Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168382.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_60, 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: 143073
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
File 1 of 4
Found at i:141 original size:19 final size:20
Alignment explanation
Indices: 98--142 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
88 TTAATATTAA
*
98 AATAATTTTAATTATTTATT
1 AATAATTTTAATTAATTATT
*
118 TATAATTTTAA-TAATTATT
1 AATAATTTTAATTAATTATT
137 AATAAT
1 AATAAT
143 AAGTATTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AATAATTTTAATTAATTATT
Found at i:224 original size:23 final size:20
Alignment explanation
Indices: 198--248 Score: 50
Period size: 23 Copynumber: 2.5 Consensus size: 20
188 AAATATATTA
198 TAATTAATAAATTAGTATAGAAT
1 TAATTAATAAATTA-TA-A-AAT
* *
221 TAATTTATATATTATAAAAT
1 TAATTAATAAATTATAAAAT
241 TAA-TAATA
1 TAATTAATA
249 TAATGTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 4 0.16
20 6 0.24
21 1 0.04
22 2 0.08
23 12 0.48
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (20 bp):
TAATTAATAAATTATAAAAT
Found at i:317 original size:19 final size:20
Alignment explanation
Indices: 293--331 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
283 AATAAATATA
293 TTATATAAT-TTATTTAATG
1 TTATATAATGTTATTTAATG
312 TTATATAATGGTTATTTAAT
1 TTATATAAT-GTTATTTAAT
332 TAATATTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (20 bp):
TTATATAATGTTATTTAATG
Found at i:359 original size:24 final size:23
Alignment explanation
Indices: 331--380 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
321 GGTTATTTAA
*
331 TTAAT-ATTACAATTATATTAGTAT
1 TTAATGATTA-AAATATATTA-TAT
*
355 TTAATGTTTAAAATATATTATAT
1 TTAATGATTAAAATATATTATAT
378 TTA
1 TTA
381 TAAACTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 6 0.26
24 14 0.61
25 3 0.13
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (23 bp):
TTAATGATTAAAATATATTATAT
Found at i:384 original size:18 final size:18
Alignment explanation
Indices: 363--481 Score: 65
Period size: 16 Copynumber: 6.7 Consensus size: 18
353 ATTTAATGTT
363 TAAAATATATTATATTTA
1 TAAAATATATTATATTTA
*
381 TAAACTATATTATA--TA
1 TAAAATATATTATATTTA
* * * *
397 TAATATTTATAATA-TTG
1 TAAAATATATTATATTTA
414 T-AAATA-ATTATTATTTA
1 TAAAATATATTA-TATTTA
* *
431 -ATAATATATTA-ATTTC
1 TAAAATATATTATATTTA
447 TAAAATATCATAATATAATTTA
1 TAAAATAT-AT--TAT-ATTTA
469 TTAAAATA-ATTAT
1 -TAAAATATATTAT
482 TAAATAATAT
Statistics
Matches: 75, Mismatches: 14, Indels: 23
0.67 0.12 0.21
Matches are distributed among these distances:
15 3 0.04
16 21 0.28
17 14 0.19
18 19 0.25
19 3 0.04
20 2 0.03
21 2 0.03
22 4 0.05
23 7 0.09
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.48
Consensus pattern (18 bp):
TAAAATATATTATATTTA
Found at i:453 original size:34 final size:33
Alignment explanation
Indices: 361--453 Score: 77
Period size: 34 Copynumber: 2.8 Consensus size: 33
351 GTATTTAATG
*
361 TTTAA-AATATATTATATTTATAAACT-ATATTA
1 TTTAATAATATATTA-ATTTATAAAATAATATTA
* * *
393 TAT-ATAATATTTATAATATTGT-AAATAATTATTA
1 TTTAATAATATAT-TAAT-TTATAAAATAA-TATTA
*
427 TTTAATAATATATTAATTTCTAAAATA
1 TTTAATAATATATTAATTTATAAAATA
454 TCATAATATA
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
31 1 0.02
32 13 0.28
33 9 0.19
34 16 0.34
35 8 0.17
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (33 bp):
TTTAATAATATATTAATTTATAAAATAATATTA
Found at i:576 original size:27 final size:27
Alignment explanation
Indices: 546--597 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
536 GAATGTAATT
546 TATATAATAAATATACAA-AATTATTTA
1 TATATAA-AAATATACAATAATTATTTA
*
573 TATATAAAAATATATAATAATTATT
1 TATATAAAAATATACAATAATTATT
598 AATTTTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
TATATAAAAATATACAATAATTATTTA
Found at i:609 original size:15 final size:16
Alignment explanation
Indices: 589--629 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
579 AAAATATATA
589 ATAATTATTAAT-TTT
1 ATAATTATTAATATTT
604 ATAATTA-TAATAATTT
1 ATAATTATTAAT-ATTT
620 ATAATATATT
1 ATAAT-TATT
630 CATTATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.18
15 7 0.32
16 8 0.36
17 2 0.09
18 1 0.05
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATAATTATTAATATTT
Found at i:929 original size:29 final size:27
Alignment explanation
Indices: 892--957 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
882 TTATATCAGT
892 TAAT-ATTATAATTAATTAAATAATTAA
1 TAATAATTATAATTAATTAAA-AATTAA
* * *
919 TATATAATTAT-ATTTATTTAAAATTTA
1 TA-ATAATTATAATTAATTAAAAATTAA
946 TAATAATTATAA
1 TAATAATTATAA
958 ATTCTATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 8 0.24
27 10 0.30
28 10 0.30
29 5 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TAATAATTATAATTAATTAAAAATTAA
Found at i:1102 original size:12 final size:12
Alignment explanation
Indices: 1085--1166 Score: 60
Period size: 12 Copynumber: 6.6 Consensus size: 12
1075 AATATATCAA
1085 ATTAATATAATT
1 ATTAATATAATT
1097 ATTAATATAATT
1 ATTAATATAATT
*
1109 AATAATGATAA-T
1 ATTAAT-ATAATT
*
1121 ATT-TTAATAATAT
1 ATTAAT-ATAAT-T
*
1134 ATTTATATCAATT
1 ATTAATAT-AATT
* *
1147 AATATTATAATT
1 ATTAATATAATT
1159 AATTAATA
1 -ATTAATA
1167 ATTAATGATA
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
11 5 0.09
12 24 0.44
13 21 0.39
14 4 0.07
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (12 bp):
ATTAATATAATT
Found at i:1133 original size:29 final size:30
Alignment explanation
Indices: 1087--1186 Score: 82
Period size: 29 Copynumber: 3.3 Consensus size: 30
1077 TATATCAAAT
* *
1087 TAATATAATTATTAATATAATTAATAATGA
1 TAATATTATAATTAATATAATTAATAATGA
* *
1117 TAATATTTTAA-TAATATATTTATATCAAT--
1 TAATATTATAATTAATATAATTA-AT-AATGA
*
1146 TAATATTATAATTAATTAATAATTAATGAT-A
1 TAATATTATAATTAA-T-ATAATTAATAATGA
1177 TAAATATTAT
1 T-AATATTAT
1187 TGTAAATTAA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
29 20 0.36
30 15 0.27
31 7 0.12
32 14 0.25
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (30 bp):
TAATATTATAATTAATATAATTAATAATGA
Found at i:2123 original size:18 final size:19
Alignment explanation
Indices: 2079--2128 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
2069 AAATTATAAA
*
2079 ATTTAT-TAATATTAATAT
1 ATTTATATAATTTTAATAT
*
2097 AATTA-ATAATTTTAAT-T
1 ATTTATATAATTTTAATAT
*
2114 ATTTATATAAATTTA
1 ATTTATATAATTTTA
2129 CAGTAACAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 5 0.19
18 21 0.81
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTATATAATTTTAATAT
Found at i:2486 original size:6 final size:6
Alignment explanation
Indices: 2423--2650 Score: 67
Period size: 6 Copynumber: 38.7 Consensus size: 6
2413 ACTATATAAT
* *
2423 ATTATA ATTA-A A-TAT- ATTAT- ATT-TA ATATATA ATTATTA AATAAA
1 ATTATA ATTATA ATTATA ATTATA ATTATA AT-TATA ATTA-TA ATTATA
* * *
2468 ATT-TA ATTTATA ATTATA AAT-TA ATAATT ATTATA ATTAATTA ATTATA
1 ATTATA A-TTATA ATTATA ATTATA ATTATA ATTATA ATT-A-TA ATTATA
** * * *
2517 A-TA-A ATTACC ATTA-A TATTTTT ATTA-A TATTAATA AATATA ATTATATA
1 ATTATA ATTATA ATTATA -ATTATA ATTATA -ATT-ATA ATTATA A-T-TATA
* * * *
2566 ATTATA TTTATCA A--ATA ATATATTA AATAT- ATTATA ATTATT ATAATA
1 ATTATA ATTAT-A ATTATA AT-TA-TA ATTATA ATTATA ATTATA ATTATA
* * *
2614 ATTAT- -TTATA AGT-TA ATTATA ATAATA GTTATA ATTA
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATTA
2651 GTACCATAAT
Statistics
Matches: 161, Mismatches: 32, Indels: 58
0.64 0.13 0.23
Matches are distributed among these distances:
4 12 0.07
5 29 0.18
6 84 0.52
7 22 0.14
8 14 0.09
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (6 bp):
ATTATA
Found at i:2502 original size:17 final size:18
Alignment explanation
Indices: 2470--2524 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 18
2460 TAAATAAAAT
* *
2470 TTAATTTATAATTATAAA
1 TTAATTAATTATTATAAA
2488 TTAA-TAATTATTAT-AA
1 TTAATTAATTATTATAAA
*
2504 TTAATTAATTATAATAAA
1 TTAATTAATTATTATAAA
2522 TTA
1 TTA
2525 CCATTAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 6 0.19
17 17 0.53
18 9 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAATTAATTATTATAAA
Found at i:2523 original size:14 final size:13
Alignment explanation
Indices: 2426--2648 Score: 55
Period size: 14 Copynumber: 17.2 Consensus size: 13
2416 ATATAATATT
*
2426 ATAATTAAATATATT
1 ATAATT-AAT-TATA
*
2441 ATATTTAATATATA
1 ATAATTAAT-TATA
*
2455 ATTATTAA--ATA
1 ATAATTAATTATA
2466 A-AATTTAATTTATA
1 ATAA-TTAA-TTATA
* *
2480 ATTA-TAAAT-TA
1 ATAATTAATTATA
2491 ATAATT-ATTATA
1 ATAATTAATTATA
2503 ATTAATTAATTATA
1 A-TAATTAATTATA
2517 ATAAATTACCA-T-TA
1 AT-AATTA--ATTATA
* *
2531 ATATTTTTATTAATA
1 ATA-ATTAATT-ATA
* *
2546 TTAA-TAAATATA
1 ATAATTAATTATA
*
2558 ATTATATAATTATA
1 ATAAT-TAATTATA
* * *
2572 TTTATCAA--ATA
1 ATAATTAATTATA
*
2583 ATATATTAAATATATT
1 ATA-ATT-AAT-TATA
2599 ATAATT-ATTATA
1 ATAATTAATTATA
2611 ATAATT-ATT-T-
1 ATAATTAATTATA
2621 ATAAGTTAATTATA
1 ATAA-TTAATTATA
*
2635 ATAA-TAGTTATA
1 ATAATTAATTATA
2647 AT
1 AT
2649 TAGTACCATA
Statistics
Matches: 155, Mismatches: 26, Indels: 57
0.65 0.11 0.24
Matches are distributed among these distances:
10 5 0.03
11 22 0.14
12 37 0.24
13 21 0.14
14 50 0.32
15 14 0.09
16 6 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (13 bp):
ATAATTAATTATA
Found at i:2623 original size:27 final size:27
Alignment explanation
Indices: 2491--2645 Score: 63
Period size: 27 Copynumber: 5.7 Consensus size: 27
2481 TTATAAATTA
* *
2491 ATAATTATTATAATTAATTAATTATAAT
1 ATAATTATTATAA-TAATTATTTATATT
** *
2519 A-AATTACCAT--TAA-TATTTTTATT
1 ATAATTATTATAATAATTATTTATATT
* * *
2542 A-ATATTAATAAATATAATTATATA-ATT
1 ATA-ATTATTATA-ATAATTATTTATATT
* * **
2569 ATATTTATCAAATAATATATTAAATATATT
