Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 151 of 328
Found at i:44136996 original size:20 final size:19
Alignment explanation
Indices: 44136963--44137037 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 19
44136953 ATACGTGGGA
44136963 TATGATAT--ACATGATTG
1 TATGATATGCACATGATTG
*
44136980 ATATGATATGCACATGACATG
1 -TATGATATGCACATGA-TTG
44137001 TATGATATGCACATGATATG
1 TATGATATGCACATGAT-TG
*
44137021 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
44137038 GAATTCATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.16
20 40 0.80
21 2 0.04
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (19 bp):
TATGATATGCACATGATTG
Found at i:44137149 original size:52 final size:50
Alignment explanation
Indices: 44137087--44137222 Score: 177
Period size: 52 Copynumber: 2.7 Consensus size: 50
44137077 GAAGAAGTGC
44137087 AAAAGGGCTTATGCCCCAGTTTATTGTAAAGGGCTTATACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG-AAAGGGCTT-TACCCCAGTTTACCG
* * *
44137139 AAAAAGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG-AAAGGGCTTTACCCCAGTTTACCG
* *
44137190 GAAAGGGC-TGTGCCCCAG-TTATTGAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAG-GGCT
44137223 AGGCCTCCAG
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
48 4 0.05
49 10 0.13
50 9 0.12
51 19 0.25
52 34 0.45
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (50 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAGGGCTTTACCCCAGTTTACCG
Found at i:44137178 original size:25 final size:26
Alignment explanation
Indices: 44137087--44137216 Score: 149
Period size: 26 Copynumber: 5.1 Consensus size: 26
44137077 GAAGAAGTGC
44137087 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * **
44137113 TAAAGGGCTTATACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
44137139 AAAAAGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
44137165 AAAAGGGCTT-TGCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
44137190 GAAAGGGC-TGTGCCCCAG-TTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
44137214 AAA
1 AAA
44137217 GAGGCTAGGC
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
24 7 0.08
25 26 0.31
26 52 0.61
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:44142865 original size:5 final size:5
Alignment explanation
Indices: 44142855--44142895 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
44142845 AACCTAAATT
* *
44142855 AATAA AATAA AAT-A AATAA TA-AA AATAA AACAA AATAA AAT
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AAT
44142896 CTTTCTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
4 7 0.23
5 23 0.77
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:44142870 original size:18 final size:18
Alignment explanation
Indices: 44142849--44142884 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
44142839 TAGCTTAACC
44142849 TAAATTAAT-AAAATAAAA
1 TAAA-TAATAAAAATAAAA
44142867 TAAATAATAAAAATAAAA
1 TAAATAATAAAAATAAAA
44142885 CAAAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (18 bp):
TAAATAATAAAAATAAAA
Found at i:44147913 original size:5 final size:5
Alignment explanation
Indices: 44147903--44147964 Score: 79
Period size: 5 Copynumber: 11.6 Consensus size: 5
44147893 AACCTAAATT
44147903 AATAA AATAAA AATAA AATAA AATAAA TAATAA AATAAA AATAA AATAA
1 AATAA AAT-AA AATAA AATAA AAT-AA -AATAA AAT-AA AATAA AATAA
*
44147952 AACAA AATAA AAT
1 AATAA AATAA AAT
44147965 CTTTCTATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
5 34 0.67
6 14 0.27
7 3 0.06
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:44147934 original size:28 final size:29
Alignment explanation
Indices: 44147897--44147953 Score: 107
Period size: 28 Copynumber: 2.0 Consensus size: 29
44147887 TAGCTTAACC
44147897 TAAATTAATAAAATAAAAATAAAATAAAA
1 TAAATTAATAAAATAAAAATAAAATAAAA
44147926 TAAA-TAATAAAATAAAAATAAAATAAAA
1 TAAATTAATAAAATAAAAATAAAATAAAA
44147954 CAAAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (29 bp):
TAAATTAATAAAATAAAAATAAAATAAAA
Found at i:44147936 original size:12 final size:11
Alignment explanation
Indices: 44147906--44147963 Score: 75
Period size: 11 Copynumber: 5.3 Consensus size: 11
44147896 CTAAATTAAT
44147906 AAAATAAAA-A
1 AAAATAAAATA
44147916 TAAAATAAAATA
1 -AAAATAAAATA
44147928 AATAATAAAATA
1 AA-AATAAAATA
44147940 AAAATAAAAT-
1 AAAATAAAATA
*
44147950 AAAACAAAATA
