Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002907.1 Hibiscus syriacus cultivar Beakdansim tig00006007_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: 93715
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:8488 original size:19 final size:19
Alignment explanation
Indices: 8464--8500 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8454 TAACCATTAA
8464 ATCATTGAAAGAAACACAG
1 ATCATTGAAAGAAACACAG
*
8483 ATCATTGAAAGAAGCACA
1 ATCATTGAAAGAAACACA
8501 AAAAAGAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.16
Consensus pattern (19 bp):
ATCATTGAAAGAAACACAG
Found at i:8910 original size:18 final size:18
Alignment explanation
Indices: 8884--8928 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
8874 TCACGGAATG
*
8884 TAAGATTACCGGTGGGAA
1 TAAGATTACCGGCGGGAA
*
8902 TAGGATTACCGGCGGGAA
1 TAAGATTACCGGCGGGAA
8920 TAAGATTAC
1 TAAGATTAC
8929 TGGGAATGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.22
Consensus pattern (18 bp):
TAAGATTACCGGCGGGAA
Found at i:10596 original size:25 final size:27
Alignment explanation
Indices: 10567--10624 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 27
10557 TAAAACAGTT
*
10567 ATAATAATGATAAATCAACTATT-TTTTA
1 ATAATAAT-A-AAATCAACTATTACTTTA
*
10595 AT-ATAATAAAATCAATTATTACTTTA
1 ATAATAATAAAATCAACTATTACTTTA
10621 ATAA
1 ATAA
10625 GAGGTTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 11 0.42
26 7 0.27
27 6 0.23
28 2 0.08
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (27 bp):
ATAATAATAAAATCAACTATTACTTTA
Found at i:11204 original size:13 final size:14
Alignment explanation
Indices: 11186--11220 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
11176 TTGGAGGAAG
11186 TTTTTTT-ATTAAA
1 TTTTTTTAATTAAA
11199 TTTTTTTAATTAAA
1 TTTTTTTAATTAAA
11213 TTTATTTT
1 TTT-TTTT
11221 CTATCCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 9 0.45
15 4 0.20
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTTTTAATTAAA
Found at i:12276 original size:19 final size:18
Alignment explanation
Indices: 12248--12283 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
12238 AAATGACCAA
*
12248 ATAATCGCAATGCGATCG
1 ATAATCGCAACGCGATCG
12266 ATAATTCGCAACGCGATC
1 ATAA-TCGCAACGCGATC
12284 TCCGGTATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.22
Consensus pattern (18 bp):
ATAATCGCAACGCGATCG
Found at i:12393 original size:42 final size:42
Alignment explanation
Indices: 12340--12589 Score: 341
Period size: 42 Copynumber: 6.0 Consensus size: 42
12330 ACTATCGCAA
*
12340 TGCGA-TT-TTCCAAATTCGTTGCGATAGTCCAAGTTCGTGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
*
12380 TGTGATTTATTCCAAA----TTGCGATAGTCCAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
* *
12418 TGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
* * *
12460 TGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCTCGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
* *
12502 TGCGATTTATTCCAAATTCGTTGCGACAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
* *
12544 TGCGATTTATTCCAAGTTCGTTGCGATTTATTCCAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGTTGCGA--TAGTCCAAGTTCGCGT
12588 TG
1 TG
12590 TGATAGTCCA
Statistics
Matches: 189, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
38 35 0.19
40 4 0.02
41 2 0.01
42 133 0.70
44 15 0.08
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (42 bp):
TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
Found at i:12422 original size:21 final size:21
Alignment explanation
Indices: 12396--12600 Score: 158
Period size: 21 Copynumber: 9.7 Consensus size: 21
12386 TTATTCCAAA
12396 TTGCGA-TAGTCCAAGTTCGCG
1 TTGCGATTAGTCCAAGTTC-CG
*
12417 TTGCGATTTATTCCAAGTT-CG
1 TTGCGA-TTAGTCCAAGTTCCG
*
12438 TTGCGA-TAGTCGAAGTTCGCG
1 TTGCGATTAGTCCAAGTTC-CG
*
12459 TTGCGATTTATTCCAAGTT-CG
1 TTGCGA-TTAGTCCAAGTTCCG
*
12480 TTGCGA-TAGTCGAAGTTCTCG
1 TTGCGATTAGTCCAAGTTC-CG
* *
12501 TTGCGATTTATTCCAAATT-CG
1 TTGCGA-TTAGTCCAAGTTCCG
* *
12522 TTGCGA-CAGTCGAAGTTCGCG
1 TTGCGATTAGTCCAAGTTC-CG
*
12543 TTGCGATTTATTCCAAGTT-CG
1 TTGCGA-TTAGTCCAAGTTCCG
*
12564 TTGCGATTTATTCCAAGTTCGCG
1 TTGCGA-TTAGTCCAAGTTC-CG
*
12587 TTGTGA-TAGTCCAA
1 TTGCGATTAGTCCAA
12601 AATCGCAACG
Statistics
Matches: 149, Mismatches: 19, Indels: 32
0.75 0.09 0.16
Matches are distributed among these distances:
19 25 0.17
21 82 0.55
23 42 0.28
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (21 bp):
TTGCGATTAGTCCAAGTTCCG
Found at i:13488 original size:21 final size:21
Alignment explanation
Indices: 13438--13616 Score: 172
Period size: 21 Copynumber: 8.7 Consensus size: 21
13428 CGTTGCGATT
*
13438 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
**
13457 TTGGAAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
* *
13478 TTCGACTATCGCAACACGAAC
1 TTGGACTATCGCAACGCGAAC
* * *
13499 TTGGGCTATCGCAA--CAAAT
1 TTGGACTATCGCAACGCGAAC
*
13518 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
* *
13541 TTGGACTATAGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
**
13560 TTGGAAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
*
13581 TTCGACTATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
13602 TTGGACTATCGCAAC
1 TTGGACTATCGCAAC
13617 AAATTTGGAA
Statistics
Matches: 126, Mismatches: 26, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
19 35 0.28
21 82 0.65
23 9 0.07
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.21
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:13558 original size:61 final size:61
Alignment explanation
Indices: 13438--13625 Score: 204
Period size: 61 Copynumber: 3.1 Consensus size: 61
13428 CGTTGCGATT
*
13438 TTGGACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTCGACTATCGCAACACGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGC-A-ACGAAC
* * * *
13499 TTGGGCTATCGCAACAAATTTGGAATAAATCGCAACGCGAACTTGGACTATAGCAACGAAT
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAAC
** * * * * *
13560 TTGGAAAATCGCAACGCGAACTTCGACT--ATCGCAACGCGAACTTGGACTATCGCAACAAAT
1 TTGGACTATCGCAA--CGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAAC
13621 TTGGA
1 TTGGA
13626 AAATCGCATT
Statistics
Matches: 109, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
61 73 0.67
62 2 0.02
63 34 0.31
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (61 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAAC
Found at i:13563 original size:103 final size:101
Alignment explanation
Indices: 13438--13633 Score: 347
Period size: 103 Copynumber: 1.9 Consensus size: 101
13428 CGTTGCGATT
*
13438 TTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACACGAACTTGG
1 TTGGACTATAGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACACGAACTTGG
*
13503 GCTATCGCAACAAATTTGGAATAAATCGCAACGCGAAC
66 ACTATCGCAACAAATTTGG-A-AAATCGCAACGCGAAC
*
13541 TTGGACTATAGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTGG
1 TTGGACTATAGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACACGAACTTGG
13606 ACTATCGCAACAAATTTGGAAAATCGCA
66 ACTATCGCAACAAATTTGGAAAATCGCA
13634 TTGCGATAGT
Statistics
Matches: 90, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
101 8 0.09
102 1 0.01
103 81 0.90
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.21
Consensus pattern (101 bp):
TTGGACTATAGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACACGAACTTGG
ACTATCGCAACAAATTTGGAAAATCGCAACGCGAAC
Found at i:13658 original size:21 final size:21
Alignment explanation
Indices: 13629--13678 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
13619 ATTTGGAAAA
*
13629 TCGCATTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCGAAGT
13650 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCGAAGT
13671 TCGCGTTG
1 TCGCGTTG
