Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2495
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: 186439
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
File 1 of 2
Found at i:8548 original size:34 final size:34
Alignment explanation
Indices: 8482--8665 Score: 244
Period size: 34 Copynumber: 5.4 Consensus size: 34
8472 AAGTGGGAGA
* *
8482 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
8515 ATTGTTGACTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
8549 ATTGTTGATTAAATGAGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
8583 ATTATTGATTAAATGGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
8617 ATTGTTGACTAAATAGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
8651 ATTGTTGATTAAATG
1 ATTGTTGATTAAATG
8666 TTGGTTTTTA
Statistics
Matches: 129, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
33 13 0.10
34 116 0.90
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:13074 original size:16 final size:16
Alignment explanation
Indices: 13053--13083 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13043 GATTATAAAT
*
13053 TTATTTTTATTTTTAA
1 TTATTTTTAATTTTAA
13069 TTATTTTTAATTTTA
1 TTATTTTTAATTTTA
13084 TGTTAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTTTTAATTTTAA
Found at i:13425 original size:16 final size:16
Alignment explanation
Indices: 13404--13449 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
13394 TTCTATTTAA
* *
13404 TATATATAATTATAAT
1 TATATAAAAATATAAT
13420 TATATAAAAATATAAT
1 TATATAAAAATATAAT
* *
13436 TATTTAAATATATA
1 TATATAAAAATATA
13450 CAAATATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TATATAAAAATATAAT
Found at i:13435 original size:22 final size:23
Alignment explanation
Indices: 13407--13456 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
13397 TATTTAATAT
*
13407 ATATAATTA-TAATTATATAAAA
1 ATATAATTATTAAATATATAAAA
*
13429 ATATAATTATTTAAATATATACAA
1 ATATAATTA-TTAAATATATAAAA
13453 ATAT
1 ATAT
13457 TAATAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.38
24 15 0.62
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATATAATTATTAAATATATAAAA
Found at i:13446 original size:40 final size:37
Alignment explanation
Indices: 13397--13502 Score: 101
Period size: 40 Copynumber: 2.8 Consensus size: 37
13387 AAAATATTTC
13397 TATTT-AATATATATAATTATAATTATATAAAAAT-ATAAT
1 TATTTAAATATATATAA--AT-ATTA-ATAAAAATAATAAT
* **
13436 TATTTAAATATATACAAATATTAATAAATGTAATAAT
1 TATTTAAATATATATAAATATTAATAAAAATAATAAT
13473 TATATTAAATATATATTTAAAT-TTAATAAA
1 TAT-TTAAATATATA--TAAATATTAATAAA
13503 CATCTAAATT
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
36 6 0.10
37 12 0.21
38 13 0.22
39 13 0.22
40 14 0.24
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (37 bp):
TATTTAAATATATATAAATATTAATAAAAATAATAAT
Found at i:15333 original size:14 final size:13
Alignment explanation
Indices: 15302--15346 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
15292 TTAATTTGTG
15302 TATTATTAAATTTAA
1 TATT-TTAAATTT-A
15317 TATTTTAATATTTA
1 TATTTTAA-ATTTA
15331 TATTTTTAAATTTA
1 TA-TTTTAAATTTA
15345 TA
1 TA
15347 ATAAATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 14 0.50
15 14 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTTTAAATTTA
Found at i:15334 original size:29 final size:29
Alignment explanation
Indices: 15289--15344 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
15279 TGGAAAGTAC
*
15289 ATTTTAATTTGTGTATTATTAAATTTAAT
1 ATTTTAATTTGTATATTATTAAATTTAAT
*
15318 ATTTTAATATT-TATATTTTTAAATTTA
1 ATTTTAAT-TTGTATATTATTAAATTTA
15345 TAATAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (29 bp):
ATTTTAATTTGTATATTATTAAATTTAAT
Found at i:18998 original size:13 final size:13
Alignment explanation
Indices: 18975--19033 Score: 63
Period size: 12 Copynumber: 4.8 Consensus size: 13
18965 AATAATTCGA
18975 ATAATTATAT-TT
1 ATAATTATATATT
*
18987 -TATTTATATATT
1 ATAATTATATATT
18999 ATAATTATAT-TT
1 ATAATTATATATT
* *
19011 AAAATAATATATT
1 ATAATTATATATT
19024 AT-ATTATATA
1 ATAATTATATA
19034 AATTTTAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
11 8 0.21
12 19 0.50
13 11 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATAATTATATATT
Found at i:19002 original size:24 final size:25
Alignment explanation
Indices: 18975--19032 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
18965 AATAATTCGA
* * *
18975 ATAATTATATTT-TATTTATATATT
1 ATAATTATATTTAAAATAATATATT
18999 ATAATTATATTTAAAATAATATATT
1 ATAATTATATTTAAAATAATATATT
19024 AT-ATTATAT
1 ATAATTATAT
19033 AAATTTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 19 0.63
25 11 0.37
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
ATAATTATATTTAAAATAATATATT
Found at i:19027 original size:32 final size:31
Alignment explanation
Indices: 18990--19070 Score: 76
Period size: 32 Copynumber: 2.5 Consensus size: 31
18980 TATATTTTAT
*
18990 TTATATATTAT-AATTATATTTAAAATAATATA
1 TTATATATTATAAATTATA-ATAAAATAAT-TA
*
19022 TTATAT-TATATAAATTTTAATAAAATAATTA
1 TTATATAT-TATAAATTATAATAAAATAATTA
*
19053 TTTATATTTATATAAATT
1 -TTATATAT-TATAAATT
19071 TTATCATATT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
31 3 0.07
32 24 0.56
33 16 0.37
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (31 bp):
TTATATATTATAAATTATAATAAAATAATTA
Found at i:19069 original size:33 final size:32
Alignment explanation
Indices: 19010--19073 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
19000 TAATTATATT
19010 TAAAATAATATATTATATTATATAAATTTTAA
1 TAAAATAATATATTATATTATATAAATTTTAA
19042 TAAAATAAT-TATTTATATTTATATAAATTTTA
1 TAAAATAATATA-TTATA-TTATATAAATTTTA
19074 TCATATTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 2 0.07
32 14 0.47
33 14 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (32 bp):
TAAAATAATATATTATATTATATAAATTTTAA
Found at i:19084 original size:26 final size:26
Alignment explanation
Indices: 19051--19105 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
19041 ATAAAATAAT
19051 TATTTATATTTATATAAATTTTATCA
1 TATTTATATTTATATAAATTTTATCA
* * * *
19077 TATTTATATTTTTATTATTTTTATTA
1 TATTTATATTTATATAAATTTTATCA
19103 TAT
1 TAT
19106 CATACTCTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (26 bp):
TATTTATATTTATATAAATTTTATCA
Found at i:19087 original size:32 final size:32
Alignment explanation
Indices: 19010--19073 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
19000 TAATTATATT
19010 TAAAATAATATATTATA-TTATATAAATTTTAA
1 TAAAATAATAT-TTATATTTATATAAATTTTAA
19042 TAAAATAATTATTTATATTTATATAAATTTTA
1 TAAAATAA-TATTTATATTTATATAAATTTTA
19074 TCATATTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 13 0.43
33 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (32 bp):
TAAAATAATATTTATATTTATATAAATTTTAA
Found at i:19789 original size:45 final size:45
Alignment explanation
Indices: 19635--19777 Score: 238
Period size: 45 Copynumber: 3.2 Consensus size: 45
19625 CAAGAACAGC
* * *
19635 AACCAAACCAATCTCATC-AA--ATCGTCGAATCTATCGACCAAA
1 AACCAAACCAAGCTCATCAAATCATCATCAAATCTATCGACCAAA
19677 AACCAAACCAAGCTCATCAAATCATCATCAAATCTATCGACCAAA
1 AACCAAACCAAGCTCATCAAATCATCATCAAATCTATCGACCAAA
19722 AACCAAACCAAGCTCATCAAATCATCATCAAATCTATCGACCAAA
1 AACCAAACCAAGCTCATCAAATCATCATCAAATCTATCGACCAAA
19767 AACCAAACCAA
1 AACCAAACCAA
19778 AGTTATCAAA
Statistics
Matches: 95, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
42 17 0.18
43 2 0.02
45 76 0.80
ACGTcount: A:0.47, C:0.31, G:0.05, T:0.17
Consensus pattern (45 bp):
AACCAAACCAAGCTCATCAAATCATCATCAAATCTATCGACCAAA
Found at i:21561 original size:16 final size:16
Alignment explanation
Indices: 21540--21581 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
21530 TGTAAAAAGT
*
21540 AATTAATATAATATTA