1 ATAATTAT--TATAATA-ATTATTTATATT
*
2599 ATAATTATTATAATAATTATTTATAAGT
1 ATAATTATTATAATAATTATTTAT-ATT
* *
2627 -TAATTATAATAATAGTTAT
1 ATAATTATTATAATAATTAT
2646 AATTAGTACC
Statistics
Matches: 94, Mismatches: 22, Indels: 23
0.68 0.16 0.17
Matches are distributed among these distances:
23 9 0.10
24 8 0.09
27 41 0.44
28 17 0.18
29 9 0.10
30 10 0.11
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (27 bp):
ATAATTATTATAATAATTATTTATATT
Found at i:2733 original size:3 final size:3
Alignment explanation
Indices: 2727--2814 Score: 104
Period size: 3 Copynumber: 28.7 Consensus size: 3
2717 AATGGATAAA
*
2727 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATA
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* ** * *
2775 ATT ATT TTT AAAG ATT ATA ATT ATT ATT AATT AAT ATT AT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT -ATT ATT ATT AT
2815 AATATTTATT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
3 68 0.96
4 3 0.04
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:2912 original size:21 final size:22
Alignment explanation
Indices: 2863--2914 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
2853 TTAACTTAAA
2863 TATAATTAATTATTATTCAAAT
1 TATAATTAATTATTATTCAAAT
* *
2885 AAT-ATTAATTA-TA-TGATAAT
1 TATAATTAATTATTATTCA-AAT
2905 TATAATTAAT
1 TATAATTAAT
2915 ATTTTATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 2 0.08
20 7 0.28
21 14 0.56
22 2 0.08
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TATAATTAATTATTATTCAAAT
Found at i:2926 original size:38 final size:34
Alignment explanation
Indices: 2884--2968 Score: 89
Period size: 35 Copynumber: 2.4 Consensus size: 34
2874 ATTATTCAAA
* *
2884 TAATATTAATTATATGATAATTATAATTAATATTTTAT
1 TAATA-TAATTATATGAT-ATTAT-ATT-ATAATATAT
* *
2922 TAATATATTTAATATTATATTATATTATAATATAT
1 TAATATAATT-ATATGATATTATATTATAATATAT
2957 TAATATAATTAT
1 TAATATAATTAT
2969 TAATCTAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
34 2 0.05
35 16 0.39
36 3 0.07
37 9 0.22
38 11 0.27
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (34 bp):
TAATATAATTATATGATATTATATTATAATATAT
Found at i:2933 original size:20 final size:20
Alignment explanation
Indices: 2830--2967 Score: 69
Period size: 23 Copynumber: 6.8 Consensus size: 20
2820 TTATTATACT
*
2830 TTATAGTAATATAAATTAATTAA
1 TTATATTAATAT-AATTAA-T-A
2853 TTA-ACTTAAATATAATTAATTA
1 TTATA-TT-AATATAATTAA-TA
* *
2875 TTAT-TCAA-ATAA-TATTAA
1 TTATATTAATATAATTAAT-A
2893 TTATATGATAATTATAATTAATA
1 TTATAT--TAA-TATAATTAATA
* *
2916 TTTTATTAATATATTTAATA
1 TTATATTAATATAATTAATA
2936 TTATA-T--TAT-ATT-ATA
1 TTATATTAATATAATTAATA
*
2951 ATATATTAATATAATTA
1 TTATATTAATATAATTA
2968 TTAATCTAAA
Statistics
Matches: 90, Mismatches: 10, Indels: 33
0.68 0.08 0.25
Matches are distributed among these distances:
15 7 0.08
16 3 0.03
17 4 0.04
18 10 0.11
19 9 0.10
20 16 0.18
21 6 0.07
22 5 0.06
23 22 0.24
24 8 0.09
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (20 bp):
TTATATTAATATAATTAATA
Found at i:2941 original size:5 final size:5
Alignment explanation
Indices: 2886--2958 Score: 53
Period size: 5 Copynumber: 14.2 Consensus size: 5
2876 TATTCAAATA
* *
2886 ATATT A-ATT ATATG ATAATT ATAATT AATATT TTATT A-A-T ATATTT
1 ATATT ATATT ATATT AT-ATT AT-ATT -ATATT ATATT ATATT ATA-TT
*
2932 AATATT ATATT ATATT ATAAT ATATT A
1 -ATATT ATATT ATATT ATATT ATATT A
2959 ATATAATTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
3 2 0.04
4 6 0.11
5 28 0.51
6 14 0.25
7 5 0.09
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (5 bp):
ATATT
Found at i:2972 original size:20 final size:20
Alignment explanation
Indices: 2861--2972 Score: 55
Period size: 18 Copynumber: 5.8 Consensus size: 20
2851 AATTAACTTA
2861 AATATAATTAATT-AT-TATT
1 AATATAATT-ATTAATATATT
2880 CAA-ATAA-TATTAATTATATGAT
1 -AATATAATTATTAA-TATAT--T
* * *
2902 AATTATAATTAATATTTTATT
1 AA-TATAATTATTAATATATT
2923 AATAT-A-T-TTAATAT-TAT
1 AATATAATTATTAATATAT-T
*
2940 ATTAT-ATTA-TAATATATT
1 AATATAATTATTAATATATT
2958 AATATAATTATTAAT
1 AATATAATTATTAAT
2973 CTAAATAATT
Statistics
Matches: 70, Mismatches: 8, Indels: 28
0.66 0.08 0.26
Matches are distributed among these distances:
16 1 0.01
17 13 0.19
18 15 0.21
19 11 0.16
20 12 0.17
21 5 0.07
22 1 0.01
23 8 0.11
24 4 0.06
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (20 bp):
AATATAATTATTAATATATT
Found at i:3162 original size:19 final size:20
Alignment explanation
Indices: 3125--3164 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
3115 ATTTAAAAAT
3125 TAATAATATATTAATGACTA
1 TAATAATATATTAATGACTA
3145 TAATAAT-TAATT-ATGACTA
1 TAATAATAT-ATTAATGACTA
3164 T
1 T
3165 TTTAATATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (20 bp):
TAATAATATATTAATGACTA
Found at i:3518 original size:19 final size:19
Alignment explanation
Indices: 3494--3553 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
3484 TTATTTATTT
3494 TAAATAACTAAAATAATAA
1 TAAATAACTAAAATAATAA
* * *
3513 TAAATAATTATAATAATTA
1 TAAATAACTAAAATAATAA
*
3532 TAAATAACTTAAATATATAA
1 TAAATAACTAAAATA-ATAA
3552 TA
1 TA
3554 GTTATTAATA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
19 28 0.85
20 5 0.15
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAATAACTAAAATAATAA
Found at i:3602 original size:35 final size:36
Alignment explanation
Indices: 3508--3605 Score: 102
Period size: 35 Copynumber: 2.8 Consensus size: 36
3498 TAACTAAAAT
3508 AATAATAAATA-ATTATAATAA-T-TATAAATAACTTA
1 AATAATAAATATATTAT-ATAATTATATAAATAAC-TA
3543 AAT-ATATAATAGTTATTA-AT-ATTATATAAATAA-TA
1 AATAATA-AATA--TATTATATAATTATATAAATAACTA
3578 AATAATAAATATATTATATAATTATATA
1 AATAATAAATATATTATATAATTATATA
3606 GGATAATATA
Statistics
Matches: 54, Mismatches: 0, Indels: 18
0.75 0.00 0.25
Matches are distributed among these distances:
33 5 0.09
34 5 0.09
35 25 0.46
36 6 0.11
37 9 0.17
38 4 0.07
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (36 bp):
AATAATAAATATATTATATAATTATATAAATAACTA
Found at i:3603 original size:13 final size:14
Alignment explanation
Indices: 3582--3626 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
3572 ATAATAAATA
*
3582 ATAAATATATTA-T
1 ATAATTATATTAGT
*
3595 ATAATTATA-TAGG
1 ATAATTATATTAGT
3608 ATAA-TATATTAGT
1 ATAATTATATTAGT
3621 ATAATT
1 ATAATT
3627 TATAAATATG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
12 6 0.23
13 19 0.73
14 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (14 bp):
ATAATTATATTAGT
Found at i:3894 original size:23 final size:23
Alignment explanation
Indices: 3849--3903 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
3839 TCAAATTTAA
*
3849 ATTATAATAATTACTAATTTATT
1 ATTATAATAATTACTAATCTATT
3872 ATTATAATAATTA-TAATACTATT
1 ATTATAATAATTACTAAT-CTATT
3895 -TTATTAATA
1 ATTA-TAATA
3904 TTTAAAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 7 0.24
23 22 0.76
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
ATTATAATAATTACTAATCTATT
Found at i:4218 original size:27 final size:27
Alignment explanation
Indices: 4185--4252 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 27
4175 TTTTTTTACA
4185 AATAATATATCATATATATTTATA-TATTTG
1 AATAATATA--ATAT-TATTT-TACTATTTG
4215 AATAATATAATATTATTTTACTATTTG
1 AATAATATAATATTATTTTACTATTTG
*
4242 ATTAAT-TAATA
1 AATAATATAATA
4253 ATTGTTGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
26 7 0.19
27 16 0.44
28 4 0.11
30 9 0.25
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (27 bp):
AATAATATAATATTATTTTACTATTTG
Found at i:4347 original size:18 final size:18
Alignment explanation
Indices: 4324--4359 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4314 TTAATTTATC
* *
4324 ATTAATTTTATAATATTA
1 ATTAATTATAAAATATTA
4342 ATTAATTATAAAATATTA
1 ATTAATTATAAAATATTA
4360 TAATACTTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTAATTATAAAATATTA
Found at i:4736 original size:28 final size:30
Alignment explanation
Indices: 4690--4745 Score: 73
Period size: 28 Copynumber: 1.9 Consensus size: 30
4680 TAATTAATTG
4690 TATATTAATAAATATAATACAT-TAATTTAA
1 TATATTAATAAATATAATA-ATATAATTTAA
*
4720 TATATT-ATAATTA-AATAATATAATTT
1 TATATTAATAAATATAATAATATAATTT
4746 CAATTAGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 2 0.08
28 10 0.42
29 6 0.25
30 6 0.25
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
TATATTAATAAATATAATAATATAATTTAA
Found at i:4840 original size:38 final size:37
Alignment explanation
Indices: 4720--4840 Score: 108
Period size: 38 Copynumber: 3.2 Consensus size: 37
4710 ATTAATTTAA
*
4720 TATATTATAAT-TAAA-TAATATAATT-T-CAATTAGT
1 TATATTATAATATAAATTAATA-AATTATATAATTAGT
* * *
4754 TATATTATTAATAAATAATT-ATAAATATTATATATTATACT
1 TATATTA-TAATATA-AATTAAT-AA-ATTATATAAT-TAGT
4795 TATATTATAATATAAATTAATAAATTATATAATTAGT
1 TATATTATAATATAAATTAATAAATTATATAATTAGT
4832 TATAATTAT
1 TAT-ATTAT
4841 GTAATATTAA
Statistics
Matches: 69, Mismatches: 7, Indels: 18
0.73 0.07 0.19
Matches are distributed among these distances:
34 7 0.10
35 4 0.06
36 1 0.01
37 11 0.16
38 19 0.28
39 7 0.10
40 10 0.14
41 10 0.14
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (37 bp):
TATATTATAATATAAATTAATAAATTATATAATTAGT
Found at i:4857 original size:43 final size:40
Alignment explanation
Indices: 4725--4858 Score: 123
Period size: 41 Copynumber: 3.2 Consensus size: 40
4715 TTTAATATAT
* *
4725 TATAATTAAATAATATAATTTCAATTAGTTATATTATTAATA
1 TATAATT-AATAATATTATAT-AATTAGTTATATTATTAATA
* * *
4767 AATAATT-ATAAATATTATATATTATACTTATATTA-TAATA
1 TATAATTAAT-AATATTATATAAT-TAGTTATATTATTAATA
4807 TA-AATTAATAA-ATTATATAATTAGTTATAATTATGTAATA
1 TATAATTAATAATATTATATAATTAGTTAT-ATTAT-TAATA
4847 TTAATAATTAAT
1 -T-ATAATTAAT
4859 TTATTGTTCA
Statistics
Matches: 75, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
