Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003009.1 Hibiscus syriacus cultivar Beakdansim tig00006233_pilon, 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: 139586
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:495 original size:13 final size:14
Alignment explanation
Indices: 463--497 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
453 ATGAAATTAA
463 AAATTAATTTTTATG
1 AAATT-ATTTTTATG
478 AAATTATTTTTATG
1 AAATTATTTTTATG
492 -AATTAT
1 AAATTAT
498 AATATTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 9 0.45
15 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (14 bp):
AAATTATTTTTATG
Found at i:496 original size:35 final size:35
Alignment explanation
Indices: 443--515 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
433 TTAGATTTTC
*
443 AAATTTTTTTATGAAATTA-AAAATTAATTTTTATG
1 AAATTTTTTTATGAAATTATAAAATT-ATTTTTAAG
*
478 AAATTATTTTTATG-AATTATAATATTATTTTTAAG
1 AAATT-TTTTTATGAAATTATAAAATTATTTTTAAG
513 AAA
1 AAA
516 AATATCAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 21 0.62
36 13 0.38
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (35 bp):
AAATTTTTTTATGAAATTATAAAATTATTTTTAAG
Found at i:8320 original size:19 final size:19
Alignment explanation
Indices: 8292--8339 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
8282 TCGCAACTTG
8292 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
*
8311 TCGTTACGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
8330 TCGTTGCGAT
1 TCGTTGCGAT
8340 AGTCTACAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.42
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:8355 original size:22 final size:22
Alignment explanation
Indices: 8330--8405 Score: 143
Period size: 22 Copynumber: 3.5 Consensus size: 22
8320 TTTTCCAAAT
8330 TCGTTGCGATAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
8352 TCGTTGCGATAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
*
8374 TCGTTGCGGTAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
8396 TCGTTGCGAT
1 TCGTTGCGAT
8406 TTTCCAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.16, C:0.18, G:0.29, T:0.37
Consensus pattern (22 bp):
TCGTTGCGATAGTCTACAGTTG
Found at i:9044 original size:6 final size:6
Alignment explanation
Indices: 9028--9065 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
9018 TCTCGTCTCG
9028 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
9066 AATGCGTGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:11714 original size:11 final size:11
Alignment explanation
Indices: 11698--11772 Score: 55
Period size: 11 Copynumber: 6.6 Consensus size: 11
11688 TTACGTGATC
11698 ATAATTTTAAT
1 ATAATTTTAAT
11709 ATAA-TTTAAT
1 ATAATTTTAAT
*
11719 AAAATTTTAAT
1 ATAATTTTAAT
* *
11730 CTAATTAATTTAGTT
1 ATAA-T--TTTA-AT
11745 ATAATTTTAAT
1 ATAATTTTAAT
*
11756 GTAA-TTTAAT
1 ATAATTTTAAT
*
11766 AAAATTT
1 ATAATTT
11773 AATCTCCAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
10 17 0.35
11 18 0.37
12 5 0.10
14 5 0.10
15 4 0.08
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (11 bp):
ATAATTTTAAT
Found at i:11734 original size:26 final size:26
Alignment explanation
Indices: 11705--11761 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
11695 ATCATAATTT
11705 TAATATAATTTA-ATAAAATTTTAATC
1 TAAT-TAATTTAGATAAAATTTTAATC
* * *
11731 TAATTAATTTAGTTATAATTTTAATG
1 TAATTAATTTAGATAAAATTTTAATC
11757 TAATT
1 TAATT
11762 TAATAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (26 bp):
TAATTAATTTAGATAAAATTTTAATC
Found at i:12351 original size:31 final size:31
Alignment explanation
Indices: 12313--12371 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
12303 ATAGTCATAC
* *
12313 TTTTTAAAT-AAAGTTTAACATAAAATATATA
1 TTTTTAAATGAAA-TTGAAAATAAAATATATA
12344 TTTTTAAATGAAATTGAAAATAAAATAT
1 TTTTTAAATGAAATTGAAAATAAAATAT
12372 TTTTAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 22 0.88
32 3 0.12
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.41
Consensus pattern (31 bp):
TTTTTAAATGAAATTGAAAATAAAATATATA
Found at i:12371 original size:27 final size:27
Alignment explanation
Indices: 12341--12404 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
12331 CATAAAATAT
12341 ATATTTTTAAATGAAATTGAA-AATAAA
1 ATATTTTTAAATGAAATT-AATAATAAA
* *
12368 ATATTTTTAAATTAAGTTAATAATAAA
1 ATATTTTTAAATGAAATTAATAATAAA
*
12395 ATATATTTAA
1 ATATTTTTAA
12405 TAAGTTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 2 0.06
27 31 0.94
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (27 bp):
ATATTTTTAAATGAAATTAATAATAAA
Found at i:12422 original size:22 final size:25
Alignment explanation
Indices: 12362--12424 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 25
12352 TGAAATTGAA
*
12362 AATAAAATATTTTTAAATTAAGTTAAT
1 AATAAAATATATTT-AA-TAAGTTAAT
12389 AATAAAATATATTTAATAAGTT-AT
1 AATAAAATATATTTAATAAGTTAAT
12413 -ATAAAA-ATATTT
1 AATAAAATATATTT
12425 TTTAAGTCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
22 6 0.17
23 6 0.17
24 2 0.06
25 6 0.17
26 2 0.06
27 13 0.37
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (25 bp):
AATAAAATATATTTAATAAGTTAAT
Found at i:12428 original size:25 final size:25
Alignment explanation
Indices: 12365--12429 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
12355 AATTGAAAAT
*
12365 AAAATATTTTTAAATTAAGTTAATA
1 AAAATATTTTTTAATTAAGTTAATA
*
12390 ATAAA-ATATATTTAA-TAAGTTATATA
1 A-AAATAT-TTTTTAATTAAGTTA-ATA
12416 AAAATATTTTTTAA
1 AAAATATTTTTTAA
12430 GTCGATATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (25 bp):
AAAATATTTTTTAATTAAGTTAATA
Found at i:12430 original size:22 final size:25
Alignment explanation
Indices: 12362--12450 Score: 76
Period size: 27 Copynumber: 3.5 Consensus size: 25
12352 TGAAATTGAA
*
12362 AATAAAATATTTTTAAATTAAGTTAAT
1 AATAAAATATATTT--ATTAAGTTAAT
*
12389 AATAAAATATATTTAATAAGTT-AT
1 AATAAAATATATTTATTAAGTTAAT
* *
12413 -ATAAAA-ATATTTTTTAAGTCGATAT
1 AATAAAATATATTTATTAAGT-TA-AT
12438 ATATAAAATATAT
1 A-ATAAAATATAT
12451 ACACCATGTT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
22 11 0.22
23 6 0.12
24 2 0.04
25 9 0.18
27 19 0.37
28 4 0.08
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.43
Consensus pattern (25 bp):
AATAAAATATATTTATTAAGTTAAT
Found at i:18412 original size:13 final size:14
Alignment explanation
Indices: 18394--18426 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
18384 TACACGTACC
18394 ATTAAAAATT-TTG
1 ATTAAAAATTATTG
18407 ATTAAAAAATTATTG
1 ATT-AAAAATTATTG
18422 ATTAA
1 ATTAA
18427 TTGCTGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.17
14 9 0.50
15 6 0.33
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (14 bp):
ATTAAAAATTATTG
Found at i:18416 original size:14 final size:15
Alignment explanation
Indices: 18397--18426 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18387 ACGTACCATT
18397 AAAAATT-TTGATTA
1 AAAAATTATTGATTA
18411 AAAAATTATTGATTA
1 AAAAATTATTGATTA
18426 A
1 A
18427 TTGCTGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (15 bp):
AAAAATTATTGATTA
Found at i:18665 original size:20 final size:21
Alignment explanation
Indices: 18627--18666 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18617 GGAAAACCCT
*
18627 TTTATATCAAAAGTAAAAACC
1 TTTAAATCAAAAGTAAAAACC
*
18648 TTTAAATCAAAGGTAAAAA
1 TTTAAATCAAAAGTAAAAA
18667 TCAGGGGACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (21 bp):
TTTAAATCAAAAGTAAAAACC
Found at i:19272 original size:37 final size:36
Alignment explanation
Indices: 19173--19300 Score: 170
Period size: 37 Copynumber: 3.6 Consensus size: 36
19163 AACAAAATAA
* *
19173 GCAACCTATTTTTAAGTTGCACTCCA-TTTTAAGTT