1 AATTAATATAATATAA
21556 AATTAA-ATTAATATAA
1 AATTAATA-TAATATAA
21572 AATT-ATATAA
1 AATTAATATAA
21582 AAATTATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATTAATATAATATAA
Found at i:21565 original size:21 final size:21
Alignment explanation
Indices: 21540--21612 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 21
21530 TGTAAAAAGT
21540 AATTAATATAATATTAAATTA
1 AATTAATATAATATTAAATTA
* * *
21561 AATTAATATAAAATTATATAAA
1 AATTAATATAATATTAAAT-TA
*
21583 AATT-ATAAAAATATTAAAGTTAA
1 AATTAAT-ATAATATTAAA-TT-A
21606 AATTAAT
1 AATTAAT
21613 TTTACATTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
21 19 0.47
22 13 0.32
23 6 0.15
24 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (21 bp):
AATTAATATAATATTAAATTA
Found at i:22285 original size:13 final size:13
Alignment explanation
Indices: 22267--22294 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22257 CCATATAAAC
22267 TTTTTAATTAATT
1 TTTTTAATTAATT
22280 TTTTTAATTAATT
1 TTTTTAATTAATT
22293 TT
1 TT
22295 ATAAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTAATTAATT
Found at i:25841 original size:2 final size:2
Alignment explanation
Indices: 25836--25868 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
25826 TTTTCATGTA
25836 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25869 GTTATACAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26828 original size:21 final size:23
Alignment explanation
Indices: 26804--26845 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
26794 TTATTATATT
26804 ATAT-TTTAA-ACTTATATTATC
1 ATATGTTTAATACTTATATTATC
*
26825 ATATGTTTAATATTTATATTA
1 ATATGTTTAATACTTATATTA
26846 CTATAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 5 0.28
23 9 0.50
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (23 bp):
ATATGTTTAATACTTATATTATC
Found at i:28085 original size:21 final size:20
Alignment explanation
Indices: 28061--28100 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
28051 AACAAAATTG
*
28061 TAATAAAATTTTTAAAATTTT
1 TAATAAAA-TTTAAAAATTTT
*
28082 TAATTAAATTTAAAAATTT
1 TAATAAAATTTAAAAATTT
28101 AAATTACCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATAAAATTTAAAAATTTT
Found at i:28641 original size:13 final size:13
Alignment explanation
Indices: 28615--28657 Score: 61
Period size: 12 Copynumber: 3.3 Consensus size: 13
28605 TTACTAGGTT
28615 AAAAGAAAGGAGAA
1 AAAAGAAA-GAGAA
*
28629 AAAAGAAAAAGAA
1 AAAAGAAAGAGAA
28642 AAAA-AAAGAGAA
1 AAAAGAAAGAGAA
28654 AAAA
1 AAAA
28658 TTTAATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 11 0.41
13 8 0.30
14 8 0.30
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAGAA
Found at i:29014 original size:7 final size:7
Alignment explanation
Indices: 28992--29046 Score: 53
Period size: 7 Copynumber: 8.0 Consensus size: 7
28982 ATTAAACCAC
28992 TTAAGTTT
1 TTAA-TTT
29000 TT-ATTT
1 TTAATTT
*
29006 TTAAGTT
1 TTAATTT
29013 TTATATTT
1 TTA-ATTT
*
29021 TTAAATT
1 TTAATTT
29028 TT-A-TT
1 TTAATTT
29033 TTAATTT
1 TTAATTT
29040 TTAATTT
1 TTAATTT
29047 ATTCTTAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
5 4 0.10
6 7 0.17
7 21 0.52
8 8 0.20
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (7 bp):
TTAATTT
Found at i:29021 original size:15 final size:15
Alignment explanation
Indices: 28992--29031 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
28982 ATTAAACCAC
28992 TTAAGTTTT-TATTT
1 TTAAGTTTTATATTT
29006 TTAAGTTTTATATTT
1 TTAAGTTTTATATTT
*
29021 TTAAATTTTAT
1 TTAAGTTTTAT
29032 TTTAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (15 bp):
TTAAGTTTTATATTT
Found at i:29163 original size:20 final size:19
Alignment explanation
Indices: 29134--29176 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
29124 TTAAAATAGT
29134 TTTTTATTTTTAAATTTTA
1 TTTTTATTTTTAAATTTTA
*
29153 TTTTTATTTTTTTAATTTTA
1 TTTTTA-TTTTTAAATTTTA
29173 TTTT
1 TTTT
29177 AAAATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTATTTTTAAATTTTA
Found at i:29165 original size:14 final size:14
Alignment explanation
Indices: 29133--29176 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
29123 ATTAAAATAG
29133 TTTTTTATTTTTA-
1 TTTTTTATTTTTAT
**
29146 AATTTTATTTTTAT
1 TTTTTTATTTTTAT
*
29160 TTTTTTAATTTTAT
1 TTTTTTATTTTTAT
29174 TTT
1 TTT
29177 AAAATAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTTATTTTTAT
Found at i:30646 original size:20 final size:19
Alignment explanation
Indices: 30623--30680 Score: 57
Period size: 21 Copynumber: 3.0 Consensus size: 19
30613 TAATATTTTA
*
30623 ATAAATTAATTATTAAA-T
1 ATAAATTAATTATAAAATT
30641 ATATAATTATATTTATAAAATT
1 ATA-AATTA-A-TTATAAAATT
*
30663 TTAAATTAATT-TAAAATT
1 ATAAATTAATTATAAAATT
30681 TATATCATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
18 10 0.29
19 7 0.21
20 2 0.06
21 12 0.35
22 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATAAATTAATTATAAAATT
Found at i:30804 original size:13 final size:13
Alignment explanation
Indices: 30739--30805 Score: 53
Period size: 13 Copynumber: 5.1 Consensus size: 13
30729 TTTTTTTACC
*
30739 TAAAATAAATAAT
1 TAAAATAAATAAA
* *
30752 TAAAATTAATTATA
1 TAAAA-TAAATAAA
** * *
30766 TAATTTATATCAA
1 TAAAATAAATAAA
*
30779 TAAAATAATTAAA
1 TAAAATAAATAAA
30792 TAAAATAAATAAA
1 TAAAATAAATAAA
30805 T
1 T
30806 TACGTCAAAA
Statistics
Matches: 38, Mismatches: 15, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
13 30 0.79
14 8 0.21
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAAATAAATAAA
Found at i:31253 original size:2 final size:2
Alignment explanation
Indices: 31246--31300 Score: 74
Period size: 2 Copynumber: 27.5 Consensus size: 2
31236 GGTACTATAA
* * *
31246 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TG TG TG TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
31288 TC TC CC TC TC TC T
1 TC TC TC TC TC TC T
31301 TAAGTTCTGG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.45, G:0.05, T:0.49
Consensus pattern (2 bp):
TC
Found at i:36896 original size:2 final size:2
Alignment explanation
Indices: 36891--36919 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
36881 TTAAATAAAG
36891 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36920 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36964 original size:2 final size:2
Alignment explanation
Indices: 36919--36950 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
36909 ATATATATAT
36919 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
36951 TAACATTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:37382 original size:11 final size:11
Alignment explanation
Indices: 37366--37416 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 11
37356 GTATGTGAGT
37366 TTTATATTATA
1 TTTATATTATA
37377 TTTATA-TATA
1 TTTATATTATA
37387 TTT-T-TTATA
1 TTTATATTATA
37396 TATTA-A-TA-A
1 T-TTATATTATA
37405 TTTATATTATA
1 TTTATATTATA
37416 T
1 T
37417 ACAGTTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
8 3 0.09
9 9 0.27
10 13 0.39
11 8 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTATATTATA
Found at i:37388 original size:15 final size:15
Alignment explanation
Indices: 37368--37416 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
37358 ATGTGAGTTT
37368 TATATTATATTTATA
1 TATATTATATTTATA
37383 TATATT-T-TTTATA
1 TATATTATATTTATA
*
37396 TAT-TAATAATTTATA
1 TATATTAT-ATTTATA
37411 TTATAT
1 -TATAT
37417 ACAGTTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
12 1 0.04
13 10 0.36
14 1 0.04
15 12 0.43
16 3 0.11
17 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATATTATATTTATA
Found at i:37667 original size:29 final size:26
Alignment explanation
Indices: 37634--37693 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
37624 TAATATAAAG
*