37 6 0.08
38 13 0.17
39 6 0.08
40 17 0.23
41 19 0.25
42 7 0.09
43 7 0.09
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (40 bp):
TATAATTAATAATATTATATAATTAGTTATATTATTAATA
Found at i:5128 original size:22 final size:23
Alignment explanation
Indices: 5103--5147 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
5093 ATGTTATTTA
* *
5103 AATAATTATATAAA-TATAAATT
1 AATAATAATACAAATTATAAATT
5125 AATAATAATACAAATTATAAATT
1 AATAATAATACAAATTATAAATT
5148 GACTTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
AATAATAATACAAATTATAAATT
Found at i:5511 original size:18 final size:18
Alignment explanation
Indices: 5480--5558 Score: 76
Period size: 18 Copynumber: 4.3 Consensus size: 18
5470 AAATAATAAT
5480 TATTA-ATATATATAAATA
1 TATTATATAT-TATAAATA
5498 TATTATATATTATAAATA
1 TATTATATATTATAAATA
*
5516 TAATT-TATATTATATATA
1 T-ATTATATATTATAAATA
5534 -ATTAAGTAATATTA-AAATA
1 TATT-A-T-ATATTATAAATA
5553 TATTAT
1 TATTAT
5559 CTAATAATAT
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
16 3 0.06
18 27 0.52
19 13 0.25
20 9 0.17
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (18 bp):
TATTATATATTATAAATA
Found at i:5587 original size:15 final size:15
Alignment explanation
Indices: 5504--5665 Score: 67
Period size: 15 Copynumber: 10.9 Consensus size: 15
5494 AATATATTAT
*
5504 ATATTATA-AATATA
1 ATATTATATTATATA
5518 AT-TTATATTATAT-
1 ATATTATATTATATA
*
5531 ATAATTA-AGTAATATTA
1 AT-ATTATA-TTATA-TA
* *
5548 A-AATATATTATCTA
1 ATATTATATTATATA
*
5562 ATAATAT-TTATATA
1 ATATTATATTATATA
*
5576 ATATTATATTATTTA
1 ATATTATATTATATA
* * *
5591 ATGAATAAATAAT-TA
1 AT-ATTATATTATATA
*
5606 ATATTAATATTA-ATT
1 ATATT-ATATTATATA
*
5621 ATATTTATATTAAAT-
1 ATA-TTATATTATATA
5636 ATATTATAATTAGTTATA
1 ATATTAT-ATTA--TATA
5654 ATA-TA-ATTATAT
1 ATATTATATTATAT
5666 TTATTATAAT
Statistics
Matches: 114, Mismatches: 16, Indels: 37
0.68 0.10 0.22
Matches are distributed among these distances:
13 10 0.09
14 28 0.25
15 55 0.48
16 13 0.11
17 5 0.04
18 3 0.03
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.49
Consensus pattern (15 bp):
ATATTATATTATATA
Found at i:5587 original size:84 final size:82
Alignment explanation
Indices: 5488--5642 Score: 183
Period size: 84 Copynumber: 1.9 Consensus size: 82
5478 ATTATTAATA
* * *
5488 TATATAAATATATTATATATTAT-AA-ATATAATTTATATT-ATATATAATTA-AGTAATATTAA
1 TATATAAATATATTAT-T-TAATGAATAAATAATTAATATTAATAT-TAATTATAGTAATATT-A
5549 AATATATTATCTAATAATATT
62 AATATATTATCTAATAATATT
* *
5570 TATATAATATTATATTATTTAATGAATAAATAATTAATATTAATATTAATTATATTTATATTAAA
1 TATATAA-A-TATATTATTTAATGAATAAATAATTAATATTAATATTAATTATAGTAATATTAAA
5635 TATATTAT
64 TATATTAT
5643 AATTAGTTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
82 10 0.16
83 4 0.06
84 37 0.60
85 11 0.18
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (82 bp):
TATATAAATATATTATTTAATGAATAAATAATTAATATTAATATTAATTATAGTAATATTAAATA
TATTATCTAATAATATT
Found at i:5588 original size:8 final size:8
Alignment explanation
Indices: 5497--5697 Score: 52
Period size: 8 Copynumber: 25.5 Consensus size: 8
5487 ATATATAAAT
5497 ATATTAT-
1 ATATTATA
5504 ATATTATA
1 ATATTATA
5512 A-A-TATA
1 ATATTATA
5518 AT-TTATA
1 ATATTATA
*
5525 TTATATATA
1 ATAT-TATA
*
5534 AT-TAAGTA
1 ATATTA-TA
*
5542 ATATTAAA
1 ATATTATA
*
5550 ATA-TATT
1 ATATTATA
* *
5557 ATCTAATA
1 ATATTATA
5565 ATATTTATATA
1 ATA--T-TATA
5576 ATATTATA
1 ATATTATA
*
5584 TTATT-TA
1 ATATTATA
*
5591 ATGAATA-A
1 AT-ATTATA
*
5599 ATAAT-TA
1 ATATTATA
5606 ATA-T-TA
1 ATATTATA
*
5612 ATATTAATT
1 ATATT-ATA
5621 ATATT-T-
1 ATATTATA
*
5627 ATATTAAA
1 ATATTATA
5635 TATATTATA
1 -ATATTATA
5644 ATTAGTTATA
1 A-TA-TTATA
* *
5654 ATATAATT
1 ATATTATA
*
5662 ATATTTATT
1 ATA-TTATA
* *
5671 ATAATGTA
1 ATATTATA
*
5679 ATAATATA
1 ATATTATA
5687 A-ATTATA
1 ATATTATA
5694 ATAT
1 ATAT
5698 GAATAATTTG
Statistics
Matches: 144, Mismatches: 26, Indels: 47
0.66 0.12 0.22
Matches are distributed among these distances:
6 16 0.11
7 36 0.25
8 47 0.33
9 32 0.22
10 7 0.05
11 6 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (8 bp):
ATATTATA
Found at i:5653 original size:30 final size:30
Alignment explanation
Indices: 5472--5697 Score: 77
Period size: 30 Copynumber: 7.9 Consensus size: 30
5462 GTTAGCTTAA
5472 ATAA-TAATTATTAATAT-ATATAAATATATT
1 ATAATTAATTA-TAATATAAT-TAAATATATT
5502 AT-A-T-ATTATAAATATAATT---TATATT
1 ATAATTAATTAT-AATATAATTAAATATATT
*
5527 AT-ATATAATTAAGTAATAT--TAAAATATATT
1 ATAAT-TAATT-A-TAATATAATTAAATATATT
* *
5557 ATCTAA-TAA-TATTTATATAA-T-ATTATATT
1 A--TAATTAATTA-TAATATAATTAAATATATT
* *
5586 AT--TTAATGAATAA-ATAATT-AATAT-TA
1 ATAATTAAT-TATAATATAATTAAATATATT
*
5612 AT-ATTAATTAT-ATTTATATTAAATATATT
1 ATAATTAATTATAATATA-ATTAAATATATT
* * *
5641 ATAATTAGTTATAATATAATTATATTTATT
1 ATAATTAATTATAATATAATTAAATATATT
*
5671 ATAATGTAATAAT-ATA-AATTATAATAT
1 ATAAT-TAATTATAATATAATTA-AATAT
5698 GAATAATTTG
Statistics
Matches: 148, Mismatches: 20, Indels: 56
0.66 0.09 0.25
Matches are distributed among these distances:
25 10 0.07
26 14 0.09
27 19 0.13
28 19 0.13
29 32 0.22
30 40 0.27
31 12 0.08
32 1 0.01
33 1 0.01
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (30 bp):
ATAATTAATTATAATATAATTAAATATATT
Found at i:5675 original size:20 final size:20
Alignment explanation
Indices: 5610--5697 Score: 81
Period size: 20 Copynumber: 4.3 Consensus size: 20
5600 TAATTAATAT
5610 TAATATTAATTATATTTA-TA
1 TAATA-TAATTATATTTATTA
*
5630 TTAA-ATATATTATAATTAGTTA
1 -TAATATA-ATTATATTTA-TTA
5652 TAATATAATTATATTTATTA
1 TAATATAATTATATTTATTA
* * **
5672 TAATGTAATAATATAAATTA
1 TAATATAATTATATTTATTA
5692 TAATAT
1 TAATAT
5698 GAATAATTTG
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
19 2 0.04
20 34 0.61
21 15 0.27
22 5 0.09
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TAATATAATTATATTTATTA
Found at i:5990 original size:29 final size:29
Alignment explanation
Indices: 5958--6013 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 29
5948 ATATTTGAAT
5958 AATTATCAAATAACTAA-AAATAA-TTATTA
1 AATTAT-AAATAA-TAACAAATAAGTTATTA
*
5987 AATTATTAATAATAACAAATAAGTTAT
1 AATTATAAATAATAACAAATAAGTTAT
6014 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:6422 original size:28 final size:27
Alignment explanation
Indices: 6363--6425 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
6353 TCAAATCGTT
6363 CTTATTATTATATATATATAATAATTA
1 CTTATTATTATATATATATAATAATTA
* *
6390 --AATTATTATA-ATTTGATAATATATTA
1 CTTATTATTATATATAT-ATAATA-ATTA
6416 CTTATTATTA
1 CTTATTATTA
6426 CCTTATCTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
24 3 0.10
25 15 0.52
26 4 0.14
28 7 0.24
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (27 bp):
CTTATTATTATATATATATAATAATTA
Found at i:6800 original size:34 final size:35
Alignment explanation
Indices: 6735--6816 Score: 84
Period size: 34 Copynumber: 2.5 Consensus size: 35
6725 TTAATAATTA
* * *
6735 ATATTATATTAATAATTTATTAATTTATTATA-AG
1 ATATTATAATAATTATATATTAATTTATTATATAG
*
6769 ATATTATAATAATTATATATATAA-TTGTTATATAG
1 ATATTATAATAATTATATAT-TAATTTATTATATAG
6804 AT-TTA-AAT-ATTAT
1 ATATTATAATAATTAT
6817 GAATTGAGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
32 5 0.12
33 3 0.07
34 27 0.64
35 7 0.17
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (35 bp):
ATATTATAATAATTATATATTAATTTATTATATAG
Found at i:7568 original size:25 final size:25
Alignment explanation
Indices: 7545--7612 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
7535 ATATATAATT
7545 TATTATAAATTAATTTAAATTAATAA
1 TATTA-AAATTAATTTAAATTAATAA
* *
7571 TATTAATATTAATTTATATTAAT-A
1 TATTAAAATTAATTTAAATTAATAA
7595 T-TTAAATATTAATATTAA
1 TATTAAA-ATTAAT-TTAA
7613 TATATTATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 4 0.11
24 8 0.22
25 19 0.53
26 5 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TATTAAAATTAATTTAAATTAATAA
Found at i:7577 original size:6 final size:6
Alignment explanation
Indices: 7568--7615 Score: 64
Period size: 6 Copynumber: 8.0 Consensus size: 6
7558 TTTAAATTAA
7568 TAATAT TAATAT TAAT-T T-ATAT TAATATT TAAATAT TAATAT TAATAT
1 TAATAT TAATAT TAATAT TAATAT TAATA-T T-AATAT TAATAT TAATAT
7616 ATTATCAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
4 2 0.05
5 4 0.11
6 24 0.63
7 4 0.11
8 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATAT
Found at i:7605 original size:14 final size:14
Alignment explanation
Indices: 7559--7619 Score: 72
Period size: 14 Copynumber: 4.2 Consensus size: 14
7549 ATAAATTAAT
7559 TTAA-ATTAATAATA
1 TTAATATTAAT-ATA
7573 TTAATATTAATTTATA
1 TTAATATTAA--TATA
7589 TTAATATTTAA-ATA
1 TTAATA-TTAATATA
7603 TTAATATTAATATA
1 TTAATATTAATATA
7617 TTA
1 TTA
7620 TCAATTAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
13 4 0.10
14 19 0.45
15 5 0.12
16 9 0.21
17 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTAATATTAATATA
Found at i:7611 original size:20 final size:20
Alignment explanation
Indices: 7557--7615 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
7547 TTATAAATTA
*
7557 ATTTAAATTAATAATATTAAT
1 ATTTAAA-TATTAATATTAAT
7578 A-TT-AAT-TT-ATATTAAT
1 ATTTAAATATTAATATTAAT
7594 ATTTAAATATTAATATTAAT
1 ATTTAAATATTAATATTAAT
7614 AT
1 AT
7616 ATTATCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
16 9 0.27
17 3 0.09
18 4 0.12
19 4 0.12
20 12 0.36
21 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTAAATATTAATATTAAT
Found at i:7631 original size:14 final size:13
Alignment explanation
Indices: 7586--7641 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 13
7576 ATATTAATTT
*
7586 ATATTAATATTTAA
1 ATATT-ATAATTAA
7600 ATATTA-ATATTAA
1 ATATTATA-ATTAA
7613 TATATTATCAATTAA
1 -ATATTAT-AATTAA
*
7628 ATATCATAATTAA
1 ATATTATAATTAA
7641 A
1 A
