA-TT-TAAATAATTAT-A
*
3978 TTTTATTATATATTTAAATA
1 TATTATTATATATTTAAATA
3998 TTAAATACAC
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
26 2 0.05
27 14 0.35
28 15 0.38
29 9 0.22
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (26 bp):
TATTATTATATATTTAAATAATTATA
Found at i:4269 original size:20 final size:21
Alignment explanation
Indices: 4231--4269 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4221 AACTATTTTA
**
4231 AAAAAATAATAATTGAATTCT
1 AAAAAATAATAATACAATTCT
4252 AAAAAATAAT-ATACAATT
1 AAAAAATAATAATACAATT
4270 ATAGTATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (21 bp):
AAAAAATAATAATACAATTCT
Found at i:4538 original size:23 final size:23
Alignment explanation
Indices: 4498--4541 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
4488 TTTAATTAAA
*
4498 ATATATTATATTTAAAACTAACC
1 ATATATTAGATTTAAAACTAACC
4521 ATATAATTAGATTT-AAACTAA
1 ATAT-ATTAGATTTAAAACTAA
4542 TAAACATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (23 bp):
ATATATTAGATTTAAAACTAACC
Found at i:5428 original size:29 final size:27
Alignment explanation
Indices: 5395--5496 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
5385 TAATTAAGTA
*
5395 ATATTAAAATATATTATCTAACAATATTT
1 ATATT-AAATATATTAT-TAATAATATTT
* **
5424 ATATTATATTATATTATTTAATTAATAAAT
1 ATATTA-AATATATTA-TTAA-TAATATTT
* *
5454 A-ATTAAATATTAATATTAATTATATTT
1 ATATTAAATA-TATTATTAATAATATTT
5481 ATATTAAATATATTAT
1 ATATTAAATATATTAT
5497 AATTAATTAT
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
27 11 0.19
28 16 0.28
29 24 0.41
30 7 0.12
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
ATATTAAATATATTATTAATAATATTT
Found at i:5446 original size:57 final size:57
Alignment explanation
Indices: 5377--5516 Score: 146
Period size: 57 Copynumber: 2.4 Consensus size: 57
5367 TCTAATTTAG
* *
5377 ATTATATATAATTAAGT-AAT-ATTAAA-ATATATTATCTAACAATATTTATATTATATTAT
1 ATTATAT-TAATTAA-TAAATAATTAAATAT-TAATAT-TAACAATATTTATATTA-AATAT
**
5436 ATTAT-TTAATTAATAAATAATTAAATATTAATATTAATTATATTTATATTAAATAT
1 ATTATATTAATTAATAAATAATTAAATATTAATATTAACAATATTTATATTAAATAT
5492 ATTATAATTAATT-ATAATATAATTA
1 ATTAT-ATTAATTAATAA-ATAATTA
5517 TATTTATTAT
Statistics
Matches: 71, Mismatches: 4, Indels: 13
0.81 0.05 0.15
Matches are distributed among these distances:
56 10 0.14
57 29 0.41
58 25 0.35
59 7 0.10
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (57 bp):
ATTATATTAATTAATAAATAATTAAATATTAATATTAACAATATTTATATTAAATAT
Found at i:5502 original size:30 final size:30
Alignment explanation
Indices: 5433--5574 Score: 101
Period size: 30 Copynumber: 5.0 Consensus size: 30
5423 TATATTATAT
*
5433 TATATTAT-TTAATTA-ATAAATAATTAAA
1 TATATTATATTAATTATATATATAATTAAA
* *
5461 TAT-TAATATTAATTATATTTAT-ATTAAA
1 TATATTATATTAATTATATATATAATTAAA
*
5489 TATATTATAATTAATTATA-ATATAATTATA
1 TATATTAT-ATTAATTATATATATAATTAAA
* *
5519 TTTATTATAATGTAA-TA-ATATA-AATTATA
1 TATATTAT-AT-TAATTATATATATAATTAAA
*
5548 -ATATTA-A-TAATT-TGATATATAACTAAA
1 TATATTATATTAATTAT-ATATATAATTAAA
5575 CTATTTTAAT
Statistics
Matches: 93, Mismatches: 10, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
24 3 0.03
25 1 0.01
26 6 0.06
27 8 0.09
28 24 0.26
29 18 0.19
30 30 0.32
31 3 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
TATATTATATTAATTATATATATAATTAAA
Found at i:5525 original size:20 final size:20
Alignment explanation
Indices: 5422--5551 Score: 92
Period size: 20 Copynumber: 6.5 Consensus size: 20
5412 CTAACAATAT
*
5422 TTATATTAT-ATTATATT-A
1 TTATAATATAATTATATTAA
*
5440 TT-TAAT-TAATAAATAATTAA
1 TTATAATATAAT-TAT-ATTAA
*
5460 ATATTAATATTAATTATATTTATA
1 TTA-TAATA-TAATTATA-TTA-A
5484 TTA-AATAT-ATTATAATTAA
1 TTATAATATAATTAT-ATTAA
*
5503 TTATAATATAATTATATTTA
1 TTATAATATAATTATATTAA
* * *
5523 TTATAATGTAATAATATAAA
1 TTATAATATAATTATATTAA
5543 TTATAATAT
1 TTATAATAT
5552 TAATAATTTG
Statistics
Matches: 88, Mismatches: 11, Indels: 24
0.72 0.09 0.20
Matches are distributed among these distances:
16 1 0.01
17 5 0.06
18 4 0.05
19 7 0.08
20 43 0.49
21 7 0.08
22 9 0.10
23 5 0.06
24 7 0.08
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (20 bp):
TTATAATATAATTATATTAA
Found at i:5528 original size:15 final size:15
Alignment explanation
Indices: 5426--5559 Score: 86
Period size: 15 Copynumber: 8.9 Consensus size: 15
5416 CAATATTTAT
5426 ATTATATTAT-ATTA
1 ATTATATTATAATTA
* *
5440 TTTA-ATTAATAAATA
1 ATTATATT-ATAATTA
5455 ATTAAATATTA-ATATTA
1 ATT--ATATTATA-ATTA
5472 ATTATATT-TATATTA
1 ATTATATTATA-ATTA
*
5487 AATATATTATAATTA
1 ATTATATTATAATTA
*
5502 ATTATAATATAATTA
1 ATTATATTATAATTA
5517 TATT-TATTATAATGTA
1 -ATTATATTATAAT-TA
*
5533 ATAATA-TA-AATT-
1 ATTATATTATAATTA
*
5545 ATAATATTAATAATT
1 ATTATATT-ATAATT
5560 TGATATATAA
Statistics
Matches: 97, Mismatches: 9, Indels: 27
0.73 0.07 0.20
Matches are distributed among these distances:
12 6 0.06
13 5 0.05
14 9 0.09
15 56 0.58
16 10 0.10
17 8 0.08
18 3 0.03
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (15 bp):
ATTATATTATAATTA
Found at i:5842 original size:29 final size:29
Alignment explanation
Indices: 5810--5865 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 29
5800 ATATTTGAAT
5810 AATTATCAAATAACTAA-AAATAA-TTATTA
1 AATTAT-AAATAA-TAACAAATAAGTTATTA
*
5839 AATTATTAATAATAACAAATAAGTTAT
1 AATTATAAATAATAACAAATAAGTTAT
5866 AAACAATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 3 0.12
28 11 0.46
29 10 0.42
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (29 bp):
AATTATAAATAATAACAAATAAGTTATTA
Found at i:6440 original size:30 final size:31
Alignment explanation
Indices: 6404--6499 Score: 92
Period size: 30 Copynumber: 3.1 Consensus size: 31
6394 TTATGAATAA
6404 TAATAATATATTATATATTAAATA-AT-AAT
1 TAATAATATATTATATATTAAATACATAAAT
* *
6433 TAAATAATTTATTA-A-ATTTAATACTATAAAT
1 T-AATAATATATTATATATTAAATAC-ATAAAT
* *
6464 TAATAATATATTATTTATTAATTTAACATAAAT
1 TAATAATATATTATATATTAA-AT-ACATAAAT
6497 TAA
1 TAA
6500 AAATTTTTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
28 7 0.13
29 2 0.04
30 24 0.45
31 4 0.08
32 4 0.08
33 10 0.19
34 2 0.04
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (31 bp):
TAATAATATATTATATATTAAATACATAAAT
Found at i:6495 original size:33 final size:38
Alignment explanation
Indices: 6422--6504 Score: 97
Period size: 37 Copynumber: 2.3 Consensus size: 38
6412 TATTATATAT
6422 TAAA-TAATAATTAAATAATTTATTAAATTTAATACTA
1 TAAATTAATAATTAAATAATTTATTAAATTTAATACTA
* *
6459 TAAATTAATAA-TATATTATTTATT-AATTT-A-AC-A
1 TAAATTAATAATTAAATAATTTATTAAATTTAATACTA
*
6492 TAAATTAAAAATT
1 TAAATTAATAATT
6505 TTTAATTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
33 11 0.27
34 3 0.07
35 1 0.02
36 5 0.12
37 15 0.37
38 6 0.15