37634 TTTAATAAAAATCTTTGAATTATTTTATT
1 TTTAA-AAAAA-CTTT-AATAATTTTATT
* *
37663 TTTAAATAAACTTTTATAATTTTATT
1 TTTAAAAAAACTTTAATAATTTTATT
37689 TTTAA
1 TTTAA
37694 GAAATAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 15 0.54
27 4 0.14
28 4 0.14
29 5 0.18
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (26 bp):
TTTAAAAAAACTTTAATAATTTTATT
Found at i:38399 original size:3 final size:3
Alignment explanation
Indices: 38391--38421 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
38381 GTGTATTGAT
38391 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
38422 TTTAAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:38948 original size:18 final size:18
Alignment explanation
Indices: 38896--38966 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
38886 TTAAAAATAT
*
38896 TATGTTA-ATTTTATTTAAA
1 TATGTTATA-TTTA-TTATA
* * *
38915 TATATTAAATTAATTATA
1 TATGTTATATTTATTATA
* *
38933 TATTTTATATTTATTAAA
1 TATGTTATATTTATTATA
38951 TATGTTATATTT-TTAT
1 TATGTTATATTTATTAT
38967 GAGGTAAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
17 3 0.07
18 29 0.69
19 9 0.21
20 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TATGTTATATTTATTATA
Found at i:47604 original size:2 final size:2
Alignment explanation
Indices: 47597--47633 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
47587 TTGCTCCGTA
* *
47597 TG TG TG TG CG TG TG TG TG TG TG TG TG TG TG TA TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
47634 TTTATAGACG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.03, C:0.03, G:0.46, T:0.49
Consensus pattern (2 bp):
TG
Found at i:52156 original size:2 final size:2
Alignment explanation
Indices: 52149--52175 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
52139 TGCAATGGAT
52149 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
52176 TTTAACTGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:52755 original size:15 final size:15
Alignment explanation
Indices: 52735--52764 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52725 GCTCAACACT
52735 CGGAGTGGTGACCTG
1 CGGAGTGGTGACCTG
*
52750 CGGAGTGGTGGCCTG
1 CGGAGTGGTGACCTG
52765 GGCCCAACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.20, G:0.50, T:0.20
Consensus pattern (15 bp):
CGGAGTGGTGACCTG
Found at i:55627 original size:15 final size:15
Alignment explanation
Indices: 55583--55627 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
55573 GCTCAACACT
*
55583 CGGAGTGGTGA-CTCA
1 CGGAGTGGTGACCT-G
55598 CGGAGTGGTGACCTG
1 CGGAGTGGTGACCTG
*
55613 CGGAGTGGTGGCCTG
1 CGGAGTGGTGACCTG
55628 GGCCAGCAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 25 0.93
16 2 0.07
ACGTcount: A:0.13, C:0.20, G:0.47, T:0.20
Consensus pattern (15 bp):
CGGAGTGGTGACCTG
Found at i:57223 original size:2 final size:2
Alignment explanation
Indices: 57212--57243 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
57202 CTTTTTGGTT
57212 TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
57244 TTGTGTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:61285 original size:23 final size:23
Alignment explanation
Indices: 61259--61312 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
61249 TAATTGAACA
*
61259 AATAAGTTTTAAACAATTTATTC
1 AATAAATTTTAAACAATTTATTC
* *
61282 AATAAATTTTAAATAATTTA-TA
1 AATAAATTTTAAACAATTTATTC
61304 AATAAATTT
1 AATAAATTT
61313 ATTTATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (23 bp):
AATAAATTTTAAACAATTTATTC
Found at i:61318 original size:16 final size:16
Alignment explanation
Indices: 61297--61374 Score: 63
Period size: 16 Copynumber: 4.9 Consensus size: 16
61287 ATTTTAAATA
61297 ATTTATAAATAAATTT
1 ATTTATAAATAAATTT
*
61313 ATTTATAAATATAA-AT
1 ATTTATAAATA-AATTT
* *
61329 AATT-TAAATATATATT
1 ATTTATAAATAAAT-TT
*
61345 ATTTAT-ATTAAATTT
1 ATTTATAAATAAATTT
*
61360 ATTTAATAAACAAAT
1 ATTT-ATAAATAAAT
61375 CTTAAAATTA
Statistics
Matches: 47, Mismatches: 9, Indels: 11
0.70 0.13 0.16
Matches are distributed among these distances:
14 1 0.02
15 12 0.26
16 26 0.55
17 8 0.17
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTTATAAATAAATTT
Found at i:61742 original size:25 final size:24
Alignment explanation
Indices: 61686--61767 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 24
61676 ATAAATCATG
61686 TAAA-AATTTAATATATTTATATTAAT
1 TAAATAATTTAATA-ATTT-T-TTAAT
* *
61712 TTAATATTTTTAATAATTTTTTAAT
1 TAAATA-ATTTAATAATTTTTTAAT
* *
61737 TAAATAATATAATTATTTTTTAATT
1 TAAATAATTTAATAATTTTTTAA-T
61762 TAAATA
1 TAAATA
61768 CATATTTAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
24 14 0.30
25 17 0.36
26 4 0.09
27 5 0.11
28 7 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TAAATAATTTAATAATTTTTTAAT
Found at i:61749 original size:24 final size:26
Alignment explanation
Indices: 61722--61772 Score: 79
Period size: 24 Copynumber: 2.0 Consensus size: 26
61712 TTAATATTTT
61722 TAATAATTTTTTAA-TTAAATA-ATA
1 TAATAATTTTTTAATTTAAATACATA
*
61746 TAATTATTTTTTAATTTAAATACATA
1 TAATAATTTTTTAATTTAAATACATA
61772 T
1 T
61773 TTAATATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 13 0.54
25 7 0.29
26 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (26 bp):
TAATAATTTTTTAATTTAAATACATA
Found at i:61788 original size:6 final size:6
Alignment explanation
Indices: 61772--61820 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
61762 TAAATACATA
* *
61772 TTTAAT ATTAAT TTTAAT TTTAATT TTATAAT TATAAT ATTTAAT TTTA
1 TTTAAT TTTAAT TTTAAT TTTAA-T TT-TAAT TTTAAT -TTTAAT TTTA
61821 CTATTATAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 23 0.64
7 10 0.28
8 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (6 bp):
TTTAAT
Found at i:61816 original size:21 final size:21
Alignment explanation
Indices: 61780--61834 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
61770 TATTTAATAT
*
61780 TAATTTTAATTTTAATTTTA-
1 TAATTATAATTTTAATTTTAC
61800 TAATTATAATATTTAATTTTAC
1 TAATTATAAT-TTTAATTTTAC
61822 T-ATTATAACTTTT
1 TAATTATAA-TTTT
61835 CATCGTCGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 9 0.29
21 20 0.65
22 2 0.06
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (21 bp):
TAATTATAATTTTAATTTTAC
Found at i:61964 original size:2 final size:2
Alignment explanation
Indices: 61959--61999 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
61949 TCTCTCTCTC
*
61959 TA TA TA TA TA TA TA TA TA TA TA TA -A TG TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
61999 T
1 T
62000 TTTTTTAGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:65161 original size:39 final size:37
Alignment explanation
Indices: 65093--65178 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 37
65083 TAATCAGTTC
* * * *
65093 AATTTGAATTATTATTAATAATAAAAATATTTAATTT
1 AATTTTAATTATAATTAATAATAAAAATATTAAAATT
**
65130 AATTTTAATTATAATATATATAATATTAATATTAAAATT
1 AATTTTAATTATAAT-TA-ATAATAAAAATATTAAAATT
65169 ATATTTTAAT
1 A-ATTTTAAT
65179 AATATTATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
37 13 0.32
38 2 0.05
39 17 0.43
40 8 0.20
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (37 bp):
AATTTTAATTATAATTAATAATAAAAATATTAAAATT
Found at i:65179 original size:19 final size:20
Alignment explanation
Indices: 65155--65199 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 20
65145 ATATATAATA
65155 TTAATATTAAAATTA-TATT
1 TTAATATTAAAATTATTATT
*
65174 TT-A-A-TAATATTATTATT
1 TTAATATTAAAATTATTATT
65191 TTAATATTA
1 TTAATATTA
65200 TTATAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 7
0.72 0.03 0.24
Matches are distributed among these distances:
16 7 0.33
17 7 0.33
18 2 0.10
19 3 0.14
20 2 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTAATATTAAAATTATTATT
Found at i:65190 original size:17 final size:17