1 GCAACCTATTTTTAAGTTGCAATCTATTTTTAAGTT
*
19208 GCAACCTATTTTTAAGTTGCAACCTATTTTTAAGTT
1 GCAACCTATTTTTAAGTTGCAATCTATTTTTAAGTT
* *
19244 GCAACCTATTTTTTAAGTTACAATCTATTTTTAAATT
1 GCAACCTA-TTTTTAAGTTGCAATCTATTTTTAAGTT
*
19281 GCAACCCATTTTCT-AGTTGC
1 GCAACCTATTTT-TAAGTTGC
19301 CCATTTTAAG
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
35 23 0.28
36 26 0.32
37 33 0.40
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (36 bp):
GCAACCTATTTTTAAGTTGCAATCTATTTTTAAGTT
Found at i:19283 original size:55 final size:53
Alignment explanation
Indices: 19173--19324 Score: 170
Period size: 55 Copynumber: 2.9 Consensus size: 53
19163 AACAAAATAA
* *
19173 GCAACCTATTTTTAAGTTGCACTCCATTTTAAGTTGCAACCTATTTTTAAGTT
1 GCAACCTATTTTTAAGTTGCACTCCATTTTAAGTTACAACCTATTTTTAAATT
* *
19226 GCAACCTATTTTTAAGTTGCAAC-CTATTTTTTAAGTTACAATCTATTTTTAAATT
1 GCAACCTATTTTTAAGTTGC-ACTCCA--TTTTAAGTTACAACCTATTTTTAAATT
* * *
19281 GCAACCCATTTTCT-AGTTG--C-CCATTTTAAGTTATAGCCTATTTT
1 GCAACCTATTTT-TAAGTTGCACTCCATTTTAAGTTACAACCTATTTT
19325 CTGGTTACTC
Statistics
Matches: 86, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
50 18 0.21
52 3 0.03
53 22 0.26
54 2 0.02
55 40 0.47
56 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.45
Consensus pattern (53 bp):
GCAACCTATTTTTAAGTTGCACTCCATTTTAAGTTACAACCTATTTTTAAATT
Found at i:19300 original size:18 final size:18
Alignment explanation
Indices: 19173--19292 Score: 163
Period size: 18 Copynumber: 6.7 Consensus size: 18
19163 AACAAAATAA
19173 GCAACCTATTTTTAAGTT
1 GCAACCTATTTTTAAGTT
*
19191 GC-ACTCCA-TTTTAAGTT
1 GCAAC-CTATTTTTAAGTT
19208 GCAACCTATTTTTAAGTT
1 GCAACCTATTTTTAAGTT
19226 GCAACCTATTTTTAAGTT
1 GCAACCTATTTTTAAGTT
19244 GCAACCTATTTTTTAAGTT
1 GCAACCTA-TTTTTAAGTT
* * *
19263 ACAATCTATTTTTAAATT
1 GCAACCTATTTTTAAGTT
*
19281 GCAACCCATTTT
1 GCAACCTATTTT
19293 CTAGTTGCCC
Statistics
Matches: 90, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.17
18 59 0.66
19 16 0.18
ACGTcount: A:0.28, C:0.18, G:0.09, T:0.44
Consensus pattern (18 bp):
GCAACCTATTTTTAAGTT
Found at i:27934 original size:9 final size:9
Alignment explanation
Indices: 27910--27945 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
27900 ATATATTATC
27910 TTTA-AAAA
1 TTTATAAAA
27918 TTT-T-AAA
1 TTTATAAAA
27925 TTTATAAAA
1 TTTATAAAA
27934 TTTATAAAA
1 TTTATAAAA
27943 TTT
1 TTT
27946 TTTATAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
7 6 0.24
8 4 0.16
9 15 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
TTTATAAAA
Found at i:49248 original size:22 final size:22
Alignment explanation
Indices: 49207--49259 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 22
49197 AAGATAAAAG
49207 AAATAAACAAATGCATAATAAA
1 AAATAAACAAATGCATAATAAA
*
49229 AAAT-AACAAAT-CATAA-AAT
1 AAATAAACAAATGCATAATAAA
49248 AAATAAA-AAATG
1 AAATAAACAAATG
49260 AGTATCATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 10 0.36
20 7 0.25
21 7 0.25
22 4 0.14
ACGTcount: A:0.70, C:0.08, G:0.04, T:0.19
Consensus pattern (22 bp):
AAATAAACAAATGCATAATAAA
Found at i:49347 original size:2 final size:2
Alignment explanation
Indices: 49340--49410 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
49330 GAAAATTAAA
49340 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49382 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
49411 AAGAAATCAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:51355 original size:45 final size:45
Alignment explanation
Indices: 51295--51590 Score: 258
Period size: 45 Copynumber: 6.6 Consensus size: 45
51285 GTATTCTTCA
* * *
51295 AATGACTCATATTCGCGGGTTTAAGCCGGGTGAAATGTTTTTTCG
1 AATGACTCTTCTTCGCGGGTTTAAGCCGGGTGAAATGTTCTTTCG
* * *
51340 AATGACTCTTCTTCGCGGGTTTAAACAGGGTGAAATGTTCTTTCA
1 AATGACTCTTCTTCGCGGGTTTAAGCCGGGTGAAATGTTCTTTCG
* * * *
51385 AACGACTCTCCTTTGCGGGTTTAAGCCGGGTGAAATGTTCTTTTG
1 AATGACTCTTCTTCGCGGGTTTAAGCCGGGTGAAATGTTCTTTCG
* * ** * * *
51430 GACGACTCCCCTTCGTGGGTTTAAGTCGGGTAAAATGTTCTTTCG
1 AATGACTCTTCTTCGCGGGTTTAAGCCGGGTGAAATGTTCTTTCG
* * * **
51475 -ATCAACT-TTCATTTGTGGGTTTAAGCTAGGTGAAATGTTCTTTCG
1 AAT-GACTCTTC-TTCGCGGGTTTAAGCCGGGTGAAATGTTCTTTCG
* * * *
51520 AATAACTC-TCATTTGCTGGTTTAAGTCGGGTGAAATGTTC-TTCG
1 AATGACTCTTC-TTCGCGGGTTTAAGCCGGGTGAAATGTTCTTTCG
* * ** *
51564 GATGAATCCCCTTCGCGAGTTTAAGCC
1 AATGACTCTTCTTCGCGGGTTTAAGCC
51591 ATGTGAAGTG
Statistics
Matches: 204, Mismatches: 42, Indels: 11
0.79 0.16 0.04
Matches are distributed among these distances:
44 23 0.11
45 179 0.88
46 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (45 bp):
AATGACTCTTCTTCGCGGGTTTAAGCCGGGTGAAATGTTCTTTCG
Found at i:51541 original size:135 final size:134
Alignment explanation
Indices: 51306--51590 Score: 351
Period size: 135 Copynumber: 2.1 Consensus size: 134
51296 ATGACTCATA
* * *
51306 TTCGCGGGTTTAAGCCGGGTGAAATGTTTTTTCGAATGACTCTTCTTCGCGGGTTTAAACAGGGT
1 TTCGCGGGTTTAAGCCGGGTAAAATGTTCTTTCGAATAACTCTTCTTCGCGGGTTTAAACAGGGT
* * * *
51371 GAAATGTTCTTTCAAACGACTCTCCTTTGCGGGTTTAAGCCGGGTGAAATGTTCTTTTGGACGAC
66 GAAATGTTCTTTCAAACAACTCTCATTTGCGGGTTTAAGCCGGGTGAAATGTTC-TTCGGACGAA
51436 TCCCC
130 TCCCC
* * * * *
51441 TTCGTGGGTTTAAGTCGGGTAAAATGTTCTTTCG-ATCAACT-TTCATTTGTGGGTTTAAGCTA-
1 TTCGCGGGTTTAAGCCGGGTAAAATGTTCTTTCGAAT-AACTCTTC-TTCGCGGGTTTAAAC-AG
* * * * *
51503 GGTGAAATGTTCTTTCGAATAACTCTCATTTGCTGGTTTAAGTCGGGTGAAATGTTCTTCGGATG
63 GGTGAAATGTTCTTTCAAACAACTCTCATTTGCGGGTTTAAGCCGGGTGAAATGTTCTTCGGACG
51568 AATCCCC
128 AATCCCC
*
51575 TTCGCGAGTTTAAGCC
1 TTCGCGGGTTTAAGCC
51591 ATGTGAAGTG
Statistics
Matches: 127, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
134 30 0.24
135 96 0.76
136 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (134 bp):
TTCGCGGGTTTAAGCCGGGTAAAATGTTCTTTCGAATAACTCTTCTTCGCGGGTTTAAACAGGGT
GAAATGTTCTTTCAAACAACTCTCATTTGCGGGTTTAAGCCGGGTGAAATGTTCTTCGGACGAAT
CCCC
Found at i:56621 original size:22 final size:21
Alignment explanation
Indices: 56568--56702 Score: 59
Period size: 21 Copynumber: 6.4 Consensus size: 21
56558 GCAAAGAAAC
*
56568 TAAAAATAT-AATGAAAATAAA
1 TAAATATATAAAT-AAAATAAA
56589 TAAATAGTATAAATAAAATAATA
1 TAAATA-TATAAATAAAATAA-A
* * *
56612 TATATATATATATATAATATAA
1 TAAATATATAAATAAAATA-AA
* ** *
56634 -AAATGTATGTATAATAT-AA
1 TAAATATATAAATAAAATAAA
*
56653 TAAA-ATACTAAATAGTAAT-AA
1 TAAATATA-TAAATA-AAATAAA
*
56674 T-AATA-ATAAATAAATGAAAAA
1 TAAATATATAAATAAA--ATAAA
56695 TAAATATA
1 TAAATATA
56703 CATATAATAT
Statistics
Matches: 85, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
18 1 0.01
19 10 0.12
20 11 0.13
21 26 0.31
22 26 0.31
23 11 0.13
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (21 bp):
TAAATATATAAATAAAATAAA
Found at i:56630 original size:19 final size:19
Alignment explanation
Indices: 56606--56652 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
56596 TATAAATAAA
* *
56606 ATAATATATATATATATAT
1 ATAATATAAAAATATATAT
* *
56625 ATAATATAAAAATGTATGT
1 ATAATATAAAAATATATAT
56644 ATAATATAA
1 ATAATATAA
56653 TAAAATACTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (19 bp):
ATAATATAAAAATATATAT
Found at i:57493 original size:37 final size:37
Alignment explanation
Indices: 57400--57501 Score: 132
Period size: 37 Copynumber: 2.8 Consensus size: 37
57390 ATACTTGTGG
* * ** * *
57400 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
* *
57437 ATCATATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
57474 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
57502 TAAGATGAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
Found at i:60596 original size:21 final size:21
Alignment explanation
Indices: 60561--60618 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