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (38 bp):
TAAATTAATAATTAAATAATTTATTAAATTTAATACTA
Found at i:6513 original size:33 final size:38
Alignment explanation
Indices: 6437--6513 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 38
6427 AATAATTAAA
*
6437 TAATTTATTAAATTTAATACTATAAATTAATAATATAT
1 TAATTTATTAAATTTAATACTATAAATTAAAAATATAT
*
6475 T-ATTTATT-AATTT-A-AC-ATAAATTAAAAAT-TTT
1 TAATTTATTAAATTTAATACTATAAATTAAAAATATAT
6507 TAATTTA
1 TAATTTA
6514 ATTTTAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
32 3 0.08
33 17 0.47
34 2 0.06
35 1 0.03
36 5 0.14
37 7 0.19
38 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (38 bp):
TAATTTATTAAATTTAATACTATAAATTAAAAATATAT
Found at i:6999 original size:22 final size:20
Alignment explanation
Indices: 6957--6999 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
6947 TAAGCAATTT
*
6957 TTATAATTTATATTAATTAA
1 TTATAATATATATTAATTAA
6977 TTATAATATATCATTGAATTAA
1 TTATAATATAT-ATT-AATTAA
6999 T
1 T
7000 GAAGTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 3 0.15
22 7 0.35
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TTATAATATATATTAATTAA
Found at i:7239 original size:17 final size:17
Alignment explanation
Indices: 7219--7354 Score: 51
Period size: 17 Copynumber: 8.2 Consensus size: 17
7209 TAATTTATTT
7219 ATTAAATTAATAATATA
1 ATTAAATTAATAATATA
* *
7236 ATT-AACTAAGGT-GTATA
1 ATTAAATTAA--TAATATA
*
7253 ATTAAATTAAAAAT-TA
1 ATTAAATTAATAATATA
*
7269 ATT--ATTAAT-ATAACA
1 ATTAAATTAATAAT-ATA
* *
7284 ATTTAATT-AT-CTAATA
1 ATTAAATTAATAAT-ATA
*
7300 A-TAATATTATTAATATA
1 ATTAA-ATTAATAATATA
*
7317 ATTATATT-ATAATTATA
1 ATTAAATTAATAA-TATA
*
7334 AGT-AATTAATAATTATA
1 ATTAAATTAATAA-TATA
7351 ATTA
1 ATTA
7355 CTATGAATAT
Statistics
Matches: 87, Mismatches: 17, Indels: 29
0.65 0.13 0.22
Matches are distributed among these distances:
13 2 0.02
14 5 0.06
15 6 0.07
16 26 0.30
17 39 0.45
18 9 0.10
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.43
Consensus pattern (17 bp):
ATTAAATTAATAATATA
Found at i:7331 original size:23 final size:23
Alignment explanation
Indices: 7315--7374 Score: 61
Period size: 26 Copynumber: 2.6 Consensus size: 23
7305 ATTATTAATA
*
7315 TAATT-AT-ATTATAATTATAAG
1 TAATTAATAATTATAATTATAAA
7336 TAATTAATAATTATAATTACTATGAA
1 TAATTAATAATTATAATTA-TA--AA
*
7362 TATTTAATAATTA
1 TAATTAATAATTA
7375 AAGTATTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 5 0.16
22 2 0.06
23 10 0.31
24 2 0.06
26 13 0.41
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (23 bp):
TAATTAATAATTATAATTATAAA
Found at i:8309 original size:18 final size:18
Alignment explanation
Indices: 8267--8302 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8257 AACACTAAAT
8267 AATTAATAATTTAATTAC
1 AATTAATAATTTAATTAC
*
8285 AAATAATAATTTCAATTA
1 AATTAATAATTT-AATTA
8303 TATTAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
AATTAATAATTTAATTAC
Found at i:9405 original size:16 final size:16
Alignment explanation
Indices: 9386--9449 Score: 78
Period size: 16 Copynumber: 4.0 Consensus size: 16
9376 AAATTATTTT
9386 AATATTTAA-AATATTA
1 AATATTTAATAATA-TA
*
9402 AATATGTTATTAATAT-
1 AATAT-TTAATAATATA
9418 AATATTTAATAATATA
1 AATATTTAATAATATA
*
9434 AATAGTTAATAATATA
1 AATATTTAATAATATA
9450 TTAAATTTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
15 9 0.21
16 25 0.60
17 4 0.10
18 4 0.10
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
AATATTTAATAATATA
Found at i:9423 original size:32 final size:31
Alignment explanation
Indices: 9385--9449 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 31
9375 AAAATTATTT
*
9385 TAATATTTAA-AATATTAAATATGTTATTAATA
1 TAATATTTAATAATA-TAAATA-GTTAATAATA
9417 TAATATTTAATAATATAAATAGTTAATAATA
1 TAATATTTAATAATATAAATAGTTAATAATA
9448 TA
1 TA
9450 TTAAATTTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
31 11 0.35
32 16 0.52
33 4 0.13
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (31 bp):
TAATATTTAATAATATAAATAGTTAATAATA
Found at i:9921 original size:17 final size:16
Alignment explanation
Indices: 9889--9942 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
9879 ATAATATATC
9889 AATAATTAA-A-TA-T
1 AATAATTAATATTAGT
9902 AATAATTAATTATTAGT
1 AATAATTAA-TATTAGT
* *
9919 AATATACTAATATTATT
1 AATA-ATTAATATTAGT
9936 AATAATT
1 AATAATT
9943 TTAAATAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 9 0.27
15 1 0.03
16 4 0.12
17 15 0.45
18 4 0.12
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (16 bp):
AATAATTAATATTAGT
Found at i:9937 original size:58 final size:57
Alignment explanation
Indices: 9875--10080 Score: 156
Period size: 57 Copynumber: 3.6 Consensus size: 57
9865 TATTATAAAA
* *
9875 ATTAATAATATATCAATAATTAAATATAATAATTAATTATTAGTAATATACTAATATT
1 ATTAATAATATAT-AATAATTAAATATAATAATTAATTATTATTAATATAATAATATT
* ** * * * *
9933 ATTAATAAT-TTTAAATAATTAAA-ATTTTATATTACTCATTATTTATAAAATCAATATT
1 ATTAATAATATAT-AATAATTAAATATAATA-ATTAATTATTATTAATATAAT-AATATT
* * * *
9991 ATAAATAATATTTATAATATTTAAAT-TAATAATATAATT-TAATTAATAT-TTAATATT
1 ATTAATAATA--TATAATAATTAAATATAATAAT-TAATTATTATTAATATAATAATATT
* *
10048 ATT-ATATTATATAATAATT-ATTATAAATAATTA
1 ATTAATAATATATAATAATTAAATAT-AATAATTA
10081 GTTTATTTAT
Statistics
Matches: 114, Mismatches: 25, Indels: 22
0.71 0.16 0.14
Matches are distributed among these distances:
53 2 0.02
54 12 0.11
55 6 0.05
56 9 0.08
57 35 0.31
58 24 0.21
59 9 0.08
60 15 0.13
61 2 0.02
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.47
Consensus pattern (57 bp):
ATTAATAATATATAATAATTAAATATAATAATTAATTATTATTAATATAATAATATT
Found at i:10011 original size:21 final size:20
Alignment explanation
Indices: 9985--10078 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
9975 TTATAAAATC
9985 AATATTATAAATAATATTTAT
1 AATATTATAAATAATA-TTAT
*
10006 AATATT-TAAATTAATAATAT
1 AATATTATAAA-TAATATTAT
*
10026 -A-ATT-TAATTAATATT-T
1 AATATTATAAATAATATTAT
* * *
10042 AATATTATTATATTATATAAT
1 AATATTA-TAAATAATATTAT
10063 AATTATTATAAATAAT
1 AA-TATTATAAATAAT
10079 TAGTTTATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
16 1 0.02
17 7 0.12
18 9 0.16
19 1 0.02
20 14 0.25
21 20 0.35
22 5 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AATATTATAAATAATATTAT
Found at i:10062 original size:29 final size:29
Alignment explanation
Indices: 10005--10075 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
9995 ATAATATTTA
*
10005 TAATATTTAAATTAATAATATAATTTAAT
1 TAATATTTAAATTAATAATATAATATAAT
* *
10034 TAATATTTAATATT-ATTATATTATATAA-
1 TAATATTTAA-ATTAATAATATAATATAAT
10062 TAATTATTATAAAT
1 TAA-TATT-TAAAT
10076 AATTAGTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 3 0.08
29 27 0.75