Alignment explanation
Indices: 65166--65203 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
65156 TAATATTAAA
65166 ATTA-TATTTTAATAAT
1 ATTATTATTTTAATAAT
*
65182 ATTATTATTTTAATATT
1 ATTATTATTTTAATAAT
65199 ATTAT
1 ATTAT
65204 AAACAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTATTATTTTAATAAT
Found at i:66423 original size:2 final size:2
Alignment explanation
Indices: 66375--66410 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
66365 AAATTGGCAA
66375 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
66411 ACATGCATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68108 original size:2 final size:2
Alignment explanation
Indices: 68101--68126 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
68091 GCTGCTACTG
68101 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
68127 CTTGTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68686 original size:25 final size:25
Alignment explanation
Indices: 68656--68708 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
68646 CGATTTTTTA
*
68656 ATTTTTTTATGTATTTAAAAGATTAT
1 ATTTTTATATGTATTTAAAA-ATTAT
*
68682 ATTTTTATATTTATTTAAAAATTAT
1 ATTTTTATATGTATTTAAAAATTAT
68707 AT
1 AT
68709 ATCGTCAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (25 bp):
ATTTTTATATGTATTTAAAAATTAT
Found at i:70500 original size:21 final size:21
Alignment explanation
Indices: 70466--70542 Score: 74
Period size: 21 Copynumber: 3.8 Consensus size: 21
70456 TATATTTTTT
70466 TATAT-TTTATAATAAATAAA
1 TATATATTTATAATAAATAAA
**
70486 TAATATATTTA-AATATTTAAA
1 T-ATATATTTATAATAAATAAA
70507 TATATTATTTATAA-AAAT-AA
1 TATA-TATTTATAATAAATAAA
*
70527 TATAAATTTA-AATAAA
1 TATATATTTATAATAAA
70543 ATATTTGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
18 2 0.04
19 8 0.17
20 10 0.21
21 21 0.45
22 6 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TATATATTTATAATAAATAAA
Found at i:70554 original size:53 final size:53
Alignment explanation
Indices: 70482--70625 Score: 191
Period size: 53 Copynumber: 2.7 Consensus size: 53
70472 TTATAATAAA
*
70482 TAAATAATATATTTAAATATTTAAATATATTATTTATAAAAATAATATAAATT
1 TAAATAAAATATTTAAATATTTAAATATATTATTTATAAAAATAATATAAATT
* * *
70535 TAAATAAAATATTTGAATATGTAAATTTATTATTTATAAAAATAATATAAATT
1 TAAATAAAATATTTAAATATTTAAATATATTATTTATAAAAATAATATAAATT
* * * *
70588 TTAATAATAACTATTTAAAAATTTATATCTA-TATTTAT
1 TAAATAA-AA-TATTTAAATATTTAAATATATTATTTAT
70626 TTAAAATTTA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
53 55 0.70
54 9 0.11
55 15 0.19
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (53 bp):
TAAATAAAATATTTAAATATTTAAATATATTATTTATAAAAATAATATAAATT
Found at i:70912 original size:20 final size:20
Alignment explanation
Indices: 70887--70937 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
70877 ATTCGATGCA
*
70887 AAATATA-ATATATATTTAAT
1 AAATATATATATA-ATATAAT
*
70907 AAATATATAAATAATATAAT
1 AAATATATATATAATATAAT
70927 AAATATGATAT
1 AAATAT-ATAT
70938 TAAATTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
AAATATATATATAATATAAT
Found at i:71074 original size:15 final size:15
Alignment explanation
Indices: 71054--71083 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
71044 TTTAATTATA
71054 AAAATATATTAATAT
1 AAAATATATTAATAT
*
71069 AAAATATTTTAATAT
1 AAAATATATTAATAT
71084 TTTAATTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAATATATTAATAT
Found at i:72063 original size:14 final size:16
Alignment explanation
Indices: 72044--72078 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
72034 TCTCTTAACG
72044 TTATTAATGA-GAA-A
1 TTATTAATGATGAATA
72058 TTATTAATGATGAATA
1 TTATTAATGATGAATA
72074 TTATT
1 TTATT
72079 GAAATATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.53
15 3 0.16
16 6 0.32
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (16 bp):
TTATTAATGATGAATA
Found at i:79249 original size:3 final size:3
Alignment explanation
Indices: 79241--79267 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
79231 ATACAAAGCA
79241 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
79268 TTATCTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:80140 original size:4 final size:4
Alignment explanation
Indices: 80131--80157 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
80121 ACAATAACAA
80131 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
80158 GATTGCATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:82549 original size:42 final size:43
Alignment explanation
Indices: 82495--82584 Score: 155
Period size: 43 Copynumber: 2.1 Consensus size: 43
82485 GTTTTCTGAG
*
82495 TAAATTTATATATTAG-TTTTTTATTTCAATATAAAATTATAT
1 TAAATTTATATATTAGTTTTTTTATTTCAATATAAAATCATAT
*
82537 TAAATTTTTATATTAGTTTTTTTATTTCAATATAAAATCATAT
1 TAAATTTATATATTAGTTTTTTTATTTCAATATAAAATCATAT
82580 TAAAT
1 TAAAT
82585 AATATAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 15 0.33
43 30 0.67
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.54
Consensus pattern (43 bp):
TAAATTTATATATTAGTTTTTTTATTTCAATATAAAATCATAT
Found at i:82725 original size:21 final size:21
Alignment explanation
Indices: 82648--82738 Score: 82
Period size: 21 Copynumber: 4.4 Consensus size: 21
82638 GAAAACCCTT
*
82648 AAAAATTATCAAAA-TATATC
1 AAAAGTTATCAAAATTATATC
**
82668 -AAAGATTATCAATTTTATATC
1 AAAAG-TTATCAAAATTATATC
*
82689 AAAAGTCAGT--AAATTATATC
1 AAAAGTTA-TCAAAATTATATC
* *
82709 AAAAGTTACCAAAATTATATT
1 AAAAGTTATCAAAATTATATC
82730 AAAAGTTAT
1 AAAAGTTAT
82739 TAGAGAGTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
19 3 0.05
20 22 0.40
21 25 0.45
22 5 0.09
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (21 bp):
AAAAGTTATCAAAATTATATC
Found at i:82868 original size:21 final size:20
Alignment explanation
Indices: 82844--82906 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 20
82834 TCGACGATTT
82844 TCAAAATTATATCAAAGGTTA
1 TCAAAATTATAT-AAAGGTTA
*
82865 TCAAAATTATATAAGATGTTA
1 TCAAAATTATATAA-AGGTTA
*
82886 TCAAAATTATATTAAGGTTA
1 TCAAAATTATATAAAGGTTA
82906 T
1 T
82907 TATTAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.21
21 30 0.79
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (20 bp):
TCAAAATTATATAAAGGTTA
Found at i:82914 original size:23 final size:22
Alignment explanation
Indices: 82844--82920 Score: 77
Period size: 21 Copynumber: 3.5 Consensus size: 22
82834 TCGACGATTT
* **
82844 TCAAAATTATATCAA-AGGTTA
1 TCAAAATTATATTAAGATATTA
*
82865 TCAAAATTATA-TAAGATGTTA
1 TCAAAATTATATTAAGATATTA
*
82886 TCAAAATTATATTAAGGTTATTA
1 TCAAAATTATATTAA-GATATTA
*
82909 TTAAAATTATAT
1 TCAAAATTATAT
82921 CAAACGTTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 2 0.04
21 27 0.56
22 3 0.06
23 16 0.33
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (22 bp):
TCAAAATTATATTAAGATATTA
Found at i:83204 original size:25 final size:23
Alignment explanation
Indices: 83160--83209 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
83150 ATTTGTTTTG
** *
83160 TTTTAATTATTTTTTGTGTTGTA
1 TTTTAATTATTTTTAATGTTATA
83183 TTTTAATTATATTTTAAATGTTATA
1 TTTTAATTAT-TTTT-AATGTTATA
83208 TT
1 TT
83210 CATATCGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 10 0.45
24 4 0.18
25 8 0.36
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (23 bp):
TTTTAATTATTTTTAATGTTATA
Found at i:83816 original size:21 final size:21
Alignment explanation
Indices: 83768--83825 Score: 91
Period size: 20 Copynumber: 2.8 Consensus size: 21
83758 TTTAAATACG
83768 ATACAATATAATATGAAAAAA
1 ATACAATATAATATGAAAAAA
* *
83789 ATA-AATAAAATATGATAAAA
1 ATACAATATAATATGAAAAAA
83809 ATACAATATAATATGAA
1 ATACAATATAATATGAA
83826 TACTCGAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 18 0.56
21 14 0.44