7642 GAATTAAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
12 1 0.03
13 12 0.33
14 17 0.47
15 5 0.14
16 1 0.03
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (13 bp):
ATATTATAATTAA
Found at i:8282 original size:23 final size:22
Alignment explanation
Indices: 8239--8286 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
8229 TTTTATGAAC
*
8239 AATAATAATATATAATCTATTA
1 AATAATAATAAATAATCTATTA
*
8261 AATAATAATTAAATAATTTATTA
1 AATAATAA-TAAATAATCTATTA
8284 AAT
1 AAT
8287 TTAATACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAATAATAAATAATCTATTA
Found at i:8332 original size:33 final size:38
Alignment explanation
Indices: 8251--8340 Score: 97
Period size: 37 Copynumber: 2.6 Consensus size: 38
8241 TAATAATATA
8251 TAAT-CTATTAAA-TAATAATTAAATAATTTATTAAATT
1 TAATACTA-TAAATTAATAATTAAATAATTTATTAAATT
* *
8288 TAATACTATAAATTAATAA-TATATTATTTATT-AATT
1 TAATACTATAAATTAATAATTAAATAATTTATTAAATT
8324 T-A-AC-ATAAATTAA-AATT
1 TAATACTATAAATTAATAATT
8341 TTAAATTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
32 2 0.04
33 10 0.21
34 2 0.04
35 1 0.02
36 5 0.10
37 19 0.40
38 9 0.19
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (38 bp):
TAATACTATAAATTAATAATTAAATAATTTATTAAATT
Found at i:8885 original size:22 final size:24
Alignment explanation
Indices: 8859--8917 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
8849 ATGATTTGTC
*
8859 ATATAAATAATAT-T-TATATAAT
1 ATATAAATAATATATATAGATAAT
*
8881 ATATAAAGAATATATATAGATAAT
1 ATATAAATAATATATATAGATAAT
* *
8905 TTATCAATAATAT
1 ATATAAATAATAT
8918 GAAACAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 12 0.40
23 1 0.03
24 17 0.57
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (24 bp):
ATATAAATAATATATATAGATAAT
Found at i:8892 original size:11 final size:11
Alignment explanation
Indices: 8859--8944 Score: 57
Period size: 11 Copynumber: 7.5 Consensus size: 11
8849 ATGATTTGTC
8859 ATATAAATAAT
1 ATATAAATAAT
* *
8870 ATTTATATAAT
1 ATATAAATAAT
*
8881 ATATAAAGAAT
1 ATATAAATAAT
8892 ATATATAGATAAT
1 ATATA-A-ATAAT
* *
8905 TTATCAATAAT
1 ATATAAATAAT
* *
8916 ATGAAACAATATT
1 AT-ATA-AATAAT
*
8929 ATATTAATAA-
1 ATATAAATAAT
8939 ATATAA
1 ATATAA
8945 TATTATTGTA
Statistics
Matches: 55, Mismatches: 16, Indels: 9
0.69 0.20 0.11
Matches are distributed among these distances:
10 5 0.09
11 32 0.58
12 4 0.07
13 14 0.25
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.38
Consensus pattern (11 bp):
ATATAAATAAT
Found at i:9118 original size:17 final size:17
Alignment explanation
Indices: 9092--9149 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
9082 TAATTATCTA
*
9092 ATAATAATATTATTAA-T
1 ATAATTATATTA-TAATT
9109 ATAATTATATTATAATT
1 ATAATTATATTATAATT
*
9126 ATAAGTA-ATTAATAATT
1 ATAATTATATT-ATAATT
9143 ATAATTA
1 ATAATTA
9150 CTACAAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 6 0.17
17 30 0.83
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
ATAATTATATTATAATT
Found at i:9126 original size:23 final size:23
Alignment explanation
Indices: 9110--9169 Score: 61
Period size: 26 Copynumber: 2.6 Consensus size: 23
9100 ATTATTAATA
*
9110 TAATT-AT-ATTATAATTATAAG
1 TAATTAATAATTATAATTATAAA
9131 TAATTAATAATTATAATTACTACAAA
1 TAATTAATAATTATAATTA-T--AAA
*
9157 TATTTAATAATTA
1 TAATTAATAATTA
9170 ACGTATTATA
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 1 0.03
26 14 0.44
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (23 bp):
TAATTAATAATTATAATTATAAA
Found at i:9605 original size:27 final size:27
Alignment explanation
Indices: 9565--9661 Score: 69
Period size: 26 Copynumber: 3.6 Consensus size: 27
9555 AATAGTTAAT
*
9565 TAATTATATTATATTAATGTTA-TAAAC
1 TAATTATATTATA-TAATATTATTAAAC
*
9592 TAATTAT-TTCATATATTATTATTAAAC
1 TAATTATATT-ATATAATATTATTAAAC
* *
9619 TAA-TATATAAT-TAGCTATTATTAATAC
1 TAATTATATTATATA-ATATTATTAA-AC
9646 T-ATTAATATTAATATA
1 TAATT-ATATT-ATATA
9662 TGAATTAAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 15
0.74 0.07 0.20
Matches are distributed among these distances:
25 2 0.04
26 23 0.41
27 23 0.41
28 4 0.07
29 2 0.04
30 2 0.04
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.48
Consensus pattern (27 bp):
TAATTATATTATATAATATTATTAAAC
Found at i:9685 original size:17 final size:18
Alignment explanation
Indices: 9646--9688 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
9636 TTATTAATAC
9646 TATTAATATTAATATATG
1 TATTAATATTAATATATG
*
9664 AATTAA-ATTAATATAAT-
1 TATTAATATTAATAT-ATG
9681 TATTAATA
1 TATTAATA
9689 ATCAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TATTAATATTAATATATG
Found at i:9698 original size:23 final size:24
Alignment explanation
Indices: 9672--9716 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
9662 TGAATTAAAT
*
9672 TAATATAATTATTAATA-ATCAAA
1 TAATATAATTAGTAATATATCAAA
* *
9695 TAATTTATTTAGTAATATATCA
1 TAATATAATTAGTAATATATCA
9717 TATTATAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (24 bp):
TAATATAATTAGTAATATATCAAA
Found at i:11142 original size:20 final size:20
Alignment explanation
Indices: 11093--11143 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
11083 TTACCATTAA
11093 TAATAATTATTTAACTATAT
1 TAATAATTATTTAACTATAT
* *
11113 TATTATTTATTATAA-TA-ATT
1 TAATAATTATT-TAACTATA-T
11133 TAATAATTATT
1 TAATAATTATT
11144 GAAATATTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATAATTATTTAACTATAT
Found at i:11272 original size:29 final size:27
Alignment explanation
Indices: 11240--11305 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 27
11230 AGTAACTAAC
*
11240 ATTATAATATTATATTTATAATAATTAAT
1 ATTATAATATT-TATTAAT-ATAATTAAT
* *
11269 ATTA-ATTAATTATTAATATAATTAAT
1 ATTATAATATTTATTAATATAATTAAT
11295 A-TATAATATTT
1 ATTATAATATTT
11306 GAATTACTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
25 2 0.06
26 15 0.48
27 6 0.19
28 4 0.13
29 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTATAATATTTATTAATATAATTAAT
Found at i:11285 original size:21 final size:22
Alignment explanation
Indices: 11242--11290 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
11232 TAACTAACAT
*
11242 TATAATATTATATTTATAATAA
1 TATAATATTATATTAATAATAA
*
11264 T-TAATATTA-ATTAATTATTAA
1 TATAATATTATATTAA-TAATAA
11285 TATAAT
1 TATAAT
11291 TAATATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 4 0.17
21 14 0.61
22 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATAATATTATATTAATAATAA
Found at i:11725 original size:10 final size:10
Alignment explanation
Indices: 11710--11744 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
11700 TATAAATTAT
11710 TTATTAATAA
1 TTATTAATAA
11720 TTATTAATAA
1 TTATTAATAA
11730 -T-TTAATAA
1 TTATTAATAA
11738 TTATTAA
1 TTATTAA
11745 AAAGTCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 7 0.30
9 2 0.09
10 14 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
TTATTAATAA
Found at i:12085 original size:175 final size:169
Alignment explanation
Indices: 11756--12116 Score: 367
Period size: 171 Copynumber: 2.1 Consensus size: 169
11746 AAGTCATAAC
* * * * * * *
11756 GATTTGAAATAAATAATTGCTCAAGTAGTCATAACTATTTAACTAGTTTGATGAATAGATTTATT
1 GATTTGAAATAGATAATTGCTCAAATAGCCATAACTATTTAACTAGTTAGATGAACAAAATTATT
* *
11821 TTTTAAATCTCTTAATAATTTTTGAAATATCAATATATTAGTATTATTTTATTTCAAACAAACTT
66 TTTTAAATCTCTTAATAATTTTTGAAATATCAATAAATTAGTATTATTTTATTTCAAACAAACTA
*
11886 ATATGAACAAAAACATTTGTTTTATGACAAAGGGAC-ACAAT
131 ATATGAACAAAAACATTTGTTTTATGACAAA---ACAAAAAT
* * * *
11927 GATTTGAAATAGATAATTGTTCAAATAGCCATAATTATTTGAACTGGTTAGGTGAACAAAATTAT
1 GATTTGAAATAGATAATTGCTCAAATAGCCATAACTATTT-AACTAGTTAGATGAACAAAATTAT
* *
11992 TTTTTAAATCTCTTACATATTAATTTTTGAAATATTAGTAAATT--TATTTATTTTA-TTCTAAA
65 TTTTTAAATCTCTT--A-A-TAATTTTTGAAATATCAATAAATTAGTA-TTATTTTATTTC-AAA
* * * *
12054 -AATGCTAATGTGAATTGAAAAA-A-TTGTTTTATGATAAAACAAAAAT
124 CAA-ACTAATATGAA--CAAAAACATTTGTTTTATGACAAAACAAAAAT
*
12100 GACTTGAAATAGATAAT
1 GATTTGAAATAGATAAT
12117 AATTCATACA
Statistics
Matches: 158, Mismatches: 21, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
171 35 0.22
172 34 0.22
173 20 0.13
174 8 0.05
175 34 0.22
176 22 0.14
177 5 0.03
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (169 bp):
GATTTGAAATAGATAATTGCTCAAATAGCCATAACTATTTAACTAGTTAGATGAACAAAATTATT
TTTTAAATCTCTTAATAATTTTTGAAATATCAATAAATTAGTATTATTTTATTTCAAACAAACTA
ATATGAACAAAAACATTTGTTTTATGACAAAACAAAAAT
Found at i:12609 original size:17 final size:18
Alignment explanation
Indices: 12573--12616 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
12563 TAATTATTTA
* *
12573 AAATTTATTTAAATATTT
1 AAATTTATTGAAATAGTT
12591 AAATTT-TTGAAATAGTT
1 AAATTTATTGAAATAGTT
12608 AAATTTATT
1 AAATTTATT
12617 AATAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (18 bp):
AAATTTATTGAAATAGTT
Found at i:13642 original size:48 final size:48
Alignment explanation
Indices: 13590--13683 Score: 116
Period size: 48 Copynumber: 2.0 Consensus size: 48
13580 TTTGAAGTAA
* *
13590 CTATTGATATGAAATATTAATAAAAATTTATTAATTAATGATTATAAT
1 CTATTCATATGAAATATTAATAAAAATTTATTAATTAATAATTATAAT
* * * * * *
13638 CTATTCATATTAATTATTATTAATAATTTATTTATTTATAATTATA
1 CTATTCATATGAAATATTAATAAAAATTTATTAATTAATAATTATA
13684 TAGATAAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (48 bp):
CTATTCATATGAAATATTAATAAAAATTTATTAATTAATAATTATAAT
Found at i:13695 original size:13 final size:14
Alignment explanation
Indices: 13677--13709 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
13667 ATTTATTTAT
13677 AATTATA-TAGATA
1 AATTATATTAGATA
13690 AATTATATTAGATA
1 AATTATATTAGATA
13704 ATATTA
1 A-ATTA
13710 ACAATATTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 7 0.39
15 4 0.22
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (14 bp):
AATTATATTAGATA