30 6 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TAATATTTAAATTAATAATATAATATAAT
Found at i:10076 original size:13 final size:14
Alignment explanation
Indices: 9848--10080 Score: 53
Period size: 13 Copynumber: 16.1 Consensus size: 14
9838 TAGCTATTTC
*
9848 ATTATATAATAAAAT
1 ATTATATAAT-AATT
*
9863 ATTATTATAAAAATT
1 ATTA-TATAATAATT
9878 AATAATATATCAATAATT
1 -AT--TATAT-AATAATT
*
9896 A-AATATAATAATT
1 ATTATATAATAATT
9909 AATTATTAGTAATATACTAAT
1 -ATTA-TA-TAATA-A-T--T
9930 ATTAT-TAATAATT
1 ATTATATAATAATT
*
9943 -TTAAATAATTAAAATT
1 ATTATATAA-T--AATT
* *
9959 -TTATATTACTCATT
1 ATTATA-TAATAATT
*
9973 ATTTATAAAATCAA-T
1 A-TTATATAAT-AATT
9988 ATTATA-AATAA-T
1 ATTATATAATAATT
*
10000 ATT-TATAATATTT
1 ATTATATAATAATT
*
10013 A-AAT-TAATAA-T
1 ATTATATAATAATT
* *
10024 ATAATTTAATTAA-T
1 ATTATATAA-TAATT
* *
10038 ATT-TAATATTATTAT
1 ATTAT-ATAATAAT-T
10053 ATTATATAATAATT
1 ATTATATAATAATT
10067 ATTATA-AATAATT
1 ATTATATAATAATT
10080 A
1 A
10081 GTTTATTTAT
Statistics
Matches: 166, Mismatches: 21, Indels: 64
0.66 0.08 0.25
Matches are distributed among these distances:
11 4 0.02
12 21 0.13
13 31 0.19
14 29 0.17
15 23 0.14
16 26 0.16
17 16 0.10
18 9 0.05
19 2 0.01
20 4 0.02
21 1 0.01
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (14 bp):
ATTATATAATAATT
Found at i:10699 original size:14 final size:14
Alignment explanation
Indices: 10682--10729 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 14
10672 TAAGTAATTA
10682 ATAATTTAATATTT
1 ATAATTTAATATTT
10696 ATAATTTATTATATATT
1 ATAATTTA--ATAT-TT
*
10713 ATAAATTAATAATTT
1 ATAATTTAAT-ATTT
10728 AT
1 AT
10730 TATTAGTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 8 0.28
15 6 0.21
16 6 0.21
17 9 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
ATAATTTAATATTT
Found at i:10706 original size:25 final size:26
Alignment explanation
Indices: 10669--10731 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
10659 TCATAATTAA
* *
10669 TTATAAGTAATTAATA-ATT-TAATAT
1 TTATAATTTATTAATATATTATAA-AT
10694 TTATAATTTATT-ATATATTATAAAT
1 TTATAATTTATTAATATATTATAAAT
*
10719 TAATAATTTATTA
1 TTATAATTTATTA
10732 TTAGTAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
24 3 0.09
25 26 0.81
26 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
TTATAATTTATTAATATATTATAAAT
Found at i:10734 original size:14 final size:14
Alignment explanation
Indices: 10678--10734 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
10668 ATTATAAGTA
*
10678 ATTAATAATTTAAT
1 ATTAATAATTTATT
*
10692 ATTTATAATTTATT
1 ATTAATAATTTATT
*
10706 A-T-AT-A-TTATAA
1 ATTAATAATTTAT-T
10717 ATTAATAATTTATT
1 ATTAATAATTTATT
10731 ATTA
1 ATTA
10735 GTAAATATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
10 4 0.12
11 2 0.06
12 3 0.09
13 3 0.09
14 18 0.53
15 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTAATAATTTATT
Found at i:10989 original size:15 final size:15
Alignment explanation
Indices: 10969--11000 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10959 AATTATACTA
*
10969 TAATAATATATTAAT
1 TAATAATATATAAAT
10984 TAATAATATATAAAT
1 TAATAATATATAAAT
10999 TA
1 TA
11001 TATTAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATAATATATAAAT
Found at i:11007 original size:24 final size:24
Alignment explanation
Indices: 10956--11053 Score: 101
Period size: 24 Copynumber: 4.0 Consensus size: 24
10946 AATATAAGCT
*
10956 ATTAATTATACTATAATAATATATTA
1 ATTAATTATA-TATAA-ATTATATTA
*
10982 ATTAATAATATATAAATTATATTA
1 ATTAATTATATATAAATTATATTA
* *
11006 ATTATTTATATAT-GATTAATATTA
1 ATTAATTATATATAAATT-ATATTA
*
11030 TTTAATTATA-ATATAATTATATTA
1 ATTAATTATATATA-AATTATATTA
11054 GTAAAATTAC
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
23 5 0.08
24 39 0.64
25 8 0.13
26 9 0.15
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (24 bp):
ATTAATTATATATAAATTATATTA
Found at i:11011 original size:7 final size:8
Alignment explanation
Indices: 10918--11044 Score: 54
Period size: 8 Copynumber: 15.9 Consensus size: 8
10908 TAAGAGAAAA
10918 TAATATAT
1 TAATATAT
* *
10926 TATTATAA
1 TAATATAT
10934 TAA-ATA-
1 TAATATAT
10940 TAATATAAT
1 TAATAT-AT
**
10949 ATAAGCTAT
1 -TAATATAT
10958 TAAT-TA-
1 TAATATAT
* *
10964 TACTATAA
1 TAATATAT
10972 TAATATAT
1 TAATATAT
*
10980 TAAT-TAA
1 TAATATAT
10987 TAATATAT
1 TAATATAT
*
10995 AAATTATAT
1 TAA-TATAT
11004 TAAT-TATT
1 TAATATA-T
11012 TATATATGAT
1 TA-ATAT-AT
11022 TAATATTATT
1 TAATA-TA-T
11032 TAAT-TA-
1 TAATATAT
11038 TAATATA
1 TAATATA
11045 ATTATATTAG
Statistics
Matches: 91, Mismatches: 13, Indels: 31
0.67 0.10 0.23
Matches are distributed among these distances:
6 10 0.11
7 19 0.21
8 32 0.35
9 15 0.16
10 14 0.15
11 1 0.01
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (8 bp):
TAATATAT
Found at i:11296 original size:17 final size:17
Alignment explanation
Indices: 11242--11296 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
11232 TTCAAATAGT
11242 ATAAT-TTATCAATTATA
1 ATAATATTAT-AATTATA
*
11259 ATAATCATT-TATTTACT-
1 ATAAT-ATTATAATTA-TA
11276 ATAATATTATAATTATA
1 ATAATATTATAATTATA
11293 ATAA
1 ATAA
11297 ATATATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
16 4 0.13
17 23 0.74
18 2 0.06
19 2 0.06
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
ATAATATTATAATTATA
Found at i:11414 original size:19 final size:19
Alignment explanation
Indices: 11385--11431 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
11375 GGATAATAAT
11385 TAATT-TTAAA-TATTTAA
1 TAATTATTAAATTATTTAA
11402 TAAATTATTAAATTATTTAA
1 T-AATTATTAAATTATTTAA
*
11422 TGATTATTAA
1 TAATTATTAA
11432 TTAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 1 0.04
18 4 0.15
19 13 0.50
20 8 0.31
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TAATTATTAAATTATTTAA
Found at i:12117 original size:19 final size:20
Alignment explanation
Indices: 12089--12132 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 20
12079 TAACTAAGAT
*
12089 TAAATAATAATTTATTTAATA
1 TAAATAATAA-TAATTTAATA
12110 -AAAT-ATAATAATTTAATA
1 TAAATAATAATAATTTAATA
12128 TAAAT
1 TAAAT
12133 TAGTTATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.43
19 8 0.38
20 4 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAATAATAATAATTTAATA
Found at i:12141 original size:18 final size:16
Alignment explanation
Indices: 12100--12177 Score: 61
Period size: 18 Copynumber: 4.6 Consensus size: 16
12090 AAATAATAAT
12100 TTATTTAATAAAATATAA
1 TTATTTAATAAAAT-T-A
*
12118 TAATTTAATATAAATTA
1 TTATTTAATA-AAATTA
* *
12135 GTTATTTGTATAATATTA
1 -TTATTT-AATAAAATTA
12153 TTAATTT-ATAAAATTA
1 TT-ATTTAATAAAATTA
12169 -TATTTAATA
1 TTATTTAATA
12178 GATAATTAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
14 4 0.08
15 4 0.08
16 8 0.16
17 3 0.06
18 24 0.48
