Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 175 of 216
Found at i:54779165 original size:26 final size:26
Alignment explanation
Indices: 54779129--54779181 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
54779119 TGTGCCTATC
54779129 AACGAGAATTTCCCAAATGAACACTT
1 AACGAGAATTTCCCAAATGAACACTT
54779155 AACGAGAATTTCCCAAATGAACACTT
1 AACGAGAATTTCCCAAATGAACACTT
54779181 A
1 A
54779182 CTTGAGGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.23, G:0.11, T:0.23
Consensus pattern (26 bp):
AACGAGAATTTCCCAAATGAACACTT
Found at i:54782781 original size:24 final size:23
Alignment explanation
Indices: 54782747--54782793 Score: 60
Period size: 26 Copynumber: 2.0 Consensus size: 23
54782737 TCAAACTTTT
54782747 AATTTTTTTTC-AAGTATGCTTC
1 AATTTTTTTTCAAAGTATGCTTC
54782769 AATTATTTCTTTCATAAGTATGCTT
1 AATT-TTT-TTTCA-AAGTATGCTT
54782794 TAATAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 4 0.19
23 3 0.14
24 4 0.19
26 10 0.48
ACGTcount: A:0.26, C:0.13, G:0.09, T:0.53
Consensus pattern (23 bp):
AATTTTTTTTCAAAGTATGCTTC
Found at i:54785748 original size:31 final size:32
Alignment explanation
Indices: 54785712--54785776 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
54785702 CTTAGATAAT
54785712 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
54785743 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
54785775 TT
1 TT
54785777 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:54786291 original size:10 final size:10
Alignment explanation
Indices: 54786270--54786392 Score: 60
Period size: 10 Copynumber: 12.4 Consensus size: 10
54786260 TTCTTTAAAT
54786270 AAAAGCAAAAA
1 AAAAGC-AAAA
54786281 AAATAGC-AAA
1 AAA-AGCAAAA
*
54786291 AACAGCAAAA
1 AAAAGCAAAA
54786301 AAAAGCAAAA
1 AAAAGCAAAA
*
54786311 AAAGCGCAAAA
1 AAA-AGCAAAA
* *
54786322 AAGAG-TAAA
1 AAAAGCAAAA
**
54786331 AAGCGCAAAA
1 AAAAGCAAAA
*
54786341 AAAGAG-TAAA
1 AAA-AGCAAAA
**
54786351 AAGCGCAAAAA
1 AAAAGC-AAAA
54786362 AAAAGC---A
1 AAAAGCAAAA
54786369 AAAAGCAAAA
1 AAAAGCAAAA
**
54786379 AATCGCAAAA
1 AAAAGCAAAA
54786389 AAAA
1 AAAA
54786393 AAAGTTTCCT
Statistics
Matches: 82, Mismatches: 20, Indels: 21
0.67 0.16 0.17
Matches are distributed among these distances:
7 7 0.09
9 11 0.13
10 42 0.51
11 19 0.23
12 3 0.04
ACGTcount: A:0.71, C:0.12, G:0.14, T:0.03
Consensus pattern (10 bp):
AAAAGCAAAA
Found at i:54786302 original size:20 final size:20
Alignment explanation
Indices: 54786277--54786380 Score: 92
Period size: 20 Copynumber: 5.3 Consensus size: 20
54786267 AATAAAAGCA
*
54786277 AAAAAAATAGCAAAAACAGC
1 AAAAAAAGAGCAAAAACAGC
*
54786297 AAAAAAA-AGCAAAAAAAGC
1 AAAAAAAGAGCAAAAACAGC
* *
54786316 GCAAAAAAGAGTAAAAAGC-GC
1 -AAAAAAAGAGCAAAAA-CAGC
*
54786337 AAAAAAAGAGTAAAAAGC-GC
1 AAAAAAAGAGCAAAAA-CAGC
*
54786357 AAAAAAAAAGC-AAAA-AGC
1 AAAAAAAGAGCAAAAACAGC
54786375 AAAAAA
1 AAAAAA
54786381 TCGCAAAAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
18 8 0.11
19 15 0.21
20 41 0.56
21 9 0.12
ACGTcount: A:0.71, C:0.12, G:0.14, T:0.03
Consensus pattern (20 bp):
AAAAAAAGAGCAAAAACAGC
Found at i:54786392 original size:20 final size:20
Alignment explanation
Indices: 54786277--54786372 Score: 92
Period size: 21 Copynumber: 4.8 Consensus size: 20
54786267 AATAAAAGCA
54786277 AAAAAAATAGC-AAAAA-CAGC
1 AAAAAAA-AGCAAAAAAGC-GC
54786297 AAAAAAAAGCAAAAAAAGCGC
1 AAAAAAAAGC-AAAAAAGCGC
* *
54786318 AAAAAAGAG-TAAAAAGCGC
1 AAAAAAAAGCAAAAAAGCGC
*
54786337 AAAAAAAGAG-TAAAAAGCGC
1 AAAAAAA-AGCAAAAAAGCGC
54786357 AAAAAAAAAGCAAAAA
1 -AAAAAAAAGCAAAAA
54786373 GCAAAAAATC
Statistics
Matches: 66, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
19 18 0.27
20 21 0.32
21 26 0.39
22 1 0.02
ACGTcount: A:0.71, C:0.11, G:0.15, T:0.03
Consensus pattern (20 bp):
AAAAAAAAGCAAAAAAGCGC
Found at i:54789573 original size:31 final size:32
Alignment explanation
Indices: 54789537--54789601 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
54789527 CTTAGATAAT
54789537 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
54789568 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
54789600 TT
1 TT
54789602 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:54790956 original size:42 final size:42
Alignment explanation
Indices: 54790910--54791002 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
54790900 GGTTGAATAA
** *
54790910 AAGCTCATAAGAGCTGAACGGAAACCCATAAGAGTTAAACTG
1 AAGCTCATAAGAGCTGAACAAAAACCCATAAGAGTTAAACGG
* * * * *
54790952 AAGCTCAAAAGCGCTGAACAAAAACCTATTAGGGTTAAACGG
1 AAGCTCATAAGAGCTGAACAAAAACCCATAAGAGTTAAACGG
*
54790994 AAACTCATA
1 AAGCTCATA
54791003 TGAGTTAACA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.17
Consensus pattern (42 bp):
AAGCTCATAAGAGCTGAACAAAAACCCATAAGAGTTAAACGG
Found at i:54799874 original size:15 final size:15
Alignment explanation
Indices: 54799849--54799883 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
54799839 GACTCTATTT
*
54799849 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
54799863 TAATTAATATTAAGA
1 TAATTAATATTAAGA
54799878 TAATTA
1 TAATTA
54799884 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:54806558 original size:22 final size:21
Alignment explanation
Indices: 54806509--54806568 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
54806499 GCCCAGAATG
* *
54806509 CCTGCAGCCAAACTACCCTATT
1 CCTGCAGCC-AACCACCCTATC
*
54806531 CTTGCAGCCAACCACCCTTATC
1 CCTGCAGCCAACCACCC-TATC
* *
54806553 CCTGCACCCAAGCACC
1 CCTGCAGCCAACCACC
54806569 ACCCCTCAGC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 7 0.23
22 24 0.77
ACGTcount: A:0.25, C:0.47, G:0.10, T:0.18
Consensus pattern (21 bp):
CCTGCAGCCAACCACCCTATC
Found at i:54807681 original size:6 final size:6
Alignment explanation
Indices: 54807670--54807728 Score: 52
Period size: 6 Copynumber: 10.2 Consensus size: 6
54807660 TTCCTAAAGC
* *
54807670 ATAAAA ATAAAA ATAATAA AT--AA ATAAAA ATCAAA ATAAAT A-AAAA
1 ATAAAA ATAAAA ATAA-AA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
* *
54807716 AGAAAA AGAAAA A
1 ATAAAA ATAAAA A
54807729 GAATATAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.09
5 4 0.09
6 33 0.73
7 4 0.09
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.15
Consensus pattern (6 bp):
ATAAAA
Found at i:54807696 original size:23 final size:22
Alignment explanation
Indices: 54807670--54807733 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
54807660 TTCCTAAAGC
54807670 ATAAAAATAAAAATAATAAATAA
1 ATAAAAATAAAAATAATAAA-AA
*
54807693 ATAAAAATCAAAATAAATAAAAA
1 ATAAAAATAAAAAT-AATAAAAA
* * *
54807716 AGAAAAAGAAAAAGAATA
1 ATAAAAATAAAAATAATA
54807734 TAATTTAGGG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 4 0.11
23 25 0.71
24 6 0.17
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.16
Consensus pattern (22 bp):
ATAAAAATAAAAATAATAAAAA
Found at i:54807716 original size:17 final size:17
Alignment explanation
Indices: 54807674--54807715 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
54807664 TAAAGCATAA
54807674 AAATAAAAATAATAAAT
1 AAATAAAAATAATAAAT
*
54807691 AAATAAAAATCA-AAAT
1 AAATAAAAATAATAAAT
54807707 AAATAAAAA
1 AAATAAAAA
54807716 AGAAAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (17 bp):
AAATAAAAATAATAAAT
Found at i:54807722 original size:17 final size:16
Alignment explanation
Indices: 54807674--54807722 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
54807664 TAAAGCATAA
*
54807674 AAATAAAAATAATAAAT
1 AAATAAAAA-AAAAAAT
**
54807691 AAATAAAAATCAAAAT
1 AAATAAAAAAAAAAAT
54807707 AAATAAAAAAGAAAAA
1 AAATAAAAAA-AAAAA
54807723 GAAAAAGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (16 bp):
AAATAAAAAAAAAAAT
Found at i:54808310 original size:15 final size:15
Alignment explanation
Indices: 54808285--54808319 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
54808275 AACTCTATTT
*
54808285 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
54808299 TAATTAATATTAAGA
1 TAATTAATATTAAGA
54808314 TAATTA
1 TAATTA
54808320 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:54813251 original size:5 final size:5
Alignment explanation
Indices: 54813241--54813290 Score: 100
Period size: 5 Copynumber: 10.0 Consensus size: 5
54813231 ATATGAACAT
54813241 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
54813291 TGCTATAAGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
ATATG
Found at i:54813387 original size:35 final size:36
Alignment explanation
Indices: 54813324--54813391 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
54813314 TGTGAAAGAG
* * *
54813324 AATATGTGGGTATGTTATTCATGCCATGTGACATTA
1 AATACGTGAGTATGTTATTCATACCATGTGACATTA
54813360 AATACGTGAGTATGTT-TTCATACCATGTGACA
1 AATACGTGAGTATGTTATTCATACCATGTGACA
54813392 GTGATTATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 15 0.52
36 14 0.48
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (36 bp):
AATACGTGAGTATGTTATTCATACCATGTGACATTA
Found at i:54817252 original size:51 final size:51
Alignment explanation
Indices: 54817132--54817521 Score: 425
Period size: 51 Copynumber: 7.7 Consensus size: 51
54817122 TCATTCAATA
*
54817132 CACGTAGTAGCCTCCACATAGTACTACACACGTGATCAAG-TTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTACGGTT
* *
54817182 CACGTAGTAGCCTTCACATAGTACTACACACATGATCAAGTTTTTATGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTACGGTT
*
54817233 CACGTAGTAGCCTTAACATAGTACTACACACGTGATCAAGTTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTACGGTT
* ** * *
54817284 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAACTTTT-CGATA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTTTTTACGGTT
* * * * * *
