Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 207 of 214
Found at i:60886312 original size:16 final size:17
Alignment explanation
Indices: 60886291--60886323 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
60886281 CCGACATGGG
60886291 CCCG-TTGGCCCATTAT
1 CCCGTTTGGCCCATTAT
60886307 CCCGTTTTGGCCCATTA
1 CCCG-TTTGGCCCATTA
60886324 AGCCCAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
18 11 0.73
ACGTcount: A:0.12, C:0.36, G:0.18, T:0.33
Consensus pattern (17 bp):
CCCGTTTGGCCCATTAT
Found at i:60887658 original size:26 final size:26
Alignment explanation
Indices: 60887628--60887709 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
60887618 TGAAATTCCC
60887628 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
60887654 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
*
60887680 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
60887706 ATCA
1 ATCA
60887710 ATTTTTTATC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:60891933 original size:19 final size:19
Alignment explanation
Indices: 60891911--60891950 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
60891901 TACTTCAAGC
* *
60891911 TTTTTAAATTTTTAATTAT
1 TTTTTAAAGTATTAATTAT
*
60891930 TTTTTAACGTATTAATTAT
1 TTTTTAAAGTATTAATTAT
60891949 TT
1 TT
60891951 GGTTAGATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTTAAAGTATTAATTAT
Found at i:60893529 original size:23 final size:24
Alignment explanation
Indices: 60893478--60893534 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
60893468 TTATTTTTAA
*
60893478 CTTTATATTGTGTATCGTATATGT
1 CTTTATATTGTGTATCGTATATAT
*
60893502 TTTTATATATGT-TAT-GTATATAT
1 CTTTATAT-TGTGTATCGTATATAT
60893525 CTTTAGTATT
1 CTTTA-TATT
60893535 ATTAGTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 12 0.43
24 13 0.46
25 3 0.11
ACGTcount: A:0.25, C:0.05, G:0.12, T:0.58
Consensus pattern (24 bp):
CTTTATATTGTGTATCGTATATAT
Found at i:60893897 original size:21 final size:21
Alignment explanation
Indices: 60893873--60893926 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
60893863 ATACTATTAT
* *
60893873 TATATTTATTTTTATTCCTAG
1 TATATTTATTTTTAATACTAG
* *
60893894 TATATTTATTATTAATATTAG
1 TATATTTATTTTTAATACTAG
*
60893915 TATATGTATTTT
1 TATATTTATTTT
60893927 ATTATACGCA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.61
Consensus pattern (21 bp):
TATATTTATTTTTAATACTAG
Found at i:60895765 original size:6 final size:6
Alignment explanation
Indices: 60895754--60895779 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
60895744 ATAAGTGTCA
60895754 TACTGT TACTGT TACTGT TACTGT TA
1 TACTGT TACTGT TACTGT TACTGT TA
60895780 TTTTTCGGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (6 bp):
TACTGT
Found at i:60898017 original size:29 final size:29
Alignment explanation
Indices: 60897975--60898033 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
60897965 CAGTAGTTGA
*
60897975 CAAACAACATCGAGCTAAAAAGGCATAAG
1 CAAACAACATCGAGCTAAAAAGACATAAG
60898004 CAAACAACATCGAGCTAAAAAGACATAAG
1 CAAACAACATCGAGCTAAAAAGACATAAG
60898033 C
1 C
60898034 TCTATGCTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.53, C:0.22, G:0.15, T:0.10
Consensus pattern (29 bp):
CAAACAACATCGAGCTAAAAAGACATAAG
Found at i:60903990 original size:24 final size:25
Alignment explanation
Indices: 60903963--60904009 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
60903953 GGATTCTGAA
60903963 ATAGA-AGATCTTGTTTCTTTTGTG
1 ATAGATAGATCTTGTTTCTTTTGTG
* * *
60903987 ATAGATGGTTTTTGTTTCTTTTG
1 ATAGATAGATCTTGTTTCTTTTG
60904010 GTAACACCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 5 0.26
25 14 0.74
ACGTcount: A:0.17, C:0.06, G:0.21, T:0.55
Consensus pattern (25 bp):
ATAGATAGATCTTGTTTCTTTTGTG
Found at i:60904312 original size:79 final size:79
Alignment explanation
Indices: 60904216--60904373 Score: 298
Period size: 79 Copynumber: 2.0 Consensus size: 79
60904206 AAACCAACAA
*
60904216 AAATTATTAACTTTATGACCAAACACTCGTACATGAATTCATTTGCTCCAAAATCACTACTGCAT
1 AAATTATGAACTTTATGACCAAACACTCGTACATGAATTCATTTGCTCCAAAATCACTACTGCAT
60904281 GAAACCAGTTTAAT
66 GAAACCAGTTTAAT
*
60904295 AAATTATGAACTTTATGACCAAACACTCGTACATGAATTCATTTGCTCCAAAATCTCTACTGCAT
1 AAATTATGAACTTTATGACCAAACACTCGTACATGAATTCATTTGCTCCAAAATCACTACTGCAT
60904360 GAAACCAGTTTAAT
66 GAAACCAGTTTAAT
60904374 TGAGGTGCAA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (79 bp):
AAATTATGAACTTTATGACCAAACACTCGTACATGAATTCATTTGCTCCAAAATCACTACTGCAT
GAAACCAGTTTAAT
Found at i:60905598 original size:3 final size:3
Alignment explanation
Indices: 60905590--60905630 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
60905580 TTCCTTATCA
* *
60905590 TCG TCG TCG TCG TCG TCG TCA TCC TCG TCG TCG TCG TCG TC
1 TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TC
60905631 ATGTTCTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.02, C:0.37, G:0.27, T:0.34
Consensus pattern (3 bp):
TCG
Found at i:60905617 original size:21 final size:21
Alignment explanation
Indices: 60905587--60905632 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
60905577 ATCTTCCTTA
*
60905587 TCATCGTCGTCGTCGTCGTCG
1 TCATCCTCGTCGTCGTCGTCG
60905608 TCATCCTCGTCGTCGTCGTCG
1 TCATCCTCGTCGTCGTCGTCG
60905629 TCAT
1 TCAT
60905633 GTTCTTTCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.07, C:0.35, G:0.24, T:0.35
Consensus pattern (21 bp):
TCATCCTCGTCGTCGTCGTCG
Found at i:60906540 original size:20 final size:20
Alignment explanation
Indices: 60906517--60906572 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
60906507 TTATAAATCT
60906517 TAAAAAGTAAAAATAAT-ATA
1 TAAAAAGTAAAAA-AATGATA
* *
60906537 TAAAAATTAAAAAAATGTTA
1 TAAAAAGTAAAAAAATGATA
*
60906557 TAAGAAGTAAAAAAAT
1 TAAAAAGTAAAAAAAT
60906573 TTTAAATTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 3 0.10
20 28 0.90
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (20 bp):
TAAAAAGTAAAAAAATGATA
Found at i:60906762 original size:6 final size:6
Alignment explanation
Indices: 60906733--60906789 Score: 62
Period size: 6 Copynumber: 9.3 Consensus size: 6
60906723 TCAGTTATCA
* * *
60906733 TATTTT TCTTTT T-TTTA TATTTT TACTTT TATTTT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
60906780 CATATTTT TA
1 --TATTTT TA
60906790 GCGTGTATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
5 4 0.09
6 33 0.77
8 6 0.14
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:60907044 original size:24 final size:23
Alignment explanation
Indices: 60907016--60907061 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
60907006 TCAAATCGTG
* *
60907016 AATAAAACCTTTTAAATTTAAAAA
1 AATAAAACATTTCAAA-TTAAAAA
60907040 AATAAAACATTTCAAATTAAAA
1 AATAAAACATTTCAAATTAAAA
60907062 TATTGTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (23 bp):
AATAAAACATTTCAAATTAAAAA
Found at i:60907235 original size:18 final size:17
Alignment explanation
Indices: 60907206--60907280 Score: 78
Period size: 17 Copynumber: 4.0 Consensus size: 17
60907196 GTCCTCAAAA
60907206 TTATTATTTTAAATTTTT
1 TTATT-TTTTAAATTTTT
60907224 TTACTTTTTTAAATATATTTT
1 TTA-TTTTTT-AA-AT-TTTT
*
60907245 TTAGTTTTTTTAAATTTAT
1 TTA--TTTTTTAAATTTTT
60907264 TTATTTTTTAAATTTTT
1 TTATTTTTTAAATTTTT
60907281 AAAAATTACT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
17 13 0.27
18 7 0.14
19 10 0.20
20 4 0.08
21 9 0.18
22 6 0.12
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (17 bp):
TTATTTTTTAAATTTTT
Found at i:60907246 original size:22 final size:23
Alignment explanation
Indices: 60907218--60907270 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
60907208 ATTATTTTAA
60907218 ATTTTTTTA-CTTTTTTAAATAT
1 ATTTTTTTAGCTTTTTTAAATAT
* *
60907240 A-TTTTTTAGTTTTTTTAAATTT
1 ATTTTTTTAGCTTTTTTAAATAT
60907262 ATTTATTTT
1 ATTT-TTTT
60907271 TTAAATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 7 0.27
22 13 0.50
23 2 0.08
24 4 0.15
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (23 bp):
ATTTTTTTAGCTTTTTTAAATAT
Found at i:60907279 original size:26 final size:27
Alignment explanation
Indices: 60907239--60907300 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
60907229 TTTTTAAATA
** * *
60907239 TATTTTTTAGTTTTTTTAAATTTA-TT
1 TATTTTTTAAATTTTTAAAAATTACTT
60907265 TATTTTTTAAATTTTTAAAAATTACTT
1 TATTTTTTAAATTTTTAAAAATTACTT
60907292 TGATTTTTT
1 T-ATTTTTT
60907301 TTGTAACTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 20 0.67
27 3 0.10
28 7 0.23
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (27 bp):
TATTTTTTAAATTTTTAAAAATTACTT
Found at i:60909976 original size:3 final size:3
Alignment explanation
Indices: 60909970--60909995 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
60909960 CGACAGTGAG
60909970 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
60909996 GGGCGTCCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:60915082 original size:21 final size:21
Alignment explanation
Indices: 60915057--60915096 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
60915047 AAATTTAATG
*
60915057 GAAAAGATTAATTTCAAAACA
1 GAAAAGATTAATTTAAAAACA
**
60915078 GAAAATCTTAATTTAAAAA
1 GAAAAGATTAATTTAAAAA
60915097 GTGCATTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.28
Consensus pattern (21 bp):
GAAAAGATTAATTTAAAAACA
Found at i:60924074 original size:30 final size:31
Alignment explanation
Indices: 60924038--60924111 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
60924028 AATAGCTCAA
**
60924038 TGACTTAAAT-AAAACTTTTGAATACTTCAG
1 TGACTTAAATGAAAACTTTCAAATACTTCAG
* *
60924068 TGACTTAAATGGAAACTTTCAAATATTTCAG
1 TGACTTAAATGAAAACTTTCAAATACTTCAG
**
60924099 TGACCAAAATGAA
1 TGACTTAAATGAA
60924112 GATTACCCAT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 10 0.28
31 26 0.72
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (31 bp):
TGACTTAAATGAAAACTTTCAAATACTTCAG
Found at i:60926806 original size:47 final size:49
Alignment explanation
Indices: 60926731--60926839 Score: 123
Period size: 47 Copynumber: 2.2 Consensus size: 49
60926721 CATGGCAATA
* * * *