13679 TGAATCTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCGAAGT
Found at i:13922 original size:15 final size:15
Alignment explanation
Indices: 13884--13923 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
13874 GATAATCATT
*
13884 TATATATTTTTAAAA
1 TATAAATTTTTAAAA
*
13899 TATACATTTTTAAAA
1 TATAAATTTTTAAAA
*
13914 TTTAAATTTT
1 TATAAATTTT
13924 AAACTGTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TATAAATTTTTAAAA
Found at i:14005 original size:29 final size:28
Alignment explanation
Indices: 13911--14017 Score: 92
Period size: 29 Copynumber: 3.8 Consensus size: 28
13901 TACATTTTTA
* *
13911 AAATT-TAAATTTTAAACTGTAAACTAT
1 AAATTATAAATTTTAAAATATAAACTAT
* * *
13938 AAATTATGAAATTCT-AAATACTAATCTTT
1 AAATTAT-AAATTTTAAAATA-TAAACTAT
**
13967 GTATTAATAAATTTTAAAATATAAACTAT
1 AAATT-ATAAATTTTAAAATATAAACTAT
*
13996 AAACTTATAAATATTAAAATAT
1 AAA-TTATAAATTTTAAAATAT
14018 TTGTAACTAC
Statistics
Matches: 61, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
27 5 0.08
28 4 0.07
29 43 0.70
30 9 0.15
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (28 bp):
AAATTATAAATTTTAAAATATAAACTAT
Found at i:14393 original size:6 final size:6
Alignment explanation
Indices: 14382--14408 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
14372 ACATGTATAT
14382 TGTTGA TGTTGA TGTTGA TGTTGA TGT
1 TGTTGA TGTTGA TGTTGA TGTTGA TGT
14409 ATGTATGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (6 bp):
TGTTGA
Found at i:15907 original size:15 final size:15
Alignment explanation
Indices: 15869--15908 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
15859 GATAATCATT
*
15869 TATATATTTTTAAAA
1 TATAAATTTTTAAAA
*
15884 TATACATTTTTAAAA
1 TATAAATTTTTAAAA
*
15899 TTTAAATTTT
1 TATAAATTTT
15909 AAACTGCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TATAAATTTTTAAAA
Found at i:30095 original size:37 final size:36
Alignment explanation
Indices: 30026--30110 Score: 104
Period size: 37 Copynumber: 2.3 Consensus size: 36
30016 ATTTGGTTTG
30026 AAAAATATATA-TTTTTATATGAATTGAATTAATCT
1 AAAAATATATATTTTTTATATGAATTGAATTAATCT
*
30061 AAAAATTATATATTTTTTAT-TCG-ATTTAATTTAATCT
1 AAAAA-TATATATTTTTTATAT-GAATTGAA-TTAATCT
30098 AAAAAATATATAT
1 -AAAAATATATAT
30111 CGTATTAGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
35 5 0.11
36 12 0.27
37 22 0.50
38 5 0.11
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (36 bp):
AAAAATATATATTTTTTATATGAATTGAATTAATCT
Found at i:40745 original size:65 final size:65
Alignment explanation
Indices: 40609--40771 Score: 213
Period size: 65 Copynumber: 2.5 Consensus size: 65
40599 CGGTGCACCA
*
40609 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGGGGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGGGCATCGATGCATGG
** * * ** *
40673 CTTGTGCATCGATGCATCAAATACATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAG-GGGCATCGATGCATG
40737 G
65 G
* *
40738 AGTGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
40772 CAATTAATTC
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
64 36 0.43
65 47 0.57
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (65 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGGGCATCGATGCATGG
Found at i:41011 original size:20 final size:21
Alignment explanation
Indices: 40988--41027 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
40978 GAATCGAATA
40988 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATAT-TAAAATTCATTTG
41008 TAAAATATTAAAATTCATTT
1 TAAAATATTAAAATTCATTT
41028 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATATTAAAATTCATTTG
Found at i:47268 original size:22 final size:21
Alignment explanation
Indices: 47226--47265 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
47216 GAGTTTGTTT
*
47226 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
47247 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
47266 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:49351 original size:65 final size:65
Alignment explanation
Indices: 49215--49377 Score: 222
Period size: 65 Copynumber: 2.5 Consensus size: 65
49205 CGGTGCACCA
*
49215 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGG
** * * **
49279 CTTGTGCATCGATGCATCAAATACATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAG-GTGCATCGATGCATG
49343 G
65 G
* *
49344 AGTGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
49378 CAATTAATTC
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 36 0.43
65 48 0.57
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (65 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGG
Found at i:49617 original size:20 final size:21
Alignment explanation
Indices: 49594--49633 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
49584 GAATCGAATA
49594 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATAT-TAAAATTCATTTG
49614 TAAAATATTAAAATTCATTT
1 TAAAATATTAAAATTCATTT
49634 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATATTAAAATTCATTTG
Found at i:58493 original size:78 final size:76
Alignment explanation
Indices: 58380--58574 Score: 209
Period size: 78 Copynumber: 2.6 Consensus size: 76
58370 ATAGTAATAC
*
58380 AGTTTTTGAAAATGTTTTGACAAA-ATATA-ATGTATA-AGTTTCAGAAAAACGATTTTCGAAAA
1 AGTTTTTGAAAACGTTTTGA-AAATATATATA-GTATATAGTTT-AGAAAAA-GATTTT-GAAAA
*
58442 TAAGTATATATTATAT
61 CAAGTATATATTATAT
* * * * * **
58458 AGTTTTTGAAAACGTTTTTAAAATCTATATAGTATATGGTTTTGAAAAATATTTTGAAAACATTT
1 AGTTTTTGAAAACGTTTTGAAAATATATATAGTATATAGTTTAGAAAAAGATTTTGAAAACAAGT
58523 ATATATTATAT
66 ATATATTATAT
* * *
58534 AGTTTTT-AAAACATTTTGAAAGTATATATAATATATAGTTT
1 AGTTTTTGAAAACGTTTTGAAAATATATATAGTATATAGTTT
58575 TTAAAACATT
Statistics
Matches: 99, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
75 28 0.28
76 25 0.25
77 8 0.08
78 33 0.33
79 5 0.05
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (76 bp):
AGTTTTTGAAAACGTTTTGAAAATATATATAGTATATAGTTTAGAAAAAGATTTTGAAAACAAGT
ATATATTATAT
Found at i:58569 original size:36 final size:36
Alignment explanation
Indices: 58425--58685 Score: 216
Period size: 36 Copynumber: 7.2 Consensus size: 36
58415 AAGTTTCAGA
*
58425 AAAACGATTTTCGAAAATAAGTATATATTATATAGTTTTT
1 AAAAC-ATTTT-GAAAAT-A-TATATAATATATAGTTTTT
* * * * * *
58465 GAAAACGTTTTTAAAATCTATATAGTATATGGTTTTGA
1 -AAAACATTTTGAAAATATATATAATATATAGTTTT-T
* * *
58503 AAAATATTTTGAAAACATTTATATATTATATAGTTTTT
1 AAAACATTTTG-AAA-ATATATATAATATATAGTTTTT
*
58541 AAAACATTTTGAAAGTATATATAATATATAGTTTTT
1 AAAACATTTTGAAAATATATATAATATATAGTTTTT
*
58577 AAAACATTTT-AAAA-ACATAT-AT-TATA-----T
1 AAAACATTTTGAAAATATATATAATATATAGTTTTT
* *
58604 AAAACATTTTTGAAAACATTTATATATTATATAGTTTTT
1 AAAACA-TTTTG-AAA-ATATATATAATATATAGTTTTT
* *
58643 AAAACATTTTGAAAGTATATATAATATATAGTTTTA
1 AAAACATTTTGAAAATATATATAATATATAGTTTTT
58679 AAAACAT
1 AAAACAT
58686 ATATTATATA
Statistics
Matches: 179, Mismatches: 26, Indels: 35
0.75 0.11 0.15
Matches are distributed among these distances:
27 7 0.04
28 4 0.02
30 3 0.02
31 1 0.01
32 8 0.04
33 3 0.02
34 9 0.05
35 3 0.02
36 54 0.30
37 30 0.17
38 18 0.10
39 30 0.17
40 4 0.02
41 5 0.03
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (36 bp):
AAAACATTTTGAAAATATATATAATATATAGTTTTT
Found at i:58596 original size:27 final size:28
Alignment explanation
Indices: 58576--58705 Score: 86
Period size: 28 Copynumber: 4.4 Consensus size: 28
58566 ATATAGTTTT
58576 TAAAACA-TTTTAAAAACATATATTATA
1 TAAAACATTTTTAAAAACATATATTATA
* *
58603 TAAAACATTTTTGAAAACATTTA-TATA
1 TAAAACATTTTTAAAAACATATATTATA
* * * *
58630 TTATATAGTTTTT-AAAACATTTTGAAAGTATATA
1 TAAAACA-TTTTTAAAAACA---T-ATA-T-TATA
* *
58664 TAATATATAGTTTTAAAAACATATATTATA
1 TAA-A-ACATTTTTAAAAACATATATTATA
58694 TAAAACATTTTT
1 TAAAACATTTTT
58706 TTGAAATCTT
Statistics