60551 GAAATAATTT
*
60561 AAAATAAAATT-TAAATTATA
1 AAAATATAATTATAAATTATA
*
60581 AAAATATAATTATAAATTTTA
1 AAAATATAATTATAAATTATA
*
60602 ACAATTATAACTTATAA
1 A-AAATATAA-TTATAA
60619 TTTTTTATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.31
21 9 0.28
22 7 0.22
23 6 0.19
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATATAATTATAAATTATA
Found at i:72674 original size:3 final size:3
Alignment explanation
Indices: 72666--72707 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
72656 AAAAACAAAC
72666 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
72708 AAGGACAAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:79536 original size:27 final size:27
Alignment explanation
Indices: 79469--79535 Score: 118
Period size: 26 Copynumber: 2.5 Consensus size: 27
79459 TTTGTTAGGG
*
79469 ACGAACTTATAAAATTTTAAAAAGATA
1 ACGAACTTATAAAATTTTAAAAAGAGA
79496 ACGAACTTATAAAATTTT-AAAAGAGA
1 ACGAACTTATAAAATTTTAAAAAGAGA
79522 ACGAACTTATAAAA
1 ACGAACTTATAAAA
79536 AATTAAGAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 21 0.54
27 18 0.46
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (27 bp):
ACGAACTTATAAAATTTTAAAAAGAGA
Found at i:79548 original size:24 final size:25
Alignment explanation
Indices: 79469--79550 Score: 85
Period size: 26 Copynumber: 3.2 Consensus size: 25
79459 TTTGTTAGGG
** *
79469 ACGAACTTATAAAATTTTAAAAAGATA
1 ACGAACTTATAAAAAATT--AAAGAGA
**
79496 ACGAACTTATAAAATTTTAAAAGAGA
1 ACGAACTTATAAAAAATT-AAAGAGA
79522 ACGAACTTATAAAAAATT-AAGAGA
1 ACGAACTTATAAAAAATTAAAGAGA
79546 ACGAA
1 ACGAA
79551 AACATAATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
24 11 0.21
26 23 0.44
27 18 0.35
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.24
Consensus pattern (25 bp):
ACGAACTTATAAAAAATTAAAGAGA
Found at i:79780 original size:22 final size:21
Alignment explanation
Indices: 79752--79802 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
79742 GCGAATATGT
79752 AAATCGCATTGCGATTTTTCCA
1 AAATCGCATTGCGA-TTTTCCA
* *
79774 AATTCGCGTTGCGATTTTCCA
1 AAATCGCATTGCGATTTTCCA
79795 AAATCGCA
1 AAATCGCA
79803 ACATATAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (21 bp):
AAATCGCATTGCGATTTTCCA
Found at i:79985 original size:20 final size:20
Alignment explanation
Indices: 79812--79988 Score: 246
Period size: 20 Copynumber: 8.8 Consensus size: 20
79802 AACATATAAA
79812 TCAAATTCGCAACGCGATAG
1 TCAAATTCGCAACGCGATAG
* * *
79832 TCAAATTCGCAACACAAAAG
1 TCAAATTCGCAACGCGATAG
79852 TCAAATTCGCAACGCGATAG
1 TCAAATTCGCAACGCGATAG
79872 TCAAATTCGCAACGCGATAG
1 TCAAATTCGCAACGCGATAG
79892 TCAAATTCGCAACGCGATAG
1 TCAAATTCGCAACGCGATAG
* * * *
79912 TCAATTTCGCAACACAAAAG
1 TCAAATTCGCAACGCGATAG
* * * *
79932 TCAAATTCACAACACAAAAG
1 TCAAATTCGCAACGCGATAG
*
79952 TCAAATTTGCAACGCGATAG
1 TCAAATTCGCAACGCGATAG
79972 TCAAATTCGCAACGCGA
1 TCAAATTCGCAACGCGA
79989 AACACAATAT
Statistics
Matches: 139, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 139 1.00
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.19
Consensus pattern (20 bp):
TCAAATTCGCAACGCGATAG
Found at i:80128 original size:22 final size:22
Alignment explanation
Indices: 80100--80150 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
80090 CTACAGCGAC
80100 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
* *
80122 ATTCGTCCCCATCTCCGGCGAA
1 ATCCGTCCCCATCTCCGACGAA
80144 ATCCGTC
1 ATCCGTC
80151 TATCTCCATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.22
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:80598 original size:20 final size:19
Alignment explanation
Indices: 80560--80607 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
80550 AAATCGCAAC
80560 GCGATTTTAGTTCCGCGTT
1 GCGATTTTAGTTCCGCGTT
* *
80579 GCGATTTTCATTTTCGCGTT
1 GCGATTTT-AGTTCCGCGTT
*
80599 GCGAATTTA
1 GCGATTTTA
80608 AGTTTTAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.15, C:0.19, G:0.23, T:0.44
Consensus pattern (19 bp):
GCGATTTTAGTTCCGCGTT
Found at i:82787 original size:21 final size:21
Alignment explanation
Indices: 82768--82866 Score: 96
Period size: 21 Copynumber: 4.7 Consensus size: 21
82758 GACGCACCTA
*
82768 TCATCGTTCAAGAGGCACCTC
1 TCATCGTTCAAGAGGCCCCTC
*
82789 -CTATCATTCAAGAGGCCCCTC
1 TC-ATCGTTCAAGAGGCCCCTC
* *
82810 TCATC-ATCGAAGAAGCCCCTC
1 TCATCGTTC-AAGAGGCCCCTC
* *
82831 CCA-CTGTTCAAGAGGCCCCTG
1 TCATC-GTTCAAGAGGCCCCTC
82852 TCATCGTTCAAGAGG
1 TCATCGTTCAAGAGG
82867 TACCGTCCGC
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
20 4 0.06
21 55 0.87
22 4 0.06
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.22
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:84125 original size:24 final size:23
Alignment explanation
Indices: 84093--84148 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 23
84083 ATTTGCTGTT
84093 TGTTGGTTTTAGATGCGTAGAAAG
1 TGTT-GTTTTAGATGCGTAGAAAG
*
84117 TGTTAGTTTTAGATGTGTAGAAAG
1 TGTT-GTTTTAGATGCGTAGAAAG
84141 TGTTGTTT
1 TGTTGTTT
84149 GAGCAAATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 4 0.13
24 26 0.87
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (23 bp):
TGTTGTTTTAGATGCGTAGAAAG
Found at i:84397 original size:66 final size:65
Alignment explanation
Indices: 84237--84412 Score: 239
Period size: 66 Copynumber: 2.6 Consensus size: 65
84227 TGGGGTACAC
84237 TTTTTTTGCTTGTTTAATTGAATTT-TACATTGAAAGTTGATTTGTTTAATTGACGAGGAAATAA
1 TTTTTTTGCTTGTTTAATTG-ATTTGT--A---AAAGTTGATTTGTTTAATTGACGAGGAAATAA
84301 GAATTA
60 GAATTA
* * * *
84307 -TTTTTTACTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATT
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAA-TTGACGAGGAAATAAGAATT
84371 A
65 A
84372 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
84413 ATTTCAAATT
Statistics
Matches: 98, Mismatches: 5, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
64 17 0.17
65 18 0.18
66 39 0.40
67 1 0.01
68 4 0.04
69 19 0.19
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.52
Consensus pattern (65 bp):
TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGACGAGGAAATAAGAATTA
Found at i:85542 original size:18 final size:18
Alignment explanation
Indices: 85519--85555 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
85509 CGAAATTTAT
85519 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
85537 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
85555 A
1 A
85556 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:85960 original size:25 final size:25
Alignment explanation
Indices: 85932--85981 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
85922 CATTATTTTC
*
85932 CAAATAATATACCCATAACAATGTT
1 CAAATAATATACCCACAACAATGTT
*
85957 CAAATAATGTACCCACAACAATGTT
1 CAAATAATATACCCACAACAATGTT
85982 TAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.22, G:0.06, T:0.26
Consensus pattern (25 bp):
CAAATAATATACCCACAACAATGTT
Found at i:86113 original size:34 final size:34
Alignment explanation
Indices: 86061--86154 Score: 161
Period size: 34 Copynumber: 2.8 Consensus size: 34
86051 CTTTCGCAAC
* *
86061 GCGAAAGTAAAATTCGCAACGCGAAATAAGCGTT
1 GCGATAGTCAAATTCGCAACGCGAAATAAGCGTT
86095 GCGATAGTCAAATTCGCAACGCGAAATAAGCGTT
1 GCGATAGTCAAATTCGCAACGCGAAATAAGCGTT
*
86129 GTGATAGTCAAATTCGCAACGCGAAA
1 GCGATAGTCAAATTCGCAACGCGAAA
86155 GTCAAATTCG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (34 bp):
GCGATAGTCAAATTCGCAACGCGAAATAAGCGTT
Found at i:86172 original size:20 final size:20
Alignment explanation
Indices: 86124--86172 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
86114 CGCGAAATAA
* *
86124 GCGTTGTGATAGTCAAATTC
1 GCGTTGCGAAAGTCAAATTC