60926731 TGTGATATGTGATTTCCTTATAAGACCATATCTGGGATATGGCATCG-G
1 TGTGATATGTGACTTCCGTATAAAACCATAGCTGGGATATGGCATCGAG
* * * *
60926779 TGTGATATGTG-CTTCCGTGTAAAACCATAGCTGGGCTATGGCTTTGATG
1 TGTGATATGTGACTTCCGTATAAAACCATAGCTGGGATATGGCATCGA-G
60926828 TGTGATATGTGA
1 TGTGATATGTGA
60926840 TTATGTGCAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
47 27 0.54
48 11 0.22
49 12 0.24
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.36
Consensus pattern (49 bp):
TGTGATATGTGACTTCCGTATAAAACCATAGCTGGGATATGGCATCGAG
Found at i:60927392 original size:25 final size:25
Alignment explanation
Indices: 60927363--60927476 Score: 156
Period size: 25 Copynumber: 4.6 Consensus size: 25
60927353 GAACCTTAGT
60927363 GTGCTCTCTGATTATTAGCACATCA
1 GTGCTCTCTGATTATTAGCACATCA
* *
60927388 ATGCTCTCTGATTATTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACATCA
* *
60927413 GTGCTCTCTGATTATTAGTACATCC
1 GTGCTCTCTGATTATTAGCACATCA
** *
60927438 GTGCTCTCTGATTATTAGCATGTTA
1 GTGCTCTCTGATTATTAGCACATCA
*
60927463 GTGGTCTCTGATTA
1 GTGCTCTCTGATTA
60927477 GCACATTTGT
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 77 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACATCA
Found at i:60927443 original size:50 final size:50
Alignment explanation
Indices: 60927363--60927476 Score: 174
Period size: 50 Copynumber: 2.3 Consensus size: 50
60927353 GAACCTTAGT
60927363 GTGCTCTCTGATTATTAGCACATCAATGCTCTCTGATTATTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACATCAATGCTCTCTGATTATTAGCACGTCA
* ** * *
60927413 GTGCTCTCTGATTATTAGTACATCCGTGCTCTCTGATTATTAGCATGTTA
1 GTGCTCTCTGATTATTAGCACATCAATGCTCTCTGATTATTAGCACGTCA
*
60927463 GTGGTCTCTGATTA
1 GTGCTCTCTGATTA
60927477 GCACATTTGT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (50 bp):
GTGCTCTCTGATTATTAGCACATCAATGCTCTCTGATTATTAGCACGTCA
Found at i:60927492 original size:22 final size:25
Alignment explanation
Indices: 60927438--60927494 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
60927428 TAGTACATCC
**
60927438 GTGCTCTCTGATTATTAGCATGTTA
1 GTGCTCTCTGATTAGCAGCATGTTA
*
60927463 GTGGTCTCTGATTAGCA-CAT-TT-
1 GTGCTCTCTGATTAGCAGCATGTTA
60927485 GTGCTCTCTG
1 GTGCTCTCTG
60927495 TATAACACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 9 0.32
23 2 0.07
24 3 0.11
25 14 0.50
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (25 bp):
GTGCTCTCTGATTAGCAGCATGTTA
Found at i:60927510 original size:22 final size:24
Alignment explanation
Indices: 60927438--60927517 Score: 62
Period size: 22 Copynumber: 3.5 Consensus size: 24
60927428 TAGTACATCC
**
60927438 GTGCTCTCTG-ATTATTAGCATGTTA
1 GTGCTCTCTGTATTAACA-CAT-TTA
* *
60927463 GTGGTCTCTG-ATTAGCACATTT-
1 GTGCTCTCTGTATTAACACATTTA
60927485 GTGCTCTCTGTA-TAACAC-TTTA
1 GTGCTCTCTGTATTAACACATTTA
*
60927507 GTGCTATCTGT
1 GTGCTCTCTGT
60927518 TCATTAGTGC
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
21 3 0.06
22 24 0.51
23 3 0.06
24 3 0.06
25 14 0.30
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (24 bp):
GTGCTCTCTGTATTAACACATTTA
Found at i:60928821 original size:13 final size:13
Alignment explanation
Indices: 60928803--60928827 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60928793 TACTTATTGG
60928803 TTAAACCATAAAA
1 TTAAACCATAAAA
60928816 TTAAACCATAAA
1 TTAAACCATAAA
60928828 TTTTGAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (13 bp):
TTAAACCATAAAA
Found at i:60929655 original size:37 final size:37
Alignment explanation
Indices: 60929594--60929740 Score: 226
Period size: 37 Copynumber: 4.0 Consensus size: 37
60929584 TACGTATGAT
* *
60929594 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
60929629 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
60929666 CACTTATCACTTTGTTTATTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
60929703 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
60929740 C
1 C
60929741 GAAGCTATCA
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 90 0.88
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:60929782 original size:52 final size:52
Alignment explanation
Indices: 60929703--60929919 Score: 293
Period size: 52 Copynumber: 4.2 Consensus size: 52
60929693 TAAGTGTAGC
* *
60929703 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
60929756 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
60929808 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * ** *
60929854 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
60929906 CACTTTGTCACTTG
1 CACTTT-TCACTTG
60929920 ATCAGAAGTA
Statistics
Matches: 145, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
52 86 0.59
53 15 0.10
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:60929834 original size:98 final size:98
Alignment explanation
Indices: 60929702--60929925 Score: 394
Period size: 98 Copynumber: 2.3 Consensus size: 98
60929692 ATAAGTGTAG
* *
60929702 CCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
*
60929767 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
* *
60929800 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
*
60929865 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
60929898 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
60929926 AGTACTCAAA
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 119 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.34
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
Found at i:60932641 original size:30 final size:30
Alignment explanation
Indices: 60932600--60932660 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
60932590 CATGTGTAAC
60932600 TATGACGATAAACATGTGAAAATTATTCAA
1 TATGACGATAAACATGTGAAAATTATTCAA
* *
60932630 TATGGCGATAAACATGTGACAATTATTCAA
1 TATGACGATAAACATGTGAAAATTATTCAA
60932660 T
1 T
60932661 TTTACATGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (30 bp):
TATGACGATAAACATGTGAAAATTATTCAA
Found at i:60933385 original size:121 final size:122
Alignment explanation
Indices: 60933170--60933415 Score: 476
Period size: 121 Copynumber: 2.0 Consensus size: 122
60933160 GCTTAGTGGT
60933170 TAAGCATGAATAGTCATCATTGGAAATTTCATGAAACATTAAGGTTAATTTTGGAAATTATCAAT
1 TAAGCATGAATAGTCATCATTGGAAATTTCATGAAACATTAAGGTTAATTTTGGAAATTATCAAT
*
60933235 TAAAATGATATTAAATAAAATAAAGTAAAAATCCTATTAT-ATCATCAACCACCAAA
66 TAAAATGATATTAAATAAAATAAAATAAAAATCCTATTATCATCATCAACCACCAAA
60933291 TAAGCATGAATAGTCATCATTGGAAATTTCATGAAACATTAAGGTTAATTTTGGAAATTATCAAT
1 TAAGCATGAATAGTCATCATTGGAAATTTCATGAAACATTAAGGTTAATTTTGGAAATTATCAAT
60933356 TAAAATGATATTAAATAAAATAAAATAAAAATCCTATTATCATCATCAACCACCAAA
66 TAAAATGATATTAAATAAAATAAAATAAAAATCCTATTATCATCATCAACCACCAAA
60933413 TAA
1 TAA
60933416 AATAAAAAAA
Statistics
Matches: 123, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
121 104 0.85
122 19 0.15
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (122 bp):
TAAGCATGAATAGTCATCATTGGAAATTTCATGAAACATTAAGGTTAATTTTGGAAATTATCAAT
TAAAATGATATTAAATAAAATAAAATAAAAATCCTATTATCATCATCAACCACCAAA
Found at i:60935107 original size:25 final size:24
Alignment explanation
Indices: 60935079--60935130 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
60935069 TCAACTCAAC
60935079 TTATTACAACGCGAGACCACTCCCT
1 TTATTACAACGCGAGACCACT-CCT
* *
60935104 TTATTGCAACGGGAGACCACTCCT
1 TTATTACAACGCGAGACCACTCCT
60935128 TTA
1 TTA
60935131 ACTGACCACC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (24 bp):
TTATTACAACGCGAGACCACTCCT
Found at i:60936181 original size:28 final size:26
Alignment explanation
Indices: 60936140--60936196 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 26
60936130 TCACGTAATT
60936140 AATAAATTATTATATATTTAATTTTACTA
1 AATAAATTATTATATA-TT-ATTTTA-TA
*
60936169 AATACATT-TTATATATTATTTTATA
1 AATAAATTATTATATATTATTTTATA
60936194 AAT
1 AAT
60936197 GTTATTTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 5 0.19
26 6 0.22
27 2 0.07
28 7 0.26
29 7 0.26
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (26 bp):
AATAAATTATTATATATTATTTTATA
Found at i:60938310 original size:17 final size:16
Alignment explanation
Indices: 60938288--60938330 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
60938278 TACTAGTTCA
60938288 ATTAATATTTTAATAT
1 ATTAATATTTTAATAT
60938304 GATTAATATTTT--TAT
1 -ATTAATATTTTAATAT
60938319 A-TAATATTTTAA
1 ATTAATATTTTAA
60938331 GGATCTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 9 0.38
14 1 0.04
15 3 0.12
17 11 0.46
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
ATTAATATTTTAATAT
Found at i:60942347 original size:6 final size:6
Alignment explanation
Indices: 60942336--60942362 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
60942326 GTCAAACATG
60942336 GGCTTC GGCTTC GGCTTC GGCTTC GGC
1 GGCTTC GGCTTC GGCTTC GGCTTC GGC
60942363 GTTTGGGGAT
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:0.00, C:0.33, G:0.37, T:0.30
Consensus pattern (6 bp):
GGCTTC
Found at i:60948135 original size:2 final size:2
Alignment explanation
Indices: 60948128--60948152 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
60948118 TGGAACTTGA
60948128 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
60948153 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:60950090 original size:18 final size:18
Alignment explanation
Indices: 60950063--60950137 Score: 123
Period size: 18 Copynumber: 4.2 Consensus size: 18
60950053 TACGACCGTT
60950063 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
60950081 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
60950099 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
60950117 TACGATACTGTTCACGTA
1 TACGGTACTATTCACGTA
60950135 TAC
1 TAC
60950138 AGTAGTTGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:60965516 original size:23 final size:23
Alignment explanation
Indices: 60965487--60965532 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
60965477 GATGCCCATC
60965487 TCTCTCCCTCCACCCAAAAAATA
1 TCTCTCCCTCCACCCAAAAAATA
*
60965510 TCTCTCCCTCCACCCGAAAAATA
1 TCTCTCCCTCCACCCAAAAAATA
60965533 ATTTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.43, G:0.02, T:0.22