Found at i:14808 original size:40 final size:40
Alignment explanation
Indices: 14733--14808 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
14723 AACAAACAAT
* *
14733 TATAATTATTAGTAATAATTTAATAAAATAGTTATAGTAG
1 TATAATTATTAGTAATAATTAAATAAAATAATTATAGTAG
*
14773 TATAA-TATTA-TAATAATATAAACTATAATAATTATA
1 TATAATTATTAGTAATAAT-TAAA-TAAAATAATTATA
14809 ATATTATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
38 7 0.23
39 8 0.26
40 16 0.52
ACGTcount: A:0.51, C:0.01, G:0.05, T:0.42
Consensus pattern (40 bp):
TATAATTATTAGTAATAATTAAATAAAATAATTATAGTAG
Found at i:14810 original size:9 final size:9
Alignment explanation
Indices: 14773--14860 Score: 57
Period size: 9 Copynumber: 10.2 Consensus size: 9
14763 GTTATAGTAG
14773 TATAAT-AT
1 TATAATAAT
14781 TATAATAA-
1 TATAATAAT
*
14789 TAT-A-AAC
1 TATAATAAT
14796 TATAATAAT
1 TATAATAAT
14805 TATAAT-AT
1 TATAATAAT
*
14813 TAT-TTAATT
1 TATAATAA-T
14822 TATTGAAT-AT
1 TA-T-AATAAT
14832 TATAATAAT
1 TATAATAAT
14841 TATAA-ATAT
1 TATAATA-AT
*
14850 TAAAATAAT
1 TATAATAAT
14859 TA
1 TA
14861 ATATGATATT
Statistics
Matches: 64, Mismatches: 4, Indels: 23
0.70 0.04 0.25
Matches are distributed among these distances:
6 2 0.03
7 5 0.08
8 20 0.31
9 30 0.47
10 5 0.08
11 1 0.02
12 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (9 bp):
TATAATAAT
Found at i:15208 original size:11 final size:11
Alignment explanation
Indices: 15187--15256 Score: 54
Period size: 11 Copynumber: 5.9 Consensus size: 11
15177 AAATATAACA
15187 ATTATTAATTAT
1 ATTA-TAATTAT
*
15199 ATTATAATTAA
1 ATTATAATTAT
15210 ATTATAATATAAT
1 ATTATAAT-T-AT
15223 ATTTATATATTA-
1 A-TTATA-ATTAT
15235 ATT-TAATTTATT
1 ATTATAA-TTA-T
15247 ATTATAATTA
1 ATTATAATTA
15257 ATAAAATATT
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
9 1 0.02
10 5 0.10
11 16 0.33
12 12 0.25
13 6 0.12
14 6 0.12
15 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATTATAATTAT
Found at i:15245 original size:17 final size:16
Alignment explanation
Indices: 15191--15294 Score: 58
Period size: 16 Copynumber: 6.5 Consensus size: 16
15181 ATAACAATTA
15191 TTAATTATAT-TATAAT
1 TTAATTATATAT-TAAT
*
15207 TAAATTATA-ATATAA-
1 TTAATTATATAT-TAAT
*
15222 -TATTTATATATTAAT
1 TTAATTATATATTAAT
*
15237 TTAATT-TATTATTATAA
1 TTAATTATA-TATTA-AT
* *
15254 TTAATAAAATATTAACT
1 TTAATTATATATTAA-T
*
15271 TT-ATTATAAATTAAT
1 TTAATTATATATTAAT
15286 TTATATTAT
1 TTA-ATTAT
15295 CATAATTTAT
Statistics
Matches: 67, Mismatches: 11, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
14 9 0.13
15 7 0.10
16 32 0.48
17 18 0.27
18 1 0.01
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATTATATATTAAT
Found at i:15291 original size:26 final size:24
Alignment explanation
Indices: 15189--15293 Score: 65
Period size: 26 Copynumber: 4.2 Consensus size: 24
15179 ATATAACAAT
*
15189 TATTAATTA-TATTATAATTAAATTA
1 TATTAATTATTA-TA-AATTAATTTA
*
15214 TAATATAA-TATTTATATATTAATTTA
1 T-AT-TAATTA-TTATAAATTAATTTA
* **
15240 -ATTTATTATTAT-AATTAATAAAA
1 TATTAATTATTATAAATTAAT-TTA
15263 TATTAACTTTATTATAAATTAATTTA
1 TATTAA--TTATTATAAATTAATTTA
15289 TATTA
1 TATTA
15294 TCATAATTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 19
0.69 0.10 0.21
Matches are distributed among these distances:
22 6 0.10
23 7 0.11
24 8 0.13
25 1 0.02
26 25 0.41
27 12 0.20
28 2 0.03
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (24 bp):
TATTAATTATTATAAATTAATTTA
Found at i:16421 original size:25 final size:24
Alignment explanation
Indices: 16393--16440 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
16383 ATGTAATTAA
16393 ATTTTTAATAATTATTATTAAATAT
1 ATTTTTAATAATTA-TATTAAATAT
* *
16418 ATTTTTACTAATTATATTTAATA
1 ATTTTTAATAATTATATTAAATA
16441 CTATAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
ATTTTTAATAATTATATTAAATAT
Found at i:17113 original size:15 final size:14
Alignment explanation
Indices: 17085--17130 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
17075 TTATCTATAT
*
17085 TTAATTCTTAAATA
1 TTAATTATTAAATA
*
17099 TTAATTAATTTAATA
1 TTAATT-ATTAAATA
*
17114 TGAATTATTAAATA
1 TTAATTATTAAATA
17128 TTA
1 TTA
17131 TCATTATTGC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (14 bp):
TTAATTATTAAATA
Found at i:17441 original size:33 final size:31
Alignment explanation
Indices: 17388--17455 Score: 75
Period size: 33 Copynumber: 2.1 Consensus size: 31
17378 TATTAATTTG
* *
17388 ATTAGAAATAAATTAGTATAATTAT-TTAATT
1 ATTAGAAATAAATAAGTATAATAATCTTAA-T
*
17419 ATTAGTAATTAAATAAGTTATAATAATCTTAAT
1 ATTAG-AAATAAATAAG-TATAATAATCTTAAT
17452 ATTA
1 ATTA
17456 TATAAACAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
31 5 0.16
32 9 0.29
33 13 0.42
34 4 0.13
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (31 bp):
ATTAGAAATAAATAAGTATAATAATCTTAAT
Found at i:19071 original size:48 final size:48
Alignment explanation
Indices: 19019--19112 Score: 116
Period size: 48 Copynumber: 2.0 Consensus size: 48
19009 TTTGAAGTAA
* *
19019 CTATTGATATGAAATATTAATAAAAATTTATTAATTAATGATTATAAT
1 CTATTCATATGAAATATTAATAAAAATTTATTAATTAATAATTATAAT
* * * * * *
19067 CTATTCATATTAATTATTATTAATAATTTATTTATTTATAATTATA
1 CTATTCATATGAAATATTAATAAAAATTTATTAATTAATAATTATA
19113 TAGATAAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (48 bp):
CTATTCATATGAAATATTAATAAAAATTTATTAATTAATAATTATAAT
Found at i:20238 original size:40 final size:40
Alignment explanation
Indices: 20163--20238 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
20153 AACAAACAAT
* *
20163 TATAATTATTAGTAATAATTTAATAAAATAGTTATAGTAG
1 TATAATTATTAGTAATAATTAAATAAAATAATTATAGTAG
*
20203 TATAA-TATTA-TAATAATATAAACTATAATAATTATA
1 TATAATTATTAGTAATAAT-TAAA-TAAAATAATTATA
20239 ATATTATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
38 7 0.23
39 8 0.26
40 16 0.52
ACGTcount: A:0.51, C:0.01, G:0.05, T:0.42
Consensus pattern (40 bp):
TATAATTATTAGTAATAATTAAATAAAATAATTATAGTAG
Found at i:20279 original size:18 final size:17
Alignment explanation
Indices: 20203--20291 Score: 85
Period size: 18 Copynumber: 5.1 Consensus size: 17
20193 GTTATAGTAG
20203 TATAATATTATAATAA-
1 TATAATATTATAATAAT
*
20219 TATAA-ACTATAATAAT
1 TATAATATTATAATAAT
*
20235 TATAATATTATTTAAT-TT
1 TATAATATTA--TAATAAT
20253 TATTGAATATTATAATAAT
1 TA-T-AATATTATAATAAT
*
20272 TATAAATATTAAAATAAT
1 TAT-AATATTATAATAAT
20290 TA
1 TA
20292 ATATGATATT
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
15 9 0.15
16 10 0.17
17 3 0.05
18 23 0.38
19 8 0.13
20 7 0.12
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (17 bp):
TATAATATTATAATAAT
Found at i:20723 original size:17 final size:16
Alignment explanation
Indices: 20703--20748 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
20693 AATATTAACT
20703 TATTATAAATTAATTTA
1 TATTATAAATTAA-TTA
20720 TATTATTCAAA-TAATTA
1 TATTA-T-AAATTAATTA
20737 TA-TATAAATTAA
1 TATTATAAATTAA
20749 ATATTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 3 0.12
15 4 0.15
16 2 0.08
17 10 0.38
18 4 0.15
19 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTATAAATTAATTA
Found at i:20894 original size:41 final size:43
Alignment explanation
Indices: 20849--20943 Score: 99
Period size: 41 Copynumber: 2.3 Consensus size: 43
20839 ATGAAACTTA
* *
20849 ACTTATATTAAAATAATTAATAAA-TTATATCAA-TATTATCT
1 ACTTATATTAAAATAAATAATAAACTTATATCAACAATTATCT
* * *
20890 ACTTA-A-TAAATTAAATAATAAACTTATTTGAACAATTATCT
1 ACTTATATTAAAATAAATAATAAACTTATATCAACAATTATCT
*
20931 AATTAATATTAAA
1 ACTT-ATATTAAA
20944 TTATTGAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
39 14 0.33
40 8 0.19
41 15 0.35
42 1 0.02
43 1 0.02
44 4 0.09
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (43 bp):
ACTTATATTAAAATAAATAATAAACTTATATCAACAATTATCT
Found at i:20938 original size:29 final size:28
Alignment explanation
Indices: 20898--20960 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 28
20888 CTACTTAATA
20898 AATTAAATAATAAACTTATTTGAACAATTATCT
1 AATT-AAT-ATAAA-TTA-TTGAA-AATTATCT
20931 AATTAATATTAAATTATTGAAAATTATCT
1 AATTAATA-TAAATTATTGAAAATTATCT
20960 A
1 A
20961 TTATAGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 9 0.31
30 5 0.17
31 4 0.14
32 7 0.24
33 4 0.14
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.41
Consensus pattern (28 bp):
AATTAATATAAATTATTGAAAATTATCT
Found at i:21866 original size:25 final size:26
Alignment explanation
Indices: 21838--21891 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
21828 TATTTAAATT
21838 TTATTTAATT-AA-ATATTTTTAATAA
1 TTATTT-ATTAAATATATTTTTAATAA
*
21863 TTA-TTATTAAATATATTTTTACTAA
1 TTATTTATTAAATATATTTTTAATAA
21888 TTAT
1 TTAT
21892 ATTTAATACT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 3 0.12
24 4 0.16
25 18 0.72
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
TTATTTATTAAATATATTTTTAATAA
Found at i:21897 original size:25 final size:25
Alignment explanation
Indices: 21850--21899 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
21840 ATTTAATTAA
21850 ATATTTTTAATAATTATTATTAAAT
1 ATATTTTTAATAATTATTATTAAAT
* *
21875 ATATTTTTACTAATTA-TATTTAAT
1 ATATTTTTAATAATTATTATTAAAT
21899 A
1 A
21900 CTATAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
ATATTTTTAATAATTATTATTAAAT
Found at i:27673 original size:13 final size:13
Alignment explanation
Indices: 27638--27681 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
27628 TCCTAATTTA
*
27638 ATTAATTAATAAT
1 ATTAATTAATATT
*
27651 ACT-A-TAATATT
1 ATTAATTAATATT
27662 ATTAATTAATATT
1 ATTAATTAATATT
27675 ATTAATT
1 ATTAATT
27682 CAGTGGTTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 8 0.31
12 2 0.08
13 16 0.62
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTAATTAATATT
Found at i:27818 original size:20 final size:20