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (21 bp):
ATACAATATAATATGAAAAAA
Found at i:85191 original size:2 final size:2
Alignment explanation
Indices: 85184--85229 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
85174 TCTTATTTTC
*
85184 CT CT CT CT CT CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
85226 CT CT
1 CT CT
85230 TTAACATTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:87995 original size:12 final size:11
Alignment explanation
Indices: 87980--88017 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
87970 AAAATATTAT
87980 TTTATATTAATA
1 TTTATATTAA-A
87992 TTTATA-TAAA
1 TTTATATTAAA
88002 TTTATAATTAAA
1 TTTAT-ATTAAA
88014 TTTA
1 TTTA
88018 AATAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 6 0.25
11 4 0.17
12 14 0.58
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTATATTAAA
Found at i:87998 original size:22 final size:22
Alignment explanation
Indices: 87980--88023 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
87970 AAAATATTAT
87980 TTTAT-ATTAATATTTATATAAA
1 TTTATAATTAA-ATTTATATAAA
*
88002 TTTATAATTAAATTTAAATAAA
1 TTTATAATTAAATTTATATAAA
88024 AAATTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTATAATTAAATTTATATAAA
Found at i:88002 original size:28 final size:27
Alignment explanation
Indices: 87952--88006 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
87942 GGTATTTAAG
* *
87952 TTTATTTTATTATTTAAAAAAATATTAT
1 TTTATATTAATATTTAAAAAAAT-TTAT
* *
87980 TTTATATTAATATTTATATAAATTTAT
1 TTTATATTAATATTTAAAAAAATTTAT
88007 AATTAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTATATTAATATTTAAAAAAATTTAT
Found at i:88506 original size:14 final size:14
Alignment explanation
Indices: 88484--88529 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
88474 TAAAATGTTA
88484 TTAAAATTAAAATT
1 TTAAAATTAAAATT
*
88498 TTGAAATTAATAATTT
1 TTAAAATTAA-AA-TT
88514 TTAAAATTTAAAATT
1 TTAAAA-TTAAAATT
88529 T
1 T
88530 ATAATTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 9 0.33
15 5 0.19
16 9 0.33
17 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (14 bp):
TTAAAATTAAAATT
Found at i:88514 original size:15 final size:14
Alignment explanation
Indices: 88487--88529 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
88477 AATGTTATTA
88487 AAATTAAAATTTTG
1 AAATTAAAATTTTG
*
88501 AAATTAATAATTTTTA
1 AAATTAA-AA-TTTTG
88517 AAATTTAAAATTT
1 AAA-TTAAAATTT
88530 ATAATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 7 0.28
15 5 0.20
16 9 0.36
17 4 0.16
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (14 bp):
AAATTAAAATTTTG
Found at i:88533 original size:23 final size:24
Alignment explanation
Indices: 88489--88541 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
88479 TGTTATTAAA
*
88489 ATTAAAATTTTGAAATTAATAATT
1 ATTAAAATTTTAAAATTAATAATT
* *
88513 TTTAAAA-TTTAAAATTTATAATT
1 ATTAAAATTTTAAAATTAATAATT
88536 ATTAAA
1 ATTAAA
88542 TAATATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
ATTAAAATTTTAAAATTAATAATT
Found at i:89127 original size:11 final size:11
Alignment explanation
Indices: 89111--89185 Score: 59
Period size: 11 Copynumber: 7.0 Consensus size: 11
89101 ATAATTTTAA
89111 TAAATTTAATT
1 TAAATTTAATT
*
89122 TAAATTAAATTT
1 TAAATTTAA-TT
*
89134 TAAATATAATT
1 TAAATTTAATT
89145 T---TTTAATT
1 TAAATTTAATT
*
89153 TAAATTTAATA
1 TAAATTTAATT
*
89164 T-AATTTAAAT
1 TAAATTTAATT
*
89174 TATTATTTAATT
1 TA-AATTTAATT
89186 AATAAAAATA
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
8 7 0.14
10 8 0.16
11 18 0.37
12 16 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TAAATTTAATT
Found at i:89135 original size:26 final size:27
Alignment explanation
Indices: 89103--89171 Score: 92
Period size: 26 Copynumber: 2.7 Consensus size: 27
89093 TTGTCCATAT
89103 AATTTTAATA-AATTTAATTTAAATTA
1 AATTTTAATATAATTTAATTTAAATTA
*
89129 AATTTTAAATATAATTT--TTTAATTTA
1 AATTTT-AATATAATTTAATTTAAATTA
89155 AA-TTTAATATAATTTAA
1 AATTTTAATATAATTTAA
89172 ATTATTATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
24 10 0.26
25 3 0.08
26 16 0.42
27 4 0.11
28 5 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
AATTTTAATATAATTTAATTTAAATTA
Found at i:89169 original size:36 final size:35
Alignment explanation
Indices: 89099--89185 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 35
89089 AAATTTGTCC
*
89099 ATATAATTTTAATAAATTTAATTTAAATTAAATTTTAA
1 ATATAATTTT--TTAATTTAATTTAAATTAAA-TTTAA
89137 ATATAATTTTTTAATTTAAATTT-AA-TATAATTTAA
1 ATATAATTTTTTAATTT-AATTTAAATTA-AATTTAA
*
89172 AT-T-ATTATTTAATT
1 ATATAATTTTTTAATT
89186 AATAAAAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
33 10 0.22
34 1 0.02
35 9 0.20
36 10 0.22
37 5 0.11
38 10 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (35 bp):
ATATAATTTTTTAATTTAATTTAAATTAAATTTAA
Found at i:89187 original size:16 final size:16
Alignment explanation
Indices: 89113--89185 Score: 62
Period size: 17 Copynumber: 4.6 Consensus size: 16
89103 AATTTTAATA
*
89113 AATTTAATTTAAATTA
1 AATTTAATTTAAATTT
*
89129 AATTTTAA-ATATAATTT
1 AA-TTTAATTTA-AATTT
89146 --TTTAATTTAAATTT
1 AATTTAATTTAAATTT
*
89160 AATATAATTTAAATTAT
1 AATTTAATTTAAATT-T
*
89177 TATTTAATT
1 AATTTAATT
89186 AATAAAAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
14 10 0.22
15 2 0.04
16 16 0.36
17 17 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTTAATTTAAATTT
Found at i:89248 original size:17 final size:17
Alignment explanation
Indices: 89218--89279 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
89208 AATAATTAAA
*
89218 AAAATATAAATTTAATAT
1 AAAA-ATAATTTTAATAT
89236 AAAAATAATTTTAATATTT
1 AAAAATAATTTTAATA--T
* *
89255 ATAAAT-ATTTTAATAA
1 AAAAATAATTTTAATAT
89271 ATAAAATAA
1 A-AAAATAA
89280 AATATTTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
16 1 0.03
17 15 0.42
18 14 0.39
19 6 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAAATAATTTTAATAT
Found at i:89649 original size:22 final size:20
Alignment explanation
Indices: 89611--89655 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
89601 TTTATTTTAT
*
89611 TAAAATTTTTATAAATAAATA
1 TAAAAATTTTATAAATAAA-A
*
89632 TAAAAATTTTATTTAATAAAA
1 TAAAAATTTTA-TAAATAAAA
89653 TAA
1 TAA
89656 TATTAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAAATTTTATAAATAAAA
Found at i:90052 original size:21 final size:21
Alignment explanation
Indices: 90026--90085 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
90016 AAAAATATTT
90026 TTATTTATATTTAATTATAAA
1 TTATTTATATTTAATTATAAA
90047 TTATTTAAATATTT--TTATAAA
1 TTATTT--ATATTTAATTATAAA
90068 -T-TTT-TA-TTAATTATAAA
1 TTATTTATATTTAATTATAAA
90085 T
1 T
90086 AATAAATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
15 2 0.06
16 2 0.06
17 7 0.21
19 3 0.09
20 1 0.03
21 13 0.38
23 6 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTATTTATATTTAATTATAAA
Found at i:95401 original size:22 final size:22
Alignment explanation
Indices: 95357--95416 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
95347 CTCAATTCAG
*
95357 TATTTATTATATTTTTATGTTAA
1 TATTTA-TATATTTTTATATTAA
95380 TATTTATATA-TTTTATAATTAA
1 TATTTATATATTTTTAT-ATTAA
*
95402 -ATTTAAATAATTTTT
1 TATTTATAT-ATTTTT
95417 TTAGTAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 13 0.41
22 9 0.28
23 10 0.31
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TATTTATATATTTTTATATTAA
Found at i:101161 original size:11 final size:11
Alignment explanation
Indices: 101130--101168 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
101120 TATATATAAA
* *
101130 TATTATAATTT
1 TATTAAAATAT
101141 TATATAAAATAT
1 TAT-TAAAATAT
101153 TATTAAAATAT
1 TATTAAAATAT
101164 TATTA
1 TATTA
101169 GATTACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TATTAAAATAT