Consensus pattern (23 bp):
TCTCTCCCTCCACCCAAAAAATA
Found at i:60965835 original size:170 final size:170
Alignment explanation
Indices: 60965648--60965983 Score: 609
Period size: 170 Copynumber: 2.0 Consensus size: 170
60965638 AAAAACATGG
60965648 ATGTCGTTCGTCTCTCTCCCTCCATCCCTGAAACCGTTTCAAACACCCTATTTTGGTAAATAATG
1 ATGTCGTTCGTCTCTCTCCCTCCATCCCTGAAACCGTTTCAAACACCCTATTTTGGTAAATAATG
*
60965713 ATATTGGCATACCATTTCAGTATTTAATTTTTTAATTTGTATTATACTAGTAAAAAAGCCCACTA
66 ATATTGGCATACCATTTCAATATTTAATTTTTTAATTTGTATTATACTAGTAAAAAAGCCCACTA
* *
60965778 TCTTATAGATTTTATTAACACCGTATGTTTTCAACACCGC
131 TCTTATAAATTTTATTAACACCGTATGTTTTAAACACCGC
*
60965818 ATGTCGTTCGTCTCTCTCCCTCCATCCCTGAAACTGTTTCAAACACCCTATTTTGGTAAATAATG
1 ATGTCGTTCGTCTCTCTCCCTCCATCCCTGAAACCGTTTCAAACACCCTATTTTGGTAAATAATG
* * *
60965883 ATATTGGCATACCATTTCAATATTTAATTTTTTAATTTGTGTTATACTGGTAAAAAAGTCCACTA
66 ATATTGGCATACCATTTCAATATTTAATTTTTTAATTTGTATTATACTAGTAAAAAAGCCCACTA
60965948 TCTTATAAATTTTATTAACACCGTATGTTTTAAACA
131 TCTTATAAATTTTATTAACACCGTATGTTTTAAACA
60965984 TGCCTGATCT
Statistics
Matches: 159, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
170 159 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.39
Consensus pattern (170 bp):
ATGTCGTTCGTCTCTCTCCCTCCATCCCTGAAACCGTTTCAAACACCCTATTTTGGTAAATAATG
ATATTGGCATACCATTTCAATATTTAATTTTTTAATTTGTATTATACTAGTAAAAAAGCCCACTA
TCTTATAAATTTTATTAACACCGTATGTTTTAAACACCGC
Found at i:60966181 original size:33 final size:33
Alignment explanation
Indices: 60966139--60966208 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
60966129 AAATATAATT
60966139 TACACTTAAAATTTGAATAATAATTTAAATGGG
1 TACACTTAAAATTTGAATAATAATTTAAATGGG
60966172 TACACTTAAAATTTGAATAATAATTTAAATGGG
1 TACACTTAAAATTTGAATAATAATTTAAATGGG
60966205 TACA
1 TACA
60966209 GGGAAATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (33 bp):
TACACTTAAAATTTGAATAATAATTTAAATGGG
Found at i:60967285 original size:9 final size:9
Alignment explanation
Indices: 60967267--60967306 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
60967257 TTTGGTTAAA
60967267 AATTAACCG
1 AATTAACCG
*
60967276 AATTACCCG
1 AATTAACCG
*
60967285 AATTAACCA
1 AATTAACCG
*
60967294 AATTAACCA
1 AATTAACCG
60967303 AATT
1 AATT
60967307 GAATCACTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:60967436 original size:18 final size:18
Alignment explanation
Indices: 60967413--60967447 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
60967403 TAATTTTATG
60967413 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGGTA
60967431 ATTGGGTTGGGTTGGGT
1 ATTGGGTTGGGTTGGGT
60967448 TGAATACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.09, C:0.00, G:0.51, T:0.40
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGGTA
Found at i:60967458 original size:23 final size:23
Alignment explanation
Indices: 60967414--60967461 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
60967404 AATTTTATGA
**
60967414 TTGGGTTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTTGAATAATTGGG
*
60967437 TTGGGTTGGGTTGAATACTTGGG
1 TTGGGTTGGGTTGAATAATTGGG
60967460 TT
1 TT
60967462 TAAATTGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.10, C:0.02, G:0.46, T:0.42
Consensus pattern (23 bp):
TTGGGTTGGGTTGAATAATTGGG
Found at i:60969955 original size:12 final size:12
Alignment explanation
Indices: 60969938--60969963 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
60969928 GAGAACAATC
60969938 TTTTTTAATATA
1 TTTTTTAATATA
60969950 TTTTTTAATATA
1 TTTTTTAATATA
60969962 TT
1 TT
60969964 AATTGATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTTTAATATA
Found at i:60970599 original size:27 final size:27
Alignment explanation
Indices: 60970569--60970622 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
60970559 TAGGTAAAAG
*
60970569 ATGAGACCATTGA-TATGGAATTTGTGA
1 ATGAGACCATTGAGT-TGGAATTAGTGA
*
60970596 ATGAGATCATTGAGTTGGAATTAGTGA
1 ATGAGACCATTGAGTTGGAATTAGTGA
60970623 GATAAATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (27 bp):
ATGAGACCATTGAGTTGGAATTAGTGA
Found at i:60972588 original size:16 final size:17
Alignment explanation
Indices: 60972559--60972590 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
60972549 AAGTTAAGGG
60972559 GGGAAATAAAAAGTTTT
1 GGGAAATAAAAAGTTTT
60972576 GGGAAAT-AAAAGTTT
1 GGGAAATAAAAAGTTT
60972591 GAGGGAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (17 bp):
GGGAAATAAAAAGTTTT
Found at i:60972596 original size:17 final size:16
Alignment explanation
Indices: 60972559--60972603 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
60972549 AAGTTAAGGG
*
60972559 GGGAAATAAAAAGTTTT
1 GGGAAAT-AAAAGTTTA
60972576 GGGAAATAAAAGTTTGA
1 GGGAAATAAAAGTTT-A
60972593 GGGAAAGTAAA
1 GGGAAA-TAAA
60972604 TAGGGAGAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 8 0.32
17 13 0.52
18 4 0.16
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (16 bp):
GGGAAATAAAAGTTTA
Found at i:60972967 original size:9 final size:9
Alignment explanation
Indices: 60972953--60972989 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
60972943 TATAGTTTGA
60972953 TATTCGAAT
1 TATTCGAAT
60972962 TATTCGAAT
1 TATTCGAAT
*
60972971 TATTCGAGT
1 TATTCGAAT
60972980 TATTCGAAT
1 TATTCGAAT
60972989 T
1 T
60972990 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:60974554 original size:48 final size:48
Alignment explanation
Indices: 60974483--60974582 Score: 173
Period size: 48 Copynumber: 2.1 Consensus size: 48
60974473 ATATTTATTT
*
60974483 AATTAGAATAACTGCAACATTAAAACTTGGAACAAACTTTGTAATATA
1 AATTAGAATAACTGCAACATTAAAACTTGGAACAAACATTGTAATATA
* *
60974531 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACATTGTAATATA
1 AATTAGAATAACTGCAACATTAAAACTTGGAACAAACATTGTAATATA
60974579 AATT
1 AATT
60974583 TTGCAATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.31
Consensus pattern (48 bp):
AATTAGAATAACTGCAACATTAAAACTTGGAACAAACATTGTAATATA
Found at i:60974615 original size:62 final size:62
Alignment explanation
Indices: 60974520--60974644 Score: 164
Period size: 62 Copynumber: 2.0 Consensus size: 62
60974510 TGGAACAAAC
* * * *
60974520 TTTGTAATATAAATTAGATTAATTGCAACATT-AAAACTTGGAACAAACATTGTAATATAAAT
1 TTTGCAATATAAATTAGAATAATTACAACATTAAAAAC-TAGAACAAACATTGTAATATAAAT
* *
60974582 TTTGCAATATAAATTA-AATACATTACAATATTAAAAACTAGAACAAACTTTGTAATATAAAT
1 TTTGCAATATAAATTAGAATA-ATTACAACATTAAAAACTAGAACAAACATTGTAATATAAAT
60974644 T
1 T
60974645 AGGTACATTG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
61 3 0.05
62 47 0.85
63 5 0.09
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (62 bp):
TTTGCAATATAAATTAGAATAATTACAACATTAAAAACTAGAACAAACATTGTAATATAAAT
Found at i:60977775 original size:30 final size:31
Alignment explanation
Indices: 60977720--60977777 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
60977710 CATCAGATTA
*
60977720 TTTTAACAGTTTTGTTTTTTGTTGTCAGTTT
1 TTTTAACAGTTTTATTTTTTGTTGTCAGTTT
60977751 TTTTAACAGTTTTATTTTTT-TTGTCAG
1 TTTTAACAGTTTTATTTTTTGTTGTCAG
60977778 AACTAGAGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.16, C:0.07, G:0.14, T:0.64
Consensus pattern (31 bp):
TTTTAACAGTTTTATTTTTTGTTGTCAGTTT
Found at i:60981279 original size:24 final size:24
Alignment explanation
Indices: 60981243--60981297 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
60981233 TTCCCAATAT
* * *
60981243 ATGGCTATCCGGAGCTTCCCGTTA
1 ATGGCTCTACGGAGCTACCCGTTA
60981267 ATGGCTCTACGGAGCTACCCGTTA
1 ATGGCTCTACGGAGCTACCCGTTA
*
60981291 TTGGCTC
1 ATGGCTC
60981298 GAATGAGCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.16, C:0.29, G:0.25, T:0.29
Consensus pattern (24 bp):
ATGGCTCTACGGAGCTACCCGTTA
Found at i:60981305 original size:24 final size:24
Alignment explanation
Indices: 60981253--60981306 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
60981243 ATGGCTATCC
* * *
60981253 GGAGCTTCCCGTTAATGGCTCTAC
1 GGAGCTACCCGTTAATGGCTCGAA
*
60981277 GGAGCTACCCGTTATTGGCTCGAA
1 GGAGCTACCCGTTAATGGCTCGAA
*
60981301 TGAGCT
1 GGAGCT
60981307 TCCTGATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.28
Consensus pattern (24 bp):
GGAGCTACCCGTTAATGGCTCGAA
Found at i:60981698 original size:15 final size:17
Alignment explanation
Indices: 60981680--60981716 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
60981670 AAATACATGG
60981680 AAATGA-TGATAT-ATA
1 AAATGATTGATATAATA
60981695 AAAT-ATTGATATAATA
1 AAATGATTGATATAATA
60981711 AAATGA
1 AAATGA
60981717 ACGATATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 1 0.05
15 10 0.53
16 7 0.37
17 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (17 bp):
AAATGATTGATATAATA
Found at i:61003433 original size:21 final size:21
Alignment explanation
Indices: 61003394--61003434 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
61003384 ATCTGCTCAA
* *
61003394 ACTCCACCTGTTTTAGAGTAC
1 ACTCCACCTGCTGTAGAGTAC
*
61003415 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTAGAGTA
61003435 TTGCTCATCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTAGAGTAC
Found at i:61012525 original size:72 final size:79
Alignment explanation
Indices: 61012427--61012617 Score: 200
Period size: 80 Copynumber: 2.5 Consensus size: 79
61012417 TTCGAACATG
* * * *
61012427 TATATATATGTATATGATCTTAAATTTAGTTAAAGGTA-AGACTG-T-TA-TATATATATAAGAT
1 TATATATATGTATAAGATTTTGAATTTAATTAAAGGTATAGAC-GATATATTATATATATAAGAT
*
61012488 TC-GA-A-A-ATGTA
65 TCAAATATATATGTA
* *
61012499 TATATATATGTATAAGATTTTGAATTTAATTAAAGGTATGGACGATATATTTATATATATAAGGT
1 TATATATATGTATAAGATTTTGAATTTAATTAAAGGTATAGACGATATA-TTATATATATAAGAT
61012564 TCAAATATATATGTA
65 TCAAATATATATGTA
* * ** *
61012579 TATATATAGGTATAAGTTTTTGAATAGAATTAAAAGTAT
1 TATATATATGTATAAGATTTTGAATTTAATTAAAGGTAT
61012618 GAATTCTATA
Statistics
Matches: 98, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
72 35 0.36
73 4 0.04
74 2 0.02
76 15 0.15
77 1 0.01
78 1 0.01
79 1 0.01
80 39 0.40
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.41
Consensus pattern (79 bp):
TATATATATGTATAAGATTTTGAATTTAATTAAAGGTATAGACGATATATTATATATATAAGATT