***
86144 GCAACGCGAAAGTCAAATTC
1 GCGTTGCGAAAGTCAAATTC
86164 GCGTTGCGA
1 GCGTTGCGA
86173 TTTCGCTTTG
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (20 bp):
GCGTTGCGAAAGTCAAATTC
Found at i:86238 original size:20 final size:20
Alignment explanation
Indices: 86215--86256 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
86205 TATTTCGCGA
*
86215 TGCGAATTTTACTTTCACGT
1 TGCGAATTTGACTTTCACGT
*
86235 TGCGAATTTGACTTTCGCGT
1 TGCGAATTTGACTTTCACGT
86255 TG
1 TG
86257 ATCGCAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (20 bp):
TGCGAATTTGACTTTCACGT
Found at i:86565 original size:18 final size:18
Alignment explanation
Indices: 86542--86577 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
86532 AAGCCGGTTG
*
86542 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
86560 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
86578 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:88866 original size:24 final size:24
Alignment explanation
Indices: 88834--88887 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
88824 CCATCACATC
88834 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
*
88858 ATCAAAATCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
88882 ATCAAA
1 ATCAAA
88888 TTTCGAATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:88901 original size:24 final size:24
Alignment explanation
Indices: 88834--88901 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
88824 CCATCACATC
* *
88834 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAATACTGACCAAG
** *
88858 ATCAAAATCCGGGTATTGACCAAG
1 ATCAAAATCCGAATACTGACCAAG
* *
88882 ATCAAATTTCGAATACTGAC
1 ATCAAAATCCGAATACTGAC
88902 TAGTACTCAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAATACTGACCAAG
Found at i:89034 original size:12 final size:12
Alignment explanation
Indices: 89013--89046 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
89003 GGTTGTGGGT
*
89013 TTTGAGATTGTG
1 TTTGATATTGTG
89025 TTTGATATTGTG
1 TTTGATATTGTG
*
89037 TTTGGTATTG
1 TTTGATATTG
89047 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:89873 original size:20 final size:20
Alignment explanation
Indices: 89848--89962 Score: 108
Period size: 20 Copynumber: 5.8 Consensus size: 20
89838 TTGTGAAATT
89848 AAATTCGTGTTGCGAATTTG
1 AAATTCGTGTTGCGAATTTG
*
89868 AAATTC-AGTTGCGAATTTG
1 AAATTCGTGTTGCGAATTTG
*
89887 AAATCCCGTGTTGCGAATTTG
1 AAAT-TCGTGTTGCGAATTTG
** *
89908 ACTTTTGTGTTGCGAATTTG
1 AAATTCGTGTTGCGAATTTG
* *
89928 -ACTATCGCGTTGCGAATTTG
1 AAAT-TCGTGTTGCGAATTTG
** *
89948 ACTTTTGTGTTGCGA
1 AAATTCGTGTTGCGA
89963 TTTACATATT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
19 17 0.22
20 44 0.58
21 15 0.20
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.40
Consensus pattern (20 bp):
AAATTCGTGTTGCGAATTTG
Found at i:91108 original size:14 final size:15
Alignment explanation
Indices: 91012--91114 Score: 118
Period size: 15 Copynumber: 6.5 Consensus size: 15
91002 TAATAAGGTT
91012 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
91027 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
91042 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
91057 ATTTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
91076 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
91094 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
91108 ATTTATT
1 ATTTATT
91115 AGTATAGATT
Statistics
Matches: 77, Mismatches: 4, Indels: 15
0.80 0.04 0.16
Matches are distributed among these distances:
14 12 0.16
15 44 0.57
16 4 0.05
17 2 0.03
18 1 0.01
19 1 0.01
20 2 0.03
21 4 0.05
22 7 0.09
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:91132 original size:32 final size:31
Alignment explanation
Indices: 91094--91245 Score: 142
Period size: 32 Copynumber: 5.4 Consensus size: 31
91084 TTTTAAAATA
91094 ATTTATTTTAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
91126 ATTTATTTT-AA-AA--TA-T-G---GATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
91148 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
91180 ATTTATTTT--A-AA---A-TA-T-TGATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
*
91202 ATTCATTTTAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
91234 ATTTATTTTAAA
1 ATTTATTTTAAA
91246 ATATGGATTG
Statistics
Matches: 98, Mismatches: 2, Indels: 40
0.70 0.01 0.29
Matches are distributed among these distances:
22 27 0.28
23 3 0.03
24 4 0.04
25 4 0.04
26 4 0.04
27 2 0.02
28 4 0.04
29 4 0.04
30 4 0.04
31 3 0.03
32 39 0.40
ACGTcount: A:0.37, C:0.01, G:0.10, T:0.53
Consensus pattern (31 bp):
ATTTATTTTAAATAATTTATTAGTATGATTG
Found at i:91133 original size:22 final size:22
Alignment explanation
Indices: 91117--91159 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
91107 AATTTATTAG
91117 TATAGATTGATTTATTTTAAAA
1 TATAGATTGATTTATTTTAAAA
*
91139 TATGGATTGATTTATTTTAAA
1 TATAGATTGATTTATTTTAAA
91160 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATAGATTGATTTATTTTAAAA
Found at i:91148 original size:69 final size:67
Alignment explanation
Indices: 91012--91169 Score: 230
Period size: 69 Copynumber: 2.3 Consensus size: 67
91002 TAATAAGGTT
91012 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAATTTATTATAAAATATGGAT
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAATTTATTATAAAATATGGAT
91077 TG
66 TG
* * * * *
91079 ATTTATTTTAAAATAATTTATT-TTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATG
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATT--T-TAAAATAATTTATTATAAAATATG
91143 GATTG
63 GATTG
91148 ATTTATTTT-AAATAATTTATTA
1 ATTTATTTTAAAATAATTTATTA
91170 GTATGGATTG
Statistics
Matches: 82, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
66 13 0.16
67 22 0.27
68 13 0.16
69 34 0.41
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (67 bp):
ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAATTTATTATAAAATATGGAT
TG
Found at i:91160 original size:54 final size:54
Alignment explanation
Indices: 91094--92196 Score: 976
Period size: 54 Copynumber: 20.4 Consensus size: 54
91084 TTTTAAAATA
*
91094 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
91148 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATTGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
91202 ATTCATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* **
91256 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATAATTTATTAG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * * * *** *
91305 TATGGA-TTGATTTATTTTA-AAATATGAATTGATTTATTATTGTAGTTGTATGTATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
*
91362 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATCGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
91416 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
91470 ATTTATTTTAAATAATTTATTAGTGTGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
91524 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* ***
91578 ATTTATTTTAAATAATTTATTAGTATTGATTGATTTATTATTGTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
91636 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * **
91690 ATTTA--TT--AT--TGTAGTT-GTATGAATTGATTTATTTT-AAATAATTTATTAG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * * *** *
91739 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTATTGTAGTTGTATGAATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
* *
91796 ATTTATTTTAAATAATTTATTAGTATCGATTGATTTATTTTAAAATATCGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
91850 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
91898 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAATTTATTACTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTG
** **
91962 ATTTATTTTAAA-ATATGAATT-GT-TTTATT-ATTGTATTTGT---ATA--GATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGATTGATT-TATTT-TAAAATATGGATTG
*
92010 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * *** *
92060 A-TTAGTATGAATTGATTTATTTTAAAATAT-GATTGATTTATTATTGTAGTTGTATGAATTG
1 ATTTA-TTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
92121 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
92175 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
92197 TTGTAGTTAT
Statistics
Matches: 858, Mismatches: 112, Indels: 158
0.76 0.10 0.14
Matches are distributed among these distances:
47 8 0.01
48 112 0.13
49 15 0.02
50 39 0.05
51 9 0.01
52 10 0.01
53 14 0.02
54 412 0.48
55 22 0.03
56 21 0.02
57 32 0.04
58 99 0.12
59 5 0.01
61 21 0.02
62 9 0.01
63 4 0.00
64 26 0.03
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:91290 original size:134 final size:131
Alignment explanation
Indices: 91057--91532 Score: 550
Period size: 134 Copynumber: 3.6 Consensus size: 131
91047 TTTTAAAATA
* * * *
91057 ATTTATTATAAAATATGGATTGATTTATTTTAAAATAATTTATT--T-TA-AATAATTTA--TT-
1 ATTTATTTTAAAATATTGATTGATTTATTTT-AAATAATTTATTAGTATAGATTGATTTATTTTA
* *
91115 -AGTATAGATTGATTTA-TTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
65 AAATATGGATTGATTTATTTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
91178 TG
130 TG
*
91180 ATTTATTTTAAAATATTGATTGATTCATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAA
1 ATTTATTTTAAAATATTGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAA
***
91245 AATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGG
66 AATATGGATTGATTTATT-TT-TA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGG
91310 ATTG
128 ATTG
* * * *
91314 ATTTATTTTAAAATA-TGAATTGATTTATTATT--GTAGTTGTA-T-GTATTGATTTATTTTAAA
1 ATTTATTTTAAAATATTG-ATTGATTTATT-TTAAATAATT-TATTAGTATAGATTGA-TTT--A
* * *
91374 TAATTTATTAGTATGGATTGATTTA-TTTTAAAATATCGATTGATTTATTTTAAATAATTTATTA
60 T--TTTA-AAATATGGATTGATTTATTTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
91438 GTATGGATTG
122 GTATGGATTG
* * *
91448 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTGTGGATTGATTTATTTTAA
1 ATTTATTTTAAAATATTGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAA
91513 AATATGGATTGATTTATTTT
66 AATATGGATTGATTTATTTT
91533 AAATAATTTA
Statistics
Matches: 297, Mismatches: 29, Indels: 46
0.80 0.08 0.12
Matches are distributed among these distances:
122 12 0.04
123 28 0.09
124 1 0.00
125 2 0.01
126 7 0.02
128 2 0.01
130 29 0.10
131 8 0.03
132 11 0.04
133 16 0.05
134 136 0.46
135 15 0.05
136 10 0.03
137 5 0.02
138 15 0.05
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (131 bp):
ATTTATTTTAAAATATTGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAA
AATATGGATTGATTTATTTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATT
G
Found at i:91294 original size:80 final size:79
Alignment explanation
Indices: 91197--91584 Score: 437
Period size: 80 Copynumber: 4.8 Consensus size: 79
91187 TTAAAATATT
*
91197 GATTGATTCATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTAT
91262 TATTGTAGTTGTATG
66 TATTGTA-TTGTATG
* *
91277 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTAT
91342 TATTGTAGTTGTATG
66 TATTGTA-TTGTATG
* * *
91357 TATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATCGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTA-
*
91422 TTTAAATAATTTATTAGTATG
65 -TT--AT--TGTATT-GTATG
** * * * ** * * * *
91443 GATTGATTTATTTTAAA-ATATGGATT-GATTTA-TTTTAAATAATTTATTAGTGTGGATTGATT
1 GATTGATTTATTTTAAATA-ATTTATTAG-TATAGATTGATTTATTTTA-AAATATGGATTGATT
***
91505 TA-T-TT-TAAAATATG
63 TATTATTGTATTGTATG
91519 GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTAT
91584 T
66 T
91585 TTAAATAATT
Statistics
Matches: 259, Mismatches: 35, Indels: 31
0.80 0.11 0.10
Matches are distributed among these distances:
76 43 0.17
77 14 0.05
78 1 0.00
80 139 0.54
82 2 0.01
83 1 0.00
84 2 0.01
85 13 0.05
86 44 0.17
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.52
Consensus pattern (79 bp):
GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTAT
TATTGTATTGTATG
Found at i:91394 original size:32 final size:32
Alignment explanation
Indices: 91352--91973 Score: 265
Period size: 32 Copynumber: 20.7 Consensus size: 32
91342 TATTGTAGTT
*
91352 GTATGTATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
91384 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
91407 -TATCGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
91438 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
91461 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
91492 GTGTGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
91515 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
91546 GTATAGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
91569 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
91600 GTATTGATTGATTTA--TT--AT--TGTAGTT-
1 GTATGGATTGATTTATTTTAAATAATTTA-TTA
91626 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
**
91658 GTATGGATTGATTTATTTTAAA-ATATGGATT-
1 GTATGGATTGATTTATTTTAAATA-ATTTATTA
** * *
91689 G-ATTTATT-ATTGTAGTTGTATGAATTGATTTATT-
1 GTATGGATTGATT-TA-TT-T-T-AAATAATTTATTA
* * * * * *
91723 -T-T-AAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATT--T-T-AAATAATTTA--TT--A
* *
91760 ATATGGATTGATTTA--TT--AT--TGTAGTT-
1 GTATGGATTGATTTATTTTAAATAATTTA-TTA
*
91786 GTATGAATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
91818 GTATCGATTGATTTATTTTAAAATATCGATTGATTTA
1 GTATGGATTGATTTATTTT-AAATA---ATTTA-TTA
* * ** * ** * *
91855 TTATTGTAGTTGTATGGA-TTGATTTATTTTA-AA
1 GTA-TGGA-TTG-ATTTATTTTAAATAATTTATTA
*
91888 ATATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
91920 GTATGAATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
91952 CTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
91974 ATATGAATTG
Statistics
Matches: 449, Mismatches: 58, Indels: 166
0.67 0.09 0.25
Matches are distributed among these distances:
22 53 0.12
23 16 0.04
25 4 0.01
26 42 0.09
27 2 0.00
28 18 0.04
29 9 0.02
30 19 0.04
31 38 0.08
32 190 0.42
33 13 0.03
34 9 0.02
35 4 0.01
36 5 0.01
37 5 0.01
38 6 0.01
39 6 0.01
40 10 0.02
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:91464 original size:22 final size:22
Alignment explanation
Indices: 91439--91481 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
91429 AATTTATTAG
91439 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
91461 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
91482 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:91673 original size:18 final size:18
Alignment explanation
Indices: 91650--91697 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
91640 ATTTTAAATA
*
91650 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
91668 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
91690 ATTTATTA
1 ATTTATTA
91698 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:91689 original size:80 final size:80
Alignment explanation
Indices: 91461--92181 Score: 711
Period size: 80 Copynumber: 8.9 Consensus size: 80
91451 TATTTTAAAA
*
91461 TATGGATTGATTTATTTTAAATAATTTATTAGTGTGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
91526 TTATTTTAAATAATTTA-TTAG
66 TTA--TT--AT--TGTAGTT-G
* ** ** * ** * * * *
91547 TATAGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATTGATT
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATT
91609 GATTTATTATTGTAGTTG
63 GATTTATTATTGTAGTTG
91627 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