19 7 0.14
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TTATTTAATAAAATTA
Found at i:12307 original size:20 final size:19
Alignment explanation
Indices: 12288--12388 Score: 52
Period size: 17 Copynumber: 5.3 Consensus size: 19
12278 TAAGTAATTA
12288 ATATATTAAATATAATATT
1 ATATATTAAATATAATATT
*
12307 ATAGAATTAAA-AT-A-ATT
1 ATA-TATTAAATATAATATT
* * *
12324 ATAGTAATAATATATATTTTTT
1 ATA-TATTAA-ATATA-ATATT
12346 AATTATAATTAAA-AT-ATATT
1 -A-TAT-ATTAAATATAATATT
*
12366 ATAT-TTAAATATAATATA
1 ATATATTAAATATAATATT
12384 ATATA
1 ATATA
12389 CATGTCAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 24
0.65 0.10 0.26
Matches are distributed among these distances:
16 5 0.08
17 13 0.21
18 13 0.21
19 8 0.13
20 9 0.15
22 4 0.07
23 3 0.05
24 6 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
ATATATTAAATATAATATT
Found at i:12368 original size:16 final size:16
Alignment explanation
Indices: 12347--12385 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
12337 ATATTTTTTA
12347 ATTATAATTAAAATAT
1 ATTATAATTAAAATAT
*
12363 ATTAT-ATTTAAATAT
1 ATTATAATTAAAATAT
*
12378 AATATAAT
1 ATTATAAT
12386 ATACATGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTATAATTAAAATAT
Found at i:12372 original size:26 final size:23
Alignment explanation
Indices: 12328--12388 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
12318 ATAATTATAG
* *
12328 TAATAATATATATTTTTTAATTA
1 TAATAAAATATATTTTTTAAATA
12351 TAATTAAAATATATTATATTTAAATA
1 TAA-TAAAATATATT-T-TTTAAATA
*
12377 TAATATAATATA
1 TAATAAAATATA
12389 CATGTCAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 3 0.09
24 10 0.31
25 9 0.28
26 10 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATAAAATATATTTTTTAAATA
Found at i:12716 original size:26 final size:25
Alignment explanation
Indices: 12687--12743 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 25
12677 TATTAATAGT
12687 AATTAT-TAATATTTATGATAAATTAA
1 AATTATATAAT-TTTATGATAAA-TAA
* *
12713 AATTTATATAATTTTATTATTAATAA
1 AA-TTATATAATTTTATGATAAATAA
12739 AATTA
1 AATTA
12744 ATATTTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 3 0.11
26 7 0.26
27 13 0.48
28 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
AATTATATAATTTTATGATAAATAA
Found at i:12749 original size:23 final size:24
Alignment explanation
Indices: 12691--12754 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
12681 AATAGTAATT
*
12691 ATTAATA-TTTATGATAAATTAAA
1 ATTAATATTTTATTATAAATTAAA
*
12714 ATTTATATAATTTTATTATTAA-TAAA
1 A-TTA-AT-ATTTTATTATAAATTAAA
*
12740 ATTAATATTTAATTA
1 ATTAATATTTTATTA
12755 AATTTAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
23 9 0.26
24 5 0.15
25 5 0.15
26 6 0.18
27 9 0.26
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
ATTAATATTTTATTATAAATTAAA
Found at i:12756 original size:17 final size:16
Alignment explanation
Indices: 12691--12764 Score: 53
Period size: 17 Copynumber: 4.5 Consensus size: 16
12681 AATAGTAATT
12691 ATTAATATTT-ATGATAA
1 ATTAATATTTAAT-A-AA
* *
12708 ATTAAAATTTATATAAT
1 ATTAATATTTA-ATAAA
* *
12725 TTTATTA-TTAATAAA
1 ATTAATATTTAATAAA
12740 ATTAATATTTAATTAAA
1 ATTAATATTTAA-TAAA
*
12757 TTTAATAT
1 ATTAATAT
12765 AATTATTATT
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
15 9 0.20
16 7 0.16
17 25 0.57
18 1 0.02
19 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (16 bp):
ATTAATATTTAATAAA
Found at i:12757 original size:16 final size:17
Alignment explanation
Indices: 12732--12764 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
12722 AATTTTATTA
12732 TTAATAAAA-TTAATAT
1 TTAATAAAATTTAATAT
*
12748 TTAATTAAATTTAATAT
1 TTAATAAAATTTAATAT
12765 AATTATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAATAAAATTTAATAT
Found at i:12834 original size:9 final size:8
Alignment explanation
Indices: 12762--12852 Score: 57
Period size: 8 Copynumber: 11.2 Consensus size: 8
12752 TTAAATTTAA
12762 TATAATTAT
1 TATAA-TAT
*
12771 TATTATAT
1 TATAATAT
*
12779 T-TCATAT
1 TATAATAT
*
12786 TGTAATAT
1 TATAATAT
12794 TATAAT-T
1 TATAATAT
*
12801 AATTAATAT
1 TA-TAATAT
12810 TATAACTAT
1 TATAA-TAT
12819 TATTAATAGT
1 TA-TAATA-T
12829 TATAAT-T
1 TATAATAT
12836 TAATAAT-T
1 T-ATAATAT
12844 TAT-ATAT
1 TATAATAT
12851 TA
1 TA
12853 ATAGTAATAA
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
6 2 0.03
7 15 0.22
8 28 0.41
9 17 0.25
10 6 0.09
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (8 bp):
TATAATAT
Found at i:12861 original size:35 final size:33
Alignment explanation
Indices: 12787--12900 Score: 81
Period size: 35 Copynumber: 3.3 Consensus size: 33
12777 ATTTCATATT
* *
12787 GTAATATTATAATTAATTAATATTATA-ACTATTA
1 GTAATATTATAATTAA-TAAT-TTATATATTAATA
*
12821 TTAATAGTTATAATTTAATAATTTATATATTAATA
1 GTAATA-TTATAA-TTAATAATTTATATATTAATA
*
12856 GTAATAATTTATAACTT-AT-ATTGATATAATTAATA
1 GTAAT-A-TTATAA-TTAATAATTTATAT-ATTAATA
*
12891 TTAATTATTA
1 GTAA-TATTA
12901 CGAATAATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
34 20 0.30
35 32 0.48
36 14 0.21
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (33 bp):
GTAATATTATAATTAATAATTTATATATTAATA
Found at i:12862 original size:29 final size:28
Alignment explanation
Indices: 12804--12876 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 28
12794 TATAATTAAT
*
12804 TAATATTATAAC-TAT-TATTAATAGTTA
1 TAAT-TTATAACTTATATATTAATAGTAA
*
12831 TAATTTAATAATTTATATATTAATAGTAA
1 TAATTT-ATAACTTATATATTAATAGTAA
12860 TAATTTATAACTTATAT
1 TAATTTATAACTTATAT
12877 TGATATAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
26 2 0.05
27 8 0.20
28 13 0.32
29 17 0.43
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (28 bp):
TAATTTATAACTTATATATTAATAGTAA
Found at i:12889 original size:29 final size:27
Alignment explanation
Indices: 12790--12890 Score: 75
Period size: 29 Copynumber: 3.6 Consensus size: 27
12780 TCATATTGTA
12790 ATATT-ATAATTAATTAATATTATAAC-T
1 ATATTAATAATTAA-TAAT-TTATAACTT
* *
12817 ATTATTAATAGTT-ATAATTTAATAATTTAT
1 A-TATTAATAATTAATAATTT-ATAA-CT-T
*
12847 ATATTAAT-AGTAATAATTTATAACTT
1 ATATTAATAATTAATAATTTATAACTT
12873 ATATTGATATAATTAATA
1 ATATT-A-ATAATTAATA
12891 TTAATTATTA
Statistics
Matches: 58, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
26 8 0.14
27 11 0.19
28 12 0.21
29 25 0.43
30 2 0.03
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTAATAATTAATAATTTATAACTT
Found at i:13012 original size:18 final size:16
Alignment explanation
Indices: 12991--13049 Score: 86
Period size: 16 Copynumber: 3.7 Consensus size: 16
12981 CTTTATACAT
12991 TATACATTAATTATAATA
1 TATACATTAA-TAT-ATA
13009 TATACATTAATATATA
1 TATACATTAATATATA
13025 TATACATTAAT-TAT-
1 TATACATTAATATATA
13039 TATACATTAAT
1 TATACATTAAT