CAAATATATATGTA
Found at i:61013029 original size:41 final size:41
Alignment explanation
Indices: 61012981--61013089 Score: 157
Period size: 41 Copynumber: 2.6 Consensus size: 41
61012971 AATTATAAGT
*
61012981 CTAGCAGGCTAAGTGCCGGTGAT-TGAAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATATG-AATCAGGCTATAAAC
* * *
61013022 CTAGCAGGCTACGTGCTGGTGATATGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATATGAATCAGGCTATAAAC
61013063 CTAGCAGGCTAAGTGCCGGTGAATATG
1 CTAGCAGGCTAAGTGCCGGTG-ATATG
61013090 TTAAATTATG
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
41 53 0.88
42 7 0.12
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATATGAATCAGGCTATAAAC
Found at i:61018745 original size:13 final size:13
Alignment explanation
Indices: 61018727--61018751 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61018717 TATTTTAATA
61018727 TTATTTTGTGTGT
1 TTATTTTGTGTGT
61018740 TTATTTTGTGTG
1 TTATTTTGTGTG
61018752 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:61020709 original size:40 final size:40
Alignment explanation
Indices: 61020636--61020711 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
61020626 GGTTAAGCGC
*
61020636 CTAGAAGGCTTAATGCCGGTGAATTTTTCAAATTATAAGT
1 CTAGAAGGCTTAATGCCGGTGAATTGTTCAAATTATAAGT
*
61020676 CTAGCAGGC-TAAGTGCCGGTGAATATGTT-AAATTAT
1 CTAGAAGGCTTAA-TGCCGGTGAAT-TGTTCAAATTAT
61020712 GTGATTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
39 3 0.09
40 26 0.81
41 3 0.09
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (40 bp):
CTAGAAGGCTTAATGCCGGTGAATTGTTCAAATTATAAGT
Found at i:61021479 original size:18 final size:18
Alignment explanation
Indices: 61021456--61021493 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
61021446 GGGTTTGTCA
61021456 TCATTATTATCCATATTT
1 TCATTATTATCCATATTT
*
61021474 TCATTATTATCCCTATTT
1 TCATTATTATCCATATTT
61021492 TC
1 TC
61021494 CGCTAGATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (18 bp):
TCATTATTATCCATATTT
Found at i:61023909 original size:12 final size:11
Alignment explanation
Indices: 61023892--61023924 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
61023882 AACAAATCCT
61023892 CTCTCATATTTC
1 CTCTCA-ATTTC
61023904 CTCTCAA-TTC
1 CTCTCAATTTC
61023914 CTCTCAATTTC
1 CTCTCAATTTC
61023925 TTTCCAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 4 0.20
12 6 0.30
ACGTcount: A:0.18, C:0.36, G:0.00, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:61023968 original size:29 final size:29
Alignment explanation
Indices: 61023936--61024022 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
61023926 TTCCAAAATT
61023936 CTCTCAAATTCATATTTAATTTCAATTTC
1 CTCTCAAATTCATATTTAATTTCAATTTC
* * * *
61023965 CTCTCAATTTC--CTTCAA----AAATT-
1 CTCTCAAATTCATATTTAATTTCAATTTC
*
61023987 CTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAAATTCATATTTAATTTCAATTTC
61024016 CTCTCAA
1 CTCTCAA
61024023 TTTCCTTTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 14
0.65 0.14 0.22
Matches are distributed among these distances:
22 9 0.21
23 4 0.10
24 4 0.10
27 4 0.10
28 4 0.10
29 17 0.40
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (29 bp):
CTCTCAAATTCATATTTAATTTCAATTTC
Found at i:61023975 original size:51 final size:51
Alignment explanation
Indices: 61023907--61024029 Score: 212
Period size: 51 Copynumber: 2.4 Consensus size: 51
61023897 ATATTTCCTC
* * *
61023907 TCAA-TTCCTCTCAATTTCTTTCCAAAATTCTCTCAAATTCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATT
61023957 TCAATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATT
61024008 TCAATTTCCTCTCAATTTCCTT
1 TCAATTTCCTCTCAATTTCCTT
61024030 TTTTAAAATA
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
50 4 0.06
51 65 0.94
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATT
Found at i:61027287 original size:46 final size:44
Alignment explanation
Indices: 61027220--61027491 Score: 225
Period size: 46 Copynumber: 6.6 Consensus size: 44
61027210 TTTGAGTACT
* *
61027220 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC--TAGCTACACTTA
61027266 TCTGATCAAGTGACAAAGTGAT-A-----AG-T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTAGCTACACTTA
* *
61027302 TCTGATTAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC--TAGCTACACTTA
*
61027348 TCTGATCAAGTGAAAAAGTGATAA---GT-GCTA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTAGCTACACTTA
* * *
61027384 TCTGATCAAGTGA-AAA---A-AAGTGATAAG-T-GCTATATTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGT-AGCTAGCTACACTTA
*
61027422 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TAGCTACACTTA
*
61027467 TCTGATC-AGGGACAAA-TGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
61027492 ATCATACATA
Statistics
Matches: 185, Mismatches: 14, Indels: 57
0.72 0.05 0.22
Matches are distributed among these distances:
31 2 0.01
32 1 0.01
34 1 0.01
35 4 0.02
36 50 0.27
37 2 0.01
38 18 0.10
39 3 0.02
40 4 0.02
42 7 0.04
43 17 0.09
44 8 0.04
45 17 0.09
46 51 0.28
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (44 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTAGCTACACTTA
Found at i:61027297 original size:36 final size:36
Alignment explanation
Indices: 61027256--61027448 Score: 206
Period size: 36 Copynumber: 5.0 Consensus size: 36
61027246 GGTAGCTTTA
*
61027256 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
61027292 GCTACACTTATCTGATTAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
61027337 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
61027374 GCTATACTTATCTGATCAAGTGAAAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTG--AAAAAGTGATAAGT
* * *
61027412 GCTATATTTATCTGATCAAGTGATAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
61027448 G
1 G
61027449 GTAGCTTAGC
Statistics
Matches: 137, Mismatches: 8, Indels: 24
0.81 0.05 0.14
Matches are distributed among these distances:
36 65 0.47
37 2 0.01
38 35 0.26
40 2 0.01
42 2 0.01
45 2 0.01
46 29 0.21
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.30
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:61027357 original size:82 final size:82
Alignment explanation
Indices: 61027220--61027412 Score: 314
Period size: 82 Copynumber: 2.3 Consensus size: 82
61027210 TTTGAGTACT
* *
61027220 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
61027285 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
* *
61027302 TCTGATTAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
61027367 GATAAGTGCTATACTTA
66 GATAAGTGCTACACTTA
*
61027384 TCTGATCAAGTGAAAAAAAGTGATAAGTG
1 TCTGATCAA--GAGAAAAAGTGATAAGTG
61027413 CTATATTTAT
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
82 86 0.84
84 16 0.16
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:61027411 original size:120 final size:115
Alignment explanation
Indices: 61027256--61027491 Score: 346
Period size: 120 Copynumber: 2.0 Consensus size: 115
61027246 GGTAGCTTTA
* *
61027256 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGCTACACTTATCTGATTAAGAGACAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
*
61027321 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
66 GATAAGTGGTAGC-TTAGCTACACTTATCTGATC-AGGGAAAAA-TGATAAGT
* * * * *
61027374 GCTATACTTATCTGATCAAGTGAAAAAAAGTGATAAGTGCTATATTTATCTGATCAAGTGATAAA
1 GCTACACTTATCTGATCAAGTG--AAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAA
*
61027439 GTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGGGACAAATGATAAGT
64 GTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGGGAAAAATGATAAGT
61027491 G
1 G
61027492 ATCATACATA
Statistics
Matches: 107, Mismatches: 9, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
117 9 0.08
118 28 0.26
119 20 0.19
120 50 0.47
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (115 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
GATAAGTGGTAGCTTAGCTACACTTATCTGATCAGGGAAAAATGATAAGT
Found at i:61027423 original size:74 final size:78
Alignment explanation
Indices: 61027220--61027448 Score: 252
Period size: 82 Copynumber: 2.9 Consensus size: 78
61027210 TTTGAGTACT
* * *
61027220 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAA--GATAAGTGATAG--TTAGCTACACTTATCTGATCAAGTGAAAAAGT
61027285 GATAAGTGCTACACTTA
62 GATAAGTGCTACACTTA
* *
61027302 TCTGATTAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAA--GATAAGTGATAG--TTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
61027367 GATAAGTGCTATACTTA
62 GATAAGTGCTACACTTA
* * * *
61027384 TCTGATCAAGTGA-AAA-A-AAGTGATAAG-T-GCTATATTTATCTGATCAAGTGATAAAGTGAT
1 TCTGATCAAGAGACAAAGATAAGTGAT-AGTTAGCTACACTTATCTGATCAAGTGAAAAAGTGAT
61027444 AAGTG
65 AAGTG
61027449 GTAGCTTAGC
Statistics
Matches: 136, Mismatches: 10, Indels: 10
0.87 0.06 0.06
Matches are distributed among these distances:
74 34 0.25
75 1 0.01
77 6 0.04
78 3 0.02
81 3 0.02
82 89 0.65
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (78 bp):
TCTGATCAAGAGACAAAGATAAGTGATAGTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATA
AGTGCTACACTTA
Found at i:61028909 original size:23 final size:23
Alignment explanation
Indices: 61028876--61028937 Score: 106
Period size: 23 Copynumber: 2.7 Consensus size: 23
61028866 TAAAAACCCT
*
61028876 AACCTTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
61028899 AATCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
61028922 AACCCTAACCTAATTT
1 AACCCTAACCTAATTT
61028938 TACATAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:61032215 original size:123 final size:122
Alignment explanation
Indices: 61031989--61032327 Score: 443
Period size: 123 Copynumber: 2.7 Consensus size: 122
61031979 GCTAATTTAC
* *
61031989 CAAAAACGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCTTGCTAGAAGCGA
1 CAAAAACGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCTTGCT--AAGCGA
*
61032054 TTTTATATTATTTGCTCAGAAACGTC-AAAAAAAATATTTCTTACATGACCTACTGTAG
64 TTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCTTACATGACCTACTGTAG
* * *
61032112 CAAAAACGCG-CTGACGAGGCCGC-AGTTTTACAAATTCTTCTCAAATAACATCTTGCT-AGCGA