1 AAAATAAAATA
44147961 AAA
1 AAA
44147964 TCTTTCTATT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
10 9 0.21
11 22 0.51
12 12 0.28
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:44153277 original size:42 final size:43
Alignment explanation
Indices: 44153186--44153279 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 43
44153176 CCCAGATGTG
* * * *
44153186 GTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACAGG
1 GTCTTACACGAAATCAAATATCGATACCACTATCCCAGACAGA
* *
44153229 GTCTTACACGAAATCAAATAT-GATACCGA-TGTCCCAGACATA
1 GTCTTACACGAAATCAAATATCGATACC-ACTATCCCAGACAGA
44153271 GTCTTACAC
1 GTCTTACAC
44153280 TTAAATCATA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 24 0.55
43 20 0.45
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (43 bp):
GTCTTACACGAAATCAAATATCGATACCACTATCCCAGACAGA
Found at i:44154443 original size:13 final size:13
Alignment explanation
Indices: 44154425--44154455 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
44154415 ACGATCAATT
44154425 TTTCATATGAAAG
1 TTTCATATGAAAG
*
44154438 TTTCATATGAAAT
1 TTTCATATGAAAG
44154451 TTTCA
1 TTTCA
44154456 AACATACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (13 bp):
TTTCATATGAAAG
Found at i:44156898 original size:26 final size:26
Alignment explanation
Indices: 44156861--44156935 Score: 98
Period size: 25 Copynumber: 2.9 Consensus size: 26
44156851 ACATATTTCC
*
44156861 TCAAAATTTTACCAGGGGTAAAATCA
1 TCAAAATTTTACTAGGGGTAAAATCA
* * *
44156887 TCAAAATATTACTA-TGGTAAAATCG
1 TCAAAATTTTACTAGGGGTAAAATCA
*
44156912 TTAAAATTTTACTAGGGGTAAAAT
1 TCAAAATTTTACTAGGGGTAAAAT
44156936 AGGGATGAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
25 21 0.51
26 20 0.49
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.32
Consensus pattern (26 bp):
TCAAAATTTTACTAGGGGTAAAATCA
Found at i:44158530 original size:80 final size:80
Alignment explanation
Indices: 44158440--44158599 Score: 320
Period size: 80 Copynumber: 2.0 Consensus size: 80
44158430 CAAACTCAAC
44158440 ATTCAAGTTAGTACAATAATTTCCATGTACCAATAATATATACTATGATTGATGAGCTCGTCAAT
1 ATTCAAGTTAGTACAATAATTTCCATGTACCAATAATATATACTATGATTGATGAGCTCGTCAAT
44158505 ACCATGATTTCCATT
66 ACCATGATTTCCATT
44158520 ATTCAAGTTAGTACAATAATTTCCATGTACCAATAATATATACTATGATTGATGAGCTCGTCAAT
1 ATTCAAGTTAGTACAATAATTTCCATGTACCAATAATATATACTATGATTGATGAGCTCGTCAAT
44158585 ACCATGATTTCCATT
66 ACCATGATTTCCATT
44158600 TCCTTGTTAT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.36
Consensus pattern (80 bp):
ATTCAAGTTAGTACAATAATTTCCATGTACCAATAATATATACTATGATTGATGAGCTCGTCAAT
ACCATGATTTCCATT
Found at i:44163527 original size:137 final size:137
Alignment explanation
Indices: 44163281--44163555 Score: 523
Period size: 137 Copynumber: 2.0 Consensus size: 137
44163271 GGACATCAAA
*
44163281 TCGGGTAGTAAGTTTTGGTAATATTTATTGATTAAAACATATAGCATATGTGAGTTTTGCTTTAG
1 TCGGGTAGGAAGTTTTGGTAATATTTATTGATTAAAACATATAGCATATGTGAGTTTTGCTTTAG
*
44163346 TCAGGTTGTGAAGTAGCATTTTTGTCATGCTTGTGGGTTCTTACATCATTTTGATTATGTTCTGT
66 TCAGGTTGTGAAGTAGCATTTTTGTCATACTTGTGGGTTCTTACATCATTTTGATTATGTTCTGT
44163411 TCTGTTT
131 TCTGTTT
*
44163418 TCGGGTAGGAAGTTTTGGTAATATTTATTGATTAAAACATATAGCATATGTGAGTTTTGCTTTAT
1 TCGGGTAGGAAGTTTTGGTAATATTTATTGATTAAAACATATAGCATATGTGAGTTTTGCTTTAG
44163483 TCAGGTTGTGAAGTAGCATTTTTGTCATACTTGTGGGTTCTTACATCATTTTGATTATGTTCTGT
66 TCAGGTTGTGAAGTAGCATTTTTGTCATACTTGTGGGTTCTTACATCATTTTGATTATGTTCTGT
44163548 TCTGTTT
131 TCTGTTT
44163555 T
1 T
44163556 ATATTAGTCG
Statistics
Matches: 135, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 135 1.00
ACGTcount: A:0.22, C:0.09, G:0.21, T:0.47
Consensus pattern (137 bp):
TCGGGTAGGAAGTTTTGGTAATATTTATTGATTAAAACATATAGCATATGTGAGTTTTGCTTTAG
TCAGGTTGTGAAGTAGCATTTTTGTCATACTTGTGGGTTCTTACATCATTTTGATTATGTTCTGT
TCTGTTT
Found at i:44169355 original size:23 final size:23
Alignment explanation
Indices: 44169328--44169382 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
44169318 AATTTAATCA
44169328 TTAACATTTATAT-TTTTATCAAT
1 TTAACATTTAT-TCTTTTATCAAT
** *
44169351 TTAACCCTTATTCTTTTATTAAT
1 TTAACATTTATTCTTTTATCAAT
44169374 TTAA-ATTTA
1 TTAACATTTA
44169383 ACCACTAACC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (23 bp):
TTAACATTTATTCTTTTATCAAT
Found at i:44174381 original size:23 final size:22
Alignment explanation