13050 TATTAATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.27
15 3 0.07
16 14 0.34
17 3 0.07
18 10 0.24
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (16 bp):
TATACATTAATATATA
Found at i:13050 original size:14 final size:15
Alignment explanation
Indices: 12989--13054 Score: 82
Period size: 14 Copynumber: 4.3 Consensus size: 15
12979 TACTTTATAC
12989 ATTATACATTAATTAT
1 ATTATACATTAA-TAT
13005 AATATATACATTAATAT
1 -AT-TATACATTAATAT
13022 ATATATACATTAAT-T
1 AT-TATACATTAATAT
13037 ATTATACATTAAT-T
1 ATTATACATTAATAT
13051 ATTA
1 ATTA
13055 ATATACTTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
14 16 0.33
15 3 0.06
16 14 0.29
17 5 0.10
18 10 0.21
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTATACATTAATAT
Found at i:13098 original size:27 final size:27
Alignment explanation
Indices: 13046--13099 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
13036 TATTATACAT
**
13046 TAATTATTAATATACTTATAATATTAA
1 TAATTATTAATATAAATATAATATTAA
13073 TAATTATTAATATAAATAGTAA-ATTAA
1 TAATTATTAATATAAATA-TAATATTAA
13100 AATAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
TAATTATTAATATAAATATAATATTAA
Found at i:13105 original size:22 final size:21
Alignment explanation
Indices: 13080--13133 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
13070 TAATAATTAT
*
13080 TAATATAAATAGTAAATTAAAA
1 TAATATAAATA-TAAACTAAAA
* *
13102 TAATATATATTATAAACTAACA
1 TAATATA-AATATAAACTAAAA
13124 TAAT-TAAATA
1 TAATATAAATA
13134 AATAGATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 3 0.11
21 2 0.07
22 19 0.70
23 3 0.11
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (21 bp):
TAATATAAATATAAACTAAAA
Found at i:13183 original size:21 final size:20
Alignment explanation
Indices: 13139--13180 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 20
13129 AAATAAATAG
13139 ATAATAATTTATTATTATTTT
1 ATAATAATTTATTATTA-TTT
13160 ATAATAATATTATTAATTATT
1 ATAATAAT-TTATT-ATTATT
13181 ATATTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATAATAATTTATTATTATTT
Found at i:14587 original size:27 final size:26
Alignment explanation
Indices: 14511--14587 Score: 66
Period size: 28 Copynumber: 2.8 Consensus size: 26
14501 TATTAAGTAC
*
14511 TATTATTTATATTATATAAATAAATTATA
1 TATTA-TTATA-TATTTAAAT-AATTATA
*
14540 TATTATT-TATATTTCTCAATAATTATCA
1 TATTATTATATA-TT-TAAATAATTAT-A
*
14568 TTTTATTATATATTTAAATA
1 TATTATTATATATTTAAATA
14588 TTAAATACAC
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
26 2 0.05
27 14 0.35
28 15 0.38
29 9 0.22
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (26 bp):
TATTATTATATATTTAAATAATTATA
Found at i:14859 original size:20 final size:21
Alignment explanation
Indices: 14821--14859 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14811 AACTATTTTA
**
14821 AAAAAATAATAATTGAATTCT
1 AAAAAATAATAATACAATTCT
14842 AAAAAATAAT-ATACAATT
1 AAAAAATAATAATACAATT
14860 ATAGTATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (21 bp):
AAAAAATAATAATACAATTCT
Found at i:15128 original size:23 final size:23
Alignment explanation
Indices: 15088--15131 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
15078 TTTAATTAAA
*
15088 ATATATTATATTTAAAACTAACC
1 ATATATTAGATTTAAAACTAACC
15111 ATATAATTAGATTT-AAACTAA
1 ATAT-ATTAGATTTAAAACTAA
15132 TAAACATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (23 bp):
ATATATTAGATTTAAAACTAACC
Found at i:16017 original size:29 final size:27
Alignment explanation
Indices: 15984--16085 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
15974 TAATTAAGTA
*
15984 ATATTAAAATATATTATCTAACAATATTT
1 ATATT-AAATATATTAT-TAATAATATTT
* **
16013 ATATTATATTATATTATTTAATTAATAAAT
1 ATATTA-AATATATTA-TTAA-TAATATTT
* *
16043 A-ATTAAATATTAATATTAATTATATTT
1 ATATTAAATA-TATTATTAATAATATTT
16070 ATATTAAATATATTAT
1 ATATTAAATATATTAT
16086 AATTAATTAT
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
27 11 0.19
28 16 0.28
29 24 0.41
30 7 0.12
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
ATATTAAATATATTATTAATAATATTT
Found at i:16035 original size:57 final size:57
Alignment explanation
Indices: 15966--16105 Score: 146
Period size: 57 Copynumber: 2.4 Consensus size: 57
15956 TCTAATTTAG
* *
15966 ATTATATATAATTAAGT-AAT-ATTAAA-ATATATTATCTAACAATATTTATATTATATTAT
1 ATTATAT-TAATTAA-TAAATAATTAAATAT-TAATAT-TAACAATATTTATATTA-AATAT
**
16025 ATTAT-TTAATTAATAAATAATTAAATATTAATATTAATTATATTTATATTAAATAT
1 ATTATATTAATTAATAAATAATTAAATATTAATATTAACAATATTTATATTAAATAT
16081 ATTATAATTAATT-ATAATATAATTA
1 ATTAT-ATTAATTAATAA-ATAATTA
16106 TATTTATTAT
Statistics
Matches: 71, Mismatches: 4, Indels: 13
0.81 0.05 0.15
Matches are distributed among these distances:
56 10 0.14
57 29 0.41
58 25 0.35
59 7 0.10
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (57 bp):
ATTATATTAATTAATAAATAATTAAATATTAATATTAACAATATTTATATTAAATAT
Found at i:16091 original size:30 final size:30
Alignment explanation
Indices: 16022--16163 Score: 101
Period size: 30 Copynumber: 5.0 Consensus size: 30
16012 TATATTATAT
*
16022 TATATTAT-TTAATTA-ATAAATAATTAAA
1 TATATTATATTAATTATATATATAATTAAA
* *
16050 TAT-TAATATTAATTATATTTAT-ATTAAA
1 TATATTATATTAATTATATATATAATTAAA
*
16078 TATATTATAATTAATTATA-ATATAATTATA
1 TATATTAT-ATTAATTATATATATAATTAAA
* *
16108 TTTATTATAATGTAA-TA-ATATA-AATTATA
1 TATATTAT-AT-TAATTATATATATAATTAAA
*
16137 -ATATTA-A-TAATT-TGATATATAACTAAA
1 TATATTATATTAATTAT-ATATATAATTAAA
16164 CTATTTTAAT
Statistics
Matches: 93, Mismatches: 10, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
24 3 0.03
25 1 0.01
26 6 0.06
27 8 0.09
28 24 0.26
29 18 0.19
30 30 0.32
31 3 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
TATATTATATTAATTATATATATAATTAAA
Found at i:16114 original size:20 final size:20
Alignment explanation
Indices: 16011--16140 Score: 92
Period size: 20 Copynumber: 6.5 Consensus size: 20
16001 CTAACAATAT
*
16011 TTATATTAT-ATTATATT-A
1 TTATAATATAATTATATTAA
*
16029 TT-TAAT-TAATAAATAATTAA
1 TTATAATATAAT-TAT-ATTAA
*
16049 ATATTAATATTAATTATATTTATA
1 TTA-TAATA-TAATTATA-TTA-A
16073 TTA-AATAT-ATTATAATTAA
1 TTATAATATAATTAT-ATTAA
*
16092 TTATAATATAATTATATTTA
1 TTATAATATAATTATATTAA
* * *
16112 TTATAATGTAATAATATAAA
1 TTATAATATAATTATATTAA
16132 TTATAATAT
1 TTATAATAT
16141 TAATAATTTG
Statistics
Matches: 88, Mismatches: 11, Indels: 24
0.72 0.09 0.20
Matches are distributed among these distances:
16 1 0.01
17 5 0.06
18 4 0.05
19 7 0.08
20 43 0.49
21 7 0.08
22 9 0.10
23 5 0.06
24 7 0.08
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (20 bp):
TTATAATATAATTATATTAA
Found at i:16117 original size:15 final size:15
Alignment explanation
Indices: 16015--16148 Score: 86
Period size: 15 Copynumber: 8.9 Consensus size: 15