54817335 CACATAGTAGCCTTCACTTAGTACTACACATGTGA-CCA-TCATTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTTA-CGGTT
* * * * *
54817386 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTTTTTACGGTT
* * * * * * *
54817437 CACATTGTAGCCTTCACTTAGTACTACACATGTGA-CCA-TCATTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTTA-CGGTT
*
54817488 CACGTAGTAGCCTTCACACAGTACTACACACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
54817522 TTCATCGATA
Statistics
Matches: 284, Mismatches: 45, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
49 7 0.02
50 40 0.14
51 227 0.80
52 7 0.02
53 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (51 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTACGGTT
Found at i:54817343 original size:102 final size:102
Alignment explanation
Indices: 54817129--54817521 Score: 474
Period size: 102 Copynumber: 3.9 Consensus size: 102
54817119 TTATCATTCA
* * *
54817129 ATACACGTAGTAGCCTCCACATAGTACTACACACGTGATCAAGT--TTTA-CGGTTCACGTAGTA
1 ATACACATAGTAGCCTTCACATAGTACTACACACGTGA-CAA-TCATTTATCGATTCACGTAGTA
* * * * *
54817191 GCCTTCACATAGTACTACACACATGATC-AAGTTTTTATG
64 GCCTTCACACAGTACTACACACGTGACCAAAGCTTTT-CG
* * * * * *
54817230 GTTCACGTAGTAGCCTTAACATAGTACTACACACGTGATCAAGT-TTTTA-CGGTTCACGTAGTA
1 ATACACATAGTAGCCTTCACATAGTACTACACACGTGA-CAA-TCATTTATCGATTCACGTAGTA
* *
54817293 GCCTTCACATAGTACTACACACGTGACCAAAACTTTTCG
64 GCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCG
* * *
54817332 ATACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGC
1 ATACACATAGTAGCCTTCACATAGTACTACACACGTGACAATCATTTATCGATTCACGTAGTAGC
*
54817397 CTTCACACAGTACTACACACGTGACCAAAGCTTCTCG
66 CTTCACACAGTACTACACACGTGACCAAAGCTTTTCG
* * * * *
54817434 GTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGC
1 ATACACATAGTAGCCTTCACATAGTACTACACACGTGACAATCATTTATCGATTCACGTAGTAGC
54817499 CTTCACACAGTACTACACACGTG
66 CTTCACACAGTACTACACACGTG
54817522 TTCATCGATA
Statistics
Matches: 265, Mismatches: 23, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
100 1 0.00
101 46 0.17
102 212 0.80
103 6 0.02
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (102 bp):
ATACACATAGTAGCCTTCACATAGTACTACACACGTGACAATCATTTATCGATTCACGTAGTAGC
CTTCACACAGTACTACACACGTGACCAAAGCTTTTCG
Found at i:54817410 original size:153 final size:151
Alignment explanation
Indices: 54817130--54817518 Score: 469
Period size: 153 Copynumber: 2.5 Consensus size: 151
54817120 TATCATTCAA
* * * *
54817130 TACACGTAGTAGCCTCCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGTAGCCT
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTT-CGATTCACGTAGTAGCCT
* * *
54817195 TCACATAGTACTACACACATGATCAAGTTTTTATGGTTCACGTAGTAGCCTTAACATAGTACTAC
65 TCACATAGTACTACACACATGATCAAGTATTTATGATTCACGTAGTAGCCTTAACACAGTACTAC
* * *
54817260 ACACGTGATC-AAGTTTTTACGG
130 ACACGTGACCAAAGCTTCT-CGG
* * *
54817282 TTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAACTTTTCGATACACATAGTAGCC
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAA-TTTTCGATTCACGTAGTAGCC
* ** * *
54817347 TTCACTTAGTACTACACATGTGA-CCA-TCATTTATCGATTCACGTAGTAGCCTTCACACAGTAC
64 TTCACATAGTACTACACACATGATCAAGT-ATTTAT-GATTCACGTAGTAGCCTTAACACAGTAC
54817410 TACACACGTGACCAAAGCTTCTCGG
127 TACACACGTGACCAAAGCTTCTCGG
* * * * *
54817435 TACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AATTT-TCGATTCACGTAGTAGCC
*
54817500 TTCACACAGTACTACACAC
64 TTCACATAGTACTACACAC
54817519 GTGTTCATCG
Statistics
Matches: 201, Mismatches: 29, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
151 1 0.00
152 47 0.23
153 143 0.71
154 10 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (151 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTTCGATTCACGTAGTAGCCTT
CACATAGTACTACACACATGATCAAGTATTTATGATTCACGTAGTAGCCTTAACACAGTACTACA
CACGTGACCAAAGCTTCTCGG
Found at i:54826636 original size:20 final size:20
Alignment explanation
Indices: 54826594--54826639 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
54826584 TAGAAATATT
* *
54826594 GATACCTTAGGAAATATAAC
1 GATACCTTAAGAAAGATAAC
* *
54826614 GATACCTTAAGAAAGGTATC
1 GATACCTTAAGAAAGATAAC
54826634 GATACC
1 GATACC
54826640 GAGGATACCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (20 bp):
GATACCTTAAGAAAGATAAC
Found at i:54830742 original size:12 final size:11
Alignment explanation
Indices: 54830725--54830758 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
54830715 GCCTGTATGC
54830725 CAGGCCGTGTGG
1 CAGGCCGTGT-G
54830737 CAGGCCGTGTG
1 CAGGCCGTGTG
54830748 CTAGGCCGTGT
1 C-AGGCCGTGT
54830759 AACAACTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 2 0.10
12 19 0.90
ACGTcount: A:0.09, C:0.26, G:0.44, T:0.21
Consensus pattern (11 bp):
CAGGCCGTGTG
Found at i:54834853 original size:38 final size:38
Alignment explanation
Indices: 54834810--54834930 Score: 104
Period size: 38 Copynumber: 3.2 Consensus size: 38
54834800 TTTTAGTCAA
* *
54834810 AATATAAAAGACATGGAAATTAATATCCTTTTGGAAAG
1 AATATAAAAGATATGGAAATTAATATACTTTTGGAAAG
* * * * **
54834848 AATATAATTAGTATAT-GAATTTAAT-TAATTTCAGCCAA-
1 AATATAA-AAG-ATATGGAAATTAATATACTTT-TGGAAAG
* *
54834886 AATATAAAAGATATGAAAATTAATATTCTTTTGGAAAG
1 AATATAAAAGATATGGAAATTAATATACTTTTGGAAAG
54834924 AATATAA
1 AATATAA
54834931 TTAATATATG
Statistics
Matches: 61, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
36 4 0.07
37 12 0.20
38 29 0.48
39 13 0.21
40 3 0.05
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.34
Consensus pattern (38 bp):
AATATAAAAGATATGGAAATTAATATACTTTTGGAAAG
Found at i:54834857 original size:137 final size:138
Alignment explanation
Indices: 54834578--54834869 Score: 480
Period size: 137 Copynumber: 2.1 Consensus size: 138
54834568 ACATAGATAA
54834578 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAATTATAAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAATTATAAATA
** *
54834643 TAAACAATTATATTAATTAATTTAGGTCAAAATATAAAAGATGTGGAAATTAATATTCTTTTGGA
66 TAAACAATTATATTAATTAATTTAGGTCAAAATATAAAAGACATGGAAATTAATATCCTTTTGGA
54834708 AAGAATAT
131 AAGAATAT
* * * *
54834716 AATTAACATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAATTATAAATA
*
54834781 TAAA-AATTGTATTAATTAATTTTA-GTCAAAATATAAAAGACATGGAAATTAATATCCTTTTGG
66 TAAACAATTATATTAATTAA-TTTAGGTCAAAATATAAAAGACATGGAAATTAATATCCTTTTGG
54834844 AAAGAATAT
130 AAAGAATAT
*
54834853 AATTAGTATATGAATTT
1 AATTAATATATGAATTT
54834870 AATTAATTTC
Statistics
Matches: 143, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
137 74 0.52
138 69 0.48
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (138 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAATTATAAATA
TAAACAATTATATTAATTAATTTAGGTCAAAATATAAAAGACATGGAAATTAATATCCTTTTGGA
AAGAATAT
Found at i:54834876 original size:76 final size:76
Alignment explanation
Indices: 54834792--54834945 Score: 254
Period size: 76 Copynumber: 2.0 Consensus size: 76
54834782 AAAAATTGTA
* * *
54834792 TTAATTAATTTTAGTCAAAATATAAAAGACATGGAAATTAATATCCTTTTGGAAAGAATATAATT
1 TTAATTAATTTCAGCCAAAATATAAAAGACATGAAAATTAATATCCTTTTGGAAAGAATATAATT
*
54834857 AGTATATGAAT
66 AATATATGAAT
* *
54834868 TTAATTAATTTCAGCCAAAATATAAAAGATATGAAAATTAATATTCTTTTGGAAAGAATATAATT
1 TTAATTAATTTCAGCCAAAATATAAAAGACATGAAAATTAATATCCTTTTGGAAAGAATATAATT
54834933 AATATATGAAT
66 AATATATGAAT
54834944 TT
1 TT
54834946 GATTCATACA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (76 bp):
TTAATTAATTTCAGCCAAAATATAAAAGACATGAAAATTAATATCCTTTTGGAAAGAATATAATT
AATATATGAAT
Found at i:54835198 original size:73 final size:73
Alignment explanation
Indices: 54835013--54835227 Score: 317
Period size: 75 Copynumber: 2.9 Consensus size: 73
54835003 ATAAAAGATA
* * *
54835013 TGGAAAGAATATAATTCATTTGTCTAACTTTTCATTTGTCTTCTCTATTAAAAAGATG-ATAATC
1 TGGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGA-GAATAATC
54835077 CTATATTTT
65 CTATATTTT
* *
54835086 TGGGGAAATAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGGGAATAAT
1 T--GGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGAGAATAAT
54835151 CCTAT-TCTTT
64 CCTATAT-TTT
* *
54835161 TGGAAAGAATATAATTCTTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGAGAATAATCC
1 TGGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGAGAATAATCC
54835226 TA
66 TA
54835228 GTTTTCCTTT
Statistics
Matches: 129, Mismatches: 9, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
73 63 0.49
74 2 0.02
75 64 0.50
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (73 bp):
TGGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGAGAATAATCC
TATATTTT
Found at i:54835593 original size:33 final size:33
Alignment explanation
Indices: 54835551--54835615 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
54835541 ACACCACGGG
54835551 GCATACCGGTAATCCAAAAATATGTTCCTCAAA
1 GCATACCGGTAATCCAAAAATATGTTCCTCAAA
*
54835584 GCATACCGGTAATCCAAAACTATGTTCCTCAA
1 GCATACCGGTAATCCAAAAATATGTTCCTCAA
54835616 GGCAAGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.25
Consensus pattern (33 bp):
GCATACCGGTAATCCAAAAATATGTTCCTCAAA
Found at i:54838867 original size:18 final size:20
Alignment explanation
Indices: 54838836--54838872 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
54838826 ATGAGATTAT
54838836 TATTTATATTTCAA-ATATC
1 TATTTATATTTCAAGATATC
54838855 TATTTAT-TTTCAAGATAT
1 TATTTATATTTCAAGATAT
54838873 TCAACTCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (20 bp):
TATTTATATTTCAAGATATC
Found at i:54845843 original size:29 final size:29
Alignment explanation
Indices: 54845801--54845858 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
54845791 CATGGAAGAA
* * *
54845801 GTGAATAACTTGTTCGTTGAGAGTTCGTG
1 GTGAAGAACTTGTTCATTGAGAATTCGTG
54845830 GTGAAGAACTTGTTCATTGAGAATTCGTG
1 GTGAAGAACTTGTTCATTGAGAATTCGTG