Indices: 44174321--44174381 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
44174311 ATACTTTTGA
44174321 TATTTTATTATATATAAACAATTT
1 TATTTTA-TATA-ATAAACAATTT
* * *
44174345 TATTTCAATGTAATAATCAATTT
1 TATTT-TATATAATAAACAATTT
44174368 TACTTTTATATAAT
1 TA-TTTTATATAAT
44174382 GATAATATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
23 18 0.60
24 11 0.37
25 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
TATTTTATATAATAAACAATTT
Found at i:44185864 original size:49 final size:49
Alignment explanation
Indices: 44185782--44185879 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
44185772 CATGTTGCTG
* * ** * *
44185782 TATTTCATCCGGGTAACTTACATGTGCTGTTTGTTGCCACCTTTTAACA
1 TATTTCATCCGGATAACGTACACATGATATTTGTTGCCACCTTTTAACA
44185831 TATTTCATCCGGATAACGTACACATGATATTTGTTGCCACCTTTTAACA
1 TATTTCATCCGGATAACGTACACATGATATTTGTTGCCACCTTTTAACA
44185880 CTCCTCCTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.39
Consensus pattern (49 bp):
TATTTCATCCGGATAACGTACACATGATATTTGTTGCCACCTTTTAACA
Found at i:44190353 original size:49 final size:49
Alignment explanation
Indices: 44190296--44190393 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 49
44190286 CATGTTGCTG
* * *
44190296 TATTTCATCCGGGTAACTTACATGTGCTATTTGTTGCAACCTTTTAACA
1 TATTTCATCCGGATAACGTACATATGCTATTTGTTGCAACCTTTTAACA
* *
44190345 TATTTCATCCGGATAACGTACATATGCTGTTTGTTGCCACCTTTTAACA
1 TATTTCATCCGGATAACGTACATATGCTATTTGTTGCAACCTTTTAACA
44190394 AAGGTGAAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.40
Consensus pattern (49 bp):
TATTTCATCCGGATAACGTACATATGCTATTTGTTGCAACCTTTTAACA
Found at i:44190682 original size:17 final size:16
Alignment explanation
Indices: 44190655--44190687 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
44190645 CTATGTAAGA
44190655 AAAAATTTTAAAAATT
1 AAAAATTTTAAAAATT
44190671 AAAAATTATTAAAAATT
1 AAAAATT-TTAAAAATT
44190688 CAATTCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAAATTTTAAAAATT
Found at i:44191347 original size:12 final size:12
Alignment explanation
Indices: 44191330--44191368 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
44191320 CATAAAATGT
44191330 AAAAAAAGAAAA
1 AAAAAAAGAAAA
*
44191342 AAAAAAGGAAAA
1 AAAAAAAGAAAA
*
44191354 AGAAAAAGAAGAA
1 AAAAAAAGAA-AA
44191367 AA
1 AA
44191369 CATGATGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 19 0.86
13 3 0.14
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:44191848 original size:16 final size:16
Alignment explanation
Indices: 44191827--44191868 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
44191817 CAACACGAAT
* *
44191827 TTAGAATTTTCTAAGG
1 TTAGAATTTTCGAAGC
44191843 TTAGAACTTTTCGAAGC
1 TTAGAA-TTTTCGAAGC
44191860 TTA-AATTTT
1 TTAGAATTTT
44191869 TTCGAGCCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 4 0.17
16 8 0.35
17 11 0.48
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (16 bp):
TTAGAATTTTCGAAGC
Found at i:44193779 original size:30 final size:28
Alignment explanation
Indices: 44193743--44193836 Score: 98
Period size: 28 Copynumber: 3.2 Consensus size: 28
44193733 CAAGATTGGC
* *
44193743 GTGTGCGGGTTTAAAATTGTACAGCACTAA
1 GTGTGCGAGTTT--AATTATACAGCACTAA
* *
44193773 GTGTGCGAGTTTGATTATATAGCACTAA
1 GTGTGCGAGTTTAATTATACAGCACTAA
* * *
44193801 GTGTGCGAGTTGAATACATATAGCACTAA
1 GTGTGCGAGTTTAAT-TATACAGCACTAA
44193830 GTGTGCG
1 GTGTGCG
44193837 GATTCACTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
28 26 0.46
29 19 0.34
30 11 0.20
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.31
Consensus pattern (28 bp):
GTGTGCGAGTTTAATTATACAGCACTAA
Found at i:44193799 original size:28 final size:29
Alignment explanation
Indices: 44193765--44193836 Score: 112
Period size: 28 Copynumber: 2.5 Consensus size: 29
44193755 AAAATTGTAC
*
44193765 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-TTGAATACATAT
44193793 AGCACTAAGTGTGCGAGTTGAATACATAT
1 AGCACTAAGTGTGCGAGTTGAATACATAT
44193822 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44193837 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 3 0.07
28 19 0.46
29 19 0.46
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGTTGAATACATAT
Found at i:44195241 original size:2 final size:2
Alignment explanation
Indices: 44195234--44195296 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
44195224 GCATAGTCAA
44195234 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