Matches: 78, Mismatches: 13, Indels: 23
0.68 0.11 0.20
Matches are distributed among these distances:
27 21 0.27
28 24 0.31
29 1 0.01
30 8 0.10
31 2 0.03
32 2 0.03
33 1 0.01
34 6 0.08
35 4 0.05
36 9 0.12
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (28 bp):
TAAAACATTTTTAAAAACATATATTATA
Found at i:58695 original size:66 final size:66
Alignment explanation
Indices: 58558--58685 Score: 163
Period size: 66 Copynumber: 2.0 Consensus size: 66
58548 TTTGAAAGTA
* *
58558 TATATAATATATAGTTTTTAAAACATTTTAAAAACATATATTATATAAAACATTTTTGAAAACAT
1 TATATAATATATAGTTTTTAAAACATTTTAAAAACATATATTATATAAAACAGTTTTAAAAACAT
58623 T
66 T
* * ** * *
58624 TATATATTATATAGTTTTTAAAACATTTTGAAAGTATATA-TA-AT-ATATAGTTTTAAAAACAT
1 TATATAATATATAGTTTTTAAAACATTTTAAAAACATATATTATATAAAACAGTTTTAAAAACAT
58686 ATATTATATA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
63 14 0.26
64 2 0.04
65 2 0.04
66 36 0.67
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (66 bp):
TATATAATATATAGTTTTTAAAACATTTTAAAAACATATATTATATAAAACAGTTTTAAAAACAT
T
Found at i:58746 original size:161 final size:157
Alignment explanation
Indices: 58556--58846 Score: 360
Period size: 159 Copynumber: 1.8 Consensus size: 157
58546 ATTTTGAAAG
*
58556 TATATATAATATATAGTTTTTAAAACA-TTTTAAAAAC-ATAT-ATTATAT-AAAACAT-TTTTG
1 TATATATAATATATAATTTTTAAAACATTTTTAAAAACTATATAATT-T-TGAAAACATCTTTT-
* * * ** *
58616 AAAACATTTATATATTATATAGTTTTTAAAACATTTTGAAAGTATATATAATATATAGTTTTA-A
63 AAAA-A-GTATATAATATATAATTTCAAAAACATTTTGAAA-T-TATATAATATATAGGTTTAGA
58680 AAACATATATTATATAAAACATTTTTTTGAAATCT
124 AAA-ATATATTATATAAAACATTTTTTTGAAATCT
*
58715 TATATATAATATATAATTTTCTAAAAACATTTTTGAAAACTATATAATTTTGAAAACATCTTTTA
1 TATATATAATATATAATTTT-T-AAAACATTTTTAAAAACTATATAATTTTGAAAACATCTTTTA
* *
58780 AAAAGTATATAATATATAATTTCAAAAATATTTTGAAATTATATATTATATAGGTTTAGAAAAAT
64 AAAAGTATATAATATATAATTTCAAAAACATTTTGAAATTATATAATATATAGGTTTAGAAAAAT
58845 AT
129 AT
58847 TTTTTTATAT
Statistics
Matches: 114, Mismatches: 10, Indels: 16
0.81 0.07 0.11
Matches are distributed among these distances:
159 40 0.35
160 6 0.05
161 34 0.30
162 11 0.10
163 16 0.14
164 7 0.06
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (157 bp):
TATATATAATATATAATTTTTAAAACATTTTTAAAAACTATATAATTTTGAAAACATCTTTTAAA
AAGTATATAATATATAATTTCAAAAACATTTTGAAATTATATAATATATAGGTTTAGAAAAATAT
ATTATATAAAACATTTTTTTGAAATCT
Found at i:58762 original size:31 final size:31
Alignment explanation
Indices: 58724--58792 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
58714 TTATATATAA
*
58724 TATATAATTTTCTAAAAACAT-TTTTGAAAAC
1 TATATAATTTT-TAAAAACATCTTTTAAAAAC
* *
58755 TATATAA-TTTTGAAAACATCTTTTAAAAAG
1 TATATAATTTTTAAAAACATCTTTTAAAAAC
58785 TATATAAT
1 TATATAAT
58793 ATATAATTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.24
30 18 0.55
31 7 0.21
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.42
Consensus pattern (31 bp):
TATATAATTTTTAAAAACATCTTTTAAAAAC
Found at i:60150 original size:19 final size:18
Alignment explanation
Indices: 60123--60158 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
60113 ACCCTTTACT
*
60123 TTTTGTTTTATTCATTTTA
1 TTTTCTTTTATT-ATTTTA
60142 TTTTCTTTTATTATTTT
1 TTTTCTTTTATTATTTT
60159 CTTGTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTCTTTTATTATTTTA
Found at i:60157 original size:13 final size:13
Alignment explanation
Indices: 60139--60182 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
60129 TTTATTCATT
60139 TTATTTTCTTTTA
1 TTATTTTCTTTTA
*
60152 TTATTTTCTTGTA
1 TTATTTTCTTTTA
60165 TTATTTT-TGTTTA
1 TTATTTTCT-TTTA
60178 TTATT
1 TTATT
60183 ATTATTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 1 0.04
13 27 0.96
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.75
Consensus pattern (13 bp):
TTATTTTCTTTTA
Found at i:60192 original size:26 final size:26
Alignment explanation
Indices: 60138--60199 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 26
60128 TTTTATTCAT
*
60138 TTTATTTTCTTTTATTATTTTCTTGTA
1 TTTATTTT-TTTTATTATTTTATTGTA
60165 -TTATTTTTGTTTATTATTATTATT-TA
1 TTTATTTTT-TTTATTATT-TTATTGTA
60191 TTTATTTTT
1 TTTATTTTT
60200 ACTAACCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 1 0.03
26 18 0.58
27 12 0.39
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (26 bp):
TTTATTTTTTTTATTATTTTATTGTA
Found at i:65649 original size:84 final size:81
Alignment explanation
Indices: 65354--66268 Score: 811
Period size: 84 Copynumber: 11.1 Consensus size: 81
65344 TTTTAAACAA
* * * * * *
65354 ATCATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTATCTGCCACAAAGACCTTCGAGTTCGATTAC
1 ATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG-CACAAAGACCTTCGAGTTCGATTAC
*
65419 GCTCAGCTCCAAGGCAT
65 GCTCAGCTCCAAGGCAC
* * * ** *
65436 ATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATCTGC-CAAAGACCCCCGAGTTCGATTACA
1 ATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCACAAAGACCTTCGAGTTCGATTACG
* * * *
65500 CTCAACTTCGAGGGCAT
66 CTCAGC-TCCAAGGCAC
* * * * *
65517 ATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTA
1 ATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG-CA-CAAAGACCTTCGAGTTCGATTA
*
65582 CGCTCAGCTCCAAGGCAT
64 CGCTCAGCTCCAAGGCAC
* * * * *
65600 ATCATTTGCAGTACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACT
1 ATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG-C-AC-AAAGACCTTCGAGTTCGATT
65665 ACGCTCAGCT-CAACGGCAC
63 ACGCTCAGCTCCAA-GGCAC
* * * *
65684 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGC-CAAAGACCTCCGAGTTCGATTACA
1 ATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCACAAAGACCTTCGAGTTCGATTACG
* * *
65748 CTCAGCTTCGAGGGCAT
66 CTCAGC-TCCAAGGCAC
* * * * *
65765 ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGATCTTCGAGTTCGACTA
1 ATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG-CA-CAAAGACCTTCGAGTTCGATTA
*
65830 CGCTCAGCTCCAAGGCAT
64 CGCTCAGCTCCAAGGCAC
* * *
65848 ATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACC-TCTGAGTTCGAC
1 ATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG-C-AC-AAAGACCTTC-GAGTTCGAT
65912 TACGCTCAGCT-CAACGGCAC
62 TACGCTCAGCTCCAA-GGCAC
* * * * *
65932 ATCATTTGCAGCATAGCTTAAGTCGATAAGGGCTATCTGC-CAAAGA-CTCCCGAGTTCGATTAC
1 ATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCACAAAGACCT-TCGAGTTCGATTAC
* * *
65995 ACTCAGCTTCGAGGGCAC
65 GCTCAGC-TCCAAGGCAC
** * * * * * * *
66013 ATCATTTGCAATATAGCTCAAGGCAAGAAGGGCTATTTGCCAACGAAAGACCTTTGAGTTCGATT
1 ATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG-C-AC-AAAGACCTTCGAGTTCGATT
66078 ACGCTCAGCTCCAAGGCAC
63 ACGCTCAGCTCCAAGGCAC
* * * * * ** * *
66097 ATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTAGCTGC-CAAAGACCCCCGAGTTTGATTACA
1 ATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCACAAAGACCTTCGAGTTCGATTACG
* * *
66161 CTCAGCTTCGAGGGTAC
66 CTCAGC-TCCAAGGCAC
* ** * * * *
66178 ATCATTTACAATATAACTCAAGGCTAGAAGGGTTATCTATCTCCAAAGGACCTTCGAGTTCGATT
1 ATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCT-GC-ACAAA-GACCTTCGAGTTCGATT
* *
66243 ACGCTCAGCTGCGAGGCAC
63 ACGCTCAGCTCCAAGGCAC
66262 ATCATTT
1 ATCATTT
66269 ACAACATAGC
Statistics
Matches: 683, Mismatches: 120, Indels: 58
0.79 0.14 0.07
Matches are distributed among these distances:
79 1 0.00
80 97 0.14
81 161 0.24
82 39 0.06
83 97 0.14
84 241 0.35
85 45 0.07
86 2 0.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (81 bp):
ATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCACAAAGACCTTCGAGTTCGATTACG
CTCAGCTCCAAGGCAC
Found at i:65835 original size:248 final size:246
Alignment explanation
Indices: 65379--66303 Score: 1198
Period size: 248 Copynumber: 3.7 Consensus size: 246
65369 GCTCAAGGCC
* * * * *
65379 AGAAGGGCTATCTGCCACAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAA-GGCATATCATTT
1 AGAAGGGTTGTCTGCCACAAAGACCTCCGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTT
* *
65443 ACAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTT
65 ACAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTCCGAGTTCGATTACACTCAGCTT
* * *
65508 CGAGGGCATATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGA
130 CGAGGGCACATCATTTACAACATAACTCAAGGCAAGAAGGGCTATCTGTCACCAAAGACCTTCGA
65573 GTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGTACAACTTAAGTCT
195 GTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGTACAACTTAAGTCT
**
65625 AGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATT
1 AGAAGGGTTGTCTGCC-AC-AAAGACCTCCGAGTTCGACTACGCTCAGCTCAACGGCACATCATT
*
65690 TGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTCCGAGTTCGATTACACTCAGCT
64 TACAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTCCGAGTTCGATTACACTCAGCT
* * * * *
65755 TCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGATCTTCG
129 TCGAGGGCACATCATTTACAACATAACTCAAGGCAAGAAGGGCTATCTGTCACCAAAGACCTTCG
*
65820 AGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCT
194 AGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGTACAACTTAAGTCT
*
65873 AGAAGGGTTGTCTGCCAACAAAAGACCTCTGAGTTCGACTACGCTCAGCTCAACGGCACATCATT
1 AGAAGGGTTGTCTGCC-AC-AAAGACCTCCGAGTTCGACTACGCTCAGCTCAACGGCACATCATT
* * *
65938 TGCAGCATAGCTTAAGTCGATAAGGGCTATCTGCCAAAGA-CTCCCGAGTTCGATTACACTCAGC
64 TACAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCT-CCGAGTTCGATTACACTCAGC
* * * * * *
66002 TTCGAGGGCACATCATTTGCAATATAGCTCAAGGCAAGAAGGGCTATTTGCCAACGAAAGACCTT
128 TTCGAGGGCACATCATTTACAACATAACTCAAGGCAAGAAGGGCTATCTGTC-ACCAAAGACCTT
* * * * * *
66067 TGAGTTCGATTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCG
192 CGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGTACAACTTAAGTCT
* * * * * * * *
66122 AGAAGGGCTAG-CTG-C-CAAAGACCCCCGAGTTTGATTACACTCAGCTTCGAGGGTACATCATT
1 AGAAGGG-TTGTCTGCCACAAAGACCTCCGAGTTCGACTACGCTCAGC-TCAACGGCACATCATT
** * * * * *
66184 TACAATATAACTCAAGGCTAGAAGGGTTATCTATCT-CCAAAGGACCTTCGAGTTCGATTACGCT
64 TACAGCATAACTTAAGTCGAGAAGGG----CTATCTGCCAAA-GACCTCCGAGTTCGATTACACT
* * *
66248 CAGCTGCGA-GGCACATCATTTACAACATAGCCCAAGGCAAGAAGGGCTATCTGTCA
124 CAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCAAGAAGGGCTATCTGTCA
66304 ATAAAACTGT
Statistics
Matches: 609, Mismatches: 57, Indels: 24
0.88 0.08 0.03
Matches are distributed among these distances:
245 24 0.04
246 46 0.08
247 7 0.01
248 383 0.63
249 114 0.19
250 33 0.05
251 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (246 bp):
AGAAGGGTTGTCTGCCACAAAGACCTCCGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTA
CAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTCCGAGTTCGATTACACTCAGCTTC
GAGGGCACATCATTTACAACATAACTCAAGGCAAGAAGGGCTATCTGTCACCAAAGACCTTCGAG
TTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGTACAACTTAAGTCT
Found at i:66056 original size:165 final size:163
Alignment explanation
Indices: 65354--66300 Score: 963
Period size: 165 Copynumber: 5.7 Consensus size: 163
65344 TTTTAAACAA
* * * *
65354 ATCATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTATCTGCCACAAAGACCTTCGAGTTCGATTAC
1 ATCATTTGCAACATAACTCAAGGCTAGAAGGGCTATCTGCCACAAAGACCTTCGAGTTCGATTAC
*
65419 GCTCAGCTCCAAGGCATATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
66 GCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
* *
65484 CCCGAGTTCGATTACACTCAACTTCGAGGGCAT
131 CCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * * *
65517 ATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTA
1 ATCATTTGCAACATAACTCAAGGCTAGAAGGGCTATCTGCCA-CAAAGACCTTCGAGTTCGATTA
* * * * * * *
65582 CGCTCAGCTCCAAGGCATATCATTTGCAGTACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAA
65 CGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATCTG-C--C-AA
*** * * * *
65647 AGACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCAC
126 AGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * * * *
65684 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG-C-CAAAGACCTCCGAGTTCGATTAC
1 ATCATTTGCAACATAACTCAAGGCTAGAAGGGCTATCTGCCACAAAGACCTTCGAGTTCGATTAC
* * * * * * * *
65747 ACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAA
66 GCTCAGC-TCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATCTG---CCAAA
* ** * * * * *
65812 GATCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCAT
127 GACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * * * * * *
65848 ATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACC-TCTGAGTTCGAC
1 ATCATTTGCAACATAACTCAAGGCTAGAAGGGCTATCTGCC-AC-AAAGACCTTC-GAGTTCGAT
* * *
65912 TACGCTCAGCT-CAACGGCACATCATTTGCAGCATAGCTTAAGTCGATAAGGGCTATCTGCCAAA
63 TACGCTCAGCTCCAA-GGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAA
*
65976 GACTCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
127 GACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * * * *
66013 ATCATTTGCAATATAGCTCAAGGCAAGAAGGGCTATTTGCCAACGAAAGACCTTTGAGTTCGATT
1 ATCATTTGCAACATAACTCAAGGCTAGAAGGGCTATCTGCC-AC-AAAGACCTTCGAGTTCGATT
* * * *
66078 ACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTAGCTGCCAAAGA
64 ACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGA
* *
66143 CCCCCGAGTTTGATTACACTCAGCTTCGAGGGTAC
129 CCCCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * * *
66178 ATCATTTACAATATAACTCAAGGCTAGAAGGGTTATCTATCTC-CAAAGGACCTTCGAGTTCGAT
1 ATCATTTGCAACATAACTCAAGGCTAGAAGGGCTATCT-GC-CACAAA-GACCTTCGAGTTCGAT
* * * * ** * *
66242 TACGCTCAGCTGCGAGGCACATCATTTACAACATAGCCCAAGGCAAGAAGGGCTATCTG
63 TACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATCTG
66301 TCAATAAAAC
Statistics
Matches: 656, Mismatches: 108, Indels: 38
0.82 0.13 0.05
Matches are distributed among these distances:
163 35 0.05
164 196 0.30
165 289 0.44
166 7 0.01
167 82 0.12
168 47 0.07
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (163 bp):
ATCATTTGCAACATAACTCAAGGCTAGAAGGGCTATCTGCCACAAAGACCTTCGAGTTCGATTAC
GCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
CCCGAGTTCGATTACACTCAGCTTCGAGGGCAC
Found at i:67033 original size:37 final size:36
Alignment explanation
Indices: 66985--67222 Score: 185
Period size: 34 Copynumber: 6.7 Consensus size: 36
66975 CGAAAATAAG
*
66985 TATATATTATATAGTTTTTGAAAACGTTTTTAAAATC
1 TATATATTATATAGTTTTT-AAAACATTTTTAAAATC
* * * *
67022 TATATAGTATATGGTTTTGAAAA-ATATTTTGAAAACATT
1 TATATATTATATAGTTTTTAAAACAT-TTTT--AAA-ATC
* *
67061 TATATATTATATAGTTTTTAAAACA-TTTTGAAA-G
1 TATATATTATATAGTTTTTAAAACATTTTTAAAATC
* *
67095 TATATATAATATAGTTTTTAAAACA-TTTTAAAAAC
1 TATATATTATATAGTTTTTAAAACATTTTTAAAATC
*
67130 -ATATA-T-TATA-----TAAAACATTTTTGAAAACATT
1 TATATATTATATAGTTTTTAAAACATTTTT--AAA-ATC
* * *
67161 TATATATTATATAGTTTTTAAAACATTTTGAAAGTA
1 TATATATTATATAGTTTTTAAAACATTTTTAAAATC
* *
67197 TATATAATATATAGTTTTAAAAACAT
1 TATATATTATATAGTTTTTAAAACAT
67223 ATATTATATA
Statistics
Matches: 162, Mismatches: 21, Indels: 37
0.74 0.10 0.17
Matches are distributed among these distances:
27 7 0.04
28 4 0.02
30 3 0.02
31 1 0.01
32 9 0.06
33 1 0.01
34 40 0.25
35 2 0.01
36 35 0.22
37 19 0.12
38 7 0.04
39 33 0.20
40 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (36 bp):
TATATATTATATAGTTTTTAAAACATTTTTAAAATC
Found at i:67133 original size:27 final size:28
Alignment explanation
Indices: 67113--67242 Score: 86
Period size: 28 Copynumber: 4.4 Consensus size: 28
67103 ATATAGTTTT
67113 TAAAACA-TTTTAAAAACATATATTATA
1 TAAAACATTTTTAAAAACATATATTATA
* *
67140 TAAAACATTTTTGAAAACATTTA-TATA
1 TAAAACATTTTTAAAAACATATATTATA
* * * *
67167 TTATATAGTTTTT-AAAACATTTTGAAAGTATATA
1 TAAAACA-TTTTTAAAAACA---T-ATA-T-TATA