54845859 TCAAGGTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.36
Consensus pattern (29 bp):
GTGAAGAACTTGTTCATTGAGAATTCGTG
Found at i:54859526 original size:25 final size:24
Alignment explanation
Indices: 54859498--54859549 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
54859488 ATTTTGAAAG
54859498 AAATAAAAAAGATATTTATACTAAT
1 AAATAAAAAAGATA-TTATACTAAT
*** *
54859523 AAATGCTAAATATATTATACTAAT
1 AAATAAAAAAGATATTATACTAAT
54859547 AAA
1 AAA
54859550 AAACTAAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAAAAAGATATTATACTAAT
Found at i:54859556 original size:25 final size:23
Alignment explanation
Indices: 54859509--54859558 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
54859499 AATAAAAAAG
**
54859509 ATATTTATACTAATAAATGCTAA
1 ATATTTATACTAATAAAAACTAA
54859532 ATATATTATACTAATAAAAAACTAA
1 ATAT-TTATACTAAT-AAAAACTAA
54859557 AT
1 AT
54859559 CTTTTAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 10 0.43
25 9 0.39
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATTTATACTAATAAAAACTAA
Found at i:54859615 original size:17 final size:17
Alignment explanation
Indices: 54859593--54859677 Score: 98
Period size: 17 Copynumber: 4.7 Consensus size: 17
54859583 TTTAACTTGT
*
54859593 CTTGCAAGTAAATTTAA
1 CTTGCAAGTAAAATTAA
*
54859610 CTTGCAAGTAAAATTGA
1 CTTGCAAGTAAAATTAA
54859627 CTTGCAAGTAAACTAAATTGAA
1 CTTGCAAGT--A--AAATT-AA
*
54859649 CTTGCAAGTAAAATTGA
1 CTTGCAAGTAAAATTAA
54859666 CTTGCAAGTAAA
1 CTTGCAAGTAAA
54859678 CTCTTCAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
17 37 0.63
18 5 0.08
19 1 0.02
20 1 0.02
21 5 0.08
22 10 0.17
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (17 bp):
CTTGCAAGTAAAATTAA
Found at i:54859644 original size:39 final size:39
Alignment explanation
Indices: 54859601--54859679 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
54859591 GTCTTGCAAG
*
54859601 TAAATTTAACTTGCAAGTAAAATTGACTTGCAAGTAAAC
1 TAAATTGAACTTGCAAGTAAAATTGACTTGCAAGTAAAC
54859640 TAAATTGAACTTGCAAGTAAAATTGACTTGCAAGTAAAC
1 TAAATTGAACTTGCAAGTAAAATTGACTTGCAAGTAAAC
54859679 T
1 T
54859680 CTTCAAATCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (39 bp):
TAAATTGAACTTGCAAGTAAAATTGACTTGCAAGTAAAC
Found at i:54861606 original size:30 final size:30
Alignment explanation
Indices: 54861570--54861657 Score: 167
Period size: 30 Copynumber: 2.9 Consensus size: 30
54861560 AACCTATTAC
54861570 AACCTATGGATAAACCAAGTTGCATGTTAA
1 AACCTATGGATAAACCAAGTTGCATGTTAA
54861600 AACCTATGGATAAACCAAGTTGCATGTTAA
1 AACCTATGGATAAACCAAGTTGCATGTTAA
*
54861630 AACTTATGGATAAACCAAGTTGCATGTT
1 AACCTATGGATAAACCAAGTTGCATGTT
54861658 CAAGAATTAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 57 1.00
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (30 bp):
AACCTATGGATAAACCAAGTTGCATGTTAA
Found at i:54875798 original size:20 final size:22
Alignment explanation
Indices: 54875770--54875820 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
54875760 TCAAATACAG
*
54875770 ATTAAATTA-TTTTTAAAAA-A
1 ATTATATTATTTTTTAAAAATA
54875790 ATTATATTAATTTTTTAAAAATA
1 ATTATATT-ATTTTTTAAAAATA
54875813 ATT-TATTA
1 ATTATATTA
54875821 AAATCTCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 7 0.26
21 2 0.07
22 14 0.52
23 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTATATTATTTTTTAAAAATA
Found at i:54875807 original size:22 final size:22
Alignment explanation
Indices: 54875779--54875821 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
54875769 GATTAAATTA
54875779 TTTTTAAAAA-AATTATATTAAT
1 TTTTTAAAAATAATT-TATTAAT
54875801 TTTTTAAAAATAATTTATTAA
1 TTTTTAAAAATAATTTATTAA
54875822 AATCTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTTAAAAATAATTTATTAAT
Found at i:54877021 original size:5 final size:5
Alignment explanation
Indices: 54877011--54877056 Score: 92
Period size: 5 Copynumber: 9.2 Consensus size: 5
54877001 TGAGCATTCG
54877011 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
54877057 AATTTTCAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
ATCGA
Found at i:54878115 original size:9 final size:9
Alignment explanation
Indices: 54878079--54878112 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
54878069 TATAATTTAA
54878079 TATTCGAAT
1 TATTCGAAT
54878088 TATTCGAAT
1 TATTCGAAT
*
54878097 TATTCGAGT
1 TATTCGAAT
54878106 TATTCGA
1 TATTCGA
54878113 GTTTGAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (9 bp):
TATTCGAAT
Found at i:54892270 original size:30 final size:30
Alignment explanation
Indices: 54892234--54892294 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
54892224 TCCCAAAGCT
54892234 CATACACTTTCCTCTCACCCACATGCCCCG
1 CATACACTTTCCTCTCACCCACATGCCCCG
*
54892264 CATACACTTTCCTCTCTCCCACATGCCCCG
1 CATACACTTTCCTCTCACCCACATGCCCCG
54892294 C
1 C
54892295 TTGGCAGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.18, C:0.51, G:0.07, T:0.25
Consensus pattern (30 bp):
CATACACTTTCCTCTCACCCACATGCCCCG
Found at i:54893021 original size:9 final size:9
Alignment explanation
Indices: 54893009--54893061 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
54892999 ATTTTTAAAA
54893009 ATATTTTTT
1 ATATTTTTT
54893018 ATATTTTTT
1 ATATTTTTT
* *
54893027 ATA-ATTTA
1 ATATTTTTT
*
54893035 ATAATTTTT
1 ATATTTTTT
54893044 ATAGTTTTTTT
1 ATA--TTTTTT
54893055 ATATTTT
1 ATATTTT
54893062 ATAAAATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
8 6 0.17
9 22 0.61
11 8 0.22
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (9 bp):
ATATTTTTT
Found at i:54893043 original size:26 final size:27
Alignment explanation
Indices: 54893008--54893062 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
54892998 AATTTTTAAA
*
54893008 AATATTTTTTATA-TTTTTTATAATTT
1 AATAATTTTTATAGTTTTTTATAATTT
*
54893034 AATAATTTTTATAGTTTTTTTATATTTT
1 AATAATTTTTATAG-TTTTTTATAATTT
54893062 A
1 A
54893063 TAAAATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 12 0.48
28 13 0.52
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (27 bp):
AATAATTTTTATAGTTTTTTATAATTT
Found at i:54912438 original size:6 final size:6
Alignment explanation
Indices: 54912427--54912519 Score: 186
Period size: 6 Copynumber: 15.5 Consensus size: 6
54912417 TAGACATGGA
54912427 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
54912475 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATG
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATG
54912520 CAATTGTCTC
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 87 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.49
Consensus pattern (6 bp):
ATGTAT
Found at i:54913605 original size:20 final size:20
Alignment explanation
Indices: 54913568--54913605 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
54913558 TTAGGGTTAC
*
54913568 AAAACATTACCATACAATCA
1 AAAACATTAACATACAATCA
54913588 AAAACATTTAACAT-CAAT
1 AAAACA-TTAACATACAAT
54913606 ATTCAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAACATTAACATACAATCA
Found at i:54915331 original size:25 final size:25
Alignment explanation
Indices: 54915297--54915351 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
54915287 ACACACCATA
*
54915297 GCTCTTATGAGCGTCCCGATATTTG
1 GCTCTCATGAGCGTCCCGATATTTG
* * *
54915322 GCTCTCATGAGCTTCTCGTTATTTG
1 GCTCTCATGAGCGTCCCGATATTTG
54915347 GCTCT
1 GCTCT
54915352 GCGGAGCTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.13, C:0.25, G:0.22, T:0.40
Consensus pattern (25 bp):
GCTCTCATGAGCGTCCCGATATTTG
Found at i:54915470 original size:49 final size:50
Alignment explanation
Indices: 54915417--54915512 Score: 131
Period size: 49 Copynumber: 1.9 Consensus size: 50
54915407 ACTTCTCGAT
* **
54915417 ATTGGCTAGCATGAGCTTCCCGAT-TACAGCTCTTATGAGCTTCCTGATA
1 ATTGGCTAGCAAGAGCTTCCCGATATACAGCTCACATGAGCTTCCTGATA
* * *
54915466 ATTGGCTCGCAAGAGTTTCCCGTTATACAGCTCACATGAGCTTCCTG
1 ATTGGCTAGCAAGAGCTTCCCGATATACAGCTCACATGAGCTTCCTG
54915513 TTATATGGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 20 0.50
50 20 0.50
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (50 bp):
ATTGGCTAGCAAGAGCTTCCCGATATACAGCTCACATGAGCTTCCTGATA
Found at i:54915498 original size:25 final size:25
Alignment explanation
Indices: 54915470--54915517 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
54915460 CTGATAATTG
* *
54915470 GCTCGCAAGAGTTTCCCGTTATACA
1 GCTCACAAGAGCTTCCCGTTATACA
* *
54915495 GCTCACATGAGCTTCCTGTTATA
1 GCTCACAAGAGCTTCCCGTTATA
54915518 TGGTTTGAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (25 bp):
GCTCACAAGAGCTTCCCGTTATACA
Found at i:54925571 original size:27 final size:27
Alignment explanation
Indices: 54925479--54925572 Score: 76
Period size: 27 Copynumber: 3.6 Consensus size: 27
54925469 ATTTAATATT
* **
54925479 AATATAATAATATTATTATAA-AATTTA
1 AATAT-ATATTATTATTATAATTTTTTA
54925506 AAT-T-TATTATTA-TATAATTTTTTGA
1 AATATATATTATTATTATAATTTTTT-A
54925531 AA-ATAT-TTATTTATTCAT-ATTTTTTA
1 AATATATATTA-TTATT-ATAATTTTTTA
54925557 AATATATATTATTATT
1 AATATATATTATTATT
54925573 TCTTGTCAAC
Statistics
Matches: 55, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
23 5 0.09
24 10 0.18
25 7 0.13
26 8 0.15
27 20 0.36
28 5 0.09
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (27 bp):
AATATATATTATTATTATAATTTTTTA
Found at i:54925811 original size:47 final size:46
Alignment explanation
Indices: 54925722--54925862 Score: 178
Period size: 46 Copynumber: 3.1 Consensus size: 46
54925712 ACTAAAATGG
* * * *
54925722 TATT-TTTTTTAATCGCGCCTATCTGGCATTGC-CGAATCAATTTTT
1 TATTATTTTTTAATCGCGCCAATCTGACA-GGCGTGAATCAATTTTT
* *
54925767 TATTATTTTTTTAATCGCGCCAATTTGACAGGCGTGAATTAATTTTT
1 TATTA-TTTTTTAATCGCGCCAATCTGACAGGCGTGAATCAATTTTT
* *