44195276 AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC A
44195297 TATTCAGACA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:44195997 original size:22 final size:21
Alignment explanation
Indices: 44195941--44196006 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 21
44195931 CACGTCCATA
44195941 TGAAGGAGGCACATGCCCT-TG
1 TGAAGGAGGCACATG-CCTGTG
*
44195962 TGAA-GAAGCACATGCCTGTG
1 TGAAGGAGGCACATGCCTGTG
44195982 TGAGAGGAGGCACATGGCC-GTG
1 TGA-AGGAGGCACAT-GCCTGTG
44196004 TGA
1 TGA
44196007 CTATGACACA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
19 3 0.08
20 14 0.36
21 5 0.13
22 14 0.36
23 3 0.08
ACGTcount: A:0.26, C:0.20, G:0.36, T:0.18
Consensus pattern (21 bp):
TGAAGGAGGCACATGCCTGTG
Found at i:44199325 original size:15 final size:14
Alignment explanation
Indices: 44199291--44199334 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
44199281 TTGAATGAAT
*
44199291 AATTTTGTATACAA
1 AATTTTGTATATAA
44199305 AA-TTTGTATATATA
1 AATTTTGTATATA-A
*
44199319 AATTTTGAATATAA
1 AATTTTGTATATAA
44199333 AA
1 AA
44199335 ATTATTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 9 0.35
14 8 0.31
15 9 0.35
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (14 bp):
AATTTTGTATATAA
Found at i:44203553 original size:40 final size:40
Alignment explanation
Indices: 44203496--44203733 Score: 338
Period size: 40 Copynumber: 6.0 Consensus size: 40
44203486 TCGAATGATG
* * * *
44203496 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
44203536 TCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
* *
44203576 TCCGGACTAAGATCCGAAGGCATTCGTGTGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
44203616 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
44203656 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
** *
44203696 TCCGGGTTAAG-TCCCGAAGGCATCTGTGCGAGTTACTA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
44203734 TAACCGAGCT
Statistics
Matches: 184, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
39 1 0.01
40 176 0.96
41 7 0.04
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44203713 original size:120 final size:120
Alignment explanation
Indices: 44203496--44203761 Score: 346
Period size: 120 Copynumber: 2.2 Consensus size: 120
44203486 TCGAATGATG
* *
44203496 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTC
1 TCCGGACTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTC
*
44203561 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCAT-TCGTGTGAGTTACTAAA
66 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATCT-GTGCGAGTTACTAAA
* *
44203616 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCAT
1 TCCGGACTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCAT
* **
44203679 TTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATCTGTGCGAGTTACTATAA
64 TCGTGCGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATCTGTGCGAGTTACTA-AA
*
44203737 -CC-GAGCTATGTCCCGAAGGCATTTG
1 TCCGGA-CTAAGTCCCGAAGGC-TTTG
44203762 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 9, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
119 4 0.03
120 115 0.88
121 11 0.08
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (120 bp):
TCCGGACTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATCTGTGCGAGTTACTAAA
Found at i:44203768 original size:40 final size:39
Alignment explanation
Indices: 44203500--44203761 Score: 293
Period size: 40 Copynumber: 6.6 Consensus size: 39
44203490 ATGATGTCCG
* * *
44203500 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCC
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
*
44203539 GGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAATCC
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
44203579 GGACTAAGAT-CCGAAGGCATTCGTGTGAGTTACTAAATCC
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
44203619 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
44203659 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
44203699 GGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA-CC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
44203739 GAGCTATGTCCCGAAGGCATTTG
1 G-GCTAAGTCCCGAAGGCATTTG
44203762 AACGAGTAGC
Statistics
Matches: 204, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 4 0.02
40 189 0.93