91692 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
91707 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
91772 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
* * *
91787 TATGAATTGATTTATTTTAAATAATTTATTAGTATCGATTGATTTATTTTAAAATATCGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
91852 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
** ** * ** * * * *
91867 TATGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGAATT
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATT
* *
91929 GATTTATTTTAAATAATTTA-TTAC
63 GATTTA--TT--AT--TGTAGTT-G
** ** *
91953 TATGGATTGATTTATTTTAAA-ATATGAATT-GT-TTTATT-ATTGTATTTGTATAGAT-T-GAT
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGATTGATT-TATTT-TA-AAATATGGAT
* *
92012 TTATTTTAAATAATT-TA-TTAG
62 TGA-TTT--ATTATTGTAGTT-G
*
92033 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATAT-GATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
92097 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
92112 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
92177 TTATT
66 TTATT
92182 TTAAATAATT
Statistics
Matches: 540, Mismatches: 64, Indels: 68
0.80 0.10 0.10
Matches are distributed among these distances:
78 8 0.01
79 69 0.13
80 301 0.56
81 25 0.05
82 16 0.03
83 5 0.01
84 11 0.02
85 24 0.04
86 80 0.15
87 1 0.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTG
Found at i:91751 original size:18 final size:18
Alignment explanation
Indices: 91730--91777 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
91720 ATTTTAAATA
*
91730 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
91748 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
91770 ATTTATTA
1 ATTTATTA
91778 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:91831 original size:18 final size:18
Alignment explanation
Indices: 91810--91857 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
91800 ATTTTAAATA
*
91810 ATTTATTAGTATCGATTG
1 ATTTATTAATATCGATTG
91828 ATTTATTTTAAAATATCGATTG
1 ATTTA--TT--AATATCGATTG
91850 ATTTATTA
1 ATTTATTA
91858 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATCGATTG
Found at i:91844 original size:22 final size:22
Alignment explanation
Indices: 91819--91909 Score: 101
Period size: 22 Copynumber: 4.0 Consensus size: 22
91809 AATTTATTAG
91819 TATCGATTGATTTATTTTAAAA
1 TATCGATTGATTTATTTTAAAA
***
91841 TATCGATTGATTTATTATTGTAGTTG
1 TATCGATTGATTTA-T-TT-TA-AAA
*
91867 TATGGATTGATTTATTTTAAAA
1 TATCGATTGATTTATTTTAAAA
*
91889 TATGGATTGATTTATTTTAAA
1 TATCGATTGATTTATTTTAAA
91910 TAATTTATTA
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
22 35 0.60
23 3 0.05
24 4 0.07
25 3 0.05
26 13 0.22
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.52
Consensus pattern (22 bp):
TATCGATTGATTTATTTTAAAA
Found at i:91917 original size:14 final size:14
Alignment explanation
Indices: 91898--91950 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
91888 ATATGGATTG
91898 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
91912 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
91930 ATTTATTTTAAATA
1 ATTTATTTTAAATA
91944 ATTTATT
1 ATTTATT
91951 ACTATGGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 17 0.55
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.32
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:92041 original size:32 final size:32
Alignment explanation
Indices: 91995--92085 Score: 155
Period size: 32 Copynumber: 2.8 Consensus size: 32
91985 TTTATTATTG
* *
91995 TATTTGTATAGATTGATTTATTTTAAATAATT
1 TATTAGTATGGATTGATTTATTTTAAATAATT
92027 TATTAGTATGGATTGATTTATTTTAAATAATT
1 TATTAGTATGGATTGATTTATTTTAAATAATT
*
92059 TATTAGTATGAATTGATTTATTTTAAA
1 TATTAGTATGGATTGATTTATTTTAAA
92086 ATATGATTGA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (32 bp):
TATTAGTATGGATTGATTTATTTTAAATAATT
Found at i:92079 original size:18 final size:18
Alignment explanation
Indices: 92024--92080 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
92014 ATTTTAAATA
*
92024 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGAATTG
* *
92042 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGAATTG
92056 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
92074 ATTTATT
1 ATTTATT
92081 TTAAAATATG
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 9 0.30
15 1 0.03
16 2 0.07
17 1 0.03
18 17 0.57
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATGAATTG
Found at i:92167 original size:112 final size:112
Alignment explanation
Indices: 91889--92164 Score: 475
Period size: 112 Copynumber: 2.5 Consensus size: 112
91879 TATTTTAAAA
* *
91889 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAATTTATTACT
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTACT
* * *
91954 ATGGATTGATTTATTTTAAAATATGAATTGTTTTATTATTGTATTTG
66 ATGAATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTG
*
92001 TAT-AGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGA-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAC
92065 TATGAATTGATTTATTTTAAAATATG-ATTGATTTATTATTGTAGTTG
65 TATGAATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTG
92112 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
92165 ATATGGATTG
Statistics
Matches: 156, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
111 70 0.45
112 86 0.55
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (112 bp):
TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTACT
ATGAATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTG
Found at i:92169 original size:22 final size:22
Alignment explanation
Indices: 92144--92186 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
92134 AATTTATTAG
92144 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
92166 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
92187 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:92245 original size:30 final size:31
Alignment explanation
Indices: 92211--92268 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
92201 AGTTATATTG
* * *
92211 ATTATTT-AATTTTAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
92241 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
92269 CTTTTAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:94152 original size:31 final size:31
Alignment explanation
Indices: 94112--94180 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
94102 TTCATAAAAC
*
94112 TTAATATTTGATCACTTTCGTTTTTATTTAA
1 TTAAGATTTGATCACTTTCGTTTTTATTTAA
94143 TTAAGATTTGATCACTTTCGTTTTTATTTAA
1 TTAAGATTTGATCACTTTCGTTTTTATTTAA
94174 TTAAGAT
1 TTAAGAT
94181 GTAGTCACTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.55
Consensus pattern (31 bp):
TTAAGATTTGATCACTTTCGTTTTTATTTAA
Found at i:94189 original size:31 final size:31
Alignment explanation
Indices: 94112--94189 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
94102 TTCATAAAAC
* *
94112 TTAATATTTGATCACTTTCGTTTTTATTTAA
1 TTAAGATTAGATCACTTTCGTTTTTATTTAA
*
94143 TTAAGATTTGATCACTTTCGTTTTTATTTAA
1 TTAAGATTAGATCACTTTCGTTTTTATTTAA
94174 TTAAGATGTAG-TCACT
1 TTAAGAT-TAGATCACT
94190 GAGACTTGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
31 42 0.95
32 2 0.05
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (31 bp):
TTAAGATTAGATCACTTTCGTTTTTATTTAA
Found at i:95852 original size:21 final size:21
Alignment explanation
Indices: 95801--95852 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
95791 TTCTGTTAAT
* *
95801 AGTTTGTTACAAGTAGTTTTA
1 AGTTAGTTAGAAGTAGTTTTA
95822 AGTTAGTTAGAAGTAGTTTTA
1 AGTTAGTTAGAAGTAGTTTTA
95843 AGTTAGTTAG
1 AGTTAGTTAG
95853 GCAGTTAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.02, G:0.23, T:0.44