54925814 TATTATTTTTTAATCGTGCCTATCTGACAGGCGTGAATCAATTTTT
1 TATTATTTTTTAATCGCGCCAATCTGACAGGCGTGAATCAATTTTT
54925860 TAT
1 TAT
54925863 ATTAAAAATA
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
45 4 0.05
46 42 0.51
47 37 0.45
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.47
Consensus pattern (46 bp):
TATTATTTTTTAATCGCGCCAATCTGACAGGCGTGAATCAATTTTT
Found at i:54925842 original size:46 final size:46
Alignment explanation
Indices: 54925722--54925917 Score: 189
Period size: 47 Copynumber: 4.1 Consensus size: 46
54925712 ACTAAAATGG
* * *
54925722 TATT-TTTTTTAATCGCGCCTATCTGGCATTGC-CGAATCAATTTTT
1 TATTATTTTTTAATCGCGCCTATCTGACA-GGCGTGAATCAATTTTT
* * *
54925767 TATTATTTTTTTAATCGCGCCAATTTGACAGGCGTGAATTAATTTTT
1 TATTA-TTTTTTAATCGCGCCTATCTGACAGGCGTGAATCAATTTTT
*
54925814 TATTATTTTTTAATCGTGCCTATCTGACAGGCGTGAATCAATTTTTT
1 TATTATTTTTTAATCGCGCCTATCTGACAGGCGTGAATCAA-TTTTT
* **
54925861 ATATTAAAAATATTTTTTTAATCGCGCCTACCTGACAGGCACGAATCAATTTTT
1 -TA-T-----TA-TTTTTTAATCGCGCCTATCTGACAGGCGTGAATCAATTTTT
54925915 TAT
1 TAT
54925918 ATTAAAAAAT
Statistics
Matches: 125, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
45 4 0.03
46 34 0.27
47 42 0.34
48 2 0.02
49 1 0.01
52 1 0.01
53 2 0.02
54 7 0.06
55 32 0.26
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.44
Consensus pattern (46 bp):
TATTATTTTTTAATCGCGCCTATCTGACAGGCGTGAATCAATTTTT
Found at i:54925881 original size:55 final size:56
Alignment explanation
Indices: 54925819--54925935 Score: 191
Period size: 55 Copynumber: 2.1 Consensus size: 56
54925809 TTTTTTATTA
* * **
54925819 TTTTTTAATCGTGCCTATCTGACAGGCGTGAATCAATTTTTTATATT-AAAAATAT
1 TTTTTTAATCGCGCCTACCTGACAGGCACGAATCAATTTTTTATATTAAAAAATAT
54925874 TTTTTTAATCGCGCCTACCTGACAGGCACGAATCAATTTTTTATATTAAAAAATAT
1 TTTTTTAATCGCGCCTACCTGACAGGCACGAATCAATTTTTTATATTAAAAAATAT
54925930 TTTTTT
1 TTTTTT
54925936 GTTTTAAATA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 43 0.75
56 14 0.25
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.44
Consensus pattern (56 bp):
TTTTTTAATCGCGCCTACCTGACAGGCACGAATCAATTTTTTATATTAAAAAATAT
Found at i:54928283 original size:15 final size:15
Alignment explanation
Indices: 54928263--54928370 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
54928253 TTTATGGAAA
54928263 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
54928278 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
54928292 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
54928308 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
54928322 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
54928338 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
54928352 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
54928368 ATC
1 ATC
54928371 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:54928300 original size:30 final size:30
Alignment explanation
Indices: 54928257--54928380 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
54928247 TCCATATTTA
* *
54928257 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
54928287 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
54928317 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
54928347 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
54928378 TGG
1 TGG
54928381 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:54932974 original size:15 final size:15
Alignment explanation
Indices: 54932954--54933061 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
54932944 TTTATGGAAA
54932954 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
54932969 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
54932983 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
54932999 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
54933013 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
54933029 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
54933043 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
54933059 ATC
1 ATC
54933062 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:54932991 original size:30 final size:30
Alignment explanation
Indices: 54932948--54933071 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
54932938 TCCATATTTA
* *
54932948 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
54932978 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
54933008 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
54933038 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
54933069 TGG
1 TGG
54933072 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:54935029 original size:9 final size:9
Alignment explanation
Indices: 54935015--54935039 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
54935005 AATAATATCT
54935015 ATATTTAAC
1 ATATTTAAC
54935024 ATATTTAAC
1 ATATTTAAC
54935033 ATATTTA
1 ATATTTA
54935040 TAAATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (9 bp):
ATATTTAAC
Found at i:54937147 original size:20 final size:19
Alignment explanation
Indices: 54937103--54937156 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 19
54937093 ATCTGTTCAC
*
54937103 CAAGAGATACAA-T-TGTT
1 CAAGAGATACAACTATTTT
*
54937120 CAAAAGATACAACTATTTAT
1 CAAGAGATACAACTATTT-T
*
54937140 CAAGAGATAGAACTATT
1 CAAGAGATACAACTATT
54937157 GTTTAATTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 2 0.07
20 16 0.53
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (19 bp):
CAAGAGATACAACTATTTT
Found at i:54938960 original size:41 final size:41
Alignment explanation
Indices: 54938896--54938997 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
54938886 GCAGAAAGCG
*
54938896 CTTCCAGCTGAAAGCTTTCTTTTGCAAATCAACTGAAAACT
1 CTTCCAGTTGAAAGCTTTCTTTTGCAAATCAACTGAAAACT
* *
54938937 CTTCCAGTTGAAAG-TATTGTTTTGCAAATCAACTGAAAATT
1 CTTCCAGTTGAAAGCT-TTCTTTTGCAAATCAACTGAAAACT
*
54938978 TTTCCAGTTGAAAGCGTTTC
1 CTTCCAGTTGAAAGC-TTTC
54938998 CGTAAAACCG
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
40 1 0.02
41 49 0.92
42 2 0.04
43 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (41 bp):
CTTCCAGTTGAAAGCTTTCTTTTGCAAATCAACTGAAAACT
Found at i:54943119 original size:21 final size:21
Alignment explanation
Indices: 54943095--54943134 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
54943085 TTTTGTGTAA
54943095 AATTAACATTTATAGATCTAG
1 AATTAACATTTATAGATCTAG
54943116 AATTAACATTTATAGATCT
1 AATTAACATTTATAGATCT
54943135 TACACGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.40
Consensus pattern (21 bp):
AATTAACATTTATAGATCTAG
Found at i:54965123 original size:18 final size:19
Alignment explanation
Indices: 54965094--54965129 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
54965084 GTTTGTTTGC
*
54965094 TTAAGTTGAAATGAATGAT
1 TTAAGTTGAAATCAATGAT
54965113 TTAAG-TGAAATCAATGA
1 TTAAGTTGAAATCAATGA
54965130 CCCTATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.33
Consensus pattern (19 bp):
TTAAGTTGAAATCAATGAT
Found at i:54967679 original size:42 final size:42
Alignment explanation
Indices: 54967632--54967752 Score: 165
Period size: 42 Copynumber: 2.9 Consensus size: 42
54967622 TTAGAGTTAC
54967632 TGAGATTACGTGTAAGACCATATCTGGGACATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGACATGGCATCGATA
* * *
54967674 TGAGATTTCGTGTAAGACCATAGT-TGGG-CTATGGCACCGATG
1 TGAGATTACGTGTAAGACCATA-TCTGGGAC-ATGGCATCGATA
* *
54967716 TGAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGGGACATGGCAT
54967753 TGGTATTGTG
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
41 2 0.03
42 65 0.96
43 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGACATGGCATCGATA
Found at i:54973469 original size:25 final size:25
Alignment explanation
Indices: 54973422--54973491 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
54973412 GTTGTATAAT
* * *
54973422 GAGAAGCTCTTGCAAGCCGTTTATC
1 GAGAAGCTCATACAAGCCATTTATC
*
54973447 -AGGAATCTCATACAAGCCATTTATC
1 GA-GAAGCTCATACAAGCCATTTATC
*
54973472 GAGAAGCTCATACGAGCCAT
1 GAGAAGCTCATACAAGCCAT
54973492 AAACGGGAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
24 1 0.03
25 35 0.95
26 1 0.03
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (25 bp):
GAGAAGCTCATACAAGCCATTTATC
Found at i:54978734 original size:25 final size:25
Alignment explanation
Indices: 54978706--54978775 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
54978696 TCCTGTACAT
* *
54978706 GTATGCTCACACAATCTGTGAATCG
1 GTATGCTCACACAAGCTGTGAATCA
**
54978731 GTATGCTCACATGAGCTGTGAATCA
1 GTATGCTCACACAAGCTGTGAATCA
*
54978756 GTATGCTCACACGAGCTGTG
1 GTATGCTCACACAAGCTGTG
54978776 GGTTAGAACA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
GTATGCTCACACAAGCTGTGAATCA
Found at i:54984884 original size:87 final size:87
Alignment explanation
Indices: 54984722--54984976 Score: 339
Period size: 87 Copynumber: 2.9 Consensus size: 87
54984712 TGATCTGATC
* * *
54984722 TGGCAGTTTAACTATAACTTATTGGTATAGTGGTTTATCGCAGTGTACCGCTTGTACGTCAACGT
1 TGGCAGTTTAACTACAACTTATTGGTATAGTGGTTTACCGCACTGTACCGCTTGTACGTCAACGT
*
54984787 TGTTGTGTACTATTATCTAATA
66 TGTTGCGTACTATTATCTAATA
* * * * *
54984809 TGGCAGTTTAACTACAACTTATTAGTATAGCGGTTTACCGCACTGTACCGCTTGTACCTCATCTT
1 TGGCAGTTTAACTACAACTTATTGGTATAGTGGTTTACCGCACTGTACCGCTTGTACGTCAACGT
* *
54984874 TGCTGCGTACTATTATCTAATC
66 TGTTGCGTACTATTATCTAATA
** * * * * * *
54984896 TAACAGTTTAACTGCAACTTATCGGTACAGTGGTTTACCGTACTGTACCGCATGTACGTCAGCGT
1 TGGCAGTTTAACTACAACTTATTGGTATAGTGGTTTACCGCACTGTACCGCTTGTACGTCAACGT
54984961 TGTTGCGTACTATTAT
66 TGTTGCGTACTATTAT
54984977 ATGATCTGGA
Statistics
Matches: 144, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
87 144 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (87 bp):