1 CAAAAACGCGTC-CACGAGGCCGCGA-TTTCACAAATTCTTCTCAAATAGCATCTTGCTAAGCGA
* *
61032174 TTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGACCTACTGTAG
64 TTTTATACTATTTGCTCAGAAACGTCAAAAAAA-AA-TATTTCTTACATGACCTACTGTAG
* * * * *
61032235 CAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTACTAGAAGTGA
1 CAAAAACGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCTTGCT--AAGCGA
**
61032300 TTTTATACTATTTTATCAGAAACGTCAA
64 TTTTATACTATTTGCTCAGAAACGTCAA
61032328 CTCGAAATTA
Statistics
Matches: 188, Mismatches: 18, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
120 30 0.16
121 6 0.03
122 4 0.02
123 116 0.62
124 2 0.01
126 30 0.16
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (122 bp):
CAAAAACGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCTTGCTAAGCGATT
TTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCTTACATGACCTACTGTAG
Found at i:61041996 original size:101 final size:99
Alignment explanation
Indices: 61041890--61042188 Score: 304
Period size: 91 Copynumber: 3.1 Consensus size: 99
61041880 ATTTAATATT
61041890 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
1 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
61041955 ATCATTATTAAAT-TA--T-AT-TTAA-TA--TT-
66 AT-ATTATTAAATATATTTAATATTAATTATTTTA
61041981 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
1 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
*
61042046 ATTATTATTAAATTATATTTAATAATAATTATTTTA
66 A-TATTATTAAA-TATATTTAATATTAATTATTTTA
** * * * *
61042082 AATTA-TACAAATTCATATAAGAAAATTTAT-TAGGTATAA-TTATTAT--A-AATTTTATTAAA
1 AATTATTTTAAATT-ATAT----AAATTCATATAAG-AAAATTTATTATCAAGAATTTTATGAAA
* * *
61042141 TCATATATTTTAATTAAAATATATTTAATATTAATTATTTCA
60 TTATATATATT-ATT-AAATATATTTAATATTAATTATTTTA
61042183 AATTAT
1 AATTAT
61042189 ATTTTATAGT
Statistics
Matches: 177, Mismatches: 11, Indels: 29
0.82 0.05 0.13
Matches are distributed among these distances:
91 75 0.42
92 2 0.01
93 2 0.01
95 1 0.01
96 2 0.01
97 3 0.02
98 2 0.01
100 11 0.06
101 55 0.31
102 4 0.02
104 10 0.06
105 10 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (99 bp):
AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
ATATTATTAAATATATTTAATATTAATTATTTTA
Found at i:61042132 original size:91 final size:91
Alignment explanation
Indices: 61041855--61042113 Score: 491
Period size: 91 Copynumber: 2.8 Consensus size: 91
61041845 TTAAATGTAT
61041855 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
61041920 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
61041946 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
61042011 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
* * *
61042037 AAATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
61042102 GAAAATTTATTA
66 GAAAATTTATTA
61042114 GGTATAATTA
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 165 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
GAAAATTTATTATCAAGAATTTTATG
Found at i:61042284 original size:16 final size:16
Alignment explanation
Indices: 61042263--61042304 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
61042253 TTATTAAATT
*
61042263 ATATATTTTAATTATA
1 ATATATTTTAATAATA
61042279 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
61042294 AT-TATGTTTAA
1 ATATAT-TTTAA
61042305 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:61042289 original size:15 final size:15
Alignment explanation
Indices: 61042254--61042295 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
61042244 TTAAGAATTT
*
61042254 TATTAAATTAT-ATA
1 TATTTAATTATAATA
61042268 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
61042282 TATTTAATAATAAT
1 TATTTAATTATAAT
61042296 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:61042530 original size:45 final size:44
Alignment explanation
Indices: 61042449--61042539 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
61042439 ACCTTTATTC
*
61042449 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
*** *
61042493 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTATTCCATTA
61042538 CA
1 CA
61042540 CCTCTAATCC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 16 0.39
45 25 0.61
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
Found at i:61042539 original size:16 final size:16
Alignment explanation
Indices: 61042518--61042555 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
61042508 TTGATTTGCT
*
61042518 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
61042534 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
61042550 AATACA
1 ATTACA
61042556 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:61042996 original size:15 final size:15
Alignment explanation
Indices: 61042957--61043004 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
61042947 ATGTCAGCAC
61042957 TTTAAATATA--AAGA
1 TTTAAATATACCAA-A
*
61042971 TTAAAATTATACCAAA
1 TTTAAA-TATACCAAA
61042987 TTTAAATATACCAAA
1 TTTAAATATACCAAA
61043002 TTT
1 TTT
61043005 TATGAAAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
14 5 0.17
15 16 0.55
16 6 0.21
17 2 0.07
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (15 bp):
TTTAAATATACCAAA
Found at i:61044482 original size:21 final size:19
Alignment explanation
Indices: 61044458--61044504 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
61044448 GCTAATAAAA
*
61044458 TTTAAAACTTTTTTCTCAAAT
1 TTTAAAACTTTATT-TC-AAT
*
61044479 TTTATAACTTTATTTCAAT
1 TTTAAAACTTTATTTCAAT
61044498 TTTAAAA
1 TTTAAAA
61044505 TAAAAATTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 9 0.39
20 2 0.09
21 12 0.52
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTAAAACTTTATTTCAAT
Found at i:61044647 original size:11 final size:11
Alignment explanation
Indices: 61044618--61044647 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
61044608 TGCCTTCTGA
61044618 TTTTTTTTCTT
1 TTTTTTTTCTT
*
61044629 TTTCTTTTCTT
1 TTTTTTTTCTT
61044640 TTTTTTTT
1 TTTTTTTT
61044648 AAATTTGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:61046029 original size:19 final size:20
Alignment explanation
Indices: 61045981--61046030 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
61045971 TTTTTTTACT
* *
61045981 TTTTAAATT-TATTATTAAT
1 TTTTAAATTATTTTATTAAA
61046000 TTTTAAA-TATTTTA-TAAA
1 TTTTAAATTATTTTATTAAA
61046018 TTTTAAATTATTT
1 TTTTAAATTATTT
61046031 GTTGACGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTAAATTATTTTATTAAA
Found at i:61052782 original size:21 final size:21
Alignment explanation
Indices: 61052757--61052799 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
61052747 TATAAATTTT
61052757 TATGATTAAAGTTACAAATTA
1 TATGATTAAAGTTACAAATTA
61052778 TATGATTAAAGTTACAAATTA
1 TATGATTAAAGTTACAAATTA
61052799 T
1 T
61052800 TTGCATCGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (21 bp):
TATGATTAAAGTTACAAATTA
Found at i:61055967 original size:14 final size:14
Alignment explanation
Indices: 61055948--61055976 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
61055938 TTGACTCCTA
61055948 CTACTTTCACCCTG
1 CTACTTTCACCCTG
61055962 CTACTTTCACCCTG
1 CTACTTTCACCCTG
61055976 C
1 C
61055977 AAGGTGCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.45, G:0.07, T:0.34
Consensus pattern (14 bp):
CTACTTTCACCCTG
Found at i:61057202 original size:15 final size:16
Alignment explanation
Indices: 61057174--61057208 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
61057164 CATTTTAGTC
61057174 ATCACTTTTAAAAATA
1 ATCACTTTTAAAAATA
*
61057190 ATCA-TTTTGAAAATA
1 ATCACTTTTAAAAATA
61057205 ATCA
1 ATCA
61057209 AAGTTTGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (16 bp):
ATCACTTTTAAAAATA
Found at i:61084374 original size:31 final size:30
Alignment explanation
Indices: 61084315--61084380 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 30
61084305 TTTGTTAGTT
* *
61084315 AAATTTGACTATCACCATTTAAAGAGAGTC
1 AAATTTGACAATCACCATTTAAAAAGAGTC
* *
61084345 AAATTTGACAATCAATCTTTTAAAAAGAGTC
1 AAATTTGACAATC-ACCATTTAAAAAGAGTC
*
61084376 GAATT
1 AAATT
61084381 GATGTTGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 12 0.40
31 18 0.60
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (30 bp):
AAATTTGACAATCACCATTTAAAAAGAGTC
Found at i:61086082 original size:29 final size:30
Alignment explanation
Indices: 61086018--61086089 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
61086008 ACAACTGGAC
*
61086018 TTAAATTTTGAAATATAAAAAGTAAAGGGA
1 TTAAATTTTGAAATATAAAAAGTAAAGGAA
* *
61086048 CTAAATTTCTGAAA-ATAAAAA-TAGAGGAA
1 TTAAATTT-TGAAATATAAAAAGTAAAGGAA
61086077 TTAAATTTT-AAAT
1 TTAAATTTTGAAAT
61086090 TTATGAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
27 3 0.08
28 1 0.03
29 13 0.36
30 14 0.39
31 5 0.14
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.32
Consensus pattern (30 bp):
TTAAATTTTGAAATATAAAAAGTAAAGGAA
Found at i:61087256 original size:29 final size:29
Alignment explanation
Indices: 61087198--61087258 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
61087188 TTAACCTTAT
* * *
61087198 TTTATTCTCTTTAATAGTATAAAAACTAA
1 TTTATTCTATTTAATAATATAAAAAATAA
61087227 TTTATTCTATTTAATAATA-AAATAAATAA
1 TTTATTCTATTTAATAATATAAA-AAATAA
61087256 TTT
1 TTT
61087259 GATTAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.48
Consensus pattern (29 bp):
TTTATTCTATTTAATAATATAAAAAATAA
Found at i:61091103 original size:29 final size:31
Alignment explanation
Indices: 61091057--61091114 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 31
61091047 ATTTGAATTT
*
61091057 TAAAATATAAAAAGTAAATAGACTAAATTAC
1 TAAAATATAAAAAGTAAAAAGACTAAATTAC
61091088 TAAAA-ATAAAAA-TAAAAAGACTAAATT
1 TAAAATATAAAAAGTAAAAAGACTAAATT
61091115 TCACATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 14 0.54
30 7 0.27
31 5 0.19
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (31 bp):
TAAAATATAAAAAGTAAAAAGACTAAATTAC
Found at i:61091735 original size:114 final size:111
Alignment explanation
Indices: 61091502--61091735 Score: 269
Period size: 113 Copynumber: 2.1 Consensus size: 111
61091492 GATTCACAAA
*