Alignment explanation
Indices: 27780--27819 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
27770 TTAGAAATTA
*
27780 AATATTAAATATTTTAATAT
1 AATATTAAATATTTAAATAT
27800 AATATTAAAT-TATTAAATAT
1 AATATTAAATAT-TTAAATAT
27820 CTTATACCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATTAAATATTTAAATAT
Found at i:27908 original size:18 final size:17
Alignment explanation
Indices: 27885--27948 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 17
27875 TTCATTAGAT
27885 ATTAGTTACTTTATAAGA
1 ATTAGTTA-TTTATAAGA
** *
27903 ATTAGTTATAAAACAAGA
1 ATTAGTTAT-TTATAAGA
*
27921 ATTAGTTATTTTATAATA
1 ATTAGTTA-TTTATAAGA
*
27939 ATTAATTATT
1 ATTAGTTATT
27949 AAAAAATTGT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
17 3 0.08
18 32 0.89
19 1 0.03
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (17 bp):
ATTAGTTATTTATAAGA
Found at i:27982 original size:17 final size:16
Alignment explanation
Indices: 27926--27982 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
27916 CAAGAATTAG
*
27926 TTATT-TTATAATAAT
1 TTATTATTAAAATAAT
*
27941 TAATTATTAAAA-AAT
1 TTATTATTAAAATAAT
27956 TGTATTTATTAAAATAAT
1 T-TA-TTATTAAAATAAT
27974 TTATATATT
1 TTAT-TATT
27983 TATTTATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
15 8 0.24
16 7 0.21
17 15 0.44
18 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TTATTATTAAAATAAT
Found at i:28616 original size:15 final size:13
Alignment explanation
Indices: 28586--28632 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 13
28576 TAATTATCTA
28586 AAATTATAATAATT
1 AAATTA-AATAATT
28600 AAATTAAATAATTTT
1 AAATTAAATAA--TT
*
28615 AATTTAAAT-ATT
1 AAATTAAATAATT
28627 AAATTA
1 AAATTA
28633 TTAAAATGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 7 0.24
13 5 0.17
14 7 0.24
15 10 0.34
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AAATTAAATAATT
Found at i:28712 original size:14 final size:13
Alignment explanation
Indices: 28693--28726 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
28683 ACTATGTATC
28693 ATAATAAAAAATA
1 ATAATAAAAAATA
*
28706 TATAATAAAAATTA
1 -ATAATAAAAAATA
28720 ATAATAA
1 ATAATAA
28727 TAATTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
ATAATAAAAAATA
Found at i:28715 original size:13 final size:13
Alignment explanation
Indices: 28693--28735 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
28683 ACTATGTATC
*
28693 ATAATAAAAAATA
1 ATAATAAAAATTA
28706 TATAATAAAAATTA
1 -ATAATAAAAATTA
*
28720 ATAATAATAATTA
1 ATAATAAAAATTA
28733 ATA
1 ATA
28736 TATATGGGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAATAAAAATTA
Found at i:29216 original size:181 final size:181
Alignment explanation
Indices: 28957--29297 Score: 432
Period size: 181 Copynumber: 1.9 Consensus size: 181
28947 AATAAATAGG
* * * * * * *
28957 AGATTTAAAAAATAAATCTGTTTATCGAATCAGTTTAAATAGTTATGACTATTTGAACAATTATA
1 AGATTTAAAAAATAAATCTGTTTACCAAACCAATTCAAATAGTTAAGACTATATGAACAATTATA
* * * *
29022 TATTCCCAATCATTAT-AACCTTTTGTTTTGTCATAAAATAATTATTTATCTTCATACAAGCTTA
66 TATTCCAAATCATTATGAA-CTTTTGTGTTGTCATAAAACAAATATTTATCTTCATACAAGCTTA
29086 TTCGAAATAAAATAATACTAATATAGTAATACTATGAAATTTAATAACTGAT
130 TTCGAAATAAAATAATACTAATATAGTAATACTATGAAATTTAATAACTGAT
* * * *
29138 AGATTTAAAAAATAAATTTGTTTACCAAACCAATTCAAATAGTTAAGGCTATATGAATAATTATC
1 AGATTTAAAAAATAAATCTGTTTACCAAACCAATTCAAATAGTTAAGACTATATGAACAATTATA
* * * * * * * *
29203 TATTTCAAATCATTATGAACTTTTGTGTTGTCGTAAAACAAATGTTTTTGTTCATATAAGTTTGT
66 TATTCCAAATCATTATGAACTTTTGTGTTGTCATAAAACAAATATTTATCTTCATACAAGCTTAT
* * *
29268 TCGAAATAAAATAATATTAATTTATTAATA
131 TCGAAATAAAATAATACTAATATAGTAATA
29298 TTTCAAAAAT
Statistics
Matches: 133, Mismatches: 26, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
181 131 0.98
182 2 0.02
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (181 bp):
AGATTTAAAAAATAAATCTGTTTACCAAACCAATTCAAATAGTTAAGACTATATGAACAATTATA
TATTCCAAATCATTATGAACTTTTGTGTTGTCATAAAACAAATATTTATCTTCATACAAGCTTAT
TCGAAATAAAATAATACTAATATAGTAATACTATGAAATTTAATAACTGAT
Found at i:29313 original size:181 final size:177
Alignment explanation
Indices: 28951--29389 Score: 427
Period size: 181 Copynumber: 2.5 Consensus size: 177
28941 GTTATTAATA
* * * * * * * *
28951 AATAGGAGATTTAAAAAATAAATCTGTTTATCGAATCAGTTTAAATAGTTATGACTATTTGAACA
1 AATAAGAGATTTAAAAAATAAATTTGTTTACCAAACCAGTTCAAATAGTTAAGACTATATGAACA
* * * *
29016 ATTATATATTCCCAATCATTATAACCTTTTGTTTTGTCATAAAATAATTATTTATCTTCATACAA
66 ATTATATATTCCAAATCATTATAACCTTTTGTGTTGTCATAAAACAAATATTTATCTTCATACAA
* *
29081 GCTTATTCGAAATAAAATAATACTAATATAGTAATACTATGAAATTT
131 GCTTATTCGAAATAAAATAATACTAATATAGTAATACTATAAAAATT
* *
29128 AATAACTGATAGATTTAAAAAATAAATTTGTTTACCAAACCAATTCAAATAGTTAAGGCTATATG
1 AATAA--G--AGATTTAAAAAATAAATTTGTTTACCAAACCAGTTCAAATAGTTAAGACTATATG
* * * * * * *
29193 AATAATTATCTATTTCAAATCATTATGAA-CTTTTGTGTTGTCGTAAAACAAATGTTTTTGTTCA
62 AACAATTATATATTCCAAATCATTAT-AACCTTTTGTGTTGTCATAAAACAAATATTTATCTTCA
* * * * * * *
29257 TATAAGTTTGTTCGAAATAAAATAATATTAATTTATTAATA-TTTCAAAAATT
126 TACAAGCTTATTCGAAATAAAATAATACTAATATAGTAATACTAT-AAAAATT
* * * * * * *
29309 AATAAGAGATTTAATAAATAAA-TTATTTACCATACTAGTTCAATTAGTTATA-ACAATTTGAAC
1 AATAAGAGATTTAAAAAATAAATTTGTTTACCAAACCAGTTCAAATAGTTA-AGACTATATGAAC
* * *
29372 ATTTATTTATTTCAAATC
65 AATTATATATTCCAAATC
29390 GTACTAAATT
Statistics
Matches: 213, Mismatches: 42, Indels: 15
0.79 0.16 0.06
Matches are distributed among these distances:
176 46 0.22
177 20 0.09
179 2 0.01
180 2 0.01
181 141 0.66
182 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (177 bp):
AATAAGAGATTTAAAAAATAAATTTGTTTACCAAACCAGTTCAAATAGTTAAGACTATATGAACA
ATTATATATTCCAAATCATTATAACCTTTTGTGTTGTCATAAAACAAATATTTATCTTCATACAA
GCTTATTCGAAATAAAATAATACTAATATAGTAATACTATAAAAATT
Found at i:30368 original size:14 final size:13
Alignment explanation
Indices: 30337--30370 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
30327 ACTAAATGAA
30337 TATAATATTAAAT
1 TATAATATTAAAT
*
30350 TATAATATTTAAT
1 TATAATATTAAAT
30363 TCATAATA
1 T-ATAATA
30371 CGAATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
TATAATATTAAAT
Found at i:31457 original size:72 final size:72
Alignment explanation
Indices: 31376--31531 Score: 215
Period size: 72 Copynumber: 2.2 Consensus size: 72
31366 TTGCTTGATG
* * * *
31376 GGATTGATTGGTACATGTTTTAAGCTAATTTTCCCTTTGAAAAAGCCTAA-TCGATCTATCCCTT
1 GGATCGATTGGTACAAGTTTTAAGCCAATTTTCCCTTTGAAAAAGCCTAACT-GATCAATCCCTT
31440 TATGTAAA
65 TATGTAAA
** *
31448 GGATCGATTGGTTTAAGTTTTAAGCCAATTTTCCCTTTGAAAATGCCTAACTGATCAATCCCTTT
1 GGATCGATTGGTACAAGTTTTAAGCCAATTTTCCCTTTGAAAAAGCCTAACTGATCAATCCCTTT
* *
31513 ATGTCAT
66 ATGTAAA
31520 GGATCGATTGGT
1 GGATCGATTGGT
31532 TAAGTGGGTG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
72 73 0.99
73 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (72 bp):
GGATCGATTGGTACAAGTTTTAAGCCAATTTTCCCTTTGAAAAAGCCTAACTGATCAATCCCTTT
ATGTAAA
Found at i:31532 original size:72 final size:71
Alignment explanation
Indices: 31392--31536 Score: 220
Period size: 72 Copynumber: 2.0 Consensus size: 71
31382 ATTGGTACAT
* *
31392 GTTTTAAGCTAATTTTCCCTTTGAAAAAGCCTAATCGATCTATCCCTTTATGTAAAGGATCGATT
1 GTTTTAAGCCAATTTTCCCTTTGAAAAAGCCTAATCGATCAATCCCTTTATGTAAAGGATCGATT
31457 GGTTTAA
66 GG-TTAA
* * *
31464 GTTTTAAGCCAATTTTCCCTTTGAAAATGCCTAA-CTGATCAATCCCTTTATGTCATGGATCGAT
1 GTTTTAAGCCAATTTTCCCTTTGAAAAAGCCTAATC-GATCAATCCCTTTATGTAAAGGATCGAT
31528 TGGTTAA
65 TGGTTAA
31535 GT
1 GT
31537 GGGTGATCGA
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 7 0.10
72 60 0.90
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.39
Consensus pattern (71 bp):
GTTTTAAGCCAATTTTCCCTTTGAAAAAGCCTAATCGATCAATCCCTTTATGTAAAGGATCGATT
GGTTAA
Found at i:32579 original size:25 final size:26
Alignment explanation
Indices: 32548--32598 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
32538 TTATTTGAGA
*
32548 TAATTAATATCAATTAA-TTATTATT
1 TAATTAATAACAATTAATTTATTATT
*
32573 TAATTAATAAGAATTAATTTATTATT
1 TAATTAATAACAATTAATTTATTATT
32599 ATATTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (26 bp):
TAATTAATAACAATTAATTTATTATT
Found at i:34694 original size:13 final size:12
Alignment explanation
Indices: 34644--34697 Score: 63
Period size: 13 Copynumber: 4.3 Consensus size: 12
34634 GAATTAGAAT
*
34644 AATAATTATCAAA
1 AATAATTAT-TAA
*
34657 AATAATTATTTA
1 AATAATTATTAA
34669 AATAATTATTAA
1 AATAATTATTAA
*
34681 AATCAATAATTAA
1 AAT-AATTATTAA
34694 AATA
1 AATA
34698 TTTTGAGATC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
12 16 0.44
13 20 0.56
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (12 bp):
AATAATTATTAA
Found at i:34696 original size:25 final size:25
Alignment explanation
Indices: 34644--34697 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
34634 GAATTAGAAT
* *
34644 AATAATTATCAAAAATAATTATTTA
1 AATAATTATCAAAAATAATAATTAA
*
34669 AATAATTAT-TAAAATCAATAATTAA
1 AATAATTATCAAAAAT-AATAATTAA
34694 AATA
1 AATA
34698 TTTTGAGATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (25 bp):
AATAATTATCAAAAATAATAATTAA
Found at i:35553 original size:20 final size:20
Alignment explanation
Indices: 35495--35553 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
35485 ATAATTATTT
*
35495 TATAA-TTTAATAATT-TGAA
1 TATAATTTTATTAATTAT-AA
*
35514 TAATAATATTATCTAA-TATAA
1 T-ATAATTTTAT-TAATTATAA
35535 TATAATTTTATTAATTATA
1 TATAATTTTATTAATTATA
35554 TTGTACTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
19 4 0.12
20 17 0.53
21 7 0.22
22 4 0.12
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (20 bp):
TATAATTTTATTAATTATAA
Found at i:35596 original size:17 final size:17
Alignment explanation
Indices: 35570--35611 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