Found at i:101883 original size:21 final size:20
Alignment explanation
Indices: 101825--101883 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
101815 TACTATTTCA
* *
101825 ATAATATTTTATGTAAAATG
1 ATAATGTTTTATGTAATATG
* *
101845 GTAGTGTTTGTATGTAATATG
1 ATAATGTTT-TATGTAATATG
101866 ATAATGTTTATATGTAAT
1 ATAATGTTT-TATGTAAT
101884 TTGCTATATA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 6 0.19
21 25 0.81
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (20 bp):
ATAATGTTTTATGTAATATG
Found at i:102465 original size:21 final size:19
Alignment explanation
Indices: 102440--102481 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
102430 GTGATATATT
102440 TATTACTAATATATAAAATTA
1 TATTACTAA-A-ATAAAATTA
*
102461 TATTATTAAAATAAAATTA
1 TATTACTAAAATAAAATTA
102480 TA
1 TA
102482 AAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 11 0.55
20 1 0.05
21 8 0.40
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
TATTACTAAAATAAAATTA
Found at i:102489 original size:23 final size:25
Alignment explanation
Indices: 102463--102509 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
102453 TAAAATTATA
102463 TTATTAAAAT-AAAATTA-TAAAAT
1 TTATTAAAATCAAAATTACTAAAAT
*
102486 TTATTAAATTCAAAATTACTAAAA
1 TTATTAAAATCAAAATTACTAAAA
102510 AATTAATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
24 7 0.33
25 5 0.24
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (25 bp):
TTATTAAAATCAAAATTACTAAAAT
Found at i:102516 original size:344 final size:344
Alignment explanation
Indices: 101867--102518 Score: 764
Period size: 344 Copynumber: 1.9 Consensus size: 344
101857 TGTAATATGA
* * * *
101867 TAATGTTTATATGTAATTTGCTATATAAGAGTATTACCTTCAAAAAAATTTTACACAAATACATT
1 TAATATTTATATATAATTTACTATATAAGAATATTACCTTCAAAAAAATTTTACACAAATACATT
* * * * ***
101932 GTCGATTACATATATTACATATAAACATTACCTAAACTCTAAATAATTTGTGTAAATTATAATAT
66 ATCCATTACATATATTACATACAAACATTACCTAAACTATAAATAATTTAAATAAATTATAATAT
** **
101997 TTATGTGTAATTTTCATAGCTTTTAGTTGTAATTCTTACCAACTAATAAAAAATCTAAATTTTTT
131 TTATGTGTAATTTTCATAAATTTTAGTTGTAATTCTTACCAACTAATAAAAAATAAAAATTTTTT
** *
102062 CATAAAATTATTTTTTATTAATATAATATATTTACTACTACTATTAAAAATATATTTATAAAATA
196 CATAAAATTATTTTTTACAAATATAATATATTTACTACTAATATTAAAAATATATTTATAAAATA
** * * *
102127 AAAAATATAATTTTTTTTAATTTTAAAAATTACTGAAAGAATTAATTTTATATAAATATATAATA
261 AAAAATATAAAATTTATTAATATTAAAAATTACTGAAAAAATTAATTTTATATAAATATATAATA
102192 TATGTAATTTATAATTCGG
326 TATGTAATTTATAATTCGG
* * * *
102211 TAATATTTATATATAATTTATTATATACA-AATATTATCTTC-AAAAATTCTTTACACCAATACA
1 TAATATTTATATATAATTTACTATATA-AGAATATTACCTTCAAAAAAAT-TTTACACAAATACA
* * * *
102274 TTATCCATTATATATATTATATACAAACATTACCTACACTAT-AATAA-TTAAATAAATTCTAAT
64 TTATCCATTACATATATTACATACAAACATTACCTAAACTATAAATAATTTAAATAAATTATAAT
* * *** *
102337 ATTTATTTGTAA-TTTCGGTAAATTTTAGTTGTAATTCTTTTTAACTAATAAAAAGTAAAAATTT
129 ATTTATGTGTAATTTTC-ATAAATTTTAGTTGTAATTCTTACCAACTAATAAAAAATAAAAA-TT
* * * * *
102401 ATTATATTATAAAATTATTTTTTACAAATGTGATATATTTATTACTAATATATAAAATTATA-TT
192 -TT-T-TCATAAAATTATTTTTTACAAATATAATATATTTACTACTAATAT-TAAAAATATATTT
* *
102465 ATTAAAAT-AAAATTATAAAATTTATTAA-ATTCAAAATTACT-AAAAAATTAATTT
253 A-TAAAATAAAAAATATAAAATTTATTAATATTAAAAATTACTGAAAAAATTAATTT
102519 CCTACGTGTA
Statistics
Matches: 255, Mismatches: 44, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
341 4 0.02
342 58 0.23
343 13 0.05
344 95 0.37
345 13 0.05
346 57 0.22
347 15 0.06
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (344 bp):
TAATATTTATATATAATTTACTATATAAGAATATTACCTTCAAAAAAATTTTACACAAATACATT
ATCCATTACATATATTACATACAAACATTACCTAAACTATAAATAATTTAAATAAATTATAATAT
TTATGTGTAATTTTCATAAATTTTAGTTGTAATTCTTACCAACTAATAAAAAATAAAAATTTTTT
CATAAAATTATTTTTTACAAATATAATATATTTACTACTAATATTAAAAATATATTTATAAAATA
AAAAATATAAAATTTATTAATATTAAAAATTACTGAAAAAATTAATTTTATATAAATATATAATA
TATGTAATTTATAATTCGG
Found at i:104169 original size:19 final size:19
Alignment explanation
Indices: 104145--104203 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
104135 CATAATTTAT
104145 ATAATTATAATATTTATTA
1 ATAATTATAATATTTATTA
*
104164 ATAATTTTAAT-TTTATT-
1 ATAATTATAATATTTATTA
* *
104181 TTAATCATAAATATTTATGTA
1 ATAATTAT-AATATTTAT-TA
104202 AT
1 AT
104204 TGTAATAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
17 5 0.16
18 9 0.29
19 15 0.48
20 1 0.03
21 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
ATAATTATAATATTTATTA
Found at i:104180 original size:230 final size:226
Alignment explanation
Indices: 103721--104180 Score: 507
Period size: 230 Copynumber: 2.0 Consensus size: 226
103711 TACTACTTTC
* * * *
103721 TATTACTTTTGTTAATATATTTATGCAACTTACAAAATTTTTATGTAATGTATTAAATTTATGTA
1 TATTACTTTTGGTAATATATTTATGCAACTTACAAAAGTTTTATGTAATATAATAAATTTATGTA
* * * * * * *
103786 TTACAAAATTTTATCTTTTATCAGAATTTATTTAATATATAATGTATTTGTGTAATTATAAGGAA
66 TTACAAAATTTTATATTTTATCAGAATTTATTAAATAAAAAATATATATGTGTAATTATAAGAAA
* * * * * * * *
103851 AATATATGTTACTTATTTCTATTTTCTACTATGATATACTTATATAATAGATAATATAATTCATA
131 AATATATGATACTAATTTATATTATCAACTATAATATACTTATACAATAGATAACATAATTCATA
* *
103916 TAACTATAATATTTTATGTAATTTCATTTTT
196 TAACTATAATATTTTATATAATTTCATATTT
* *
103947 TATTACCTTTTGGTAATATATTTTTGTAACTTACAAAAGTTTTATGTAAATATAATAAATTTATG
1 TATTA-CTTTTGGTAATATATTTATGCAACTTACAAAAGTTTTATGT-AATATAATAAATTTATG
* * * *
104012 TATTATAAATTTTATTATATTTTATCATAATTTATGTAAATAAAAAATATATATGTGTAATTGTA
64 TATTACAAA-ATT-TTATATTTTATCAGAATTTAT-TAAATAAAAAATATATATGTGTAATTATA
* * *
104077 ATAAAAATGTATGATA-TAAATTTATATTATCAA-TCATAATA-ATTTATACAATAGATAACATA
126 AGAAAAATATATGATACT-AATTTATATTATCAACT-ATAATATACTTATACAATAGATAACATA
* * *
104139 ATTTATATAATTATAATA-TTTATTAATAATTTTA-ATTT
189 ATTCATATAACTATAATATTTTA-T-ATAATTTCATATTT
104177 TATT
1 TATT
104181 TTAATCATAA
Statistics
Matches: 192, Mismatches: 33, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
226 5 0.03
227 37 0.19
228 23 0.12
229 6 0.03
230 63 0.33
231 58 0.30
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (226 bp):
TATTACTTTTGGTAATATATTTATGCAACTTACAAAAGTTTTATGTAATATAATAAATTTATGTA
TTACAAAATTTTATATTTTATCAGAATTTATTAAATAAAAAATATATATGTGTAATTATAAGAAA
AATATATGATACTAATTTATATTATCAACTATAATATACTTATACAATAGATAACATAATTCATA
TAACTATAATATTTTATATAATTTCATATTT
Found at i:104903 original size:29 final size:29
Alignment explanation
Indices: 104857--104917 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
104847 ATTTTTTATT
*
104857 TATTATAATTAAAAAATATAAATATTAAAA
1 TATTATAATTAAAAAATAT-AATAATAAAA
*
104887 TATTA-AATTAAATAATATAATAATAAAA
1 TATTATAATTAAAAAATATAATAATAAAA
104915 TAT
1 TAT
104918 CTTTTATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 12 0.41
29 12 0.41
30 5 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (29 bp):
TATTATAATTAAAAAATATAATAATAAAA
Found at i:104908 original size:20 final size:21
Alignment explanation
Indices: 104870--104913 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
104860 TATAATTAAA
* *
104870 AAATATAAATATTAAAATATT
1 AAATATAAATAATAAAATAAT
*
104891 AAAT-TAAATAATATAATAAT
1 AAATATAAATAATAAAATAAT
104911 AAA
1 AAA
104914 ATATCTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AAATATAAATAATAAAATAAT
Found at i:108005 original size:2 final size:2
Alignment explanation
Indices: 107998--108023 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
107988 TATGTGTTAA
107998 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
108024 CAAGAAAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:116130 original size:3 final size:3
Alignment explanation
Indices: 116122--116151 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
116112 CTATTTTTAG
116122 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