TGGCAGTTTAACTACAACTTATTGGTATAGTGGTTTACCGCACTGTACCGCTTGTACGTCAACGT
TGTTGCGTACTATTATCTAATA
Found at i:54984991 original size:87 final size:87
Alignment explanation
Indices: 54984714--54985020 Score: 319
Period size: 87 Copynumber: 3.5 Consensus size: 87
54984704 ACTAATTTTG
* * * * * * * *
54984714 ATCTGATCTGGCAGTTTAACTATAACTTATTGGTATAGTGGTTTATCGCAGTGTACCGCTTGTAC
1 ATCTAATCTGGAAGTTTAACTACAACTTATCGGTACAGCGGTTTACCGCACTGTACCGCTTGTAC
*
54984779 GTCAACGTTGTTGTGTACTATT
66 GTCAACGTTGTTGCGTACTATT
* * ** *
54984801 ATCTAATATGGCAGTTTAACTACAACTTATTAGTATAGCGGTTTACCGCACTGTACCGCTTGTAC
1 ATCTAATCTGGAAGTTTAACTACAACTTATCGGTACAGCGGTTTACCGCACTGTACCGCTTGTAC
* * * *
54984866 CTCATCTTTGCTGCGTACTATT
66 GTCAACGTTGTTGCGTACTATT
* * * * *
54984888 ATCTAATCT-AACAGTTTAACTGCAACTTATCGGTACAGTGGTTTACCGTACTGTACCGCATGTA
1 ATCTAATCTGGA-AGTTTAACTACAACTTATCGGTACAGCGGTTTACCGCACTGTACCGCTTGTA
*
54984952 CGTCAGCGTTGTTGCGTACTATT
65 CGTCAACGTTGTTGCGTACTATT
* * * * * *
54984975 ATATGATCTGGAAGTTTAAACTGCAACATGTCTGTACAGCGGTTTA
1 ATCTAATCTGGAAGTTT-AACTACAACTTATCGGTACAGCGGTTTA
54985021 TCGTAATGCA
Statistics
Matches: 184, Mismatches: 33, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
87 159 0.86
88 25 0.14
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (87 bp):
ATCTAATCTGGAAGTTTAACTACAACTTATCGGTACAGCGGTTTACCGCACTGTACCGCTTGTAC
GTCAACGTTGTTGCGTACTATT
Found at i:54986729 original size:18 final size:19
Alignment explanation
Indices: 54986692--54986730 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
54986682 GTGACCCCTG
*
54986692 TTTCCAAAATTTTTCAATT
1 TTTCCAAAAGTTTTCAATT
*
54986711 TTTCC-AAAGTTTTCTATT
1 TTTCCAAAAGTTTTCAATT
54986729 TT
1 TT
54986731 ATTTCAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.26, C:0.15, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTCCAAAAGTTTTCAATT
Found at i:54988004 original size:21 final size:21
Alignment explanation
Indices: 54987980--54988019 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
54987970 AAAGCTAAAT
54987980 AGAAGCTCGTAAGAGCTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
*
54988001 AGAAGCTCGTGAGAGCTGA
1 AGAAGCTCGTAAGAGCTGA
54988020 TCCACCCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.17, G:0.33, T:0.15
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTGAAC
Found at i:54990075 original size:101 final size:102
Alignment explanation
Indices: 54989950--54990134 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
54989940 AAAGTAATGG
*
54989950 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGATAATGGTCACATGTGTAGT
54990013 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
* * *
54990051 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
*
54990116 CTATGTGTAGGCTACTATG
66 CTATGTGCAGGCTACTATG
54990135 TGAACCAAAC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.52
102 33 0.43
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:54990080 original size:51 final size:51
Alignment explanation
Indices: 54989942--54990132 Score: 253
Period size: 51 Copynumber: 3.8 Consensus size: 51
54989932 TAAAAGTGAA
54989942 AGTAATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-
1 AGTAATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* * * *
54989992 A-TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
1 AGTAAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* * * *
54990043 AGT-TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT
1 AGTAAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* *
54990094 GGTAATGGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 AGTAATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
54990133 TGTGAACCAA
Statistics
Matches: 120, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
49 3 0.03
50 42 0.35
51 73 0.61
52 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (51 bp):
AGTAATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
Found at i:54990194 original size:45 final size:45
Alignment explanation
Indices: 54990138--54990230 Score: 159
Period size: 45 Copynumber: 2.1 Consensus size: 45
54990128 TACTATGTGA
* *
54990138 ACCAAACATCATTGATTAGTAAGGTGGTTTCTATGTGCTGATTCC
1 ACCAAACATCATTGATTAATAAGGTGGTTTCTATGTGCTGAATCC
*
54990183 ACCAGACATCATTGATTAATAAGGTGGTTTCTATGTGCTGAATCC
1 ACCAAACATCATTGATTAATAAGGTGGTTTCTATGTGCTGAATCC
54990228 ACC
1 ACC
54990231 GAGTATCTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (45 bp):
ACCAAACATCATTGATTAATAAGGTGGTTTCTATGTGCTGAATCC
Found at i:55016582 original size:3 final size:3
Alignment explanation
Indices: 55016576--55016614 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
55016566 GGCAGCAGGT
55016576 GAA GAA GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
55016615 GCAAGAAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:55017411 original size:93 final size:94
Alignment explanation
Indices: 55017300--55017473 Score: 269
Period size: 93 Copynumber: 1.8 Consensus size: 94
55017290 TACAAAAAAG
* * *
55017300 AATGTAACTATCTGCCTAAGTTTAGATATTAGTAGCAATAATATGAAAATT-TACAAAAAAAGAA
1 AATGTAACTATCTGCCTAAGTTTAGATATTAGTAGCAATAATAGGAAAATTAAAAAAAAAAAGAA
55017364 TATGCCTAAGTTTAGAAATCAATAGCGTC
66 TATGCCTAAGTTTAGAAATCAATAGCGTC
* *
55017393 AATGTAGCTATCTGCCTAAGTTTAGATATTAGTAGCAATAATAGGCAAATTAAAAAAAAAAAAAG
1 AATGTAACTATCTGCCTAAGTTTAGATATTAGTAGCAATAATAGGAAAATT--AAAAAAAAAAAG
*
55017458 AATTTGCCTAAGTTTA
64 AATATGCCTAAGTTTA
55017474 AACTTCCATC
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
93 48 0.67
96 24 0.33
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (94 bp):
AATGTAACTATCTGCCTAAGTTTAGATATTAGTAGCAATAATAGGAAAATTAAAAAAAAAAAGAA
TATGCCTAAGTTTAGAAATCAATAGCGTC
Found at i:55025050 original size:3 final size:3
Alignment explanation
Indices: 55025042--55025087 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
55025032 TGTTCTGTAT
*
55025042 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTA TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
55025088 CGACGATTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.02, C:0.00, G:0.30, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:55028959 original size:21 final size:21
Alignment explanation
Indices: 55028930--55028976 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
55028920 GTCCAACGTG
* *
55028930 GCTAGTTAATAGG-CCAGGTCA
1 GCTATTTAA-AGGCCCACGTCA
*
55028951 GCTATTTAACGGCCCACGTCA
1 GCTATTTAAAGGCCCACGTCA
55028972 GCTAT
1 GCTAT
55028977 CCTGTTAGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (21 bp):
GCTATTTAAAGGCCCACGTCA
Found at i:55029058 original size:30 final size:29
Alignment explanation
Indices: 55029010--55029106 Score: 106
Period size: 30 Copynumber: 3.3 Consensus size: 29
55029000 TGGGCTCGAG
**
55029010 GTGATTGATTT-TCCATTTTTGAAAACATTA
1 GTGATTGATTTAT-CATTTTTG-AAAGTTTA
* *
55029040 GTGATTGATTTATAATTTTCGTAAAGTTTA
1 GTGATTGATTTATCATTTTTG-AAAGTTTA
* *
55029070 GTGATTGAGTTATCACTTTTGAAAGTTTA
1 GTGATTGATTTATCATTTTTGAAAGTTTA
55029099 GTGATTGA
1 GTGATTGA
55029107 AATGTTATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
29 16 0.28
30 40 0.70
31 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.19, T:0.46
Consensus pattern (29 bp):
GTGATTGATTTATCATTTTTGAAAGTTTA
Found at i:55029101 original size:29 final size:30
Alignment explanation
Indices: 55029037--55029106 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 30
55029027 TTTGAAAACA
*
55029037 TTAGTGATTGATTTATAATTTTCGTAAAGT
1 TTAGTGATTGAGTTATAATTTTCGTAAAGT
*
55029067 TTAGTGATTGAGTTATCACTTTT-G-AAAGT
1 TTAGTGATTGAGTTAT-AATTTTCGTAAAGT
55029096 TTAGTGATTGA
1 TTAGTGATTGA
55029107 AATGTTATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 16 0.43
30 16 0.43
31 5 0.14
ACGTcount: A:0.29, C:0.04, G:0.20, T:0.47
Consensus pattern (30 bp):
TTAGTGATTGAGTTATAATTTTCGTAAAGT
Found at i:55030408 original size:20 final size:21
Alignment explanation
Indices: 55030372--55030410 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
55030362 AGTCTTATTC
55030372 TCTAATATGATTATTTTTAAA
1 TCTAATATGATTATTTTTAAA
55030393 TCTATATAT-ATT-TTTTTA
1 TCTA-ATATGATTATTTTTA
55030411 TTTTTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (21 bp):
TCTAATATGATTATTTTTAAA
Found at i:55032939 original size:18 final size:18
Alignment explanation
Indices: 55032896--55032939 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
55032886 AGCAACCATC
55032896 AAAAAAATAAATAAATAA
1 AAAAAAATAAATAAATAA
* *
55032914 AATAAAATACATAAA-AA
1 AAAAAAATAAATAAATAA
55032931 AAAACAAAT
1 AAAA-AAAT
55032940 CAAGTATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAAAAATAAATAAATAA
Found at i:55033257 original size:28 final size:27
Alignment explanation
Indices: 55033226--55033285 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 27
55033216 TTATAAAATA
55033226 AAAAATATAAGTA-TGTATATATATTTAT
1 AAAAATAT--GTACTGTATATATATTTAT
*
55033254 AAAAATATGTACGTGTATGTATATTTAT
1 AAAAATATGTAC-TGTATATATATTTAT
55033282 AAAA
1 AAAA
55033286 GAGATACATG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 3 0.10
28 26 0.90
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (27 bp):
AAAAATATGTACTGTATATATATTTAT
Found at i:55034882 original size:28 final size:28
Alignment explanation
Indices: 55034821--55034874 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
55034811 ATATAGCTAA
* *
55034821 AATAATAATAATTACATATGATAATAAT
1 AATAATAATAATTACATATGAAAAAAAT
55034849 AATAATAATAATTACAT-T-AAAAAAAT
1 AATAATAATAATTACATATGAAAAAAAT
55034875 TAACTAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 6 0.25
27 1 0.04
28 17 0.71
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (28 bp):
AATAATAATAATTACATATGAAAAAAAT