Consensus pattern (21 bp):
AGTTAGTTAGAAGTAGTTTTA
Found at i:106647 original size:64 final size:63
Alignment explanation
Indices: 106524--106660 Score: 143
Period size: 64 Copynumber: 2.2 Consensus size: 63
106514 CCTTTAACAT
* * * *
106524 GTGCATCGATGCACTACCCATGCATCGATACACCAATCACCTTCGATGTTTTCATTTTAAGGGG
1 GTGCATCGATGCACTACCCATGCATCAATACACCAATCACATTCGATGTTTTCATTTTAA-AGA
* * * ** *
106588 GTGCATCGATGCACT-CCTTATGCATCAATGCACTAATTGCATTCGATG-TTTCTTCTTTAAAGA
1 GTGCATCGATGCACTACC-CATGCATCAATACACCAATCACATTCGATGTTTTCAT-TTTAAAGA
106651 GTGCATCGAT
1 GTGCATCGAT
106661 ACACATTGAA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
63 18 0.30
64 43 0.70
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCAATACACCAATCACATTCGATGTTTTCATTTTAAAGA
Found at i:115099 original size:24 final size:24
Alignment explanation
Indices: 115067--115118 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
115057 GCTAGGAAGG
115067 AATTTAGGACTATATTTATATATA
1 AATTTAGGACTATATTTATATATA
115091 AATTTAGGACTATATTTATATATA
1 AATTTAGGACTATATTTATATATA
115115 AATT
1 AATT
115119 CATGAAGACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (24 bp):
AATTTAGGACTATATTTATATATA
Found at i:116021 original size:35 final size:36
Alignment explanation
Indices: 115940--116024 Score: 102
Period size: 35 Copynumber: 2.4 Consensus size: 36
115930 CTTTTAAAAC
* *
115940 TTACAAAACAATCCTCAATTTCATTCTAAACCCCAAA
1 TTACAAAATAAT-CTCAATTGCATTCTAAACCCCAAA
* *
115977 TT-CTTAAATAAT-TCAATTGCATTCTAAACCCTAAA
1 TTAC-AAAATAATCTCAATTGCATTCTAAACCCCAAA
116012 TTACAAAATAATC
1 TTACAAAATAATC
116025 AAAATAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
35 30 0.75
36 2 0.05
37 8 0.20
ACGTcount: A:0.44, C:0.24, G:0.01, T:0.32
Consensus pattern (36 bp):
TTACAAAATAATCTCAATTGCATTCTAAACCCCAAA
Found at i:127596 original size:17 final size:15
Alignment explanation
Indices: 127574--127613 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
127564 GATGCAAATG
127574 TTAAATATTATTAAAA
1 TTAAATATTA-TAAAA
*
127590 CTTAAATATTATAATA
1 -TTAAATATTATAAAA
127606 TTAAATAT
1 TTAAATAT
127614 GCATGTCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 4 0.18
17 10 0.45
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAATATTATAAAA
Found at i:127684 original size:16 final size:16
Alignment explanation
Indices: 127663--127704 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
127653 ATTTATAAAG
127663 ATAAATTCGACTAGTT
1 ATAAATTCGACTAGTT
* *
127679 ATAAATTCAACTATTT
1 ATAAATTCGACTAGTT
127695 ATAAATTCGA
1 ATAAATTCGA
127705 TTTAAATTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (16 bp):
ATAAATTCGACTAGTT
Found at i:127745 original size:11 final size:11
Alignment explanation
Indices: 127731--127919 Score: 85
Period size: 11 Copynumber: 15.5 Consensus size: 11
127721 TCTTTTTAAA
*
127731 TATTTAATCAT
1 TATTAAATCAT
*
127742 TATTAAATAAT
1 TATTAAATCAT
127753 TATTAGTAATCAT
1 TATTA--AATCAT
127766 TATTAAATCAT
1 TATTAAATCAT
127777 TAGTATCAAATCAT
1 TA-T-T-AAATCAT
127791 TATTATAATTTCAT
1 TATTA-AA--TCAT
*
127805 TATTACCAATAAT
1 TATTA--AATCAT
* *
127818 TACTAAATAAT
1 TATTAAATCAT
127829 TAATATCAAATCAT
1 T-AT-T-AAATCAT
* *
127843 TA--AATATTAA
1 TATTAA-ATCAT
*
127853 TAATAAATCAT
1 TATTAAATCAT
127864 TATTAGTAATCAT
1 TATTA--AATCAT
*
127877 TACTAAAATCAT
1 TA-TTAAATCAT
127889 TAAATATAAAATCAT
1 T--AT-T-AAATCAT
*
127904 TATTAAAACAT
1 TATTAAATCAT
127915 TATTA
1 TATTA
127920 TTAAATCATA
Statistics
Matches: 140, Mismatches: 16, Indels: 44
0.70 0.08 0.22
Matches are distributed among these distances:
9 2 0.01
10 5 0.04
11 48 0.34
12 15 0.11
13 32 0.23
14 28 0.20
15 10 0.07
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.42
Consensus pattern (11 bp):
TATTAAATCAT
Found at i:127762 original size:24 final size:23
Alignment explanation
Indices: 127735--127795 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 23
127725 TTTAAATATT
*
127735 TAATCATTATTAAATAATTATTA
1 TAATCATTATTAAATAATTAGTA
*
127758 GTAATCATTATTAAATCATTAGTA
1 -TAATCATTATTAAATAATTAGTA
127782 TCAAATCATTATTA
1 T--AATCATTATTA
127796 TAATTTCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 1 0.03
24 21 0.64
25 11 0.33
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (23 bp):
TAATCATTATTAAATAATTAGTA
Found at i:127808 original size:52 final size:49
Alignment explanation
Indices: 127736--127844 Score: 128
Period size: 52 Copynumber: 2.2 Consensus size: 49
127726 TTAAATATTT
** * * * *
127736 AATCATTATTAAATAATTATTAGTAATCATTATTAAATCATTAGTATCA
1 AATCATTATTAAATAATTATTACCAATAATTACTAAATAATTAATATCA
*
127785 AATCATTATTATAATTTCATTATTACCAATAATTACTAAATAATTAATATCA
1 AATCATTATTA-AA--TAATTATTACCAATAATTACTAAATAATTAATATCA
127837 AATCATTA
1 AATCATTA
127845 AATATTAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
49 11 0.22
50 2 0.04
52 37 0.74
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (49 bp):
AATCATTATTAAATAATTATTACCAATAATTACTAAATAATTAATATCA
Found at i:127853 original size:21 final size:22
Alignment explanation
Indices: 127821--127865 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
127811 CAATAATTAC
127821 TAAATAATTAAT-ATCAAATCAT
1 TAAATAATTAATAAT-AAATCAT
127843 TAAAT-ATTAATAATAAATCAT
1 TAAATAATTAATAATAAATCAT
127864 TA
1 TA
127866 TTAGTAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATAATTAATAATAAATCAT
Found at i:127926 original size:40 final size:40
Alignment explanation
Indices: 127841--127928 Score: 96
Period size: 40 Copynumber: 2.2 Consensus size: 40
127831 ATATCAAATC
*
127841 ATTAAAT-ATTAATAATAAATCATTATTAGTAATCATTACT
1 ATTAAATCATTAATAATAAATCATTATTAG-AAACATTACT
*
127881 A--AAATCATTAA-ATATAAAATCATTATTA-AAACATTATT
1 ATTAAATCATTAATA-AT-AAATCATTATTAGAAACATTACT
127919 ATTAAATCAT
1 ATTAAATCAT
127929 AAGATTATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
38 14 0.34
39 7 0.17
40 20 0.49
ACGTcount: A:0.51, C:0.08, G:0.01, T:0.40
Consensus pattern (40 bp):
ATTAAATCATTAATAATAAATCATTATTAGAAACATTACT
Found at i:127944 original size:27 final size:27
Alignment explanation
Indices: 127914--127967 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
127904 TATTAAAACA
127914 TTATTAT-TAAATCATAAGATTAT-TATT
1 TTATTATGTAAA-CATAAG-TTATGTATT
*
127941 TTATTTTGTAAACATAAGTTATGTATT
1 TTATTATGTAAACATAAGTTATGTATT
127968 AAATTAGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 4 0.17
27 16 0.67
28 4 0.17
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (27 bp):
TTATTATGTAAACATAAGTTATGTATT
Found at i:128087 original size:22 final size:23
Alignment explanation
Indices: 128044--128087 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
128034 ATGTAAAAAA
* *
128044 ATAAATTCGGCATATTTATAAAG
1 ATAAATTCGACATAGTTATAAAG
128067 ATAAATTCGAC-TAGTTATAAA
1 ATAAATTCGACATAGTTATAAA
128088 TTCAACTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (23 bp):
ATAAATTCGACATAGTTATAAAG
Found at i:128088 original size:16 final size:16
Alignment explanation
Indices: 128067--128108 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
128057 ATTTATAAAG
128067 ATAAATTCGACTAGTT
1 ATAAATTCGACTAGTT
* *
128083 ATAAATTCAACTATTT
1 ATAAATTCGACTAGTT
128099 ATAAATTCGA
1 ATAAATTCGA
128109 TTTAAATTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (16 bp):
ATAAATTCGACTAGTT
Found at i:128149 original size:11 final size:11
Alignment explanation
Indices: 128135--128340 Score: 92
Period size: 11 Copynumber: 16.7 Consensus size: 11
128125 TCTATTTAAA
*
128135 TATTTAATCAT
1 TATTAAATCAT
*
128146 TATTAAATAAT
1 TATTAAATCAT
128157 TATTAGTAATCAT
1 TATTA--AATCAT
128170 TATTAAATCAT
1 TATTAAATCAT
128181 TAGTATCAAATCAT