116152 AGTGCTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:117372 original size:17 final size:17
Alignment explanation
Indices: 117321--117374 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
117311 TATATGTTTG
117321 AAAATTTATAT-AATAT
1 AAAATTTATATAAATAT
*
117337 -AAA-TTAT-TAACGTATT
1 AAAATTTATATAA-ATA-T
117353 AAAATTTATATAAATAT
1 AAAATTTATATAAATAT
117370 AAAAT
1 AAAAT
117375 ACTTTAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 11
0.70 0.05 0.26
Matches are distributed among these distances:
13 1 0.03
14 5 0.17
15 5 0.17
16 1 0.03
17 9 0.30
18 6 0.20
19 3 0.10
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (17 bp):
AAAATTTATATAAATAT
Found at i:118591 original size:97 final size:97
Alignment explanation
Indices: 118425--118619 Score: 363
Period size: 97 Copynumber: 2.0 Consensus size: 97
118415 ATCCTCAATA
118425 TCAATGCAGCTTTTATATTTTATAAATGAAATTAGAAAAATGACATGTATTTTGTTAGAACATGT
1 TCAATGCAGCTTTTATATTTTATAAATGAAATTAGAAAAATGACATGTATTTTGTTAGAACATGT
118490 TAAAAGTTAAAAAATAAAATATGTAACAATCT
66 TAAAAGTTAAAAAATAAAATATGTAACAATCT
* *
118522 TCAATGTAGCTTTTATATTTTATAAATGAAATTAGAAAAATGATATGTATTTTGTTAGAACATGT
1 TCAATGCAGCTTTTATATTTTATAAATGAAATTAGAAAAATGACATGTATTTTGTTAGAACATGT
*
118587 TAAAAGTTAAAAAATAAAATATGTGACAATCT
66 TAAAAGTTAAAAAATAAAATATGTAACAATCT
118619 T
1 T
118620 ATAACTTGGT
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (97 bp):
TCAATGCAGCTTTTATATTTTATAAATGAAATTAGAAAAATGACATGTATTTTGTTAGAACATGT
TAAAAGTTAAAAAATAAAATATGTAACAATCT
Found at i:124042 original size:2 final size:2
Alignment explanation
Indices: 124035--124059 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
124025 TCTGAGTCTT
124035 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
124060 TACAAATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:124682 original size:6 final size:6
Alignment explanation
Indices: 124671--124709 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
124661 TATAAAATAT
*
124671 ATAAAA ATAAAA ATAAAA ATAAAA ATAACA ATAAAA ATA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATA
124710 TTATTTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:124886 original size:6 final size:6
Alignment explanation
Indices: 124871--124928 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
124861 CCTATATTCA
* * * *
124871 TAATAT TAATAC TAATAC TGATAC TAATAT TAATAC TAATAC TAATAT
1 TAATAC TAATAC TAATAC TAATAC TAATAC TAATAC TAATAC TAATAC
*
124919 TAATAT TAAT
1 TAATAC TAAT
124929 CAATATTTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (6 bp):
TAATAC
Found at i:124903 original size:24 final size:24
Alignment explanation
Indices: 124871--124928 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
124861 CCTATATTCA
*
124871 TAATATTAATACTAATACTGATAC
1 TAATATTAATACTAATACTAATAC
*
124895 TAATATTAATACTAATACTAATAT
1 TAATATTAATACTAATACTAATAC
124919 TAATATTAAT
1 TAATATTAAT
124929 CAATATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (24 bp):
TAATATTAATACTAATACTAATAC
Found at i:124904 original size:18 final size:18
Alignment explanation
Indices: 124871--124928 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
124861 CCTATATTCA
* *
124871 TAATATTAATACTAATAC
1 TAATACTAATATTAATAC
*
124889 TGATACTAATATTAATAC
1 TAATACTAATATTAATAC
*
124907 TAATACTAATATTAATAT
1 TAATACTAATATTAATAC
124925 TAAT
1 TAAT
124929 CAATATTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (18 bp):
TAATACTAATATTAATAC
Found at i:125503 original size:112 final size:112
Alignment explanation
Indices: 125306--125521 Score: 335
Period size: 112 Copynumber: 1.9 Consensus size: 112
125296 TCAGTCAGCC
* * *
125306 TTTTTTAGCCCGGACATATAATGATCCATGCAATAATCAGTAACGAAATAAGAGGCTGTGTTGCG
1 TTTTTTAGCCCAGACATATAATGATCCATGCAATAATCAGTAACAAAATAAGAGGCCGTGTTGCG
*
125371 TGCATGGGAAGGGTTTCAAAGTTCATAGGTGACGCGCCAGTCAGATT
66 TGCATGGGAAGGGTTGCAAAGTTCATAGGTGACGCGCCAGTCAGATT
* ** *
125418 TTTTTTATGCCCAG-CATATAGTGATCCATGCAATGTTCAGTGACAAAATAAGAGGCCGTGTTGC
1 TTTTTTA-GCCCAGACATATAATGATCCATGCAATAATCAGTAACAAAATAAGAGGCCGTGTTGC
*
125482 GTGCATGGGAAGGGTTGCAAAGTTTATAGGTGACGCGCCA
65 GTGCATGGGAAGGGTTGCAAAGTTCATAGGTGACGCGCCA
125522 CCTGTTTGAT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
112 89 0.95
113 5 0.05
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (112 bp):
TTTTTTAGCCCAGACATATAATGATCCATGCAATAATCAGTAACAAAATAAGAGGCCGTGTTGCG
TGCATGGGAAGGGTTGCAAAGTTCATAGGTGACGCGCCAGTCAGATT
Found at i:126790 original size:29 final size:31
Alignment explanation
Indices: 126758--126842 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 31
126748 ATGATAAAAA
126758 ATAATTAAAATAAAATTTA-A-AATATAAAT
1 ATAATTAAAATAAAATTTATATAATATAAAT
***
126787 ATAATTATGTTAAAATTTATATAATATAAAT
1 ATAATTAAAATAAAATTTATATAATATAAAT
*
126818 -T-ATTAATATATTAAATTTTATATAA
1 ATAATTAA-A-A-TAAAATTTATATAA
126843 ACATATAATA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
29 20 0.45
30 2 0.05
31 9 0.20
32 13 0.30
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (31 bp):
ATAATTAAAATAAAATTTATATAATATAAAT
Found at i:126799 original size:22 final size:25
Alignment explanation
Indices: 126774--126820 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 25
126764 AAAATAAAAT
126774 TTAAAA-TATA-AATAT-AATTATG
1 TTAAAATTATATAATATAAATTATG
126796 TTAAAATTTATATAATATAAATTAT
1 TTAAAA-TTATATAATATAAATTAT
126821 TAATATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 6 0.29
24 4 0.19
25 5 0.24
26 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
TTAAAATTATATAATATAAATTATG
Found at i:126838 original size:32 final size:31
Alignment explanation
Indices: 126758--126842 Score: 95
Period size: 32 Copynumber: 2.8 Consensus size: 31
126748 ATGATAAAAA
* *
126758 ATAATTAAAATAAAATTTA-A-AATATAAAT
1 ATAATTATATTAAAATTTATATAATATAAAT
*
126787 ATAATTATGTTAAAATTTATATAATATAAATT
1 ATAATTATATTAAAATTTATATAATATAAA-T
*
126819 ATTAA-TATATTAAATTTTATATAA
1 A-TAATTATATTAAAATTTATATAA
126843 ACATATAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 16 0.34
30 1 0.02
31 8 0.17
32 19 0.40
33 3 0.06
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (31 bp):
ATAATTATATTAAAATTTATATAATATAAAT
Found at i:129981 original size:147 final size:146
Alignment explanation
Indices: 129682--129983 Score: 351
Period size: 147 Copynumber: 2.0 Consensus size: 146
129672 TAGACTCAGA
* * *
129682 AAAAAAATTATAGATATTAAATTTAAAATTAAAATTTATTAGACGATATATTTTATGAGTAATTA
1 AAAAAAGTAATAGATATTAAATTTAAAATTAAAATTTATTAGACGATATATCTTATGAGTAATTA
* * * * *
129747 TATAAACTGATCGAATTGAATTTTAAATTTAATTTCATTGATCAACTTTTCTTTCATAAAAAAAG
66 TATAAACTAATCGAACTAAATTTTAAATTCAATTTCATTGATCAACTTTTATTTCATAAAAAAAG
*
129812 ATTAGAATATAAAATT
131 ATCAGAATATAAAATT
* * *
129828 AAAAAAAGTAATAGATATTATAATTTAAAATTTAGATTTATTA-A-TATCATATCTTATGAGTAA
1 -AAAAAAGTAATAGATATTA-AATTTAAAATTAAAATTTATTAGACGAT-ATATCTTATGAGTAA
* * *
129891 TTATATAAATTAATTGAACTAAATTTTAAATTCAATTTCATTGATCCACTTTTAAAATTT-ATAT
63 TTATATAAACTAATCGAACTAAATTTTAAATTCAATTTCATTGATCAACTTTT---ATTTCATA-
* *
129955 TAAAAAA-ATCATAATATAAAATA
124 -AAAAAAGATCAGAATATAAAATT
129978 AAAAAA
1 AAAAAA
129984 TTACAGATCC
Statistics
Matches: 131, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
146 2 0.02
147 78 0.60
148 20 0.15
149 9 0.07
150 16 0.12
151 6 0.05
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (146 bp):
AAAAAAGTAATAGATATTAAATTTAAAATTAAAATTTATTAGACGATATATCTTATGAGTAATTA
TATAAACTAATCGAACTAAATTTTAAATTCAATTTCATTGATCAACTTTTATTTCATAAAAAAAG
ATCAGAATATAAAATT
Found at i:130477 original size:16 final size:14
Alignment explanation
Indices: 130460--130501 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
130450 AATTCATATA
*
130460 AAATTAAATCAATTT
1 AAATTAAAT-AAATT
130475 AAATATAAATAAATT
1 AAAT-TAAATAAATT