16005 CAATATTTAT
16015 ATTATATTAT-ATTA
1 ATTATATTATAATTA
* *
16029 TTTA-ATTAATAAATA
1 ATTATATT-ATAATTA
16044 ATTAAATATTA-ATATTA
1 ATT--ATATTATA-ATTA
16061 ATTATATT-TATATTA
1 ATTATATTATA-ATTA
*
16076 AATATATTATAATTA
1 ATTATATTATAATTA
*
16091 ATTATAATATAATTA
1 ATTATATTATAATTA
16106 TATT-TATTATAATGTA
1 -ATTATATTATAAT-TA
*
16122 ATAATA-TA-AATT-
1 ATTATATTATAATTA
*
16134 ATAATATTAATAATT
1 ATTATATT-ATAATT
16149 TGATATATAA
Statistics
Matches: 97, Mismatches: 9, Indels: 27
0.73 0.07 0.20
Matches are distributed among these distances:
12 6 0.06
13 5 0.05
14 9 0.09
15 56 0.58
16 10 0.10
17 8 0.08
18 3 0.03
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (15 bp):
ATTATATTATAATTA
Found at i:16431 original size:29 final size:29
Alignment explanation
Indices: 16399--16454 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 29
16389 ATATTTGAAT
16399 AATTATCAAATAACTAA-AAATAA-TTATTA
1 AATTAT-AAATAA-TAACAAATAAGTTATTA
*
16428 AATTATTAATAATAACAAATAAGTTAT
1 AATTATAAATAATAACAAATAAGTTAT
16455 AAACAATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 3 0.12
28 11 0.46
29 10 0.42
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (29 bp):
AATTATAAATAATAACAAATAAGTTATTA
Found at i:16763 original size:20 final size:20
Alignment explanation
Indices: 16738--16782 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
16728 GAATACTAAT
*
16738 TTAAATA-ATATTTCAAAAAA
1 TTAAATAGAGATTT-AAAAAA
16758 TTAAATAGAGATTTAAAAAA
1 TTAAATAGAGATTTAAAAAA
16778 -TAAAT
1 TTAAAT
16783 GTGTTAGCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 5 0.22
20 13 0.57
21 5 0.22
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (20 bp):
TTAAATAGAGATTTAAAAAA
Found at i:17039 original size:30 final size:31
Alignment explanation
Indices: 17003--17098 Score: 92
Period size: 30 Copynumber: 3.1 Consensus size: 31
16993 TTATGAATAA
17003 TAATAATATATTATATATTAAATA-AT-AAT
1 TAATAATATATTATATATTAAATACATAAAT
* *
17032 TAAATAATTTATTA-A-ATTTAATACTATAAAT
1 T-AATAATATATTATATATTAAATAC-ATAAAT
* *
17063 TAATAATATATTATTTATTAATTTAACATAAAT
1 TAATAATATATTATATATTAA-AT-ACATAAAT
17096 TAA
1 TAA
17099 AAATTTTTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
28 7 0.13
29 2 0.04
30 24 0.45
31 4 0.08
32 4 0.08
33 10 0.19
34 2 0.04
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (31 bp):
TAATAATATATTATATATTAAATACATAAAT
Found at i:17094 original size:33 final size:38
Alignment explanation
Indices: 17021--17103 Score: 97
Period size: 37 Copynumber: 2.3 Consensus size: 38
17011 TATTATATAT
17021 TAAA-TAATAATTAAATAATTTATTAAATTTAATACTA
1 TAAATTAATAATTAAATAATTTATTAAATTTAATACTA
* *
17058 TAAATTAATAA-TATATTATTTATT-AATTT-A-AC-A
1 TAAATTAATAATTAAATAATTTATTAAATTTAATACTA
*
17091 TAAATTAAAAATT
1 TAAATTAATAATT
17104 TTTAATTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
33 11 0.27
34 3 0.07
35 1 0.02
36 5 0.12
37 15 0.37
38 6 0.15
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (38 bp):
TAAATTAATAATTAAATAATTTATTAAATTTAATACTA
Found at i:17112 original size:33 final size:38
Alignment explanation
Indices: 17036--17112 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 38
17026 AATAATTAAA
*
17036 TAATTTATTAAATTTAATACTATAAATTAATAATATAT
1 TAATTTATTAAATTTAATACTATAAATTAAAAATATAT
*
17074 T-ATTTATT-AATTT-A-AC-ATAAATTAAAAAT-TTT
1 TAATTTATTAAATTTAATACTATAAATTAAAAATATAT
17106 TAATTTA
1 TAATTTA
17113 ATTTTAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
32 3 0.08
33 17 0.47
34 2 0.06
35 1 0.03
36 5 0.14
37 7 0.19
38 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (38 bp):
TAATTTATTAAATTTAATACTATAAATTAAAAATATAT
Found at i:17596 original size:22 final size:20
Alignment explanation
Indices: 17554--17596 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
17544 TAAGCAATTT
*
17554 TTATAATTTATATTAATTAA
1 TTATAATATATATTAATTAA
17574 TTATAATATATCATTGAATTAA
1 TTATAATATAT-ATT-AATTAA
17596 T
1 T
17597 GAAGTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 3 0.15
22 7 0.35
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TTATAATATATATTAATTAA
Found at i:18900 original size:18 final size:18
Alignment explanation
Indices: 18858--18893 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18848 AACACTAAAT
18858 AATTAATAATTTAATTAC
1 AATTAATAATTTAATTAC
*
18876 AAATAATAATTTCAATTA
1 AATTAATAATTT-AATTA
18894 TATTAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
AATTAATAATTTAATTAC
Found at i:20593 original size:21 final size:20
Alignment explanation
Indices: 20567--20660 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
20557 TTATAAAATC
20567 AATATTATAAATAATATTTAT
1 AATATTATAAATAATA-TTAT
*
20588 AATATT-TAAATTAATAATAT
1 AATATTATAAA-TAATATTAT
*
20608 -A-ATT-TAATTAATATT-T
1 AATATTATAAATAATATTAT
* * *
20624 AATATTATTATATTATATAAT
1 AATATTA-TAAATAATATTAT
20645 AATTATTATAAATAAT
1 AA-TATTATAAATAAT
20661 TAGTTTATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
16 1 0.02
17 7 0.12
18 9 0.16
19 1 0.02
20 14 0.25
21 20 0.35
22 5 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AATATTATAAATAATATTAT
Found at i:20644 original size:29 final size:29
Alignment explanation
Indices: 20587--20657 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
20577 ATAATATTTA
*
20587 TAATATTTAAATTAATAATATAATTTAAT
1 TAATATTTAAATTAATAATATAATATAAT
* *
20616 TAATATTTAATATT-ATTATATTATATAA-
1 TAATATTTAA-ATTAATAATATAATATAAT
20644 TAATTATTATAAAT
1 TAA-TATT-TAAAT
20658 AATTAGTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 3 0.08
29 27 0.75
30 6 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TAATATTTAAATTAATAATATAATATAAT
Found at i:20658 original size:13 final size:14
Alignment explanation
Indices: 20634--20662 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
20624 AATATTATTA
20634 TATTATATAATAAT
1 TATTATATAATAAT
20648 TATTATA-AATAAT
1 TATTATATAATAAT
20661 TA
1 TA
20663 GTTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TATTATATAATAAT
Found at i:21281 original size:14 final size:14
Alignment explanation
Indices: 21264--21311 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 14
21254 TAAGTAATTA
21264 ATAATTTAATATTT
1 ATAATTTAATATTT
21278 ATAATTTATTATATATT
1 ATAATTTA--ATAT-TT
*
21295 ATAAATTAATAATTT
1 ATAATTTAAT-ATTT
21310 AT
1 AT
21312 TATTAGTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 8 0.28
15 6 0.21
16 6 0.21
17 9 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
ATAATTTAATATTT
Found at i:21288 original size:25 final size:26
Alignment explanation
Indices: 21251--21313 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
21241 TCATAATTAA
* *
21251 TTATAAGTAATTAATA-ATT-TAATAT
1 TTATAATTTATTAATATATTATAA-AT