* *
67201 TAATATATAGTTTTAAAAACATATATTATA
1 TAA-A-ACATTTTTAAAAACATATATTATA
67231 TAAAACATTTTT
1 TAAAACATTTTT
67243 TTGAAAACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 23
0.68 0.11 0.20
Matches are distributed among these distances:
27 21 0.27
28 24 0.31
29 1 0.01
30 8 0.10
31 2 0.03
32 2 0.03
33 1 0.01
34 6 0.08
35 4 0.05
36 9 0.12
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (28 bp):
TAAAACATTTTTAAAAACATATATTATA
Found at i:67173 original size:100 final size:92
Alignment explanation
Indices: 67119--67289 Score: 247
Period size: 91 Copynumber: 1.8 Consensus size: 92
67109 TTTTTAAAAC
67119 ATTTTAAAAACATATATTATATAAAACA-TTTTTGAAAACATTTATATATTATATAGTTTTTAAA
1 ATTTTAAAAACATATATTATATAAAACATTTTTTGAAAACATTTATATATTATATAGTTTTTAAA
67183 ACATTTTGAAAGTATATATAATATATA
66 ACATTTTGAAAGTATATATAATATATA
* * * *
67210 GTTTTAAAAACATATATTATATAAAACATTTTTTTGAAAAC-TTATATATAATATACAATTTTCT
1 ATTTTAAAAACATATATTATATAAAACA-TTTTTTGAAAACATT-TATATATTATATAGTTTT-T
67274 AAAAACATTTTTGAAA
63 -AAAACA-TTTTGAAA
67290 ACTATATAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
91 27 0.39
92 2 0.03
93 26 0.37
94 1 0.01
95 6 0.09
96 8 0.11
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (92 bp):
ATTTTAAAAACATATATTATATAAAACATTTTTTGAAAACATTTATATATTATATAGTTTTTAAA
ACATTTTGAAAGTATATATAATATATA
Found at i:67230 original size:66 final size:66
Alignment explanation
Indices: 67095--67233 Score: 167
Period size: 66 Copynumber: 2.1 Consensus size: 66
67085 ATTTTGAAAG
* *
67095 TATATATAATATAGTTTTTAAAACATTTTAAAAACATATATTATATAAAACATTTTTGAAAACAT
1 TATATATAATATAGTTTTTAAAACATTTTAAAAACATATATTATATAAAACAGTTTTAAAAACAT
67160 T
66 T
* * ** * *
67161 TATATATTATATAGTTTTTAAAACATTTTGAAAGTATATA-TA-AT-ATATAGTTTTAAAAACAT
1 TATATATAATATAGTTTTTAAAACATTTTAAAAACATATATTATATAAAACAGTTTTAAAAACAT
*
67223 A
66 T
67224 TATTATATAA
1 TA-TATATAA
67234 AACATTTTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
63 16 0.26
64 8 0.13
65 2 0.03
66 36 0.58
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (66 bp):
TATATATAATATAGTTTTTAAAACATTTTAAAAACATATATTATATAAAACAGTTTTAAAAACAT
T
Found at i:67393 original size:161 final size:157
Alignment explanation
Indices: 67095--67383 Score: 351
Period size: 159 Copynumber: 1.8 Consensus size: 157
67085 ATTTTGAAAG
*
67095 TATATATAATATAGTTTTTAAAACATTTTAAAAACATATATTATATAAAACATTTTTGAAAACAT
1 TATATATAATATAATTTTTAAAACATTTTAAAAACATATATTATATAAAACATTTTTGAAAACAT
* * * *
67160 TTATATATTATATAGTTTTTAAAACATTTTGAAAGTATATATAATATATAGTTTTAAAAACATAT
66 GTATATAATATATAGATTTTAAAACATTTTGAAAGTATATATAATATATAGGTTTAAAAACATAT
67225 ATTATATAAAACATTTTTTTGAAAACT
131 ATTATATAAAACATTTTTTTGAAAACT
*
67252 TATATATAATATACAATTTTCTAAAAACATTTTTGAAAACTATATAATT-T-TGAAAACATTTTT
1 TATATATAATAT--AATTTT-T-AAAACA-TTTTAAAAAC-ATAT-ATTATAT-AAAACATTTTT
* * *
67315 TAAAA-A-GTATATAATATATA-ATTTTAAAATATTTTTGAAA-T-TATATATTATATAGGTTTA
58 GAAAACATGTATATAATATATAGATTTTAAAACA-TTTTGAAAGTATATATAATATATAGGTTTA
67375 GAAAA-ATAT
122 -AAAACATAT
67384 TTTTTATATA
Statistics
Matches: 113, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
157 12 0.11
159 26 0.23
160 15 0.13
161 26 0.23
162 11 0.10
163 20 0.18
164 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (157 bp):
TATATATAATATAATTTTTAAAACATTTTAAAAACATATATTATATAAAACATTTTTGAAAACAT
GTATATAATATATAGATTTTAAAACATTTTGAAAGTATATATAATATATAGGTTTAAAAACATAT
ATTATATAAAACATTTTTTTGAAAACT
Found at i:68685 original size:19 final size:18
Alignment explanation
Indices: 68658--68693 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
68648 ACACTTTACT
*
68658 TTTTGTTTTATTCATTTTA
1 TTTTCTTTTATT-ATTTTA
68677 TTTTCTTTTATTATTTT
1 TTTTCTTTTATTATTTT
68694 CTTGTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTCTTTTATTATTTTA
Found at i:68692 original size:13 final size:13
Alignment explanation
Indices: 68674--68717 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
68664 TTTATTCATT
68674 TTATTTTCTTTTA
1 TTATTTTCTTTTA
*
68687 TTATTTTCTTGTA
1 TTATTTTCTTTTA
68700 TTATTTT-TGTTTA
1 TTATTTTCT-TTTA
68713 TTATT
1 TTATT
68718 ATTATTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 1 0.04
13 27 0.96
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.75
Consensus pattern (13 bp):
TTATTTTCTTTTA
Found at i:68727 original size:26 final size:26
Alignment explanation
Indices: 68673--68734 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 26
68663 TTTTATTCAT
*
68673 TTTATTTTCTTTTATTATTTTCTTGTA
1 TTTATTTT-TTTTATTATTTTATTGTA
68700 -TTATTTTTGTTTATTATTATTATT-TA
1 TTTATTTTT-TTTATTATT-TTATTGTA
68726 TTTATTTTT
1 TTTATTTTT
68735 ACTAACCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 1 0.03
26 18 0.58
27 12 0.39
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (26 bp):
TTTATTTTTTTTATTATTTTATTGTA
Found at i:70986 original size:16 final size:16
Alignment explanation
Indices: 70965--70998 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
70955 TACATGGTTA
*
70965 AAAATAATATAAAAAT
1 AAAATAAAATAAAAAT
70981 AAAATAAAATAAAAAT
1 AAAATAAAATAAAAAT
70997 AA
1 AA
70999 GATACCAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAATAAAATAAAAAT
Found at i:75830 original size:37 final size:37
Alignment explanation
Indices: 75769--75841 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
75759 TATAGTGTAA
* * *
75769 TTTTTGAAAATATTTTTTGAAAAATATAATATATAAT
1 TTTTTGAAAACAGTTTTTGAAAAATATAATACATAAT
75806 TTTTTAGAAAACAGTTTTTG-AAAATATAATACATAA
1 TTTTT-GAAAACAGTTTTTGAAAAATATAATACATAA
75842 AGTATATTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 20 0.62
38 12 0.38
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.44
Consensus pattern (37 bp):
TTTTTGAAAACAGTTTTTGAAAAATATAATACATAAT
Found at i:75905 original size:36 final size:36
Alignment explanation
Indices: 75870--76160 Score: 350
Period size: 36 Copynumber: 7.8 Consensus size: 36
75860 ATCAGTTTTT
* * * * *
75870 AAATATATATACTATATAGCTTTGAAAATAATTTTTG
1 AAATATATATAATATATAGTTTTTAAAA-CATTTTGG
75907 AATATATATATATATTATATAGTTTTTAAAACATTTTGG
1 AA-ATATATATA-A-TATATAGTTTTTAAAACATTTTGG
*
75946 AAATATATATAATATATAGTTTTTAAAACATTTTTGA
1 AAATATATATAATATATAGTTTTTAAAACA-TTTTGG
*
75983 AAACTTATATATATTATATAGTTTTTAAAACATTTTGG
1 AAA--TATATATAATATATAGTTTTTAAAACATTTTGG
*
76021 AAATATATATAATATATAGTTTTTAAAATATTTTGG
1 AAATATATATAATATATAGTTTTTAAAACATTTTGG
* * *
76057 AAATATATATAATACATGGTTTTTAAAACATTTTCG
1 AAATATATATAATATATAGTTTTTAAAACATTTTGG
* *
76093 -AATATATATATTATATAGTTTTTTTAAAAACATTTTGAA
1 AAATATATATAATATATAG--TTTTT-AAAACATTTTG-G
76132 AACATATATATAATATATAGTTTTTAAAA
1 AA-ATATATATAATATATAGTTTTTAAAA
76161 AAACATTTTG
Statistics
Matches: 222, Mismatches: 20, Indels: 23
0.84 0.08 0.09
Matches are distributed among these distances:
35 15 0.07
36 81 0.36
37 16 0.07
38 40 0.18
39 39 0.18
40 15 0.07
41 16 0.07
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (36 bp):
AAATATATATAATATATAGTTTTTAAAACATTTTGG
Found at i:75996 original size:75 final size:73
Alignment explanation
Indices: 75870--76160 Score: 361
Period size: 75 Copynumber: 3.9 Consensus size: 73
75860 ATCAGTTTTT
* * * * * *
75870 AAATATATATACTATATAGCTTTGAAAATAATTTTTGAATATATATATATATTATATAGTTTTTA
1 AAATATATATAATATATAGTTTTTAAAA-CA-TTTTGAAAAT-TATATATAATATATAGTTTTTA
75935 AAACATTTTGG
63 AAACATTTTGG
*
75946 AAATATATATAATATATAGTTTTTAAAACATTTTTGAAAACTTATATATATTATATAGTTTTTAA
1 AAATATATATAATATATAGTTTTTAAAACA-TTTTGAAAA-TTATATATAATATATAGTTTTTAA
76011 AACATTTTGG
64 AACATTTTGG
* * * *
76021 AAATATATATAATATATAGTTTTTAAAATATTTTGGAAA-TATATATAATACATGGTTTTTAAAA
1 AAATATATATAATATATAGTTTTTAAAACATTTTGAAAATTATATATAATATATAGTTTTTAAAA
*
76085 CATTTTCG
66 CATTTTGG
* *
76093 -AATATATATATTATATAGTTTTTTTAAAAACATTTTGAAAACATATATATAATATATAGTTTTT