130490 AAATTAAA-AAAT
1 AAATTAAATAAAT
130502 AATCTAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 4 0.16
14 4 0.16
15 12 0.48
16 5 0.20
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATTAAATAAATT
Found at i:130494 original size:21 final size:20
Alignment explanation
Indices: 130407--130494 Score: 67
Period size: 21 Copynumber: 4.5 Consensus size: 20
130397 TATTTTTTAT
130407 AATTAAATTTAAATAAAA-A
1 AATTAAATTTAAATAAAATA
* *
130426 TATT--ATTTTAATAAAATA
1 AATTAAATTTAAATAAAATA
* * *
130444 AATAATAATTCATATAAAATTA
1 AATTA-AATTTAAATAAAA-TA
*
130466 AA-TCAATTTAAATATAAATA
1 AATTAAATTTAAATA-AAATA
130486 AATTAAATT
1 AATTAAATT
130495 AAAAAATAAT
Statistics
Matches: 50, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
17 11 0.22
18 3 0.06
19 3 0.06
20 12 0.24
21 17 0.34
22 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AATTAAATTTAAATAAAATA
Found at i:131165 original size:38 final size:36
Alignment explanation
Indices: 131085--131167 Score: 87
Period size: 38 Copynumber: 2.2 Consensus size: 36
131075 TAAAATTTTA
* **
131085 TTTTATTATTTTTAAAATATTTTAAAATATATTTAT
1 TTTTATTATTTTTAAAATATTTTAAAATAAATAAAT
*
131121 TATTTATTATTGTTT-ATATATTTTTAAAATAAAATAAAT
1 T-TTTATTATT-TTTAAAATA-TTTTAAAAT-AAATAAAT
131160 TTTTATTA
1 TTTTATTA
131168 ATTAAATAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
36 1 0.03
37 13 0.33
38 19 0.49
39 6 0.15
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (36 bp):
TTTTATTATTTTTAAAATATTTTAAAATAAATAAAT
Found at i:132317 original size:14 final size:14
Alignment explanation
Indices: 132298--132335 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
132288 AAATTAAAAA
*
132298 AATATTTTTATATT
1 AATATTTATATATT
132312 AATATTTATA-ATT
1 AATATTTATATATT
132325 AA-ATTTATATA
1 AATATTTATATA
132336 AAATTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 7 0.32
13 6 0.27
14 9 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AATATTTATATATT
Found at i:134466 original size:17 final size:17
Alignment explanation
Indices: 134420--134459 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
134410 CCTTTTTTTT
*
134420 AATAAAAAATAAAA--A
1 AATAAAATATAAAATTA
134435 AATAAAATATAAAATTA
1 AATAAAATATAAAATTA
134452 AATAAAAT
1 AATAAAAT
134460 CTTAAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.59
17 9 0.41
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
AATAAAATATAAAATTA
Found at i:134796 original size:21 final size:21
Alignment explanation
Indices: 134772--134817 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
134762 TTTTTTCATT
* * *
134772 AAATTACTCAATTCAATAATC
1 AAATTAATCAAATCAATAATA
*
134793 AAATTAATTAAATCAATAATA
1 AAATTAATCAAATCAATAATA
134814 AAAT
1 AAAT
134818 ACCTCACAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATTAATCAAATCAATAATA
Found at i:137388 original size:20 final size:20
Alignment explanation
Indices: 137365--137402 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
137355 TATTTTATTA
137365 TATTATA-ATTATATTTAAGG
1 TATTATATATT-TATTTAAGG
*
137385 TATTTTATATTTATTTAA
1 TATTATATATTTATTTAA
137403 ATATTGATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
TATTATATATTTATTTAAGG
Found at i:138013 original size:18 final size:19
Alignment explanation
Indices: 137983--138027 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
137973 ATTTTCAATA
*
137983 AATT-TTTTATTATATTTT
1 AATTATTTTATTATATTAT
138001 AATTATTTT-TTATATTAT
1 AATTATTTTATTATATTAT
*
138019 ATTTATTTT
1 AATTATTTT
138028 CTATCTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTATTTTATTATATTAT
Found at i:138386 original size:21 final size:21
Alignment explanation
Indices: 138356--138408 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
138346 AATAATAATT
* *
138356 ATGATGAAATTATTTATTATA
1 ATGATAAAATTATATATTATA
138377 ATGATAAAATTATATATTATA
1 ATGATAAAATTATATATTATA
*
138398 AT-AAAAAATTA
1 ATGATAAAATTA
138409 AAATTAGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 8 0.28
21 21 0.72
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (21 bp):
ATGATAAAATTATATATTATA
Found at i:138407 original size:20 final size:20
Alignment explanation
Indices: 138362--138423 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
138352 AATTATGATG
* *
138362 AAATTATTTATTATAATGATA
1 AAATTATATATTATAAT-AAA
138383 AAATTATATATTATAATAAA
1 AAATTATATATTATAATAAA
*
138403 AAATTA-AAATTAGTAATAAA
1 AAATTATATATTA-TAATAAA
138423 A
1 A
138424 TATGTTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 5 0.14
20 16 0.43
21 16 0.43
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
AAATTATATATTATAATAAA
Found at i:138581 original size:18 final size:18
Alignment explanation
Indices: 138558--138601 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
138548 TGAAATTAAT
138558 AAATTAA-AATTTTTATTA
1 AAATTAATAA-TTTTATTA
138576 AAATTAATAATTTTATTA
1 AAATTAATAATTTTATTA
*
138594 AAAATAAT
1 AAATTAAT
138602 TAAAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATTAATAATTTTATTA
Found at i:140645 original size:33 final size:32
Alignment explanation
Indices: 140582--140667 Score: 93
Period size: 33 Copynumber: 2.5 Consensus size: 32
140572 GTATTAAAAT
140582 TATATTTAAAATATTTTATATTTTTATAAATTTTAA
1 TATA-TTAAAATA--TT-TATTTTTATAAATTTTAA
*
140618 TATATTAATA-ATTTATTTTATATTAAATTTTAA
1 TATATTAAAATATTTATTTT-TA-TAAATTTTAA
*
140651 TATGTTAAAATATTTAT
1 TATATTAAAATATTTAT
140668 AACAAACTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
31 6 0.14
32 4 0.09
33 18 0.41
34 7 0.16
35 5 0.11
36 4 0.09
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (32 bp):
TATATTAAAATATTTATTTTTATAAATTTTAA
Found at i:141009 original size:14 final size:14
Alignment explanation
Indices: 140969--141011 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
140959 TAATATATTA
* *
140969 ATAATTTATATTAT
1 ATAAATTATTTTAT
140983 ATAAATT-TTTTAT
1 ATAAATTATTTTAT
140996 ATAAATTATTTTAT
1 ATAAATTATTTTAT
141010 AT
1 AT
141012 TTTATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 14 0.54
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATAAATTATTTTAT
Found at i:141009 original size:32 final size:32
Alignment explanation
Indices: 140920--141012 Score: 91
Period size: 32 Copynumber: 2.8 Consensus size: 32
140910 TGTTGGTTTT
*
140920 AATTTTTTATA-ATAATTATATTTAAATTTATATA
1 AATTTTTTATATA-AATTAT-TTTATA-TTATATA
* * * *
140954 TATTTTAATATATTAA-TAATTTATATTATATA
1 AATTTT-TTATATAAATTATTTTATATTATATA
140986 AATTTTTTATATAAATTATTTTATATT
1 AATTTTTTATATAAATTATTTTATATT
141013 TTATTTTAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
31 7 0.15
32 22 0.47
33 5 0.11
34 7 0.15
35 6 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (32 bp):
AATTTTTTATATAAATTATTTTATATTATATA
Found at i:142525 original size:25 final size:25
Alignment explanation
Indices: 142479--142535 Score: 89
Period size: 25 Copynumber: 2.2 Consensus size: 25
142469 TTTTTATATT
142479 ATATTAATTATAATAATATATAATAA
1 ATATT-ATTATAATAATATATAATAA
142505 ATATTATTATAAATAAT-TATAATAA
1 ATATTATTAT-AATAATATATAATAA
142530 ATATTA
1 ATATTA
142536 AAAAATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
25 19 0.63
26 11 0.37
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
ATATTATTATAATAATATATAATAA
Found at i:143494 original size:21 final size:21
Alignment explanation
Indices: 143468--143525 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
143458 TATGTATTTA
*
143468 GATGAAATAATGTAATGGTTG
1 GATGAAAAAATGTAATGGTTG
* **
143489 GATGAAAAAATGTATTTTTTG
1 GATGAAAAAATGTAATGGTTG
143510 GATGAAAAAAATGTAA
1 GATG-AAAAAATGTAA
143526 CTTTTAATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.45, C:0.00, G:0.22, T:0.33
Consensus pattern (21 bp):
GATGAAAAAATGTAATGGTTG
Done.