21276 TTATAATTTATT-ATATATTATAAAT
1 TTATAATTTATTAATATATTATAAAT
*
21301 TAATAATTTATTA
1 TTATAATTTATTA
21314 TTAGTAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
24 3 0.09
25 26 0.81
26 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
TTATAATTTATTAATATATTATAAAT
Found at i:21316 original size:14 final size:14
Alignment explanation
Indices: 21260--21316 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
21250 ATTATAAGTA
*
21260 ATTAATAATTTAAT
1 ATTAATAATTTATT
*
21274 ATTTATAATTTATT
1 ATTAATAATTTATT
*
21288 A-T-AT-A-TTATAA
1 ATTAATAATTTAT-T
21299 ATTAATAATTTATT
1 ATTAATAATTTATT
21313 ATTA
1 ATTA
21317 GTAAATATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
10 4 0.12
11 2 0.06
12 3 0.09
13 3 0.09
14 18 0.53
15 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTAATAATTTATT
Found at i:21568 original size:15 final size:15
Alignment explanation
Indices: 21548--21579 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21538 AATTATACTA
*
21548 TAATAATATATTAAT
1 TAATAATATATAAAT
21563 TAATAATATATAAAT
1 TAATAATATATAAAT
21578 TA
1 TA
21580 TATTAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATAATATATAAAT
Found at i:21590 original size:7 final size:8
Alignment explanation
Indices: 21498--21623 Score: 52
Period size: 8 Copynumber: 15.9 Consensus size: 8
21488 TAAGAGAAAA
21498 TAATATAT
1 TAATATAT
* *
21506 TATTATAA
1 TAATATAT
*
21514 TAATATAA
1 TAATATAT
21522 T-ATA-AT
1 TAATATAT
**
21528 ATAAGCTAT
1 -TAATATAT
21537 TAAT-TA-
1 TAATATAT
* *
21543 TACTATAA
1 TAATATAT
21551 TAATATAT
1 TAATATAT
*
21559 TAAT-TAA
1 TAATATAT
21566 TAATATAT
1 TAATATAT
*
21574 AAATTATAT
1 TAA-TATAT
21583 TAAT-TATT
1 TAATATA-T
21591 TATATATGAT
1 TA-ATAT-AT
21601 TAATATTATT
1 TAATA-TA-T
21611 TAAT-TA-
1 TAATATAT
21617 TAATATA
1 TAATATA
21624 ATTATATTAG
Statistics
Matches: 90, Mismatches: 14, Indels: 29
0.68 0.11 0.22
Matches are distributed among these distances:
6 8 0.09
7 18 0.20
8 38 0.42
9 15 0.17
10 10 0.11
11 1 0.01
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (8 bp):
TAATATAT
Found at i:21630 original size:24 final size:24
Alignment explanation
Indices: 21535--21632 Score: 101
Period size: 24 Copynumber: 4.0 Consensus size: 24
21525 AATATAAGCT
*
21535 ATTAATTATACTATAATAATATATTA
1 ATTAATTATAATATAAT--TATATTA
*
21561 ATTAATAAT-ATATAAATTATATTA
1 ATTAATTATAATAT-AATTATATTA
* *
21585 ATTATTTAT-ATATGATTAATATTA
1 ATTAATTATAATATAATT-ATATTA
*
21609 TTTAATTATAATATAATTATATTA
1 ATTAATTATAATATAATTATATTA
21633 GTAAAATTAC
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
23 3 0.05
24 37 0.61
25 10 0.16
26 11 0.18
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (24 bp):
ATTAATTATAATATAATTATATTA
Found at i:21875 original size:17 final size:17
Alignment explanation
Indices: 21821--21875 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
21811 TTCAAATAGT
21821 ATAAT-TTATCAATTATA
1 ATAATATTAT-AATTATA
*
21838 ATAATCATT-TATTTACT-
1 ATAAT-ATTATAATTA-TA
21855 ATAATATTATAATTATA
1 ATAATATTATAATTATA
21872 ATAA
1 ATAA
21876 ATATATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
16 4 0.13
17 23 0.74
18 2 0.06
19 2 0.06
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
ATAATATTATAATTATA
Found at i:21993 original size:19 final size:19
Alignment explanation
Indices: 21964--22010 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
21954 GGATAATAAT
21964 TAATT-TTAAA-TATTTAA
1 TAATTATTAAATTATTTAA
21981 TAAATTATTAAATTATTTAA
1 T-AATTATTAAATTATTTAA
*
22001 TGATTATTAA
1 TAATTATTAA
22011 TTAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 1 0.04
18 4 0.15
19 13 0.50
20 8 0.31
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TAATTATTAAATTATTTAA
Found at i:22878 original size:20 final size:19
Alignment explanation
Indices: 22859--22959 Score: 52
Period size: 17 Copynumber: 5.3 Consensus size: 19
22849 TAAGTAATTA
22859 ATATATTAAATATAATATT
1 ATATATTAAATATAATATT
*
22878 ATAGAATTAAA-AT-A-ATT
1 ATA-TATTAAATATAATATT
* * *
22895 ATAGTAATAATATATATTTTTT
1 ATA-TATTAA-ATATA-ATATT
22917 AATTATAATTAAA-AT-ATATT
1 -A-TAT-ATTAAATATAATATT
*
22937 ATAT-TTAAATATAATATA
1 ATATATTAAATATAATATT
22955 ATATA
1 ATATA
22960 CATGTCAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 24
0.65 0.10 0.26
Matches are distributed among these distances:
16 5 0.08
17 13 0.21
18 13 0.21
19 8 0.13
20 9 0.15
22 4 0.07
23 3 0.05
24 6 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
ATATATTAAATATAATATT
Found at i:22939 original size:16 final size:16
Alignment explanation
Indices: 22918--22956 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
22908 ATATTTTTTA
22918 ATTATAATTAAAATAT
1 ATTATAATTAAAATAT
*
22934 ATTAT-ATTTAAATAT
1 ATTATAATTAAAATAT
*
22949 AATATAAT
1 ATTATAAT
22957 ATACATGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTATAATTAAAATAT
Found at i:22943 original size:26 final size:23
Alignment explanation
Indices: 22899--22959 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
22889 ATAATTATAG
* *
22899 TAATAATATATATTTTTTAATTA
1 TAATAAAATATATTTTTTAAATA
22922 TAATTAAAATATATTATATTTAAATA
1 TAA-TAAAATATATT-T-TTTAAATA
*
22948 TAATATAATATA
1 TAATAAAATATA
22960 CATGTCAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 3 0.09
24 10 0.31
25 9 0.28
26 10 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATAAAATATATTTTTTAAATA
Found at i:23287 original size:26 final size:25
Alignment explanation
Indices: 23258--23314 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 25
23248 TATTAATAGT
23258 AATTAT-TAATATTTATGATAAATTAA
1 AATTATATAAT-TTTATGATAAA-TAA
* *
23284 AATTTATATAATTTTATTATTAATAA
1 AA-TTATATAATTTTATGATAAATAA
23310 AATTA
1 AATTA
23315 ATATTTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 3 0.11
26 7 0.26
27 13 0.48
28 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
AATTATATAATTTTATGATAAATAA
Found at i:23320 original size:23 final size:24
Alignment explanation
Indices: 23262--23325 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
23252 AATAGTAATT
*
23262 ATTAATA-TTTATGATAAATTAAA
1 ATTAATATTTTATTATAAATTAAA
*
23285 ATTTATATAATTTTATTATTAA-TAAA
1 A-TTA-AT-ATTTTATTATAAATTAAA
*
23311 ATTAATATTTAATTA
1 ATTAATATTTTATTA
23326 AATTTAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
23 9 0.26
24 5 0.15
25 5 0.15
26 6 0.18
27 9 0.26
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
ATTAATATTTTATTATAAATTAAA
Found at i:23327 original size:17 final size:16
Alignment explanation
Indices: 23262--23335 Score: 53
Period size: 17 Copynumber: 4.5 Consensus size: 16
23252 AATAGTAATT
23262 ATTAATATTT-ATGATAA
1 ATTAATATTTAAT-A-AA
* *
23279 ATTAAAATTTATATAAT
1 ATTAATATTTA-ATAAA
* *