1 TA-T-T-AAATCAT
128195 TATTATAATTTCAT
1 TATTA-AA--TCAT
*
128209 TATTACTAATCAA
1 TATTA--AATCAT
*
128222 TACTAAATCAT
1 TATTAAATCAT
128233 TAGTATCAAATCAT
1 TA-T-T-AAATCAT
128247 TATTATAATTTCAT
1 TATTA-AA--TCAT
*
128261 TATTACTAATAAT
1 TATTA--AATCAT
*
128274 TACTAAATCAT
1 TATTAAATCAT
128285 TAATATCAAATCAT
1 T-AT-T-AAATCAT
* *
128299 TA--AATATTAA
1 TATTAA-ATCAT
*
128309 TAATAAATCAT
1 TATTAAATCAT
128320 TATTAGTAATCAT
1 TATTA--AATCAT
*
128333 TACTAAAT
1 TATTAAAT
128341 AATATCAATT
Statistics
Matches: 154, Mismatches: 17, Indels: 48
0.70 0.08 0.22
Matches are distributed among these distances:
9 2 0.01
10 5 0.03
11 47 0.31
12 10 0.06
13 40 0.26
14 44 0.29
15 6 0.04
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (11 bp):
TATTAAATCAT
Found at i:128166 original size:24 final size:23
Alignment explanation
Indices: 128139--128251 Score: 82
Period size: 24 Copynumber: 4.5 Consensus size: 23
128129 TTTAAATATT
*
128139 TAATCATTATTAAATAATTATTA
1 TAATCATTATTAAATAATTAGTA
*
128162 GTAATCATTATTAAATCATTAGTA
1 -TAATCATTATTAAATAATTAGTA
* *
128186 TCAAATCATTATTATAATTTCATTATTA
1 T--AATCATTATTA-AA--TAATTAGTA
* * *
128214 CTAATCAATACTAAATCATTAGTA
1 -TAATCATTATTAAATAATTAGTA
128238 TCAAATCATTATTA
1 T--AATCATTATTA
128252 TAATTTCATT
Statistics
Matches: 73, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
23 2 0.03
24 29 0.40
25 20 0.27
26 4 0.05
27 9 0.12
28 8 0.11
29 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (23 bp):
TAATCATTATTAAATAATTAGTA
Found at i:128193 original size:14 final size:14
Alignment explanation
Indices: 128174--128248 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 14
128164 AATCATTATT
128174 AAATCATTAGTATC
1 AAATCATTAGTATC
*
128188 AAATCATTATTAT-
1 AAATCATTAGTATC
* *
128201 AATTTCATTATTA-C
1 AA-ATCATTAGTATC
*
128215 TAATCA--A-TA-C
1 AAATCATTAGTATC
128225 TAAATCATTAGTATC
1 -AAATCATTAGTATC
128240 AAATCATTA
1 AAATCATTA
128249 TTATAATTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
10 3 0.06
11 6 0.12
13 6 0.12
14 33 0.67
15 1 0.02
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.40
Consensus pattern (14 bp):
AAATCATTAGTATC
Found at i:128212 original size:52 final size:52
Alignment explanation
Indices: 128181--128300 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
128171 ATTAAATCAT
*
128181 TAGTATCAAATCATTATTATAATTTCATTATTACTAATCAATACTAAATCAT
1 TAGTATCAAATCATTATTATAATTTCATTATTACTAATCATTACTAAATCAT
*
128233 TAGTATCAAATCATTATTATAATTTCATTATTACTAATAATTACTAAATCAT
1 TAGTATCAAATCATTATTATAATTTCATTATTACTAATCATTACTAAATCAT
*
128285 TAATATCAAATCATTA
1 TAGTATCAAATCATTA
128301 AATATTAATA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.42
Consensus pattern (52 bp):
TAGTATCAAATCATTATTATAATTTCATTATTACTAATCATTACTAAATCAT
Found at i:128309 original size:21 final size:22
Alignment explanation
Indices: 128277--128321 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
128267 TAATAATTAC
128277 TAAATCATTAAT-ATCAAATCAT
1 TAAATCATTAATAAT-AAATCAT
128299 TAAAT-ATTAATAATAAATCAT
1 TAAATCATTAATAATAAATCAT
128320 TA
1 TA
128322 TTAGTAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATCATTAATAATAAATCAT
Found at i:128369 original size:16 final size:16
Alignment explanation
Indices: 128328--128373 Score: 83
Period size: 17 Copynumber: 2.8 Consensus size: 16
128318 ATTATTAGTA
128328 ATCATTACTAAATAAT
1 ATCATTACTAAATAAT
128344 ATCAATTACTAAATAAT
1 ATC-ATTACTAAATAAT
128361 ATCATTACTAAAT
1 ATCATTACTAAAT
128374 CATTAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.45
17 16 0.55
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (16 bp):
ATCATTACTAAATAAT
Found at i:128517 original size:42 final size:41
Alignment explanation
Indices: 128383--128517 Score: 96
Period size: 42 Copynumber: 3.1 Consensus size: 41
128373 TCATTAAAAA
* * *
128383 TAAAATCATTATTATCAAATCATTAAATATTAATAATAAATCATTAT
1 TAAAATCACTATTATCAAATCA-T--ATACTAAT-AT--ATTATTAT
* * *
128430 T-AAATCACTATTATCAAATCATAATACTAGTATTTTA-AAT
1 TAAAATCACTATTATCAAATCAT-ATACTAATATATTATTAT
*
128470 ATAAAATCATTATTATCAAATCAT-TACTAAATCATATTATTAT
1 -TAAAATCACTATTATCAAATCATATACT-AAT-ATATTATTAT
128513 TAAAA
1 TAAAA
128518 AATAATTCTT
Statistics
Matches: 73, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
40 6 0.08
41 5 0.07
42 30 0.41
43 4 0.05
44 7 0.10
45 1 0.01
46 19 0.26
47 1 0.01
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.40
Consensus pattern (41 bp):
TAAAATCACTATTATCAAATCATATACTAATATATTATTAT
Found at i:132404 original size:44 final size:50
Alignment explanation
Indices: 132346--132462 Score: 138
Period size: 50 Copynumber: 2.4 Consensus size: 50
132336 GTTTAAACAC
*
132346 ACTAACAAATTAATTAAATAA-TTTTT-T-T-ACAT-ATA-ATAACTTAA
1 ACTAACAAACTAATTAAATAATTTTTTATATAACATAATATATAACTTAA
* * *
132390 ACTAAGAAACTAATTAACTAATTTTTTATATAATATAATATATAACTTAA
1 ACTAACAAACTAATTAAATAATTTTTTATATAACATAATATATAACTTAA
132440 ACTAACAAACTAATATAATATAA
1 ACTAACAAACTAAT-TAA-ATAA
132463 CTTAAACTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
44 18 0.31
45 5 0.08
46 1 0.02
47 1 0.02
48 3 0.05
49 3 0.05
50 22 0.37
51 3 0.05
52 3 0.05
ACGTcount: A:0.52, C:0.09, G:0.01, T:0.38
Consensus pattern (50 bp):
ACTAACAAACTAATTAAATAATTTTTTATATAACATAATATATAACTTAA
Found at i:132460 original size:28 final size:30
Alignment explanation
Indices: 132420--132482 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 30
132410 ATTTTTTATA
132420 TAATATAATATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
132450 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
132478 TAATA
1 TAATA
132483 ATTTATACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 26 0.79
29 1 0.03
30 6 0.18
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:132489 original size:28 final size:28
Alignment explanation
Indices: 132424--132489 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
132414 TTTATATAAT
132424 ATAATATATAACTTAAACTAACAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
132452 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
132480 ATAATTTATA
1 ATAATATATA
132490 CTAACAAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
27 2 0.06
28 31 0.89
29 2 0.06
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:132492 original size:21 final size:21
Alignment explanation
Indices: 132459--132507 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
132449 CTAATATAAT
132459 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
132480 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
132501 ATTAACT
1 A-TAACT
132508 AAATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:132745 original size:25 final size:24
Alignment explanation
Indices: 132709--132780 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 24
132699 TATAACTCAC
* *
132709 TTTGAGCATTGAAGGCTACAATAAA
1 TTTGAGCGTTGAAGGCTGCAAT-AA
132734 TTTGAGCGTTGAAGGCTGCAAT--
1 TTTGAGCGTTGAAGGCTGCAATAA
132756 TTTGAGCGTTGAAGGCTGCAATAA
1 TTTGAGCGTTGAAGGCTGCAATAA
132780 T
1 T
132781 GCAACAATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
22 22 0.51
24 1 0.02
25 20 0.47
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (24 bp):
TTTGAGCGTTGAAGGCTGCAATAA
Found at i:138770 original size:27 final size:27
Alignment explanation
Indices: 138732--138787 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
138722 AAGAAGAAAG
138732 CAATAAACCTAACCTTCTTCTGTTGCA
1 CAATAAACCTAACCTTCTTCTGTTGCA
138759 CAATAAACCTAACCTTCTTCTGTTGCA
1 CAATAAACCTAACCTTCTTCTGTTGCA
138786 CA
1 CA
138788 TACTCTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.32
Consensus pattern (27 bp):
CAATAAACCTAACCTTCTTCTGTTGCA
Done.