1 AAATATATATAATATATAG--TTTTT-AAAACATTTTGAAAA-TTATATATAATATATAGTTTTT
76157 AAAA
62 AAAA
76161 AAACATTTTG
Statistics
Matches: 193, Mismatches: 16, Indels: 12
0.87 0.07 0.05
Matches are distributed among these distances:
71 17 0.09
72 29 0.15
73 5 0.03
74 21 0.11
75 72 0.37
76 49 0.25
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (73 bp):
AAATATATATAATATATAGTTTTTAAAACATTTTGAAAATTATATATAATATATAGTTTTTAAAA
CATTTTGG
Found at i:77564 original size:17 final size:17
Alignment explanation
Indices: 77520--77558 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
77510 TTATTTCGCT
*
77520 TTTTATTTACTATTTTTTA
1 TTTTATTT--TATTTTATA
77539 TTTTATTTTATTTTATA
1 TTTTATTTTATTTTATA
77556 TTT
1 TTT
77559 CTTTTTTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
19 8 0.42
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTATTTTATTTTATA
Found at i:77571 original size:24 final size:24
Alignment explanation
Indices: 77543--77600 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
77533 TTTTTATTTT
77543 ATTTTATTTTATATTTCTTTTTTCC
1 ATTTT-TTTTATATTTCTTTTTTCC
* *
77568 -TTTTTTTCTTTTTTTCTTTTTTCC
1 ATTTTTTT-TATATTTCTTTTTTCC
77592 ATTTTTTTT
1 ATTTTTTTT
77601 TCTTTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 3 0.10
24 19 0.66
25 7 0.24
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (24 bp):
ATTTTTTTTATATTTCTTTTTTCC
Found at i:77606 original size:24 final size:24
Alignment explanation
Indices: 77556--77606 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
77546 TTATTTTATA
*
77556 TTTCTTTTTTCCTTTTTTTCTTTT
1 TTTCTTTTTTCCTTTTTTTCTTCT
77580 TTTCTTTTTTCCATTTTTTT-TTCT
1 TTTCTTTTTTCC-TTTTTTTCTTCT
77604 TTT
1 TTT
77607 TACTAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (24 bp):
TTTCTTTTTTCCTTTTTTTCTTCT
Found at i:77607 original size:9 final size:8
Alignment explanation
Indices: 77556--77599 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
77546 TTATTTTATA
77556 TTTCTTTT
1 TTTCTTTT
*
77564 TTCCTTTT
1 TTTCTTTT
77572 TTTCTTTT
1 TTTCTTTT
77580 TTTCTTTT
1 TTTCTTTT
*
77588 TTCCATTTT
1 TTTC-TTTT
77597 TTT
1 TTT
77600 TTCTTTTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
8 25 0.81
9 6 0.19
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTCTTTT
Found at i:83223 original size:20 final size:20
Alignment explanation
Indices: 83183--83224 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
83173 TTGTATATTG
* *
83183 GGTTATTGTCTATTGTTTAT
1 GGTTATTGTCTATGGTATAT
83203 GGTTATTGTCTATGGTATAT
1 GGTTATTGTCTATGGTATAT
83223 GG
1 GG
83225 GTATGAAATA
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:0.05, G:0.26, T:0.52
Consensus pattern (20 bp):
GGTTATTGTCTATGGTATAT
Found at i:83295 original size:46 final size:45
Alignment explanation
Indices: 83234--83333 Score: 146
Period size: 46 Copynumber: 2.2 Consensus size: 45
83224 GGTATGAAAT
* * * *
83234 AATGGCAAGTGTATTGGTAAAATAAGCTTACGAGCTTATGGTATTA
1 AATGGTAAGTATATTGATAAAATAAGCTTACGAGCTTATGGGA-TA
83280 AATGGTAAGTATATTGATAAAATAAGCTTACGAGCTTATGGGATA
1 AATGGTAAGTATATTGATAAAATAAGCTTACGAGCTTATGGGATA
*
83325 AACGGTAAG
1 AATGGTAAG
83334 AGATTTATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 10 0.20
46 39 0.80
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (45 bp):
AATGGTAAGTATATTGATAAAATAAGCTTACGAGCTTATGGGATA
Found at i:83948 original size:22 final size:23
Alignment explanation
Indices: 83904--83951 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
83894 GATACATTGT
*
83904 TCACTGTTCACGGGTACTCTTCA
1 TCACTGTTCACGGATACTCTTCA
*
83927 TCACTGTTCAC-GATACTGTTCA
1 TCACTGTTCACGGATACTCTTCA
83949 TCA
1 TCA
83952 TTATTCATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (23 bp):
TCACTGTTCACGGATACTCTTCA
Found at i:84476 original size:87 final size:89
Alignment explanation
Indices: 84329--84558 Score: 298
Period size: 87 Copynumber: 2.7 Consensus size: 89
84319 CGTGTACCCA
* * *
84329 GATTATAATAAAGCTTGAGTTGTCCCTCTAA-AGCAATTGGTTAAACACCCCGACTTTATGGATA
1 GATTATAATAAAGCTTGAGTTGTCCCTCTAAGAGCAATTGGTTAAACGCCCCGGCTTTATGGACA
**
84393 AGATTCAGCTAGTCTGATAAAAGT
66 AGATTCAGCTAACCTGATAAAAGT
*
84417 GATTATAATAGAGCTTGAGTTG-CCCTCTAAGA-CAATTGGTTAAACGCCCCGGCTTTATGGACA
1 GATTATAATAAAGCTTGAGTTGTCCCTCTAAGAGCAATTGGTTAAACGCCCCGGCTTTATGGACA
*
84480 AGATTCAGCTAACCTGATAAAGGT
66 AGATTCAGCTAACCTGATAAAAGT
* * *
84504 G-TT-T-ATATA--TTGAGATGTCCCTCT-AGAGCAATTGGTTAAAACGCTCCGGCTTTAT
1 GATTATAATAAAGCTTGAGTTGTCCCTCTAAGAGCAATTGGTT-AAACGCCCCGGCTTTAT
84559 AGATTCAGCT
Statistics
Matches: 128, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
82 10 0.08
83 15 0.12
84 20 0.16
85 1 0.01
86 2 0.02
87 58 0.45
88 22 0.17
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (89 bp):
GATTATAATAAAGCTTGAGTTGTCCCTCTAAGAGCAATTGGTTAAACGCCCCGGCTTTATGGACA
AGATTCAGCTAACCTGATAAAAGT
Found at i:86104 original size:421 final size:421
Alignment explanation
Indices: 85307--86483 Score: 1569
Period size: 421 Copynumber: 2.8 Consensus size: 421
85297 ATTCAAGAGC
* * * *
85307 ACCTTTGAGTTCAATTACACTCAGCTCAAAGGCGCACCATTTGCAGCATAACTCAAGGCGAGAAG
1 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAG
* * * * *
85372 GGCGATATGCCAA-AAATGGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTA
66 GGCTATCTTCCAACAAA-AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT-CAATTTA
* * * * *
85436 CATCATAACTCAAGGTGAGAATGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTATACTCGGC
129 CAACATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGC
* * *
85501 TCAAAGGCACATCATTTGTAGCATAGCTCAAGGCGTGAAGGGCTATCTTCCAACAAAAGA-CTTT
194 TCAAAGGCACATCATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTT
* * *
85565 CGAGTTCGATTACACTCAGCTCAAAGGCACAACCAATTTACAGCATAACTCAACGCGATAAGGGC
259 -GAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTACAGCATAACTCAACGCGAGAAGGGT
* *
85630 TATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCATTTGTAGCATA
323 TATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCATTTGCAACATA
** * * *
85695 GCTCAAGGCGAGAAAGTCTATCTGTCAAC-CAAT
388 GCTCAAGGCGAGAAAGGATATCTGCCAACAAAAG
* *
85728 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTTAAGGCAAGAAG
1 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAG
85793 GGCTATCTTCCAACAAAAGACCTTCGAGTTCGATTACACTCAG-TCCAAAGGCACATCTAATTTA
66 GGCTATCTTCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCT-CAAAGGCACATC-AATTTA
*
85857 CAACATAACTCAAGGCGAGAAGGGTTATCTATCAACCAAGACCTTCGAGTTCGATTACACTCAGC
129 CAACATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGC
*
85922 TCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTT
194 TCAAAGGCACATCATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTT
* * * *
85987 GAGTTTGATTACACTCAACTTAAAGGCACATCCAATTTACAGCATAACTCAAGGCGAGAAGGGTT
259 GAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTACAGCATAACTCAACGCGAGAAGGGTT
*
86052 ATCTGTCAACCAAGACCTTCGAGTTCGATTACCCTCATA-TCAAAGGCACATCATTTGCAACATA
324 ATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCA-ACTCAAAGGCACATCATTTGCAACATA
* *
86116 GCTCAAGGTGAGAAGGGATATCTGCCAACAAAAG
388 GCTCAAGGCGAGAAAGGATATCTGCCAACAAAAG
* *
86150 ACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCCAATTTACAGCATAACTCAAGGCGAGA
1 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT-C-ATTTGCAGCATAACTCAAGGCGAGA
* * *
86215 AGGGTTATCTGT-CAAC-CAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCAATTT
64 AGGGCTATCT-TCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAATTT
* * * * * * * * * *
86278 ACAGCATAGCTCAAGACAATAAGGGCTATCTGGCAACAAAAGACCTTCGAGTTCTATTACATTCA
128 ACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-CAAGACCTTCGAGTTCGATTACACTCA
* * * * * * * * *