61091502 AAGCGCCGCAAAAAAATAAGGCCAACGACGTCGTTTATTGAGTTTTTGGGCCATTAGCGGCGTTT
1 AAGCGCCGCAAAAAAATAAGGCCAACGACGCCGTTTATTGAGTTTTTGGGCCATTAGCGGCGTTT
*
61091567 TTACAAAAGCGCCCTAATGCTCCTGTCTTTAGCGGCGTTTTCTGAG
66 TTACAAAAGCGCCCTAATGATCCTGTCTTTAGCGGCGTTTTCTGAG
* * * * *
61091613 AAGCGCCGCAAAAAACCTAAGGGCAACGACGCCGTTTTCTTTG-TTTTTTGGGCCTTTAGCGGCG
1 AAGCGCCGCAAAAAA-ATAAGGCCAACGACGCCG-TTT-ATTGAGTTTTTGGGCCATTAGCGGCG
* * * * *
61091677 TTTTCT-TAAAAGTGCCGCTAATGAT-TTGTTTTTTAGCGGCGTTTTTCTG-T
63 TTTT-TACAAAAGCGCC-CTAATGATCCTG-TCTTTAGCGGCG-TTTTCTGAG
61091727 AAGCGCCGC
1 AAGCGCCGC
61091736 TAATAGTAAT
Statistics
Matches: 104, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
111 15 0.14
112 15 0.14
113 36 0.35
114 31 0.30
115 7 0.07
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (111 bp):
AAGCGCCGCAAAAAAATAAGGCCAACGACGCCGTTTATTGAGTTTTTGGGCCATTAGCGGCGTTT
TTACAAAAGCGCCCTAATGATCCTGTCTTTAGCGGCGTTTTCTGAG
Found at i:61092098 original size:28 final size:28
Alignment explanation
Indices: 61092058--61092114 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
61092048 AATTTGATAT
61092058 ATAGTTCGACTAAATTAATATATAAATC
1 ATAGTTCGACTAAATTAATATATAAATC
61092086 ATAGTTCGACTAAATTAATATATAAATC
1 ATAGTTCGACTAAATTAATATATAAATC
61092114 A
1 A
61092115 AACAAAGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (28 bp):
ATAGTTCGACTAAATTAATATATAAATC
Found at i:61092143 original size:18 final size:21
Alignment explanation
Indices: 61092097--61092145 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 21
61092087 TAGTTCGACT
61092097 AAATTAATATATAAATCAAAC
1 AAATTAATATATAAATCAAAC
* *
61092118 AAAGTAATATA-AAA-C-ACC
1 AAATTAATATATAAATCAAAC
61092136 AAATTAATAT
1 AAATTAATAT
61092146 CGTGATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 11 0.44
19 1 0.04
20 3 0.12
21 10 0.40
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATTAATATATAAATCAAAC
Found at i:61092429 original size:15 final size:16
Alignment explanation
Indices: 61092411--61092441 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
61092401 GCTTTAAGAC
61092411 TTAGGGTT-TAGGGGT
1 TTAGGGTTATAGGGGT
61092426 TTAGGGTTATAGGGGT
1 TTAGGGTTATAGGGGT
61092442 CGTGTTAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.39
Consensus pattern (16 bp):
TTAGGGTTATAGGGGT
Found at i:61092757 original size:21 final size:21
Alignment explanation
Indices: 61092733--61092811 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 21
61092723 TCGAATGTAA
61092733 GGGTTTGTGGTTTGGAGTTTG
1 GGGTTTGTGGTTTGGAGTTTG
* * *
61092754 GGGTTTGTGTTTTTGAGTTTA
1 GGGTTTGTGGTTTGGAGTTTG
* * *
61092775 GAGTTTAAT-GTTTGGGGTTTG
1 GGGTTT-GTGGTTTGGAGTTTG
* *
61092796 GGGTTAGGGGTTTGGA
1 GGGTTTGTGGTTTGGA
61092812 AATTTAAGGG
Statistics
Matches: 42, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
21 41 0.98
22 1 0.02
ACGTcount: A:0.10, C:0.00, G:0.43, T:0.47
Consensus pattern (21 bp):
GGGTTTGTGGTTTGGAGTTTG
Found at i:61093714 original size:231 final size:230
Alignment explanation
Indices: 61093220--61093736 Score: 777
Period size: 230 Copynumber: 2.2 Consensus size: 230
61093210 AAGTTGTGAA
* *
61093220 GAAAACGGCGCCGTTTTCTTATTACATTTAGTGGCGTTTTATACAAAACGCCGCAACTATGTTTT
1 GAAAACGACGCCGTTTTCTTATTACATTTAGTGGCGTTTTA-ATAAAACGCCGCAACTATGTTTT
* * * ** *
61093285 CTTTGTTACGGGAACGGCGTCGTTTTCCATTGTTATTAGTGGCGTTACACCCAAAACGCCGCAAA
65 CTTTGTTACAGAAACGGCATCGTTTTCCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAA
*
61093350 TATATTTTAAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCATT
130 TATATTTTAAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACT
* *
61093415 TATATATAAACGTCGCAAACTCGAAATGGTGTTACG
195 TATATATAAACGCCGCAAAATCGAAATGGTGTTACG
* * *
61093451 AAAAATGACGCCGTTTTCTTATTACATTTAGTGGCGTTTTAGATAAAACGCCGCAAGTATGTTTT
1 GAAAACGACGCCGTTTTCTTATTACATTTAGTGGCGTTTTA-ATAAAACGCCGCAACTATGTTTT
*
61093516 CTTTGTTACAGAAACGGCATCGTTTT-CAAGGATATTTGTGGCGTTACACCCAAAACGCCGCAAA
65 CTTTGTTACAGAAACGGCATCGTTTTCCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAA
* * *
61093580 TATATTTTAAAGATTACAGGAGTTTGCTTTAAACGACTGCGTTTGACCTTATATTTAGTGGCGCT
130 TATATTTTAAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACT
61093645 TATATATAAACGCCGCAAAATCGAAATGGTGTTACG
195 TATATATAAACGCCGCAAAATCGAAATGGTGTTACG
* *** *
61093681 GAAAACGACGCCGTTTACTTAGTTGGTTTTAGTGGCGCTTTT-ATTAAACGCCGCAA
1 GAAAACGACGCCGTTTTCTTA-TTACATTTAGTGGCG-TTTTAATAAAACGCCGCAA
61093737 ATTTGCATTA
Statistics
Matches: 258, Mismatches: 26, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
230 160 0.62
231 94 0.36
232 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (230 bp):
GAAAACGACGCCGTTTTCTTATTACATTTAGTGGCGTTTTAATAAAACGCCGCAACTATGTTTTC
TTTGTTACAGAAACGGCATCGTTTTCCAAGGATATTAGTGGCGTTACACCCAAAACGCCGCAAAT
ATATTTTAAAGATTACACGAGTTTGCGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTT
ATATATAAACGCCGCAAAATCGAAATGGTGTTACG
Found at i:61094088 original size:19 final size:19
Alignment explanation
Indices: 61094066--61094109 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
61094056 CAGACATCTC
*
61094066 CCCCAAATCCCTAAAATTT
1 CCCCAAATCCCTAAAAGTT
* *
61094085 CCCCTAATCCCTAACAGTT
1 CCCCAAATCCCTAAAAGTT
61094104 CCCCAA
1 CCCCAA
61094110 CGTAGTCCAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.43, G:0.02, T:0.23
Consensus pattern (19 bp):
CCCCAAATCCCTAAAAGTT
Found at i:61096183 original size:39 final size:39
Alignment explanation
Indices: 61096126--61096916 Score: 167
Period size: 37 Copynumber: 20.9 Consensus size: 39
61096116 TACAATTTCT
61096126 TAACTTATATAATATTAAGATAACTTATATAATATTACA
1 TAACTTATATAATATTAAGATAACTTATATAATATTACA
* * * * *
61096165 TAACTTATATCATGTTAAGATAA--AAAATCGA-ATTACA
1 TAACTTATATAATATTAAGATAACTTATAT-AATATTACA
* * * *
61096202 TAACTTATATAATATTAATATTACTTTTATAATATTAAGA
1 TAACTTATATAATATTAAGATAACTTATATAATATT-ACA
* ** * * *
61096242 TCAAATT-T-CGA-ATT-ACATAACTTATACAATAATA-A
1 T-AACTTATATAATATTAAGATAACTTATATAATATTACA
* * * * *
61096277 GGTAAAATT-TCT-A-ATT-ACATAACTTATACAATATTAAGA
1 --T-AACTTATATAATATTAAGATAACTTATATAATATT-ACA
** *** * *
61096316 TAAAAT-TCCGA-ATT-ACATAACTTATATAATATTAAGA
1 TAACTTATATAATATTAAGATAACTTATATAATATT-ACA
* * * **
61096353 TTACTTTTATAATATTAAGATCAAATT-T-CGA-ATTACA
1 TAACTTATATAATATTAAGAT-AACTTATATAATATTACA
* * *
61096390 TAACTTATATAATATT-ACATAACTTACGTACAATATTAAGA
1 TAACTTATATAATATTAAGATAACTTA--TATAATATT-ACA
* ** * * *
61096431 TAAAATT-T-CGA-ATT-ACATAAGTTATATAATATTAAGA
1 T-AACTTATATAATATTAAGATAACTTATATAATATT-ACA
* * * **
61096468 TTACTTTTATAATATTAAGATCAAATT-T-CGA-ATTACA
1 TAACTTATATAATATTAAGAT-AACTTATATAATATTACA
* ** *
61096505 TAACTTATATAATTTTCCG-TAACTTATATAATATTAAGA
1 TAACTTATATAATATTAAGATAACTTATATAATATT-ACA
* ** *
61096544 TAAAATT-T-CGA-ATT-ACATAACTTATATAATATTACA
1 T-AACTTATATAATATTAAGATAACTTATATAATATTACA
* * * **
61096580 TAACTTATACAATATTAAGGTAAGATT-T-CGA-ATTACA
1 TAACTTATATAATATTAAGATAA-CTTATATAATATTACA
* * * *
61096617 TAACTCATACAATATTAAGATTACTTATATAATATTAAGA
1 TAACTTATATAATATTAAGATAACTTATATAATATT-ACA
* * * *
61096657 TTACTTTTATAATATTAAGATCAAATT-T-TGA-ATTACA
1 TAACTTATATAATATTAAGAT-AACTTATATAATATTACA
* ** *
61096694 TAACTTATATAATTTTCCG-TAACTTATATAATATTAAGA
1 TAACTTATATAATATTAAGATAACTTATATAATATT-ACA
* * *
61096733 TTACTTATATAATATTAAGATAAAATT-TCT-A-ATTACA
1 TAACTTATATAATATTAAGAT-AACTTATATAATATTACA
* * *
61096770 TAACTTACATAA-ATT-ACATAACTTATACAATATTA-A
1 TAACTTATATAATATTAAGATAACTTATATAATATTACA
* * * * * *
61096806 GGTAAGATT-T-CAA-ATT-ACATAACTCATACAATATTAAGA
1 --TAA-CTTATATAATATTAAGATAACTTATATAATATT-ACA
* * *
61096845 TTACTTATATAATATTAAGATAAAATT-TCT-A-ATTACA
1 TAACTTATATAATATTAAGAT-AACTTATATAATATTACA
* * *
61096882 TAACTTACATAA-ATT-ACATAACTTATACAATATTA
1 TAACTTATATAATATTAAGATAACTTATATAATATTA
61096917 AGGTAAGATT
Statistics
Matches: 549, Mismatches: 137, Indels: 134
0.67 0.17 0.16
Matches are distributed among these distances:
34 8 0.01
35 25 0.05
36 34 0.06
37 271 0.49
38 43 0.08
39 89 0.16
40 49 0.09
41 26 0.05
42 4 0.01
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (39 bp):
TAACTTATATAATATTAAGATAACTTATATAATATTACA
Found at i:61096259 original size:57 final size:56
Alignment explanation
Indices: 61096145--61096272 Score: 168
Period size: 57 Copynumber: 2.3 Consensus size: 56
61096135 TAATATTAAG
* *
61096145 ATAACTTATATAATATTACATAACTTATATCATGTTAAGATAAAAAATCGAATTAC
1 ATAACTTATATAATATTACATAACTTATATAATATTAAGATAAAAAATCGAATTAC
* * **
61096201 ATAACTTATATAATATTA-ATATTACTTTTATAATATTAAGATCAAATTTCGAATTAC
1 ATAACTTATATAATATTACATA--ACTTATATAATATTAAGATAAAAAATCGAATTAC
*
61096258 ATAACTTATACAATA
1 ATAACTTATATAATA
61096273 ATAAGGTAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
55 3 0.05
56 18 0.29
57 42 0.67
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.39
Consensus pattern (56 bp):
ATAACTTATATAATATTACATAACTTATATAATATTAAGATAAAAAATCGAATTAC
Found at i:61096286 original size:37 final size:37
Alignment explanation
Indices: 61096232--61096353 Score: 190
Period size: 37 Copynumber: 3.3 Consensus size: 37
61096222 TTACTTTTAT
*
61096232 AATATTAAGATCAAATTTCGAATTACATAACTTATAC
1 AATATTAAGATAAAATTTCGAATTACATAACTTATAC
* * *
61096269 AATAATAAGGTAAAATTTCTAATTACATAACTTATAC
1 AATATTAAGATAAAATTTCGAATTACATAACTTATAC
* *
61096306 AATATTAAGATAAAATTCCGAATTACATAACTTATAT
1 AATATTAAGATAAAATTTCGAATTACATAACTTATAC
61096343 AATATTAAGAT
1 AATATTAAGAT
61096354 TACTTTTATA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 76 1.00
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.35
Consensus pattern (37 bp):
AATATTAAGATAAAATTTCGAATTACATAACTTATAC
Found at i:61096431 original size:115 final size:113
Alignment explanation
Indices: 61096290--61096657 Score: 542
Period size: 115 Copynumber: 3.2 Consensus size: 113
61096280 AAAATTTCTA
*
61096290 ATTACATAACTTATACAATATTAAGATAAAATTCCGAATTACATAACTTATATAATATTAAGATT
1 ATTACATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
61096355 ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAAT
66 ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAAT
*