Found at i:55035426 original size:22 final size:21
Alignment explanation
Indices: 55035401--55035486 Score: 81
Period size: 19 Copynumber: 4.2 Consensus size: 21
55035391 TGCAAATTAA
55035401 ATCTCTAAGATTACAAAATCAT
1 ATCTCTAAGATTAC-AAATCAT
*
55035423 ATCTTCTAAGATTACATATCAT
1 ATC-TCTAAGATTACAAATCAT
* *
55035445 A--TCTAAGATTGCATATCAT
1 ATCTCTAAGATTACAAATCAT
* *
55035464 A--TCTAAGATTGCATATCAT
1 ATCTCTAAGATTACAAATCAT
55035483 ATCT
1 ATCT
55035487 AAAATTGCAT
Statistics
Matches: 59, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
19 37 0.63
21 1 0.02
22 10 0.17
23 11 0.19
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.37
Consensus pattern (21 bp):
ATCTCTAAGATTACAAATCAT
Found at i:55035434 original size:23 final size:22
Alignment explanation
Indices: 55035404--55035448 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
55035394 AAATTAAATC
55035404 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
*
55035427 TCTAAGATTACATATCATATCT
1 TCTAAGATTACAAATCATATCT
55035449 AAGATTGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:55035451 original size:19 final size:19
Alignment explanation
Indices: 55035427--55035499 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
55035417 AATCATATCT
*
55035427 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
55035446 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
55035465 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
55035484 TCTAAAATTGCATATC
1 TCTAAGATTGCATATC
55035500 CTCAAAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:55035864 original size:44 final size:44
Alignment explanation
Indices: 55035816--55036160 Score: 173
Period size: 44 Copynumber: 7.8 Consensus size: 44
55035806 CTGTAACCAC
* *
55035816 AGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCTT
1 AGGGAGGTAAAATCTACCATCTTCAATCTACTCCACTACTGCTT
* * ** * ** *
55035860 AGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTGTTGCCT
1 AGGGAGGTAAAATCTACCATCTTCAATCTACTCCACTACTGCTT
* * * * * **
55035904 AGGGAAGTAGAAT-TACTAGCTTCAATGTACTCCACTGTAACCAC-T
1 AGGGAGGTAAAATCTACCATCTTCAATCTACTCCAC--T-ACTGCTT
** *
55035949 -GGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTT
1 AGGGAGGTAAAATCTACCATCTTCAATCTACTCCACTACTGCTT
* * ** * * ** *
55035992 AGGGAGATAAGATCTAAAATCTTTAATCTATTCCACTGTTGCCT
1 AGGGAGGTAAAATCTACCATCTTCAATCTACTCCACTACTGCTT
* * * * * **
55036036 AGGGAAGTAGAAT-TACTAGCTTCAATGTACTCCACTGTAAC--CAC
1 AGGGAGGTAAAATCTACCATCTTCAATCTACTCCAC--T-ACTGCTT
* * * **
55036080 AGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTTTTT
1 AGGGAGGTAAAATCTACCATCTTCAATCTACTCCACTACTGCTT
* * * *
55036124 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACT
1 AGGGAGGTAAAATCT-ACCATCTTCAATCTACTCCACT
55036161 GTAATGCCAA
Statistics
Matches: 211, Mismatches: 77, Indels: 26
0.67 0.25 0.08
Matches are distributed among these distances:
42 5 0.02
43 36 0.17
44 133 0.63
45 36 0.17
46 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (44 bp):
AGGGAGGTAAAATCTACCATCTTCAATCTACTCCACTACTGCTT
Found at i:55035968 original size:132 final size:132
Alignment explanation
Indices: 55035728--55036162 Score: 714
Period size: 132 Copynumber: 3.3 Consensus size: 132
55035718 CTGCAACTGC
* * * * *
55035728 AGGGAGATAAGA-CTTACAATCTTCAACCTATTCCACTGCTGACTAGGG-AGATAGGATTACT-G
1 AGGGAGATAAGATC-TAAAATCTTCAATCTATTCCACTGTTGCCTAGGGAAG-TAGAATTACTAG
55035790 ACTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTAC
64 -CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTAC
55035855 TGCTT
128 TGCTT
55035860 AGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTAGCT
1 AGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTAGCT
* *
55035925 TCAATGTACTCCACTGTAACCACTGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGC
55035990 TT
131 TT
*
55035992 AGGGAGATAAGATCTAAAATCTTTAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTAGCT
1 AGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTAGCT
* **
55036057 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTTT
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGC
55036122 TT
131 TT
*
55036124 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGT
1 AGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTGT
55036163 AATGCCAAAG
Statistics
Matches: 285, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
132 281 0.99
133 4 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (132 bp):
AGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTAGCT
TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGC
TT
Found at i:55036567 original size:132 final size:133
Alignment explanation
Indices: 55036330--55036803 Score: 546
Period size: 132 Copynumber: 3.6 Consensus size: 133
55036320 CTGTCAGTGC
*
55036330 AGGAAGACAGGACTTGCTAT-TTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
1 AGGAAGACAGGACCTGCTATCTTT-GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
* * *
55036394 CTTCGATCTATTTCGCCACCAGTATGGGAAGATAAGATCTGCATCTTCTATCCACTTC-CTACCA
65 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCA
55036458 ATAT
130 ATAT
55036462 AGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
1 AGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* * *
55036527 TTCGATCTACTTCGCCATCATTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACTAA
66 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAA
55036592 TAT
131 TAT
* * * *
55036595 AGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATTTGC-ATC
1 AGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* * * * * * * * * * *
55036659 TTTGATCCACTTC-CTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCAC-GCCA
66 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACCA
* *
55036722 GTAA
130 ATAT
* * * * * * * * *** *
55036726 ATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAATATGGGAAGACAAGATCTGC-AT
1 AGGAAGACAGGACCTGCTATCTTTGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTT
*
55036790 CTTCGATCCACTTC
65 CTTCGATCTACTTC
55036804 CTACCAATAT
Statistics
Matches: 301, Mismatches: 37, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
131 54 0.18
132 177 0.59
133 70 0.23
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (133 bp):
AGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAA
TAT
Found at i:55036696 original size:220 final size:220
Alignment explanation
Indices: 55036367--55036836 Score: 692
Period size: 220 Copynumber: 2.1 Consensus size: 220
55036357 CTACTTCACG
* * * * * * ** *
55036367 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTATTTCGCCACCAGTATGGGAAGATAAGAT
1 CCAATATAAGAAGACAAGATCTGCTATCTTCGATCTACTTCGACACCAATACAGGAAGACAAGAT
*
55036432 CTGCATCTTCTATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCA
66 CTGCATCTTCTATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCA
* * * *
55036497 CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCATCATTATGGGAAGACAAG
131 CGCCAATAAATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAATATGGGAAGACAAG
55036562 ATCTGCATCTTCGATCCACTTCGCTA
196 ATCTGCATCTTCGATCCACTTC-CTA
* * * * *
55036588 CTAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGAT
1 CCAATATAAGAAGACAAGATCTGCTATCTTCGATCTACTTCGACACCAATACAGGAAGACAAGAT
* *
55036652 TTGCATCTT-TGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTC
66 CTGCATCTTCT-ATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTC
*
55036716 ACGCCAGTAAATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAATATGGGAAGACAA
130 ACGCCAATAAATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAATATGGGAAGACAA
55036781 GATCTGCATCTTCGATCCACTTCCTA
195 GATCTGCATCTTCGATCCACTTCCTA
* *
55036807 CCAATATAAGAAGACATGACCTGCTATCTT
1 CCAATATAAGAAGACAAGATCTGCTATCTT
55036837 TACTGATCTG
Statistics
Matches: 223, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
219 30 0.13
220 158 0.71
221 35 0.16
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (220 bp):
CCAATATAAGAAGACAAGATCTGCTATCTTCGATCTACTTCGACACCAATACAGGAAGACAAGAT
CTGCATCTTCTATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCA
CGCCAATAAATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAATATGGGAAGACAAG
ATCTGCATCTTCGATCCACTTCCTA
Found at i:55036836 original size:44 final size:44
Alignment explanation
Indices: 55036330--55036836 Score: 445
Period size: 44 Copynumber: 11.5 Consensus size: 44
55036320 CTGTCAGTGC
* * * *
55036330 AGGAAGACAGGA-CTTGCTATTTTCGATCTACTTCACGCCAATAC
1 AGGAAGACAAGATC-TGCTATCTTCGATCTACTTCACACCAATAT
* * * * *
55036374 ATGAAGACAAGATCTGCTTTCTTCGATCTATTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATAT
* * * *
55036419 GGGAAGATAAGATCTGC-ATCTTCTATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATAT
* * * * *
55036462 AGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATAC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATAT
* * * * *
55036506 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCATCATTAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATAT
* * * *
55036551 GGGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACTAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATAT
* * *
55036595 AGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATAC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATAT
* * * *
55036639 ATGAAGACAAGATTTGC-ATCTTTGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATAT
* * * * * *
55036682 AGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAGTAA
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATAT
* * * *
55036726 ATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATAT
* *
55036771 GGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATAT
* * *