86343 GCTCAAAGGCATATCCA-GTACAACATAACTCAAGGTGAGAAGGGTTATCTGTCAACTAAAGACC
192 GCTCAAAGGCACAT-CATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACC
* * * * * *
86407 TTTGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTACAGCATAGCTCAATGCGAGAATG
256 TTTGAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTACAGCATAACTCAACGCGAGAAGG
* *
86472 TTTATCTATCAA
321 GTTATCTGTCAA
86484 TAAAAACTAT
Statistics
Matches: 667, Mismatches: 77, Indels: 22
0.87 0.10 0.03
Matches are distributed among these distances:
420 2 0.00
421 366 0.55
422 80 0.12
423 180 0.27
424 38 0.06
425 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (421 bp):
ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAG
GGCTATCTTCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAATTTACA
ACATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTC
AAAGGCACATCATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTTGA
GTTCGATTACACTCAGCTCAAAGGCACATCCAATTTACAGCATAACTCAACGCGAGAAGGGTTAT
CTGTCAACCAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCATTTGCAACATAGCT
CAAGGCGAGAAAGGATATCTGCCAACAAAAG
Found at i:86515 original size:169 final size:169
Alignment explanation
Indices: 85307--86469 Score: 1427
Period size: 169 Copynumber: 6.9 Consensus size: 169
85297 ATTCAAGAGC
* * * *
85307 ACCTTTGAGTTCAATTACACTCAGCTCAAAGGCGCA-CCATTTGCAGCATAACTCAAGGCGAGAA
1 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCATTTACAGCATAACTCAAGGCGAGAA
** * * * *
85371 GGGCGATATGCCAA-AAATGGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTT
66 GGGTTATCTGTCAACCAA--GACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT-CAATTT
* * * * * *
85435 ACATCATAACTCAAGGTGAGAATGGTTATCTGTCAAC-CAAG
128 ACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAG
* * ** * *
85476 ACCTTCGAGTTCGATTATACTCGGCTCAAAGGCACAT-CATTTGTAGCATAGCTCAAGGCGTGAA
1 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCATTTACAGCATAACTCAAGGCGAGAA
* * * *
85540 GGGCTATCT-TCCAACAAAAGACTTTCGAGTTCGATTACACTCAGCTCAAAGGCACAACCAATTT
66 GGGTTATCTGT-CAAC-CAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAC-ATCAATTT
* * * *
85604 ACAGCATAACTCAACGCGATAAGGGCTATCTGTCAAC-CAAG
128 ACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAG
* ** *
85645 ACCTTCGAGTTCGATTACACTCAACTCAAAGGCACAT-CATTTGTAGCATAGCTCAAGGCGAGAA
1 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCATTTACAGCATAACTCAAGGCGAGAA
* * *
85709 -AGTCTATCTGTCAACCAATACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC-ATTTGC
66 GGGT-TATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAATTTAC
* * *
85772 AGCATAACTTAAGGCAAGAAGGGCTATCT-TCCAACAAAAG
130 AGCATAGCTCAAGGCGAGAAGGGCTATCTGT-CAACAAAAG
* *
85812 ACCTTCGAGTTCGATTACACTCAG-TCCAAAGGCACATCTAATTTACAACATAACTCAAGGCGAG
1 ACCTTCGAGTTCGATTACACTCAGCT-CAAAGGCACATC-CATTTACAGCATAACTCAAGGCGAG
* *
85876 AAGGGTTATCTATCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC-ATTTG
64 AAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAATTTA
* *
85940 CAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAG
129 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAG
* * * *
85981 ACCTTTGAGTTTGATTACACTCAACTTAAAGGCACATCCAATTTACAGCATAACTCAAGGCGAGA
1 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCC-ATTTACAGCATAACTCAAGGCGAGA
* ** *
86046 AGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACCCTCATATCAAAGGCACATC-ATTTGC
65 AGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAATTTAC
* * * *
86110 AACATAGCTCAAGGTGAGAAGGGATATCTGCCAACAAAAG
130 AGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAG
*
86150 ACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCCAATTTACAGCATAACTCAAGGCGAGA
1 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCC-ATTTACAGCATAACTCAAGGCGAGA
*
86215 AGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCAATTTAC
65 AGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAATTTAC
* * * *
86280 AGCATAGCTCAAGACAATAAGGGCTATCTGGCAACAAAAG
130 AGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAG
* * * * * *
86320 ACCTTCGAGTTCTATTACATTCAGCTCAAAGGCATATCCA-GTACAACATAACTCAAGGTGAGAA
1 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCATTTACAGCATAACTCAAGGCGAGAA
* * * *
86384 GGGTTATCTGTCAACTAAAGACCTTTGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTA
66 GGGTTATCTGTCAAC-CAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC-AATTTA
*
86449 CAGCATAGCTCAATGCGAGAA
129 CAGCATAGCTCAAGGCGAGAA
86470 TGTTTATCTA
Statistics
Matches: 883, Mismatches: 92, Indels: 37
0.87 0.09 0.04
Matches are distributed among these distances:
165 1 0.00
166 35 0.04
167 39 0.04
168 73 0.08
169 631 0.71
170 101 0.11
171 3 0.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (169 bp):
ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCATTTACAGCATAACTCAAGGCGAGAA
GGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAATTTACA
GCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAG
Found at i:87336 original size:39 final size:37
Alignment explanation
Indices: 87189--87455 Score: 274
Period size: 39 Copynumber: 7.0 Consensus size: 37
87179 AATGTTTCAA
* * *
87189 AAAACAATTTTTAAAAATATA--TATTATATAGGTTTG
1 AAAAC-ATTTTTGAAAATATATATATTATATAGTTTTT
*
87225 AAAATAATTTTTGAAAAAATATATATATATTATATAGTTTTT
1 AAAA-CATTTTTG---AAA-ATATATATATTATATAGTTTTT
* * *
87267 GAAACA-TTTTGGAAATATATATAATATATAGTTTTT
1 AAAACATTTTTGAAAATATATATATTATATAGTTTTT
87303 AAAACATTTTTGAAAACTTATATATATTATATAGTTTTT
1 AAAACATTTTTGAAAA--TATATATATTATATAGTTTTT
* * *
87342 AAAACA-TTTTGGAAATATATATAATATACAGTTTTT
1 AAAACATTTTTGAAAATATATATATTATATAGTTTTT
*
87378 AAAACATTTTTGAAAACATATATATAATATATAGTTTTT
1 AAAACATTTTTG-AAA-ATATATATATTATATAGTTTTT
* *
87417 AAAACATTTTCGAATATATATATATATATATTA-TTTTT
1 AAAACATTTTTGAAAATATATATAT-TATA-TAGTTTTT
87455 A
1 A
87456 TTTTTATTTT
Statistics
Matches: 197, Mismatches: 19, Indels: 28
0.81 0.08 0.11
Matches are distributed among these distances:
36 61 0.31
37 24 0.12
38 22 0.11
39 63 0.32
40 10 0.05
41 1 0.01
42 16 0.08
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (37 bp):
AAAACATTTTTGAAAATATATATATTATATAGTTTTT
Found at i:87347 original size:75 final size:75
Alignment explanation
Indices: 87205--87455 Score: 351
Period size: 75 Copynumber: 3.3 Consensus size: 75
87195 ATTTTTAAAA
* * * * * *
87205 ATATATATTATATAGGTTTGAAAATAATTTTTGAAAAAATATATATATATTATATAGTTTTTGAA
1 ATATATAATATATAGTTTTTAAAA-CATTTTTG-AAAACT-TATATATATTATATAGTTTTTAAA
87270 ACATTTTGGAAAT
63 ACATTTTGGAAAT
87283 ATATATAATATATAGTTTTTAAAACATTTTTGAAAACTTATATATATTATATAGTTTTTAAAACA
1 ATATATAATATATAGTTTTTAAAACATTTTTGAAAACTTATATATATTATATAGTTTTTAAAACA
87348 TTTTGGAAAT
66 TTTTGGAAAT
* * *
87358 ATATATAATATACAGTTTTTAAAACATTTTTGAAAACATATATATAATATATAGTTTTTAAAACA
1 ATATATAATATATAGTTTTTAAAACATTTTTGAAAACTTATATATATTATATAGTTTTTAAAACA
*
87423 TTTTCGAATAT
66 TTTTGGAA-AT
87434 ATATATATATATATTA-TTTTTA
1 ATATATA-ATATA-TAGTTTTTA
87456 TTTTTATTTT
Statistics
Matches: 159, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
75 105 0.66
76 14 0.09
77 18 0.11
78 22 0.14
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (75 bp):
ATATATAATATATAGTTTTTAAAACATTTTTGAAAACTTATATATATTATATAGTTTTTAAAACA
TTTTGGAAAT
Found at i:87456 original size:6 final size:6
Alignment explanation
Indices: 87447--87471 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
87437 TATATATATA
87447 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
87472 ATCAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:88326 original size:2 final size:2
Alignment explanation
Indices: 88321--88346 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
88311 TCTCATTTGA
88321 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