41 11 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:44206368 original size:40 final size:40
Alignment explanation
Indices: 44206302--44206452 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
44206292 AAATTGAATG
* * *
44206302 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
44206341 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
44206381 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
44206421 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
44206453 ACATGTTATA
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:44214351 original size:40 final size:40
Alignment explanation
Indices: 44214292--44214433 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
44214282 AAATTGAATG
* * *
44214292 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
44214332 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
44214372 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
44214412 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
44214434 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:44214434 original size:40 final size:39
Alignment explanation
Indices: 44214331--44214443 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 39
44214321 TGCTGGAAAT
* * **
44214331 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTCAC
*
44214371 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
*
44214411 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGC
44214444 ATGTTATATC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.05
40 60 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
Found at i:44216241 original size:40 final size:39
Alignment explanation
Indices: 44216117--44216279 Score: 247
Period size: 40 Copynumber: 4.2 Consensus size: 39
44216107 TGTGTATGAA
*
44216117 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
44216156 TGTGCGAGTTGTG-TATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
44216194 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCG-AAGGCAAT
* *
44216234 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
44216274 TGTGCG
1 TGTGCG
44216280 GGTTACCATA
Statistics
Matches: 112, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
38 35 0.31
39 29 0.26
40 44 0.39
41 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:44216295 original size:40 final size:40
Alignment explanation
Indices: 44216134--44216315 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
44216124 ATTGTGATAT
* *** *
44216134 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTT-GTGTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * * ** *
44216172 CCGGGCTAAG-CCCGAAGGCAATGGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *** *
44216211 CCGGGCTAAG-CCCGAAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCG-AAGGCATTTGTGCGAGTTACCATAA
* *
44216251 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
44216291 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
44216316 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
38 30 0.24
39 17 0.14
40 72 0.59
41 4 0.03
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:44216322 original size:80 final size:78
Alignment explanation
Indices: 44216134--44216310 Score: 239
Period size: 80 Copynumber: 2.2 Consensus size: 78
44216124 ATTGTGATAT
*
44216134 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG-TATCCGGGCTAAGCCCGAAGGCAATGGTG
1 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGCCCGAAGGCAATGGTG
** *
44216198 CGAGCTATGATAT
66 CGAGCTACCATAA
* *
44216211 CCGGGCTAAGCCCGAAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGCCCG-AAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAG-CCCGAAGGCAATGG
* *
44216276 TGCGGGTTACCATAA
64 TGCGAGCTACCATAA
*
44216291 CCGGGCTATGTCCCGAAGGC
1 CCGGGCTAAG-CCCGAAGGC
44216311 GTTTGAACGA
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
77 14 0.16
78 21 0.24
79 12 0.14
80 36 0.41
81 4 0.05
ACGTcount: A:0.23, C:0.23, G:0.33, T:0.21
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGCCCGAAGGCAATGGTG
CGAGCTACCATAA
Found at i:44224193 original size:40 final size:39
Alignment explanation
Indices: 44224033--44224195 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
44224023 TGTGTATGAA
*
44224033 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
44224072 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