55036814 AAGAAGACATGACCTGCTATCTT
1 AGGAAGACAAGATCTGCTATCTT
55036837 TACTGATCTG
Statistics
Matches: 362, Mismatches: 87, Indels: 28
0.76 0.18 0.06
Matches are distributed among these distances:
42 3 0.01
43 74 0.20
44 205 0.57
45 80 0.22
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (44 bp):
AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATAT
Found at i:55038055 original size:6 final size:6
Alignment explanation
Indices: 55038039--55038071 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
55038029 GGCCTCTCCA
55038039 TTTTC- TTTTCT TTTTCT TTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
55038072 ATCACTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:55042621 original size:15 final size:15
Alignment explanation
Indices: 55042584--55042623 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
55042574 ATATACAAAG
* *
55042584 ATAAATATAAAAAAT
1 ATAATTATAAAAAAA
55042599 ATAGATTATAAAAAAA
1 ATA-ATTATAAAAAAA
55042615 ATAATTATA
1 ATAATTATA
55042624 TATAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
ATAATTATAAAAAAA
Found at i:55043359 original size:22 final size:21
Alignment explanation
Indices: 55043324--55043400 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 21
55043314 AAAGGGTATC
* *
55043324 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
55043345 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
55043368 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
55043387 TGCATATCATATCT
1 TACAAATCATATCT
55043401 AAGATTGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
19 18 0.38
21 4 0.08
22 15 0.31
23 11 0.23
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:55043367 original size:23 final size:22
Alignment explanation
Indices: 55043324--55043381 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
55043314 AAAGGGTATC
* *
55043324 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
55043345 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
55043368 TACATATCATATCT
1 TACAAATCATATCT
55043382 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:55043384 original size:19 final size:19
Alignment explanation
Indices: 55043337--55043413 Score: 91
Period size: 19 Copynumber: 3.8 Consensus size: 19
55043327 AAATTAAATC
*
55043337 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
55043357 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
55043379 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
55043398 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
55043414 CTCAAAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
22 7 0.13
23 11 0.21
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:55044505 original size:6 final size:6
Alignment explanation
Indices: 55044494--55044526 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
55044484 AACGGTTCAA
55044494 AAAAAT AAAAAT AAAAAT AAAAAT -AAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
55044527 TAAGATAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:55045342 original size:49 final size:49
Alignment explanation
Indices: 55045309--55045437 Score: 170
Period size: 49 Copynumber: 2.6 Consensus size: 49
55045299 ATTTAGCTTT
* * *
55045309 AATTTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTACCCGGTCTTC
1 AATTTGCTCCACTGCAACTTCAGGGAAATAAGATCTGTACCCAGTCTTC
* * * *
55045358 AATTTGCTCCACTGCAACTTCAGGGAGATACA-ATTTGTAGCCGGTCTTC
1 AATTTGCTCCACTGCAACTTCAGGGAAATA-AGATCTGTACCCAGTCTTC
*
55045407 AATTTGCTCCACTGCAACTTCAGGGAGATAA
1 AATTTGCTCCACTGCAACTTCAGGGAAATAA
55045438 AACTTATGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
48 1 0.01
49 74 0.97
50 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (49 bp):
AATTTGCTCCACTGCAACTTCAGGGAAATAAGATCTGTACCCAGTCTTC
Found at i:55046405 original size:42 final size:43
Alignment explanation
Indices: 55046339--55046420 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 43
55046329 GGTATGACAA
*
55046339 GATCACCACATGCCCCAATCTGAT-CAAAATTTGAGCTGCTTT
1 GATCACCACATGCCCCAATCTGATCCAAAATTTGAACTGCTTT
** * *
55046381 GATCACCTTATGCCCCATTTTGATCCAAAATTTGAACTGC
1 GATCACCACATGCCCCAATCTGATCCAAAATTTGAACTGC
55046421 CCATTCCTGG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 20 0.59
43 14 0.41
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (43 bp):
GATCACCACATGCCCCAATCTGATCCAAAATTTGAACTGCTTT
Found at i:55057202 original size:17 final size:17
Alignment explanation
Indices: 55057161--55057202 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
55057151 AGCAACCATC
55057161 AAAAAAATAAATAAATA
1 AAAAAAATAAATAAATA
* *
55057178 AATAAAATACATAAA-A
1 AAAAAAATAAATAAATA
55057194 AAAACAAAT
1 AAAA-AAAT
55057203 CAAGTATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAAAAATAAATAAATA
Found at i:55057502 original size:36 final size:32
Alignment explanation
Indices: 55057423--55057491 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
55057413 TGCATATATC
55057423 TAAAAATATGTAGTTATATATATAAATTATAG
1 TAAAAATATGTAGTTATATATATAAATTATAG
55057455 TAAAAATATGTAGTTATATATATAAATTATAG
1 TAAAAATATGTAGTTATATATATAAATTATAG
*
55057487 GAAAA
1 TAAAA
55057492 TAAAAAATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (32 bp):
TAAAAATATGTAGTTATATATATAAATTATAG
Found at i:55057505 original size:32 final size:32
Alignment explanation
Indices: 55057436--55057505 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
55057426 AAATATGTAG
*** *
55057436 TTATATATATAAATTATAGTAAAAATATGTAG
1 TTATATATATAAATTATAGTAAAAATAAAAAA
*
55057468 TTATATATATAAATTATAG-GAAAATAAAAAA
1 TTATATATATAAATTATAGTAAAAATAAAAAA
55057499 TGTATAT
1 T-TATAT
55057506 GAAAATTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 8 0.25
32 24 0.75
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.39
Consensus pattern (32 bp):
TTATATATATAAATTATAGTAAAAATAAAAAA
Found at i:55067989 original size:28 final size:28
Alignment explanation
Indices: 55067931--55067991 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
55067921 AAAGTTTTCA
* *
55067931 TTTTTTTATTTTTTTCATCATTTGAAAT
1 TTTTTTTATTTTTTTAATCATTTCAAAT
*
55067959 TTTTTTTATTTTATTTAAT-ATTTC-CAT
1 TTTTTTTATTTT-TTTAATCATTTCAAAT
55067986 TTTTTT
1 TTTTTT
55067992 AGGATTTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 8 0.28
28 16 0.55
29 5 0.17
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.72
Consensus pattern (28 bp):
TTTTTTTATTTTTTTAATCATTTCAAAT
Found at i:55075025 original size:16 final size:16
Alignment explanation
Indices: 55075001--55075037 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
55074991 TCAGGACAGT
*
55075001 AGTTTAAATTCTGAAA
1 AGTTAAAATTCTGAAA
*
55075017 AGTTAAAATTTTGAAA
1 AGTTAAAATTCTGAAA
55075033 AGTTA
1 AGTTA
55075038 CGCATTAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.38
Consensus pattern (16 bp):
AGTTAAAATTCTGAAA
Found at i:55081040 original size:21 final size:21
Alignment explanation
Indices: 55081016--55081102 Score: 88
Period size: 22 Copynumber: 4.1 Consensus size: 21
55081006 TTTTTTGCGC
55081016 TTTTTT-GCTTTTTGCTTTTT
1 TTTTTTCGCTTTTTGCTTTTT
* *
55081036 TTTTTTGCGCTTTTTACTCTTT
1 TTTTTT-CGCTTTTTGCTTTTT
* * *
55081058 TTTTTGCGCTTTTTAC-TCTT
1 TTTTTTCGCTTTTTGCTTTTT
*
55081078 TTTTTGCGCTTTTTTGCTTTTT
1 TTTTTTCGC-TTTTTGCTTTTT
55081100 TTT
1 TTT
55081103 GTTTTTTTTG
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
20 17 0.30
21 16 0.29
22 23 0.41
ACGTcount: A:0.02, C:0.15, G:0.10, T:0.72
Consensus pattern (21 bp):
TTTTTTCGCTTTTTGCTTTTT
Found at i:55081128 original size:19 final size:19
Alignment explanation
Indices: 55081087--55081130 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
55081077 TTTTTTGCGC
* *
55081087 TTTTTTGCTTTTTTTTGTT
1 TTTTTTGCTTGTTTTTGTA
55081106 TTTTTTGC-TGTTTTTGCTA
1 TTTTTTGCTTGTTTTTG-TA
55081125 TTTTTT
1 TTTTTT
55081131 TTTGCTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.02, C:0.07, G:0.11, T:0.80
Consensus pattern (19 bp):
TTTTTTGCTTGTTTTTGTA
Found at i:55081139 original size:9 final size:9
Alignment explanation
Indices: 55081075--55081130 Score: 58
Period size: 10 Copynumber: 5.9 Consensus size: 9
55081065 GCTTTTTACT
55081075 CTTTTTTTG
1 CTTTTTTTG
*
55081084 CGCTTTTTTG
1 C-TTTTTTTG
55081094 CTTTTTTTTG
1 C-TTTTTTTG
*
55081104 TTTTTTTTG
1 CTTTTTTTG
*
55081113 CTGTTTTTG
1 CTTTTTTTG
55081122 CTATTTTTT
1 CT-TTTTTT
55081131 TTTGCTTTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
9 18 0.47
10 20 0.53
ACGTcount: A:0.02, C:0.11, G:0.12, T:0.75
Consensus pattern (9 bp):
CTTTTTTTG
Found at i:55081139 original size:20 final size:20
Alignment explanation
Indices: 55081016--55081120 Score: 79
Period size: 21 Copynumber: 5.1 Consensus size: 20
55081006 TTTTTTGCGC
*
55081016 TTTTTTGCTTTTTGCTTTTT
1 TTTTTTGCTTTTTGCTCTTT
*
55081036 TTTTTTGCGCTTTTTACTCTTT
1 TTTTTT--GCTTTTTGCTCTTT
* *
55081058 TTTTTGCGCTTTTTACTCTTT
1 TTTTT-TGCTTTTTGCTCTTT
**
55081079 TTTTGCGCTTTTTTGCT-TTT
1 TTTTTTGC-TTTTTGCTCTTT
* *
55081099 TTTTGTT-TTTTTTGCTGTTT
1 TTTT-TTGCTTTTTGCTCTTT
55081119 TT
1 TT
55081121 GCTATTTTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
19 8 0.11
20 21 0.30
21 25 0.35
22 17 0.24
ACGTcount: A:0.02, C:0.13, G:0.11, T:0.73
Consensus pattern (20 bp):
TTTTTTGCTTTTTGCTCTTT
Found at i:55088638 original size:16 final size:16
Alignment explanation
Indices: 55088617--55088647 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55088607 TTCACTATTA
*
55088617 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
55088633 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
55088648 GCATGCATAG
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:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:55089758 original size:34 final size:34