61096403 ATTACATAACTTACGTACAATATTAAGATAAAATTTCGAATTACATAAGTTATATAATATTAAGA
1 ATTACATAACTTA--TACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGA
61096468 TTACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAAT
64 TTACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAAT
* * * * * *
61096518 TTTCCGTAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATT-ACATA
1 ATTACATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* * * * *
61096582 ACTTATACAATATTAAGGT-AAGATTTCGAATTACATAACTCATACAAT
66 ACTTTTATAATATTAAGATCAA-ATTTCGAATTACATAACTTATATAAT
* * *
61096630 ATTAAGATTACTTATATAATATTAAGAT
1 ATT-ACATAACTTATACAATATTAAGAT
61096658 TACTTTTATA
Statistics
Matches: 232, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
111 2 0.01
112 45 0.19
113 77 0.33
115 108 0.47
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (113 bp):
ATTACATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAAT
Found at i:61096558 original size:56 final size:57
Alignment explanation
Indices: 61096295--61096657 Score: 498
Period size: 57 Copynumber: 6.4 Consensus size: 57
61096285 TTCTAATTAC
* *
61096295 ATAACTTATACAATATTAAGATAAAATTCCGAATTACATAACTTATATAATATTAAG
1 ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
* * * *
61096352 ATTACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATT-AC
1 ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
* *
61096408 ATAACTTACGTACAATATTAAGATAAAATTTCGAATTACATAAGTTATATAATATTAAG
1 ATAACTTA--TATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
* * * * **
61096467 ATTACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATTTTCCG
1 ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
*
61096524 -TAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATT-AC
1 ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
* * * * *
61096579 ATAACTTATACAATATTAAGGTAAGATTTCGAATTACATAACTCATACAATATTAAG
1 ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
*
61096636 ATTACTTATATAATATTAAGAT
1 ATAACTTATATAATATTAAGAT
61096658 TACTTTTATA
Statistics
Matches: 266, Mismatches: 35, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
56 104 0.39
57 112 0.42
58 43 0.16
59 7 0.03
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (57 bp):
ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
Found at i:61096653 original size:76 final size:75
Alignment explanation
Indices: 61096561--61096806 Score: 275
Period size: 76 Copynumber: 3.3 Consensus size: 75
61096551 TCGAATTACA
* * * *
61096561 TAACTTATATAATATT-ACATAACTTATACAATATTAAGGTAAGATTTCGAATTACATAACTCAT
1 TAACTTATATAATATTAAGATTACTTATATAATATTAAGATAA-ATTTCGAATTACATAACTCAT
61096625 ACAATATTAAG
65 ACAATATTAAG
* * * *
61096636 ATTACTTATATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTTGAATTACATAACTTA
1 -TAACTTATATAATATTAAGATTACTTATATAATATTAAGAT-AAATTTCGAATTACATAACTCA
* * **
61096701 TATAATTTTCCG
64 TACAATATTAAG
*
61096713 TAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACT--T
1 TAACTTATATAATATTAAGATTACTTATATAATATTAAGAT-AAATTTCGAATTACATAACTCAT
*
61096776 ACATAAATTACA-
65 ACA-ATATTA-AG
*
61096788 TAACTTATACAATATTAAG
1 TAACTTATATAATATTAAG
61096807 GTAAGATTTC
Statistics
Matches: 143, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
74 3 0.02
75 21 0.15
76 72 0.50
77 45 0.31
78 2 0.01
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (75 bp):
TAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAATTTCGAATTACATAACTCATA
CAATATTAAG
Found at i:61096662 original size:189 final size:199
Alignment explanation
Indices: 61096506--61096865 Score: 501
Period size: 208 Copynumber: 1.8 Consensus size: 199
61096496 CGAATTACAT
*
61096506 AACTTATATAATTTTCCGTAACTTATATAATATTAAG-A-TA-A-AAT-TT-CG-AATTACATAA
1 AACTTATATAATTTTCCGTAACTTATATAATATTAAGTACTATATAATATTAAGAAATTAC-TAA
*
61096564 CTT-AT-A-TA-AT-ATTACATAACTTATACAATATTAAGGTAAGATTTCGAATTACATAACTCA
65 -TTAATAACTACATAATTACATAACTTATACAATATTAAGGTAAGATTTCAAATTACATAACTCA
*
61096624 TACAATATTAAGATTACTTATATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTTGAA
129 TACAATATTAAGATTACTTATATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTCGAA
61096689 TTACAT
194 TTACAT
61096695 AACTTATATAATTTTCCGTAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATT
1 AACTTATATAATTTTCCGTAACTTATATAATATTAAG--TAC-TATATAATATTAAG---AAATT
*
61096760 TCTAATTACATAACTTACATAAATTACATAACTTATACAATATTAAGGTAAGATTTCAAATTACA
60 ACTAATTA-ATAAC-TACAT-AATTACATAACTTATACAATATTAAGGTAAGATTTCAAATTACA
61096825 TAACTCATACAATATTAAGATTACTTATATAATATTAAGAT
122 TAACTCATACAATATTAAGATTACTTATATAATATTAAGAT
61096866 AAAATTTCTA
Statistics
Matches: 147, Mismatches: 3, Indels: 23
0.85 0.02 0.13
Matches are distributed among these distances:
189 37 0.25
192 1 0.01
194 2 0.01
195 1 0.01
196 3 0.02
197 2 0.01
198 1 0.01
200 2 0.01
201 3 0.02
202 7 0.05
203 1 0.01
205 2 0.01
206 2 0.01
208 83 0.56
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (199 bp):
AACTTATATAATTTTCCGTAACTTATATAATATTAAGTACTATATAATATTAAGAAATTACTAAT
TAATAACTACATAATTACATAACTTATACAATATTAAGGTAAGATTTCAAATTACATAACTCATA
CAATATTAAGATTACTTATATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTCGAATT
ACAT
Found at i:61096779 original size:9 final size:9
Alignment explanation
Indices: 61096765--61096794 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
61096755 AAATTTCTAA
61096765 TTACATAAC
1 TTACATAAC
*
61096774 TTACATAAA
1 TTACATAAC
61096783 TTACATAAC
1 TTACATAAC
61096792 TTA
1 TTA
61096795 TACAATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.37
Consensus pattern (9 bp):
TTACATAAC
Found at i:61096863 original size:112 final size:112
Alignment explanation
Indices: 61096713--61097018 Score: 585
Period size: 112 Copynumber: 2.7 Consensus size: 112
61096703 TAATTTTCCG
* *
61096713 TAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAC
1 TAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAC
61096778 ATAAATTACATAACTTATACAATATTAAGGTAAGATTTCAAATTACA
66 ATAAATTACATAACTTATACAATATTAAGGTAAGATTTCAAATTACA
61096825 TAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAC
1 TAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAC
*
61096890 ATAAATTACATAACTTATACAATATTAAGGTAAGATTTCGAATTACA
66 ATAAATTACATAACTTATACAATATTAAGGTAAGATTTCAAATTACA
61096937 TAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAC
1 TAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAC
61097002 ATAAATTACATAACTTA
66 ATAAATTACATAACTTA
61097019 CATAAATTAA
Statistics
Matches: 191, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 191 1.00
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (112 bp):
TAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAC
ATAAATTACATAACTTATACAATATTAAGGTAAGATTTCAAATTACA
Found at i:61096873 original size:57 final size:56
Alignment explanation
Indices: 61096713--61097002 Score: 365
Period size: 57 Copynumber: 5.2 Consensus size: 56
61096703 TAATTTTCCG
*
61096713 TAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
1 TAAC-TATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
* * * * * * *
61096770 TAACT-TACATAAATT-ACATAACTTATACAATATTAAGGTAAGATTTCAAATTACA
1 TAACTATACA-ATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
61096825 TAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
1 TAACT-ATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
* * * * * * *
61096882 TAACT-TACATAAATT-ACATAACTTATACAATATTAAGGTAAGATTTCGAATTACA
1 TAACTATACA-ATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
61096937 TAACTCATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
1 TAACT-ATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
61096994 TAACT-TACA
1 TAACTATACA
61097003 TAAATTACAT
Statistics
Matches: 196, Mismatches: 29, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
55 89 0.45
56 17 0.09
57 90 0.46
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (56 bp):
TAACTATACAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
Found at i:61096891 original size:9 final size:9
Alignment explanation
Indices: 61096877--61096906 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
61096867 AAATTTCTAA
61096877 TTACATAAC
1 TTACATAAC
*
61096886 TTACATAAA
1 TTACATAAC
61096895 TTACATAAC
1 TTACATAAC
61096904 TTA
1 TTA
61096907 TACAATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.37
Consensus pattern (9 bp):
TTACATAAC
Found at i:61096940 original size:320 final size:322
Alignment explanation
Indices: 61096390--61096977 Score: 925
Period size: 320 Copynumber: 1.8 Consensus size: 322
61096380 TCGAATTACA
*
61096390 TAACTTATATAATATTACATAACTTACGTACAATATTAAGATAAAATTTCGAATTACATAAGTTA
1 TAACTTATATAATATTACATAACTTAC-TACAATATTAAGATAAAATTTCGAATTACATAACTTA
* * * * * * * * *
61096455 TATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATTT
65 CATAATATTAACATAACTTATACAATATTAAGATCAAATTTCAAATTACATAACTCATACAATAT
** *
61096520 TCCGTAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTACATAACT
130 TAAGTAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTACATAATATTACATAACT
61096585 TATACAATATTAAGGTAAGATTTCGAATTACATAACTCATACAATATTAAGATTACTTATATAAT
195 TATACAATATTAAGGTAAGATTTCGAATTACATAACTCATACAATATTAAGATTACTTATATAAT
61096650 ATTAAGATTACTTTTATAATATTAAGATCAAATTTTGAATTACATAACTTATATAATTTTCCG
260 ATTAAGATTACTTTTATAATATTAAGATCAAATTTTGAATTACATAACTTATATAATTTTCCG
* * * *
61096713 TAACTTATATAATATTAAGATTACTTA-TATAATATTAAGATAAAATTTCTAATTACATAACTTA
1 TAACTTATATAATATT-ACATAACTTACTACAATATTAAGATAAAATTTCGAATTACATAACTTA
*
61096777 CATAA-ATT-ACATAACTTATACAATATTAAGGT-AAGATTTCAAATTACATAACTCATACAATA
65 CATAATATTAACATAACTTATACAATATTAAGATCAA-ATTTCAAATTACATAACTCATACAATA
* *
61096839 TTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTACATAA-ATTACATAA
129 TTAAG-TAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTACATAATATTACATAA
61096903 CTTATACAATATTAAGGTAAGATTTCGAATTACATAACTCATACAATATTAAGATTACTTATATA
193 CTTATACAATATTAAGGTAAGATTTCGAATTACATAACTCATACAATATTAAGATTACTTATATA
61096968 ATATTAAGAT
258 ATATTAAGAT
61096978 AAAATTTCTA
Statistics