88347 CAAATTGGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:88768 original size:17 final size:16
Alignment explanation
Indices: 88738--88813 Score: 91
Period size: 17 Copynumber: 4.6 Consensus size: 16
88728 TAGTTATTAC
88738 TTATTTTTTCTTTTCATT
1 TTATTTTTT-TTTT-ATT
88756 TTATTTTGTTTTTTA-T
1 TTATTTT-TTTTTTATT
* *
88772 TTACTATTTTTTTATT
1 TTATTTTTTTTTTATT
88788 TTATTTTTTTATTTATT
1 TTATTTTTTT-TTTATT
88805 TTATTTTTT
1 TTATTTTTT
88814 CCATTTTTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
15 7 0.14
16 15 0.29
17 16 0.31
18 11 0.22
19 2 0.04
ACGTcount: A:0.14, C:0.04, G:0.01, T:0.80
Consensus pattern (16 bp):
TTATTTTTTTTTTATT
Found at i:88790 original size:32 final size:30
Alignment explanation
Indices: 88738--88830 Score: 100
Period size: 32 Copynumber: 2.9 Consensus size: 30
88728 TAGTTATTAC
88738 TTATTTT-TTCTTTTCATTTTATTTTGTTT-T
1 TTATTTTATT-TTTTCATTTTATTTT-TTTAT
*
88768 TTATTTACTATTTTTTTATTTTATTTTTTTAT
1 TTATTT--TATTTTTTCATTTTATTTTTTTAT
88800 TTATTTTATTTTTTCCATTTTTATTATTTTT
1 TTATTTTATTTTTT-CA-TTTTATT-TTTTT
88831 TTCTTTTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
30 14 0.26
31 4 0.07
32 29 0.54
33 7 0.13
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (30 bp):
TTATTTTATTTTTTCATTTTATTTTTTTAT
Found at i:88837 original size:17 final size:17
Alignment explanation
Indices: 88741--88838 Score: 62
Period size: 17 Copynumber: 5.7 Consensus size: 17
88731 TTATTACTTA
*
88741 TTTTTTCTTTTCATT-T
1 TTTTTTCTTTTTATTAT
88757 TATTTTGT-TTTTTATTTACT
1 T-TTTT-TCTTTTTA-TTA-T
* *
88777 ATTTTT-TTATT-TTAT
1 TTTTTTCTTTTTATTAT
*
88792 TTTTTTATTTATT-TTAT
1 TTTTTTCTTT-TTATTAT
*
88809 TTTTTCCATTTTTATTAT
1 TTTTTTC-TTTTTATTAT
88827 TTTTTTCTTTTT
1 TTTTTTCTTTTT
88839 TTACTAAATT
Statistics
Matches: 65, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
15 6 0.09
16 6 0.09
17 27 0.42
18 21 0.32
19 4 0.06
20 1 0.02
ACGTcount: A:0.13, C:0.06, G:0.01, T:0.80
Consensus pattern (17 bp):
TTTTTTCTTTTTATTAT
Found at i:88840 original size:27 final size:26
Alignment explanation
Indices: 88764--88839 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 26
88754 TTTTATTTTG
**
88764 TTTTTTATTTACTATTT-TTTTATTTTAT
1 TTTTTTATTTA-T-TTTATTTT-TTCCAT
88792 TTTTTTATTTATTTTATTTTTTCCAT
1 TTTTTTATTTATTTTATTTTTTCCAT
*
88818 TTTTATTATTT-TTTTCTTTTTT
1 TTTT-TTATTTATTTTATTTTTT
88840 TACTAAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
26 21 0.49
27 11 0.26
28 11 0.26
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.80
Consensus pattern (26 bp):
TTTTTTATTTATTTTATTTTTTCCAT
Found at i:90484 original size:14 final size:14
Alignment explanation
Indices: 90465--90500 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
90455 TTCATATCTT
90465 AAAATAAAATAAAA
1 AAAATAAAATAAAA
*
90479 AAAAT-AAATAATA
1 AAAATAAAATAAAA
90492 AAAATAAAA
1 AAAATAAAA
90501 AATGAATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAATAAAATAAAA
Found at i:91688 original size:24 final size:24
Alignment explanation
Indices: 91655--91749 Score: 163
Period size: 24 Copynumber: 4.0 Consensus size: 24
91645 AAAAACTCAA
91655 GAGCTCAATTGAAGCTCGAGACTC
1 GAGCTCAATTGAAGCTCGAGACTC
*
91679 GAGCTTAATTGAAGCTCGAGACTC
1 GAGCTCAATTGAAGCTCGAGACTC
*
91703 GAGCTCGATTGAAGCTCGAGACTC
1 GAGCTCAATTGAAGCTCGAGACTC
*
91727 GAGCTCGATTGAAGCTCGAGACT
1 GAGCTCAATTGAAGCTCGAGACT
91750 GATTGAAGCT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 68 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (24 bp):
GAGCTCAATTGAAGCTCGAGACTC
Found at i:91745 original size:41 final size:41
Alignment explanation
Indices: 91700--91783 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 41
91690 AAGCTCGAGA
* * *
91700 CTCGAG-CTCGATTGAAGCTCGAGACTCGAGCTCGATTGAAG
1 CTCGAGACT-GATTGAAGCTCGAGACTCAAACTCGATTAAAG
91741 CTCGAGACTGATTGAAGCTCGAGACTCAAACTCGATTAAAG
1 CTCGAGACTGATTGAAGCTCGAGACTCAAACTCGATTAAAG
91782 CT
1 CT
91784 TAATTTTTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
41 37 0.95
42 2 0.05
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.23
Consensus pattern (41 bp):
CTCGAGACTGATTGAAGCTCGAGACTCAAACTCGATTAAAG
Found at i:91746 original size:17 final size:17
Alignment explanation
Indices: 91724--91766 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
91714 AAGCTCGAGA
91724 CTCGAG-CTCGATTGAAG
1 CTCGAGACT-GATTGAAG
91741 CTCGAGACTGATTGAAG
1 CTCGAGACTGATTGAAG
91758 CTCGAGACT
1 CTCGAGACT
91767 CAAACTCGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 23 0.92
18 2 0.08
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (17 bp):
CTCGAGACTGATTGAAG
Found at i:91796 original size:65 final size:65
Alignment explanation
Indices: 91686--91807 Score: 154
Period size: 65 Copynumber: 1.9 Consensus size: 65
91676 CTCGAGCTTA
* * * * *
91686 ATTGAAGCTCGAGACTCGAGCTCGATTGAAGCTCGAGACTCGAGCTCGATTGAAGCTCGAGACTG
1 ATTGAAGCTCGAGACTCAAACTCGATTAAAGCTCAAGACTCGAGCTCGATTCAAGCTCGAGACTG
* *** *
91751 ATTGAAGCTCGAGACTCAAACTCGATTAAAGCTTAATTTTTGAGCTCGATTCAAGCT
1 ATTGAAGCTCGAGACTCAAACTCGATTAAAGCTCAAGACTCGAGCTCGATTCAAGCT
91808 TGATTTTGAA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
65 47 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (65 bp):
ATTGAAGCTCGAGACTCAAACTCGATTAAAGCTCAAGACTCGAGCTCGATTCAAGCTCGAGACTG
Found at i:91821 original size:23 final size:24
Alignment explanation
Indices: 91769--91830 Score: 90
Period size: 23 Copynumber: 2.6 Consensus size: 24
91759 TCGAGACTCA
*
91769 AACTCGATTAAAGCTTAATTTTTG
1 AACTCGATTCAAGCTTAATTTTTG
* *
91793 AGCTCGATTCAAGCTTGA-TTTTG
1 AACTCGATTCAAGCTTAATTTTTG
91816 AACTCGATTCAAGCT
1 AACTCGATTCAAGCT
91831 CAAGGTACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 19 0.56
24 15 0.44
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (24 bp):
AACTCGATTCAAGCTTAATTTTTG
Found at i:93171 original size:13 final size:13
Alignment explanation
Indices: 93153--93191 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
93143 AATCGGATAA
*
93153 GGGTTTATGGTTT
1 GGGTTTAGGGTTT
93166 GGGTTT-GGGTTT
1 GGGTTTAGGGTTT
93178 GAGGTTTAGGGTTT
1 G-GGTTTAGGGTTT
93192 AATATAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 6 0.26
13 11 0.48
14 6 0.26
ACGTcount: A:0.08, C:0.00, G:0.44, T:0.49
Consensus pattern (13 bp):
GGGTTTAGGGTTT
Found at i:93271 original size:7 final size:7
Alignment explanation
Indices: 93259--93298 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
93249 AATTAGATTA
93259 AGGGTTT
1 AGGGTTT
93266 AGGGTTT
1 AGGGTTT
*
93273 AGGGATT
1 AGGGTTT
* *
93280 ATGATTT
1 AGGGTTT
93287 AGGGTTT
1 AGGGTTT
93294 AGGGT
1 AGGGT
93299 ATAATCTAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (7 bp):
AGGGTTT
Found at i:93324 original size:108 final size:107
Alignment explanation
Indices: 93132--93346 Score: 285
Period size: 109 Copynumber: 2.0 Consensus size: 107
93122 ATAACTTAAC
* * * *
93132 CCCTATCATATAATCGGATAAGGGTTTATGGTTTGGGTTTGGGTTTGAGGTTTAGGGTTTAATAT
1 CCCTATCATATAATCAGATAAGGGTTTAGGGTTTGGGTTTGGATTTGAGGTTTAGGGTATAATAT
93197 AACATGTGCTTAATTAAATG-GGATTTATTTTTCTTTTAGTA
66 AACATGTGCTTAATTAAATGAGGATTTATTTTTCTTTTAGTA
*
93238 CCCTATCATATAATTAGATTAAGGGTTTAGGGTTTAGGGATTAT-GATTT-AGGGTTTAGGGTAT
1 CCCTATCATATAATCAGA-TAAGGGTTTAGGGTTT-GGG-TT-TGGATTTGA-GGTTTAGGGTAT
* **
93301 AATCTAACA-GTGCTTAATTAAATGAGTTTTTATTTTTCTTTTAGTA
61 AATATAACATGTGCTTAATTAAATGAGGATTTATTTTTCTTTTAGTA
93347 ATATAATGTA
Statistics
Matches: 95, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
106 16 0.17
107 15 0.16
108 19 0.20
109 44 0.46
110 1 0.01
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.44
Consensus pattern (107 bp):
CCCTATCATATAATCAGATAAGGGTTTAGGGTTTGGGTTTGGATTTGAGGTTTAGGGTATAATAT
AACATGTGCTTAATTAAATGAGGATTTATTTTTCTTTTAGTA
Done.