Alignment explanation
Indices: 55089720--55089802 Score: 121
Period size: 34 Copynumber: 2.4 Consensus size: 34
55089710 GAATTTTCTT
*
55089720 GAAAAATTATTTTGGAAAATCTAAATGATTTTAA
1 GAAAAATTATTTTGGAAAATCTAAATGAATTTAA
* *
55089754 GAAAAATTAATTTGGAAAATCTAAGTGAATTTAA
1 GAAAAATTATTTTGGAAAATCTAAATGAATTTAA
*
55089788 GAAAATTTAATTTTG
1 GAAAAATT-ATTTTG
55089803 ATGAAGTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 38 0.88
35 5 0.12
ACGTcount: A:0.47, C:0.02, G:0.13, T:0.37
Consensus pattern (34 bp):
GAAAAATTATTTTGGAAAATCTAAATGAATTTAA
Found at i:55090274 original size:12 final size:12
Alignment explanation
Indices: 55090240--55090345 Score: 50
Period size: 12 Copynumber: 9.2 Consensus size: 12
55090230 ATTCCAAAAA
*
55090240 TAATA-TTATTT
1 TAATATTTAATT
55090251 TAATAGTTTAATAT
1 TAATA-TTTAAT-T
55090265 TAA-ATTTAATT
1 TAATATTTAATT
55090276 TAATATTT-ATCT
1 TAATATTTAAT-T
*
55090288 TAATA-GT-ATT
1 TAATATTTAATT
55090298 T--TA-TTAATT
1 TAATATTTAATT
* *
55090307 TAATATTAAAGT
1 TAATATTTAATT
* *
55090319 GATTATCTTAATAT
1 TAATAT-TTAAT-T
55090333 TAA-ATTTAATT
1 TAATATTTAATT
55090344 TA
1 TA
55090346 TTGTTTATCT
Statistics
Matches: 73, Mismatches: 11, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
8 3 0.04
9 4 0.05
10 2 0.03
11 19 0.26
12 29 0.40
13 10 0.14
14 6 0.08
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (12 bp):
TAATATTTAATT
Found at i:55090293 original size:37 final size:36
Alignment explanation
Indices: 55090240--55090331 Score: 98
Period size: 37 Copynumber: 2.4 Consensus size: 36
55090230 ATTCCAAAAA
*
55090240 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
55090276 TAATATTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
55090313 TAAAGTGATTATCTTAATA
1 T-AA-T-ATTATCTTAATA
55090332 TTAAATTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
36 13 0.27
37 18 0.38
38 4 0.08
39 12 0.25
40 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:55090315 original size:11 final size:11
Alignment explanation
Indices: 55090240--55090315 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
55090230 ATTCCAAAAA
*
55090240 TAATATTATTT
1 TAATATTAATT
55090251 TAATAGTTTAATAT
1 TAATA--TTAAT-T
55090265 TAA-ATTTAATT
1 TAATA-TTAATT
*
55090276 TAATATTTATCT
1 TAATATTAAT-T
*
55090288 TAATAGT-ATT
1 TAATATTAATT
55090298 T--TATTAATT
1 TAATATTAATT
55090307 TAATATTAA
1 TAATATTAA
55090316 AGTGATTATC
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 14 0.26
13 5 0.09
14 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:55090335 original size:68 final size:65
Alignment explanation
Indices: 55090257--55090454 Score: 192
Period size: 68 Copynumber: 3.0 Consensus size: 65
55090247 ATTTTAATAG
55090257 TTTAATATTAAATTTAATTTAATATTTATCTTAATAGTATTTTATTAATTTAATATTAAAGTGAT
1 TTTAATATTAAATTTAATTTAATATTTATCTT-ATAGTA-TTTATTAATTTAATATTAAAGTGAT
55090322 TA
64 TA
* * * * * *
55090324 TCTTAATATTAAATTTAATTTATTGTTTATCTTGTAG-A--TA-AACATTCTATTATTTTAA-T-
1 T-TTAATATTAAATTTAATTTAATATTTATCTTATAGTATTTATTA-ATT-TAATA-TTAAAGTG
*
55090383 AATA
62 ATTA
* *
55090387 TTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATATTAAAGTGA
1 TTTAATATTAAATTTAATTTAATATTTATCTT-AT-AGTATT-TATTAATTTAATATTAAAGTGA
55090452 TTA
63 TTA
55090455 AGTTTGATCA
Statistics
Matches: 102, Mismatches: 16, Indels: 25
0.71 0.11 0.17
Matches are distributed among these distances:
62 29 0.28
63 10 0.10
64 6 0.06
65 5 0.05
66 5 0.05
67 9 0.09
68 37 0.36
69 1 0.01
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.52
Consensus pattern (65 bp):
TTTAATATTAAATTTAATTTAATATTTATCTTATAGTATTTATTAATTTAATATTAAAGTGATTA
Found at i:55099436 original size:32 final size:30
Alignment explanation
Indices: 55099390--55099553 Score: 159
Period size: 30 Copynumber: 5.3 Consensus size: 30
55099380 TATGTTGTCA
* *
55099390 AATTGATTTGTATATAGATATATATATTGCCG
1 AATTGATTTGTATAT-G-GATATACATTGCCG
* * * * **
55099422 AATTAATTTATATATAGATATATAAATAACCG
1 AATTGATTTGTATAT-G-GATATACATTGCCG
**
55099454 AATTGATTTGTATATGGATATACATTGCTA
1 AATTGATTTGTATATGGATATACATTGCCG
*
55099484 AATT-ATTTTGTATATGGATATACATTGCTG
1 AATTGA-TTTGTATATGGATATACATTGCCG
*
55099514 AATTGATTTGTATATGGATATATATTGCCG
1 AATTGATTTGTATATGGATATACATTGCCG
*
55099544 AATTTATTTG
1 AATTGATTTG
55099554 AGCATTGGAT
Statistics
Matches: 113, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
29 1 0.01
30 70 0.62
31 2 0.02
32 40 0.35
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (30 bp):
AATTGATTTGTATATGGATATACATTGCCG
Found at i:55100783 original size:31 final size:31
Alignment explanation
Indices: 55100745--55100807 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
55100735 TGACATATTT
55100745 ATATATTGTGATAGTGTGATGAATTCTTGAC
1 ATATATTGTGATAGTGTGATGAATTCTTGAC
55100776 ATATATTGTGATAGTGTGATGAATTCTTGAC
1 ATATATTGTGATAGTGTGATGAATTCTTGAC
55100807 A
1 A
55100808 ATTCAAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.06, G:0.22, T:0.41
Consensus pattern (31 bp):
ATATATTGTGATAGTGTGATGAATTCTTGAC
Found at i:55105135 original size:16 final size:16
Alignment explanation
Indices: 55105116--55105175 Score: 104
Period size: 16 Copynumber: 3.8 Consensus size: 16
55105106 TGTATTGGAT
55105116 TAGAGGTGTAA-TGTAA
1 TAGAGGTGTAATTG-AA
55105132 TAGAGGTGTAATTGAA
1 TAGAGGTGTAATTGAA
55105148 TAGAGGTGTAATTGAA
1 TAGAGGTGTAATTGAA
55105164 TAGAGGTGTAAT
1 TAGAGGTGTAAT
55105176 AGCAAATCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 41 0.95
17 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.32, T:0.32
Consensus pattern (16 bp):
TAGAGGTGTAATTGAA
Found at i:55105211 original size:45 final size:41
Alignment explanation
Indices: 55105154--55105263 Score: 107
Period size: 45 Copynumber: 2.6 Consensus size: 41
55105144 TGAATAGAGG
*
55105154 TGTAATTGAATAGAGGTGTAATAGCAAATCAACTATTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTATTTGG-T
** * ***
55105196 GAATGTAATGGAATAGAGACGTAATAG-TAATCTTGTATTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTATTTGGT
55105239 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
55105264 TAATGGAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
39 19 0.35
40 2 0.04
43 1 0.02
44 11 0.20
45 21 0.39
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.33
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTATTTGGT
Found at i:55105426 original size:16 final size:16
Alignment explanation
Indices: 55105389--55105430 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
55105379 TTAATCATAT
*
55105389 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
55105405 TT-AAATATATTATAA
1 TTAAAATATATTATAA
55105420 TTAAAATATAT
1 TTAAAATATAT
55105431 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:55105437 original size:14 final size:15
Alignment explanation
Indices: 55105398--55105439 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
55105388 TTTAAACATA
*
55105398 ATTATTATTAAATAT
1 ATTATAATTAAATAT
55105413 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
55105427 A-TATAATTTAATA
1 ATTATAATTAAATA
55105440 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:55105511 original size:107 final size:108
Alignment explanation
Indices: 55105387--55105597 Score: 397
Period size: 107 Copynumber: 2.0 Consensus size: 108
55105377 ATTTAATCAT
55105387 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
55105452 ATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
55105495 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
55105559 ATCAATATTCTTATATGAATTTACTAAAATCATAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATA
55105598 TAATACTATA
Statistics
Matches: 101, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
107 97 0.96
108 4 0.04
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (108 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
Found at i:55105535 original size:16 final size:16
Alignment explanation
Indices: 55105492--55105537 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
55105482 CATAATATAG
*
55105492 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
55105508 ATTATT-AAATATATT
1 ATAATTAAAATATATT
55105523 ATAATTAAAATATAT
1 ATAATTAAAATATAT
55105538 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:55105544 original size:14 final size:15
Alignment explanation
Indices: 55105492--55105546 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
55105482 CATAATATAG
55105492 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
55105508 ATTATTAAATATATT
1 ATAATTAAATATATT
55105523 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
55105536 ATAATTTAATA
1 ATAATTAAATA
55105547 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:55105595 original size:37 final size:35
Alignment explanation
Indices: 55105426--55105595 Score: 100
Period size: 37 Copynumber: 4.7 Consensus size: 35
55105416 ATAATTAAAA
*
55105426 TATATAATTTAATAAAATTCTTAATAATTAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
* *
55105463 TATATGAATTTACTCAAATCATAAT-A-TAGATAATTT
1 TATAT-AATTTAATAAAATCATAATAATTA-AT-ATTT
* * * * *
55105499 AACATAATTATTATTAAATAT-ATTATAATTAA-A--A
1 TATATAA-T-TTAATAAA-ATCATAATAATTAATATTT
* *
55105533 TATATAATTTAATAAAATTCTTAATAATCAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
*
55105570 TATATGAATTTACTAAAATCATAATA
1 TATAT-AATTTAATAAAATCATAATA
55105596 TATAATACTA
Statistics
Matches: 100, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
31 1 0.01
32 8 0.08
33 9 0.09
34 6 0.06
35 4 0.04
36 9 0.09
37 36 0.36
38 25 0.25
39 2 0.02
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (35 bp):
TATATAATTTAATAAAATCATAATAATTAATATTT
Done.