Matches: 242, Mismatches: 20, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
319 2 0.01
320 129 0.53
321 49 0.20
322 38 0.16
323 16 0.07
324 8 0.03
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.39
Consensus pattern (322 bp):
TAACTTATATAATATTACATAACTTACTACAATATTAAGATAAAATTTCGAATTACATAACTTAC
ATAATATTAACATAACTTATACAATATTAAGATCAAATTTCAAATTACATAACTCATACAATATT
AAGTAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTACATAATATTACATAACTT
ATACAATATTAAGGTAAGATTTCGAATTACATAACTCATACAATATTAAGATTACTTATATAATA
TTAAGATTACTTTTATAATATTAAGATCAAATTTTGAATTACATAACTTATATAATTTTCCG
Found at i:61097003 original size:9 final size:9
Alignment explanation
Indices: 61096989--61097252 Score: 242
Period size: 9 Copynumber: 30.1 Consensus size: 9
61096979 AAATTTCTAA
61096989 TTACATAAC
1 TTACATAAC
*
61096998 TTACATAAA
1 TTACATAAC
61097007 TTACATAAC
1 TTACATAAC
*
61097016 TTACATAAA
1 TTACATAAC
*
61097025 TTAAATAAC
1 TTACATAAC
*
61097034 TTGCATAAC
1 TTACATAAC
*
61097043 TTAAATAAC
1 TTACATAAC
61097052 TTACATAAC
1 TTACATAAC
61097061 --ACATAACC
1 TTACATAA-C
* *
61097069 TT-CCTAGC
1 TTACATAAC
* *
61097077 TTACATTAT
1 TTACATAAC
*
61097086 TTAGATAA-
1 TTACATAAC
*
61097094 -TACATAGC
1 TTACATAAC
*
61097102 CTACATAAC
1 TTACATAAC
61097111 TTACATAAC
1 TTACATAAC
*
61097120 TTACATAAA
1 TTACATAAC
*
61097129 TTAAATAAC
1 TTACATAAC
61097138 TTACATAAC
1 TTACATAAC
*
61097147 TTACATAAA
1 TTACATAAC
*
61097156 TTAAATAAC
1 TTACATAAC
61097165 TTACATAAC
1 TTACATAAC
61097174 TTACATAAC
1 TTACATAAC
*
61097183 TCACATAA-
1 TTACATAAC
*
61097191 -TACACAAC
1 TTACATAAC
61097199 TTACATAAC
1 TTACATAAC
61097208 TTACATAA-
1 TTACATAAC
61097216 -TACATAAC
1 TTACATAAC
* *
61097224 ATT-CCTATC
1 -TTACATAAC
*
61097233 ATATCATAAC
1 TTA-CATAAC
61097243 TTACATAAC
1 TTACATAAC
61097252 T
1 T
61097253 CATTTATAGT
Statistics
Matches: 202, Mismatches: 40, Indels: 26
0.75 0.15 0.10
Matches are distributed among these distances:
7 23 0.11
8 5 0.02
9 167 0.83
10 7 0.03
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.33
Consensus pattern (9 bp):
TTACATAAC
Found at i:61099223 original size:21 final size:21
Alignment explanation
Indices: 61099197--61099267 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
61099187 CTACAACTTA
* *
61099197 AAGCAGAGGCGGCGGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
61099218 AAGCAGCGGCTGTAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
61099239 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
61099260 AAGCAGAG
1 AAGCAGAG
61099268 CAGAGCAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.30, C:0.18, G:0.48, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:61099673 original size:42 final size:42
Alignment explanation
Indices: 61099627--61099825 Score: 276
Period size: 42 Copynumber: 4.7 Consensus size: 42
61099617 AAAAAACGCT
* * *
61099627 GCTAAAG-ACAATGCTCTTTAGTGGCGTTTCTTTCAAAGCGCC
1 GCTAAAGAAC-ATGGTCTTTAGCGGCGTTTTTTTCAAAGCGCC
* * *
61099669 GCTAAAGAACATGGTTTTTAGCGGTG-TTTTTTCTAAGCGCC
1 GCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCAAAGCGCC
* *
61099710 GCTAAAGAACATGGTCTTTAGCGGCATTTTTTTTATAAGCGCC
1 GCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCA-AAGCGCC
*
61099753 GCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCC
1 GCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCAAAGCGCC
*
61099795 GCTAAAGAACATGGTCTTTAGTGGCGTTTTT
1 GCTAAAGAACATGGTCTTTAGCGGCGTTTTT
61099826 GTTTGTAAAC
Statistics
Matches: 139, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
41 36 0.26
42 62 0.45
43 41 0.29
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (42 bp):
GCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCAAAGCGCC
Found at i:61100274 original size:25 final size:25
Alignment explanation
Indices: 61100227--61100289 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
61100217 ATACCACTAT
* *
61100227 GTTTTAACTTTATCTTGAATTTTGCA
1 GTTTTAA-TTTTTATTGAATTTTGCA
* *
61100253 GTTTTAATTTTTATTGATTTTTGCC
1 GTTTTAATTTTTATTGAATTTTGCA
*
61100278 GCTTTAATTTTT
1 GTTTTAATTTTT
61100290 TTTATTGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 25 0.78
26 7 0.22
ACGTcount: A:0.19, C:0.10, G:0.11, T:0.60
Consensus pattern (25 bp):
GTTTTAATTTTTATTGAATTTTGCA
Found at i:61100757 original size:23 final size:23
Alignment explanation
Indices: 61100731--61100776 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
61100721 AAATTTAACC
* *
61100731 ATATTTAT-AAAATATAATGACAA
1 ATATTAATCAAAATAAAAT-ACAA
61100754 ATATTAATCAAAATAAAATACAA
1 ATATTAATCAAAATAAAATACAA
61100777 TGATAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (23 bp):
ATATTAATCAAAATAAAATACAA
Found at i:61107069 original size:25 final size:25
Alignment explanation
Indices: 61107041--61107090 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
61107031 CAAAAAAAAT
*
61107041 AAAAAATAAATAAAAA-GAAAGAAAG
1 AAAAAA-AAAGAAAAAGGAAAGAAAG
*
61107066 AAAAGAAAAGAAAAAGGAAAGAAAG
1 AAAAAAAAAGAAAAAGGAAAGAAAG
61107091 GAAGGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (25 bp):
AAAAAAAAAGAAAAAGGAAAGAAAG
Found at i:61107546 original size:5 final size:5
Alignment explanation
Indices: 61107533--61107566 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
61107523 GAAATATGCA
*
61107533 ATTGA ATTGT ATTGT ATTGT ATTGT ATTGT ATTG
1 ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT ATTG
61107567 ATGAATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.56
Consensus pattern (5 bp):
ATTGT
Found at i:61110686 original size:11 final size:11
Alignment explanation
Indices: 61110670--61110694 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
61110660 GCGATTATTG
61110670 TATTTATTGTA
1 TATTTATTGTA
61110681 TATTTATTGTA
1 TATTTATTGTA
61110692 TAT
1 TAT
61110695 AAAGGGACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
TATTTATTGTA
Found at i:61113105 original size:40 final size:40
Alignment explanation
Indices: 61113022--61113098 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
61113012 AATTATGGAA
* * *
61113022 TACTGAATATTGTTTTGAGTACTGAATTGAATTGTGAAGT
1 TACTAAATATTGTTATGAGTACTGAATTGAACTGTGAAGT
* *
61113062 TACTAAATATTGTTATGTGTACTGCATTGAACTGTGA
1 TACTAAATATTGTTATGAGTACTGAATTGAACTGTGA
61113099 GATTACTGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (40 bp):
TACTAAATATTGTTATGAGTACTGAATTGAACTGTGAAGT
Found at i:61113373 original size:45 final size:45
Alignment explanation
Indices: 61113312--61113461 Score: 176
Period size: 45 Copynumber: 3.4 Consensus size: 45
61113302 CCGACTACTG
* *
61113312 TTACTGTTACTCTTACCGATTCGGCACATTGTGTGTCGAATAATA
1 TTACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATAATA
* * * * *
61113357 TTACTATTACTGTTACCGATTCGACACTTTGTGTGTCAAATACTG
1 TTACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATAATA
* * * * *
61113402 TTACCG-TATTGTTACAGATTCGGCACTTTGTGTGTTGAATATTA
1 TTACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATAATA
*
61113446 TTACGGTTACTGTTAC
1 TTACTGTTACTGTTAC
61113462 TGCTACCTTT
Statistics
Matches: 86, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
44 36 0.42
45 50 0.58
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (45 bp):
TTACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATAATA
Found at i:61116492 original size:241 final size:241
Alignment explanation
Indices: 61116069--61116551 Score: 930
Period size: 241 Copynumber: 2.0 Consensus size: 241
61116059 AAACCAACTA
*
61116069 ACTTGATCGATTTAGTGCTTGGATTAGGTCCGGGTAGAGAACAGGTAGGGGCGGTAGGCTTTTCG
1 ACTTGATCGATTTAGTGCTTGGATTAGGTCCGGGTAGAGAACAGGTAGGGGCGGTAGGCTTTTCA
61116134 CTTTAGCCGTTGTTATTCAAGGCCTTACTTTACTCGTTTAAATCTTTTTTGATCCCCTCATTCTT
66 CTTTAGCCGTTGTTATTCAAGGCCTTACTTTACTCGTTTAAATCTTTTTTGATCCCCTCATTCTT
61116199 TCTAGTTAGGGAGGCCGTAGATGAAATGATACGTTATAAGTCTAGATAATTAGAATGAAACTCTT
131 TCTAGTTAGGGAGGCCGTAGATGAAATGATACGTTATAAGTCTAGATAATTAGAATGAAACTCTT
*
61116264 TTTAGACTCAAAAATTTGAATTATCTTTGAATTTGGAATAGAAATG
196 TTTAGACTCAAAAATTTGAATTATCTTTGAATTCGGAATAGAAATG
61116310 ACTTGATCGATTTAGTGCTTGGATTAGGTCCGGGTAGAGAACAGGTAGGGGCGGTAGGCTTTTCA
1 ACTTGATCGATTTAGTGCTTGGATTAGGTCCGGGTAGAGAACAGGTAGGGGCGGTAGGCTTTTCA
* *
61116375 CTTTAGCCGTTGTTATTCAAGGCCTTACTTTACTCGTTTAAATTTTTTTTGATCCCCTTATTCTT
66 CTTTAGCCGTTGTTATTCAAGGCCTTACTTTACTCGTTTAAATCTTTTTTGATCCCCTCATTCTT
61116440 TCTAGTTAGGGAGGCCGTAGATGAAATGATACGTTATAAGTCTAGATAATTAGAATGAAACTCTT
131 TCTAGTTAGGGAGGCCGTAGATGAAATGATACGTTATAAGTCTAGATAATTAGAATGAAACTCTT
61116505 TTTAGACTCAAAAATTTGAATTATCTTTGAATTCGGAATAGAAATG
196 TTTAGACTCAAAAATTTGAATTATCTTTGAATTCGGAATAGAAATG
61116551 A
1 A
61116552 ATGGAATAAT
Statistics
Matches: 238, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
241 238 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (241 bp):
ACTTGATCGATTTAGTGCTTGGATTAGGTCCGGGTAGAGAACAGGTAGGGGCGGTAGGCTTTTCA
CTTTAGCCGTTGTTATTCAAGGCCTTACTTTACTCGTTTAAATCTTTTTTGATCCCCTCATTCTT
TCTAGTTAGGGAGGCCGTAGATGAAATGATACGTTATAAGTCTAGATAATTAGAATGAAACTCTT
TTTAGACTCAAAAATTTGAATTATCTTTGAATTCGGAATAGAAATG
Found at i:61122891 original size:3 final size:3
Alignment explanation
Indices: 61122879--61122910 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
61122869 TTGGGTGGAG
61122879 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
61122911 TATTCAGCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:61124069 original size:3 final size:3
Alignment explanation
Indices: 61124061--61124094 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
61124051 CATGAGTACT
61124061 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
61124095 AATAATAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:61130883 original size:24 final size:24
Alignment explanation
Indices: 61130830--61130886 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
61130820 TAAAATATAC
61130830 TAAAAATATTAAAATAAATATTTCT
1 TAAAAA-ATTAAAATAAATATTTCT
* *
61130855 CAAAAAATTAAAAATAAA-ATTTTT
1 TAAAAAATT-AAAATAAATATTTCT
61130879 TAAAAAAT
1 TAAAAAAT
61130887 ATTTATACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (24 bp):
TAAAAAATTAAAATAAATATTTCT
Done.