44224111 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
44224150 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
44224190 TGTGCG
1 TGTGCG
44224196 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:44224211 original size:40 final size:39
Alignment explanation
Indices: 44224033--44224226 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
44224023 TGTGTATGAA
* *
44224033 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
44224072 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
44224111 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
44224150 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
44224190 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
44224227 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:44225896 original size:20 final size:21
Alignment explanation
Indices: 44225854--44225906 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 21
44225844 TGCCAAAAGC
44225854 AAATAAAAGAAAAATTAGTAATTA
1 AAAT-AAA-AAAAATTAG-AATTA
*
44225878 AAATAAAAAAAATTA-AATTG
1 AAATAAAAAAAATTAGAATTA
*
44225898 CAATAAAAA
1 AAATAAAAA
44225907 TAAAAATGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 12 0.44
22 8 0.30
23 3 0.11
24 4 0.15
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.23
Consensus pattern (21 bp):
AAATAAAAAAAATTAGAATTA
Found at i:44231158 original size:30 final size:30
Alignment explanation
Indices: 44231124--44231184 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
44231114 TCCTTAACTC
44231124 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
44231154 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
44231184 A
1 A
44231185 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:44235603 original size:30 final size:30
Alignment explanation
Indices: 44235569--44235629 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
44235559 TCCTTAACTC
44235569 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
44235599 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
44235629 A
1 A
44235630 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:44239877 original size:27 final size:28
Alignment explanation
Indices: 44239821--44239890 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
44239811 AAATTTGTAC
44239821 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* * *
44239849 AGCACTAGGTGTGTGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
44239876 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44239891 GACTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 22 0.59
28 15 0.41
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:44247017 original size:27 final size:28
Alignment explanation
Indices: 44246961--44247030 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
44246951 AAATTTGTAC
44246961 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
44246989 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
44247016 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44247031 GACTTACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:44254194 original size:22 final size:22
Alignment explanation
Indices: 44254146--44254202 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
44254136 ATTATTCTGA
*
44254146 TTATGGCTTTGTGCCAACCTAC
1 TTATGGCTCTGTGCCAACCTAC
* **
44254168 ATATGGCTCTGTGCCAACCTGT
1 TTATGGCTCTGTGCCAACCTAC
*
44254190 TTATGGCTGTGTG
1 TTATGGCTCTGTG
44254203 GCAAACGTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.37
Consensus pattern (22 bp):
TTATGGCTCTGTGCCAACCTAC
Found at i:44254542 original size:6 final size:6
Alignment explanation
Indices: 44254533--44254645 Score: 72
Period size: 6 Copynumber: 18.3 Consensus size: 6
44254523 TTGCATTCAT
* * *
44254533 ATTCTG ATTCTG ATTTTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * *
44254583 ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ACTCTG ATTCTC ATTTTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
44254632 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
44254646 AATGTTTCTT
Statistics
Matches: 82, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
5 6 0.07
6 64 0.78
7 8 0.10
8 4 0.05
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:44254564 original size:25 final size:25
Alignment explanation
Indices: 44254533--44254624 Score: 139
Period size: 25 Copynumber: 3.7 Consensus size: 25
44254523 TTGCATTCAT