35560 TTAAATATTT
35570 TAAT-AATTATTATAAA
1 TAATAAATTATTATAAA
*
35586 TAATAAATTATTATAAT
1 TAATAAATTATTATAAA
*
35603 TTATAAATT
1 TAATAAATT
35612 TATATATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAATAAATTATTATAAA
Found at i:35650 original size:17 final size:16
Alignment explanation
Indices: 35569--35781 Score: 58
Period size: 17 Copynumber: 13.4 Consensus size: 16
35559 CTTAAATATT
35569 TTAATAATTATTATAA
1 TTAATAATTATTATAA
*
35585 ATAATAAATTATTATAA
1 TTAAT-AATTATTATAA
* *
35602 TTTATAAATTTATATATAT
1 TTAAT-AA-TTAT-TATAA
35621 TTAAT-A-TA-TATAA
1 TTAATAATTATTATAA
*
35634 TTATATATAATTAATAATAA
1 -T-TA-ATAATT-ATTATAA
* * *
35654 TTCAAATATTTAGTAAAA
1 TT--AATAATTATTATAA
*
35672 TATAATAATTATTGT-A
1 T-TAATAATTATTATAA
**
35688 TTAATAA-TACAATAA
1 TTAATAATTATTATAA
* * *
35703 TTTAT-TTTA-AATAA
1 TTAATAATTATTATAA
*
35717 TTAAGTATATTATTTTAA
1 TTAA-TA-ATTATTATAA
35735 -T-ATAA-TA--ATAA
1 TTAATAATTATTATAA
*
35746 ATAATAATTATTATAA
1 TTAATAATTATTATAA
* *
35762 ATAATAATAATT-T-A
1 TTAATAATTATTATAA
35776 TTAATA
1 TTAATA
35782 GTAATTAATA
Statistics
Matches: 146, Mismatches: 27, Indels: 50
0.65 0.12 0.22
Matches are distributed among these distances:
11 3 0.02
12 1 0.01
13 10 0.07
14 21 0.14
15 21 0.14
16 24 0.16
17 31 0.21
18 14 0.10
19 16 0.11
20 5 0.03
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (16 bp):
TTAATAATTATTATAA
Found at i:35696 original size:23 final size:22
Alignment explanation
Indices: 35622--35781 Score: 93
Period size: 22 Copynumber: 7.1 Consensus size: 22
35612 TATATATATT
35622 TAATATATATAATTATATATAATTAA
1 TAATATA-ATAATTAT-T-T-ATTAA
* * *
35648 TAATA-ATTCAAATATTTAGTAA
1 TAATATAAT-AATTATTTATTAA
35670 -AATATAATAATTATTGTATTAA
1 TAATATAATAATTATT-TATTAA
* *
35692 TAATACAATAATTTATTT-TAAA
1 TAATATAATAA-TTATTTATTAA
35714 TAAT-TAAGTATATTATTTTAATATAA
1 TAATATAA-TA-ATTA-TTT-AT-TAA
*
35740 TAATA-AATAA-TAATTATT-A
1 TAATATAATAATTATTTATTAA
*
35759 TAA-ATAATAATAATTTATTAA
1 TAATATAATAATTATTTATTAA
35780 TA
1 TA
35782 GTAATTAATA
Statistics
Matches: 106, Mismatches: 13, Indels: 35
0.69 0.08 0.23
Matches are distributed among these distances:
18 1 0.01
19 9 0.08
20 7 0.07
21 17 0.16
22 25 0.24
23 17 0.16
24 8 0.08
25 9 0.08
26 13 0.12
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (22 bp):
TAATATAATAATTATTTATTAA
Found at i:35741 original size:26 final size:27
Alignment explanation
Indices: 35712--35769 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
35702 ATTTATTTTA
* *
35712 AATAATTAAGT-AT-ATTATTTTAATAT
1 AATAATTAAATAATAATTATTATAA-AT
35738 AATAA-TAAATAATAATTATTATAAAT
1 AATAATTAAATAATAATTATTATAAAT
35764 AATAAT
1 AATAAT
35770 AATTTATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 4 0.15
26 14 0.52
27 9 0.33
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (27 bp):
AATAATTAAATAATAATTATTATAAAT
Found at i:35763 original size:16 final size:16
Alignment explanation
Indices: 35742--35793 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
35732 TAATATAATA
35742 ATAAATAATAATTATT
1 ATAAATAATAATTATT
*
35758 ATAAATAATAATAATTT
1 ATAAATAATAATTA-TT
* * *
35775 ATTAATAGTAATTAAT
1 ATAAATAATAATTATT
35791 ATA
1 ATA
35794 TAACATTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
16 16 0.55
17 13 0.45
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (16 bp):
ATAAATAATAATTATT
Found at i:35885 original size:21 final size:21
Alignment explanation
Indices: 35847--35902 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
35837 TTTTATTAGT
35847 TTTGATTATACT-AAACAAAATA
1 TTTGATTATA-TAAAAC-AAATA
*
35869 TTTGATT-TATAAAACAAGTA
1 TTTGATTATATAAAACAAATA
*
35889 TTTTATTATATAAA
1 TTTGATTATATAAA
35903 TTAAACTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 11 0.37
21 12 0.40
22 7 0.23
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (21 bp):
TTTGATTATATAAAACAAATA
Found at i:36007 original size:8 final size:8
Alignment explanation
Indices: 35994--36035 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
35984 ATTTAAATTT
35994 TATTTAAA
1 TATTTAAA
36002 TATTTAAA
1 TATTTAAA
36010 TATTTAAA
1 TATTTAAA
36018 -ATTTTGAAA
1 TA-TTT-AAA
*
36027 TAGTTAAA
1 TATTTAAA
36035 T
1 T
36036 TTATTAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
7 1 0.03
8 23 0.77
9 5 0.17
10 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (8 bp):
TATTTAAA
Found at i:36027 original size:17 final size:17
Alignment explanation
Indices: 35994--36034 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
35984 ATTTAAATTT
35994 TATTT-AAATATTTAAA
1 TATTTAAAATATTTAAA
36010 TATTTAAAAT-TTTGAAA
1 TATTTAAAATATTT-AAA
*
36027 TAGTTAAA
1 TATTTAAA
36035 TTTATTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (17 bp):
TATTTAAAATATTTAAA
Found at i:36033 original size:25 final size:27
Alignment explanation
Indices: 35972--36035 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
35962 AATAAAGATT
* * *
35972 AATAGTATAATTATTTAAATTTTATTTA
1 AATAGT-TAAATATTTAAATATTATTGA
*
36000 AATATTTAAATATTTAAA-ATT-TTGA
1 AATAGTTAAATATTTAAATATTATTGA
36025 AATAGTTAAAT
1 AATAGTTAAAT
36036 TTATTAATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 13 0.42
26 2 0.06
27 11 0.35
28 5 0.16
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (27 bp):
AATAGTTAAATATTTAAATATTATTGA
Found at i:37242 original size:13 final size:14
Alignment explanation
Indices: 37224--37256 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
37214 TTTTATTTAT
37224 AATTATA-TAGATA
1 AATTATATTAGATA
37237 AATTATATTAGATA
1 AATTATATTAGATA
37251 ATATTA
1 A-ATTA
37257 ATAATATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 7 0.39
15 4 0.22
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (14 bp):
AATTATATTAGATA
Found at i:37909 original size:181 final size:177
Alignment explanation
Indices: 37480--38405 Score: 515
Period size: 181 Copynumber: 5.2 Consensus size: 177
37470 TTGTTGAACT
* * * * *
37480 AGTTCAAATAGTTAAGACTA-TTATAATAATTATCTATTTTAAATCATTCTGACCTTTTGTTTAG
1 AGTTCAAATAGTTATGACCATTTA-AACAATTATCTATTTTAAATCATTATGACCTTTTATTT-G
* * * * * *
37544 TCATAAAATAATTG-TTCAATTCATACATGCTTATTTGAAATAAAATAATACTATTTTATTAACA
64 TCATAAAAAAATTGTTTCATTTCATACAAGCTTA-TTAAAATAAAATAATACTACTTTATTAATA
** * *
37608 -TTCAAAAAATTAATAAG-CAAGGTATTAAAAATAAATCTGTTTACCAAATA
128 TTTC-AAAAATTAATAAGTGGAGAT-TTAAAAATAAATCTGTTTACAAAATA
* * * * *
37658 AGTTTAAATAGTTATGACTATTTAAACAATTATC-ATTTTAAATTCGTTATGACCTTTTGTTTTA
1 AGTTCAAATAGTTATGACCATTTAAACAATTATCTATTTTAAA-TCATTATGACCTTTT-ATTTG
* * * *
37722 TCATAAAACAATTGTTTCATTTCATAAAAGCTTATCCAAAATAAAATAATATTACTTTATTAATA
64 TCATAAAAAAATTGTTTCATTTCATACAAGCTTAT-TAAAATAAAATAATACTACTTTATTAATA
* *
37787 TTTCAAAAATTAAGAAGTTGGAGATTTAAAACATAAATCAT-TTTATAAAATCA
128 TTTCAAAAATTAATAAG-TGGAGATTTAAAA-ATAAATC-TGTTTACAAAAT-A
* * * * *
37840 A-TTCAAATAGTTATGGCCATTTGAACAATTATCTATTTCAAATCATTTTGAACTTTTCATTTGT
1 AGTTCAAATAGTTATGACCATTTAAACAATTATCTATTTTAAATCATTATGACCTTTT-ATTTGT
* * *
37904 CATAAAAAAATTGTTT--TTCATCATACAAGCCTAATTAGAATAAAATAATACTAGTTTATTAAT
65 CATAAAAAAATTGTTTCATT--TCATACAAG-CTTATTAAAATAAAATAATACTACTTTATTAAT
* * * *
37967 ATTTAAAAAATTAATAAGTAGGAGA--T-----T--ATCTATTTACTGAACT-
127 ATTTCAAAAATTAATAAGT-GGAGATTTAAAAATAAATCTGTTTAC-AAAATA
* * * * * * * * * * * *
38010 AGTTCAAGTAATTATGACTATTTAAATAATTATATATTTCAAGTCATGATAAGCTTTTGTTTTAT
1 AGTTCAAATAGTTATGACCATTTAAACAATTATCTATTTTAAATCATTATGACCTTTT-ATTTGT
* * * * * * *
38075 CATAAAACAATTATTT-ATGTTCATACAAGCTTATTCGAAAGAAAATAATACTAATCTAATAATA
65 CATAAAAAAATTGTTTCAT-TTCATACAAGCTTATT-AAAATAAAATAATACTACTTTATTAATA
* * * * * **** **
38139 TTAT-GAAAATTAATAATTAAGAGATTTGAAAAATAAATTTATTTGTTGAACC
128 TT-TCAAAAATTAATAAGT-GGAGATTT-AAAAATAAATCTGTTTACAAAATA
* * * * * * * * *
38191 AGTTCAAATAGTTAAGGCTATATGAATAATTATCTATTTCAAATCGTTAT-ATTCTTTTATTTTG
1 AGTTCAAATAGTTATGACCATTTAAACAATTATCTATTTTAAATCATTATGA-CCTTTTA-TTTG
* * * ** * * * *
38255 TCATAAAACAAA-TGTTT-TTGTTAATATAATTTTGTTTAGAATAAAATAATATTAATTTATTAA
64 TCATAAAA-AAATTGTTTCAT-TTCATACAAGCTT-ATTAAAATAAAATAATACTACTTTATTAA
** * *
38318 TATTTTGAAAATTAATAA---GAGATTTAAAAAATAAATTTGTTTACCAAACT-
126 TATTTCAAAAATTAATAAGTGGAGATTT-AAAAATAAATCTGTTTA-CAAAATA
* * * * *
38368 AGTTCAATTAGTTATAACAATTT-CACAATTATTTATTT
1 AGTTCAAATAGTTATGACCATTTAAACAATTATCTATTT
38406 CATATTGTTA
Statistics
Matches: 585, Mismatches: 123, Indels: 82
0.74 0.16 0.10
Matches are distributed among these distances:
170 7 0.01
171 119 0.20
172 5 0.01
173 3 0.01
176 12 0.02
177 47 0.08
178 55 0.09
179 62 0.11
180 13 0.02
181 244 0.42
182 18 0.03
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (177 bp):
AGTTCAAATAGTTATGACCATTTAAACAATTATCTATTTTAAATCATTATGACCTTTTATTTGTC
ATAAAAAAATTGTTTCATTTCATACAAGCTTATTAAAATAAAATAATACTACTTTATTAATATTT
CAAAAATTAATAAGTGGAGATTTAAAAATAAATCTGTTTACAAAATA
Found at i:38140 original size:352 final size:352
Alignment explanation
Indices: 37669--38336 Score: 789
Period size: 352 Copynumber: 1.9 Consensus size: 352
37659 GTTTAAATAG
* * * *
37669 TTATGACTATTTAAACAATTATCATTTTAAATTCGTTATGACCTTTTGTTTTATCATAAAACAAT
1 TTATGACTATTTAAACAATTATCATTTTAAAGTCATGATAACCTTTTGTTTTATCATAAAACAAT
* * * * * *
37734 TGTTTCATTTCATAAAAGCTTATCCAAAATAAAATAATATTACTTTATTAATATT-TCAAAAATT
66 TATTTCATTTCATAAAAGCTTATCCAAAAGAAAATAATACTAATCTAATAATATTAT-AAAAATT
* * *
37798 AAGAAGTT-GGAGATTT-AAAACATAAA-TCATTT-TATAAAATCAATTCAAATAGTTATGGCCA
130 AAGAA-TTAAGAGATTTGAAAA-ATAAATTCATTTGT-T-AAACCAATTCAAATAGTTAAGGCCA
* *
37859 TTTGAACAATTATCTATTTCAAATCATTTTGA-ACTTTTCA-TTTGTCATAAAA-AAATTGTTTT
191 TATGAACAATTATCTATTTCAAATCATTAT-ATACTTTT-ATTTTGTCATAAAACAAA-TGTTTT
* *
37921 TCATCATACAAGCCTAATTAGAATAAAATAATACTAGTTTATTAATATTTAAAAAATTAATAAGT
253 TCATAATACAAGCCTAATTAGAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGT
37986 AGGAGATTATCTATTTACTGAACTAGTTCAAGTAA
318 AGGAGATTATCTATTTACTGAACTAGTTCAAGTAA
* * *
38021 TTATGACTATTTAAATAATTAT-ATATTTCAAGTCATGATAAGCTTTTGTTTTATCATAAAACAA
1 TTATGACTATTTAAACAATTATCAT-TTTAAAGTCATGATAACCTTTTGTTTTATCATAAAACAA
* * * *
38085 TTATTT-ATGTTCATACAAGCTTATTCGAAAGAAAATAATACTAATCTAATAATATTATGAAAAT
65 TTATTTCAT-TTCATAAAAGCTTATCCAAAAGAAAATAATACTAATCTAATAATATTATAAAAAT
* * * * *
38149 TAATAATTAAGAGATTTGAAAAATAAATTTATTTGTTGAACCAGTTCAAATAGTTAAGGCTATAT
129 TAAGAATTAAGAGATTTGAAAAATAAATTCATTTGTTAAACCAATTCAAATAGTTAAGGCCATAT
* * * **
38214 GAATAATTATCTATTTCAAATCGTTATATTCTTTTATTTTGTCATAAAACAAATGTTTTTGTTAA
194 GAACAATTATCTATTTCAAATCATTATATACTTTTATTTTGTCATAAAACAAATGTTTTTCATAA
* *** ** * **
38279 TATAATTTTGTTTAGAATAAAATAATATTAATTTATTAATATTTTGAAAATTAATAAG
259 TACAAGCCTAATTAGAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAG
38337 AGATTTAAAA
Statistics
Matches: 263, Mismatches: 43, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
351 8 0.03
352 240 0.91
353 14 0.05
354 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (352 bp):
TTATGACTATTTAAACAATTATCATTTTAAAGTCATGATAACCTTTTGTTTTATCATAAAACAAT
TATTTCATTTCATAAAAGCTTATCCAAAAGAAAATAATACTAATCTAATAATATTATAAAAATTA
AGAATTAAGAGATTTGAAAAATAAATTCATTTGTTAAACCAATTCAAATAGTTAAGGCCATATGA
ACAATTATCTATTTCAAATCATTATATACTTTTATTTTGTCATAAAACAAATGTTTTTCATAATA
CAAGCCTAATTAGAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGTAGGAGATT
ATCTATTTACTGAACTAGTTCAAGTAA
Found at i:39423 original size:176 final size:172
Alignment explanation
Indices: 39039--39591 Score: 520
Period size: 181 Copynumber: 3.1 Consensus size: 172
39029 ATCATTAGTT
* * * *
39039 ATAACACTAATTTATTAATATTTCAAAAATTAATAAGAGATTTAAAAACTAAATCTGTATGTCAA
1 ATAATACTAATTTATTAATA-TTCAAAAATTAATAAGAGATTTAAAAAATAAATCTGTTTATCAA
* * **
39104 ACTAGTTCAAATAGTTATGATTTTTTGAACAA-TATCTATCTTAAATTGTTATGATATTTGTTTT
65 ACAAGTTCAAATAGTTATGA-CTTTTGAACAATTATCTAT-TTAAATAATTATGA-ATTT-TTTT
** *
39168 -GTCATAAAATAATTGTTTTTGTTAATACAAGCTTATTTGAAGTAAA
126 AGTCATAAAATAATTGTTTCAGTTAATACAAGCTTATTTGAAATAAA
** * * * * * *
39214 ATTTTGCTAAATTAATAATATTCTAAAAATTAATAGGAGATTTAAAAAATAAATTTGTTTTTCAA
1 ATAATACTAATTTATTAATATTC-AAAAATTAATAAGAGATTTAAAAAATAAATCTGTTTATCAA
* * ** * * *
39279 ACCAGTTCAAATAGTTAAGACTTTAAAAATAATTATCTATTTCAAATCATTCTGAAGTTTTATTT
65 ACAAGTTCAAATAGTTATGACTTT-TGAACAATTATCTATTT-AAATAATTATGAA-TTTT-TTT
* ** **
39344 AGTCATAAAATAATT-TTTCAGTTTATACGTGCTTATTCAAAATAAA
126 AGTCATAAAATAATTGTTTCAGTTAATACAAGCTTATTTGAAATAAA
* * *
39390 ATAATACTAATTTATTAATATTCAAAAAATTAATGAACAACAAATTTTAAAACATAAATCTGTTT
1 ATAATACTAATTTATTAATATTC-AAAAATTAAT----AAGAGA-TTTAAAAAATAAATCTGTTT
* * *
39455 ACCAAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATAAATATGACCTTT
60 ATCAAACAAGTTCAAATAGTTATGACT-TTTGAACAATTATCTATTT-AAATAATTATGA--ATT
* *
39520 TGTTTTA-TCATAAAATAATTGTTTCAGTTCATAAAAGCTTATTTGAAATAAA
121 T-TTTTAGTCATAAAATAATTGTTTCAGTTAATACAAGCTTATTTGAAATAAA
* *
39572 ATAATATTACTTTATTAATA
1 ATAATACTAATTTATTAATA
39592 AAATAATAAA
Statistics
Matches: 302, Mismatches: 59, Indels: 27
0.78 0.15 0.07
Matches are distributed among these distances:
174 6 0.02
175 76 0.25
176 73 0.24
177 14 0.05
180 3 0.01
181 77 0.25
182 52 0.17
183 1 0.00
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (172 bp):
ATAATACTAATTTATTAATATTCAAAAATTAATAAGAGATTTAAAAAATAAATCTGTTTATCAAA
CAAGTTCAAATAGTTATGACTTTTGAACAATTATCTATTTAAATAATTATGAATTTTTTTAGTCA
TAAAATAATTGTTTCAGTTAATACAAGCTTATTTGAAATAAA
Found at i:40607 original size:20 final size:20
Alignment explanation
Indices: 40582--40621 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
40572 TTATATTTTA
40582 ACTAATTACTAA-AATATTAT
1 ACTAATT-CTAATAATATTAT
*
40602 ACTAATTTTAATAATATTAT
1 ACTAATTCTAATAATATTAT
40622 TAAATTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (20 bp):
ACTAATTCTAATAATATTAT
Found at i:40683 original size:22 final size:20
Alignment explanation
Indices: 40636--40691 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 20
40626 TTAATTATTA
*
40636 AAATCAATAATTAAATGATT
1 AAATTAATAATTAAATGATT
*
40656 AAATTAATAATATAAATTTATT
1 AAATTAATAAT-TAAA-TGATT
* *
40678 ATATTAATATTTAA
1 AAATTAATAATTAA
40692 TAGAATATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 10 0.33
21 7 0.23
22 13 0.43
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
AAATTAATAATTAAATGATT
Found at i:40807 original size:22 final size:22
Alignment explanation
Indices: 40764--40807 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
40754 TAATTGTTTT
* * *
40764 AAATTATTTATTTAAATGATAA
1 AAATTATTGATATAAATAATAA
*
40786 AAATTATTGATATAATTAATAA
1 AAATTATTGATATAAATAATAA
40808 TATTATATTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (22 bp):
AAATTATTGATATAAATAATAA
Found at i:41055 original size:17 final size:16
Alignment explanation
Indices: 41034--41090 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 16
41024 TGAAATTGTT
41034 AATATTAATAATAG-AA
1 AATATTAATAAT-GTAA
41050 ATATATTAAT-ATGTAA
1 A-ATATTAATAATGTAA
41066 AATATTAATAAT-TAA
1 AATATTAATAATGTAA
41081 TAATA-TAATA
1 -AATATTAATA
41091 TAATATTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
15 17 0.46
16 12 0.32
17 8 0.22
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (16 bp):
AATATTAATAATGTAA
Found at i:41105 original size:12 final size:12
Alignment explanation
Indices: 41033--41115 Score: 59
Period size: 12 Copynumber: 7.1 Consensus size: 12
41023 TTGAAATTGT
41033 TAATATTAATAA
1 TAATATTAATAA
* *
41045 TAGA-AAT-ATAT
1 TA-ATATTAATAA
41056 TAATATGTAA-AA
1 TAATAT-TAATAA
* *
41068 TATTAATAATTAA
1 TAATATTAA-TAA
41081 TAATA-TAAT-A
1 TAATATTAATAA
*
41091 TAATATTATTAA
1 TAATATTAATAA
41103 TAATATTAATAA
1 TAATATTAATAA
41115 T
1 T
41116 TTTTAATAGC
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
10 7 0.13
11 13 0.24
12 26 0.48
13 8 0.15
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.42
Consensus pattern (12 bp):
TAATATTAATAA
Found at i:41109 original size:9 final size:9
Alignment explanation
Indices: 41033--41115 Score: 59
Period size: 9 Copynumber: 9.4 Consensus size: 9
41023 TTGAAATTGT
41033 TAATATTAA
1 TAATATTAA
**
41042 TAATAGAAA
1 TAATATTAA
41051 T-ATATTAA
1 TAATATTAA
*
41059 T-AT-GTAA
1 TAATATTAA
41066 -AATATTAA
1 TAATATTAA
*
41074 TAATTAATAA
1 TAA-TATTAA
41084 T-ATAATATAA
1 TAAT-AT-TAA
*
41094 TATTATTAA
1 TAATATTAA
41103 TAATATTAA
1 TAATATTAA
41112 TAAT
1 TAAT
41116 TTTTAATAGC
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
7 5 0.09
8 12 0.21
9 27 0.47
10 12 0.21
11 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.42
Consensus pattern (9 bp):
TAATATTAA
Found at i:41114 original size:38 final size:39
Alignment explanation
Indices: 41032--41116 Score: 113
Period size: 38 Copynumber: 2.2 Consensus size: 39
41022 TTTGAAATTG
*
41032 TTAAT-ATTAATAATAGAAATATATTAATATGTAAAATA
1 TTAATAATTAATAATAGAAATATAATAATATGTAAAATA
* *
41070 TTAATAATTAATAATA-TAATATAATATTAT-TAATAATA
1 TTAATAATTAATAATAGAAATATAATAATATGTAA-AATA
41108 TTAATAATT
1 TTAATAATT
41117 TTTAATAGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
37 3 0.07
38 29 0.69
39 10 0.24
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (39 bp):
TTAATAATTAATAATAGAAATATAATAATATGTAAAATA
Found at i:41121 original size:19 final size:19
Alignment explanation
Indices: 41066--41123 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 19
41056 TAATATGTAA
41066 AATATTAATAA---TTAAT
1 AATATTAATAATTTTTAAT
*
41082 AATATAATATAATATTATTAAT
1 AATATTA-ATAAT-TT-TTAAT
41104 AATATTAATAATTTTTAAT
1 AATATTAATAATTTTTAAT
41123 A
1 A
41124 GCTTATATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
16 6 0.18
17 4 0.12
19 6 0.18
20 2 0.06
21 5 0.15
22 11 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AATATTAATAATTTTTAAT
Found at i:42176 original size:56 final size:54
Alignment explanation
Indices: 42114--42230 Score: 145
Period size: 49 Copynumber: 2.2 Consensus size: 54
42104 TTTATTATTA
*
42114 AATAATTTGATTTATATTTATATAATAATTTTTTTAGCTCTTACTAATAAACATAT
1 AATAA-TTGATTTAGATTTATATAATAA-TTTTTTAGCTCTTACTAATAAACATAT
*
42170 AAT-A---A-TTAGATTTATATAATAATTTTTTAGCTTTTACTAATAAACATAT
1 AATAATTGATTTAGATTTATATAATAATTTTTTAGCTCTTACTAATAAACATAT
*
42219 AACAATTAGATT
1 AATAATT-GATT
42231 AATTAATAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
49 28 0.54
50 17 0.33
51 1 0.02
54 1 0.02
55 2 0.04
56 3 0.06
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (54 bp):
AATAATTGATTTAGATTTATATAATAATTTTTTAGCTCTTACTAATAAACATAT
Found at i:42211 original size:49 final size:50
Alignment explanation
Indices: 42129--42239 Score: 181
Period size: 49 Copynumber: 2.3 Consensus size: 50
42119 TTTGATTTAT
*
42129 ATTTATATAATAATTTTTTTAGCTCTTACTAATAAACATATAATAATTAG
1 ATTTATATAATAATTTTTTTAGCTCTTACTAATAAACATATAACAATTAG
*
42179 ATTTATATAATAA-TTTTTTAGCTTTTACTAATAAACATATAACAATTAG
1 ATTTATATAATAATTTTTTTAGCTCTTACTAATAAACATATAACAATTAG
*
42228 ATTAAT-TAATAA
1 ATTTATATAATAA
42240 AATTAATCTA
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 6 0.10
49 39 0.67
50 13 0.22
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (50 bp):
ATTTATATAATAATTTTTTTAGCTCTTACTAATAAACATATAACAATTAG
Found at i:43401 original size:21 final size:20
Alignment explanation
Indices: 43362--43413 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
43352 TTATTTATCT
*
43362 TTATAAATT-ATATTATAAC
1 TTATAAATTAATAGTATAAC
43381 TAGTATAAATTAATAGT-TAAC
1 T--TATAAATTAATAGTATAAC
43402 TTATAAA-TAATA
1 TTATAAATTAATA
43414 ATTCCTATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 5 0.17
19 7 0.24
21 13 0.45
22 4 0.14
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (20 bp):
TTATAAATTAATAGTATAAC
Done.