23296 TTTATTA-TTAATAAA
1 ATTAATATTTAATAAA
23311 ATTAATATTTAATTAAA
1 ATTAATATTTAA-TAAA
*
23328 TTTAATAT
1 ATTAATAT
23336 AATTATTATT
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
15 9 0.20
16 7 0.16
17 25 0.57
18 1 0.02
19 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (16 bp):
ATTAATATTTAATAAA
Found at i:23328 original size:16 final size:17
Alignment explanation
Indices: 23303--23335 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
23293 AATTTTATTA
23303 TTAATAAAA-TTAATAT
1 TTAATAAAATTTAATAT
*
23319 TTAATTAAATTTAATAT
1 TTAATAAAATTTAATAT
23336 AATTATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAATAAAATTTAATAT
Found at i:23405 original size:9 final size:8
Alignment explanation
Indices: 23333--23423 Score: 57
Period size: 8 Copynumber: 11.2 Consensus size: 8
23323 TTAAATTTAA
23333 TATAATTAT
1 TATAA-TAT
*
23342 TATTATAT
1 TATAATAT
*
23350 T-TCATAT
1 TATAATAT
*
23357 TGTAATAT
1 TATAATAT
23365 TATAAT-T
1 TATAATAT
*
23372 AATTAATAT
1 TA-TAATAT
23381 TATAACTAT
1 TATAA-TAT
23390 TATTAATAGT
1 TA-TAATA-T
23400 TATAAT-T
1 TATAATAT
23407 TAATAAT-T
1 T-ATAATAT
23415 TAT-ATAT
1 TATAATAT
23422 TA
1 TA
23424 ATAGTAATAA
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
6 2 0.03
7 15 0.22
8 28 0.41
9 17 0.25
10 6 0.09
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (8 bp):
TATAATAT
Found at i:23432 original size:35 final size:33
Alignment explanation
Indices: 23358--23471 Score: 81
Period size: 35 Copynumber: 3.3 Consensus size: 33
23348 ATTTCATATT
* *
23358 GTAATATTATAATTAATTAATATTATA-ACTATTA
1 GTAATATTATAATTAA-TAAT-TTATATATTAATA
*
23392 TTAATAGTTATAATTTAATAATTTATATATTAATA
1 GTAATA-TTATAA-TTAATAATTTATATATTAATA
*
23427 GTAATAATTTATAACTT-AT-ATTGATATAATTAATA
1 GTAAT-A-TTATAA-TTAATAATTTATAT-ATTAATA
*
23462 TTAATTATTA
1 GTAA-TATTA
23472 CGAATAATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
34 20 0.30
35 32 0.48
36 14 0.21
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (33 bp):
GTAATATTATAATTAATAATTTATATATTAATA
Found at i:23433 original size:29 final size:28
Alignment explanation
Indices: 23375--23447 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 28
23365 TATAATTAAT
*
23375 TAATATTATAAC-TAT-TATTAATAGTTA
1 TAAT-TTATAACTTATATATTAATAGTAA
*
23402 TAATTTAATAATTTATATATTAATAGTAA
1 TAATTT-ATAACTTATATATTAATAGTAA
23431 TAATTTATAACTTATAT
1 TAATTTATAACTTATAT
23448 TGATATAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
26 2 0.05
27 8 0.20
28 13 0.32
29 17 0.43
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (28 bp):
TAATTTATAACTTATATATTAATAGTAA
Found at i:23460 original size:29 final size:27
Alignment explanation
Indices: 23361--23461 Score: 75
Period size: 29 Copynumber: 3.6 Consensus size: 27
23351 TCATATTGTA
23361 ATATT-ATAATTAATTAATATTATAAC-T
1 ATATTAATAATTAA-TAAT-TTATAACTT
* *
23388 ATTATTAATAGTT-ATAATTTAATAATTTAT
1 A-TATTAATAATTAATAATTT-ATAA-CT-T
*
23418 ATATTAAT-AGTAATAATTTATAACTT
1 ATATTAATAATTAATAATTTATAACTT
23444 ATATTGATATAATTAATA
1 ATATT-A-ATAATTAATA
23462 TTAATTATTA
Statistics
Matches: 58, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
26 8 0.14
27 11 0.19
28 12 0.21
29 25 0.43
30 2 0.03
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTAATAATTAATAATTTATAACTT
Found at i:23602 original size:34 final size:35
Alignment explanation
Indices: 23563--23629 Score: 102
Period size: 34 Copynumber: 1.9 Consensus size: 35
23553 CTTTATACAT
23563 TATACATTAATTA-TATATATACAT-TAATATTATA
1 TATACATTAATTATTA-ATATACATATAATATTATA
*
23597 TATACATTAATTATTAATATACTTATAATATTA
1 TATACATTAATTATTAATATACATATAATATTA
23630 ATAATTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 20 0.67
35 10 0.33
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (35 bp):
TATACATTAATTATTAATATACATATAATATTATA
Found at i:23616 original size:17 final size:18
Alignment explanation
Indices: 23563--23618 Score: 91
Period size: 17 Copynumber: 3.3 Consensus size: 18
23553 CTTTATACAT
23563 TATACATTAATTA-TATA
1 TATACATTAATTATTATA
23580 TATACATTAA-TATTATA
1 TATACATTAATTATTATA
23597 TATACATTAATTATTA-A
1 TATACATTAATTATTATA
23614 TATAC
1 TATAC
23619 TTATAATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.05
17 30 0.81
18 5 0.14
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (18 bp):
TATACATTAATTATTATA
Found at i:23628 original size:17 final size:18
Alignment explanation
Indices: 23579--23632 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 18
23569 TTAATTATAT
23579 ATATACA-T-TAATATTA
1 ATATACATTATAATATTA
*
23595 TATATACATTA-ATTATTA
1 -ATATACATTATAATATTA
23613 ATATAC-TTATAATATTA
1 ATATACATTATAATATTA
23630 ATA
1 ATA
23633 ATTATTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 3 0.09
17 22 0.69
18 7 0.22
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATACATTATAATATTA
Found at i:23656 original size:27 final size:27
Alignment explanation
Indices: 23604--23657 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
23594 ATATATACAT
**
23604 TAATTATTAATATACTTATAATATTAA
1 TAATTATTAATATAAATATAATATTAA
23631 TAATTATTAATATAAATAGTAA-ATTAA
1 TAATTATTAATATAAATA-TAATATTAA
23658 AATAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
TAATTATTAATATAAATATAATATTAA
Found at i:23663 original size:22 final size:21
Alignment explanation
Indices: 23638--23691 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
23628 TAATAATTAT
*
23638 TAATATAAATAGTAAATTAAAA
1 TAATATAAATA-TAAACTAAAA
* *
23660 TAATATATATTATAAACTAACA
1 TAATATA-AATATAAACTAAAA
23682 TAAT-TAAATA
1 TAATATAAATA
23692 AATAGATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 3 0.11
21 2 0.07
22 19 0.70
23 3 0.11
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (21 bp):
TAATATAAATATAAACTAAAA
Found at i:23741 original size:21 final size:20
Alignment explanation
Indices: 23697--23738 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 20
23687 AAATAAATAG
23697 ATAATAATTTATTATTATTTT
1 ATAATAATTTATTATTA-TTT
23718 ATAATAATATTATTAATTATT
1 ATAATAAT-TTATT-ATTATT
23739 ATATTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATAATAATTTATTATTATTT
Found at i:25136 original size:27 final size:26
Alignment explanation
Indices: 25060--25136 Score: 66
Period size: 28 Copynumber: 2.8 Consensus size: 26
25050 TATTAAGTAC
*
25060 TATTATTTATATTATATAAATAAATTATA
1 TATTA-TTATA-TATTTAAAT-AATTATA
*
25089 TATTATT-TATATTTCTCAATAATTATCA
1 TATTATTATATA-TT-TAAATAATTAT-A
*
25117 TTTTATTATATATTTAAATA
1 TATTATTATATATTTAAATA
25137 TTAAATACAC
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
26 2 0.05
27 14 0.35
28 15 0.38
29 9 0.22
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (26 bp):
TATTATTATATATTTAAATAATTATA
Done.