*
44254533 ATTCTGATTCTGATTTTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
* *
44254558 ATACTGATTCTGATTCTGTTACCTA
1 ATTCTGATTCTGATTCTGTTACCTG
*
44254583 ATTCTGATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
*
44254608 ATTCTGACTCTGATTCT
1 ATTCTGATTCTGATTCT
44254625 CATTTTGATT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 60 1.00
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTG
Found at i:44256743 original size:27 final size:27
Alignment explanation
Indices: 44256707--44256901 Score: 237
Period size: 27 Copynumber: 7.2 Consensus size: 27
44256697 AATTTAAAAA
*
44256707 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
44256734 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
44256761 AATTACCGAAATACCCTTGCAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
44256788 AAATACCGAAATACCCCTATAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
*
44256815 AATTACTGAAATACCCCTTTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
44256842 AATTACTGAAATACCCATATATGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
44256869 AATTACCGAGATACCCTTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
44256896 AATTAC
1 AATTAC
44256902 CATTTTGCCC
Statistics
Matches: 146, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:44256821 original size:81 final size:81
Alignment explanation
Indices: 44256714--44256901 Score: 270
Period size: 81 Copynumber: 2.3 Consensus size: 81
44256704 AAAAATTATT
* *
44256714 GAAATACCCCTGTAGGGTAGAATTACTGAAATA-CCCTTGTAGGGTAGAATTACCGAAATACCCT
1 GAAATACCCCTGTAGGGTAAAATTACTGAAATACCCCTT-TAGGGTAGAATTACCGAAATACCCA
*
44256778 TGCAGGGTAGAAATACC
65 TACAGGGTAGAAATACC
* *
44256795 GAAATACCCCTATAGGGTAAAATTACTGAAATACCCCTTTAGGGTAGAATTACTGAAATACCCAT
1 GAAATACCCCTGTAGGGTAAAATTACTGAAATACCCCTTTAGGGTAGAATTACCGAAATACCCAT
* * *
44256860 ATATGGTAGAATTACC
66 ACAGGGTAGAAATACC
* *
44256876 GAGATACCCTTGTAGGGTAAAATTAC
1 GAAATACCCCTGTAGGGTAAAATTAC
44256902 CATTTTGCCC
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 90 0.95
82 5 0.05
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (81 bp):
GAAATACCCCTGTAGGGTAAAATTACTGAAATACCCCTTTAGGGTAGAATTACCGAAATACCCAT
ACAGGGTAGAAATACC
Found at i:44257336 original size:22 final size:22
Alignment explanation
Indices: 44257285--44257348 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
44257275 CCAATTATTA
* *
44257285 TGATTATGGCTTTGCGCCAACC
1 TGATTATGGCTCTGTGCCAACC
* *
44257307 T-ACATATGGCTCTATGCCAACC
1 TGA-TTATGGCTCTGTGCCAACC
*
44257329 TGATTATGGCTGTGTGCCAA
1 TGATTATGGCTCTGTGCCAA
44257349 ACATATTTGC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (22 bp):
TGATTATGGCTCTGTGCCAACC
Found at i:44257688 original size:6 final size:6
Alignment explanation
Indices: 44257679--44257768 Score: 60
Period size: 6 Copynumber: 14.7 Consensus size: 6
44257669 ATTCACATTT
* * * *
44257679 TGATTC TGATTC TG-TTACC TGATAC TAATTT TGATTC TGATTC TG-TCACC
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATTC TGAT--TC
* *
44257729 TGATTC TGATTC TGATTC TCATTT TGATTC T-AGTTC TGAT
1 TGATTC TGATTC TGATTC TGATTC TGATTC TGA-TTC TGAT
44257769 AATGTTTCTT
Statistics
Matches: 64, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
5 4 0.06
6 51 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
TGATTC
Found at i:44257710 original size:31 final size:31
Alignment explanation
Indices: 44257675--44257747 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
44257665 TTGCATTCAC
*
44257675 ATTTTGATTCTGATTCTGTTACCTGATACTA
1 ATTTTGATTCTGATTCTGTCACCTGATACTA
* *
44257706 ATTTTGATTCTGATTCTGTCACCTGATTCTG
1 ATTTTGATTCTGATTCTGTCACCTGATACTA
*
44257737 ATTCTGATTCT
1 ATTTTGATTCT
44257748 CATTTTGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTTTGATTCTGATTCTGTCACCTGATACTA
Found at i:44263545 original size:42 final size:43
Alignment explanation
Indices: 44263454--44263564 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 43
44263444 TGGGATGTTG
* * *
44263454 GCATCGATTTGTGATTTACATGCAAGACCATGTCTGGGACATCC
1 GCATCGATATATGA-TTACATGTAAGACCATGTCTGGGACATCC
* * * * *
44263498 TCATCG-TATATGATTTCGTGTAAGACCCTGTCTGGGACAAT-G
1 GCATCGATATATGATTACATGTAAGACCATGTCTGGGAC-ATCC
*
44263540 GCATCGATATTTGATTACATGTAAG
1 GCATCGATATATGATTACATGTAAG
44263565 GCCACATCTG
Statistics
Matches: 53, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
42 26 0.49
43 22 0.42
44 5 0.09
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (43 bp):
GCATCGATATATGATTACATGTAAGACCATGTCTGGGACATCC
Found at i:44263555 original size:43 final size:42
Alignment explanation
Indices: 44263452--44263564 Score: 113
Period size: 43 Copynumber: 2.6 Consensus size: 42
44263442 TTTGGGATGT
*
44263452 TGGCATCGAT-TTGTGATTTACATGCAAGACCATGTCTGGGACA
1 TGGCATCGATATT-TGATTT-CATGTAAGACCATGTCTGGGACA
** * * *
44263495 TCCTCATCG-TATATGATTTCGTGTAAGACCCTGTCTGGGACAA
1 T-GGCATCGATATTTGATTTCATGTAAGACCATGTCTGGGAC-A
*
44263538 TGGCATCGATATTTGATTACATGTAAG
1 TGGCATCGATATTTGATTTCATGTAAG
44263565 GCCACATCTG
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
42 24 0.44
43 25 0.45
44 6 0.11
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (42 bp):
TGGCATCGATATTTGATTTCATGTAAGACCATGTCTGGGACA
Found at i:44270102 original size:42 final size:44
Alignment explanation
Indices: 44269986--44270134 Score: 125
Period size: 43 Copynumber: 3.5 Consensus size: 44
44269976 ATATGTCATA
* * *
44269986 GTGTAAGACCAC-GTCTAGGAC-GTTGGCATCGATTTGTGATTTAC
1 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATATGATTTAC
* * *
44270030 GTGTAAGACCATGTCTGGGACA-TCGACATCG-TATATGATTT-T
1 GTGTAAGACCCTGTCTGGGACAGT-GGCATCGATATATGATTTAC
*
44270072 GTGTAAGACCCTGTCTGGGACAGTGGCATCGGTAGT-TGA-TTAC
1 GTGTAAGACCCTGTCTGGGACAGTGGCATCGATA-TATGATTTAC
*
44270115 ATGTAAGACCAC-GTCTGGGA
1 GTGTAAGACC-CTGTCTGGGA
44270135 TGCTGGCATT
Statistics
Matches: 87, Mismatches: 10, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
42 29 0.33
43 32 0.37
44 26 0.30
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (44 bp):
GTGTAAGACCCTGTCTGGGACAGTGGCATCGATATATGATTTAC
Found at i:44270112 original size:43 final size:42
Alignment explanation
Indices: 44270026--44270134 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
44270016 GATTTGTGAT
*
44270026 TTACGTGTAAGACCATGTCTGGGACATCGACATCGTATATGA
1 TTACGTGTAAGACCCTGTCTGGGACATCGACATCGTATATGA
** *
44270068 TTTTGTGTAAGACCCTGTCTGGGACAGT-GGCATCGGTAGT-TGA
1 TTACGTGTAAGACCCTGTCTGGGACA-TCGACATC-GTA-TATGA
*
44270111 TTACATGTAAGACCAC-GTCTGGGA
1 TTACGTGTAAGACC-CTGTCTGGGA
44270135 TGCTGGCATT
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
42 28 0.50
43 26 0.46
44 2 0.04
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (42 bp):
TTACGTGTAAGACCCTGTCTGGGACATCGACATCGTATATGA
Found at i:44271811 original size:98 final size:98
Alignment explanation
Indices: 44271642--44271834 Score: 323
Period size: 98 Copynumber: 2.0 Consensus size: 98
44271632 CTTGGCACAC
*
44271642 GGCGTGTGTGGCTATTTCGAATGGTACACGGGCTAGACATACAGACGTGTAGTTAGCTGTGTGAC
1 GGCGTGTGTGGCTATTTCGAATGGTACACGGGCTAGACACACAGACGTGTAGTTAGCTGTGTGAC
*
44271707 CCAAGTCAGTTTCGACCACGGCCAAGGCATACG
66 CCAAGTCAGTTTCGACCACAGCCAAGGCATACG
* * * *
44271740 GGCGTGTGTGGCTATTTCGAATGGTACACGGGCTAGACACACGGGCGTGTGGTTAGTTGTGTGAC
1 GGCGTGTGTGGCTATTTCGAATGGTACACGGGCTAGACACACAGACGTGTAGTTAGCTGTGTGAC
*
44271805 CCAAGTCAGTTTCGACCATAGCCAAGGCAT
66 CCAAGTCAGTTTCGACCACAGCCAAGGCAT
44271835 TATGCCCTGT
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 88 1.00
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.24
Consensus pattern (98 bp):
GGCGTGTGTGGCTATTTCGAATGGTACACGGGCTAGACACACAGACGTGTAGTTAGCTGTGTGAC
CCAAGTCAGTTTCGACCACAGCCAAGGCATACG
Found at i:44279741 original size:80 final size:80
Alignment explanation
Indices: 44279608--44279768 Score: 295
Period size: 80 Copynumber: 2.0 Consensus size: 80
44279598 TTTGAGACAG
* *
44279608 TTGAAAATGCAACTAGGATTTTTGGTAATCAAACTGAAAATATAGCTAGTAATGAAATTAAAACC
1 TTGAAAATACAACTAGGATTTTTGGTAATCAAACTGAAAATATAGCTACTAATGAAATTAAAACC
44279673 GAATATACAAGAGAA
66 GAATATACAAGAGAA
44279688 TTGAAAATACAACTAGGATTTTTGGTAATCAAACTGAAAATATAGCTACTAATGAAATTAAAACC
1 TTGAAAATACAACTAGGATTTTTGGTAATCAAACTGAAAATATAGCTACTAATGAAATTAAAACC
*
44279753 GAATATACAGGAGAA
66 GAATATACAAGAGAA
44279768 T
1 T
44279769 CTTCTAATCA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.27
Consensus pattern (80 bp):
TTGAAAATACAACTAGGATTTTTGGTAATCAAACTGAAAATATAGCTACTAATGAAATTAAAACC
GAATATACAAGAGAA
Found at i:44280604 original size:27 final size:27
Alignment explanation
Indices: 44280574--44280627 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
44280564 AAAAACATAG
44280574 AAAGAAAAATAGAAAATATAAATTAAT
1 AAAGAAAAATAGAAAATATAAATTAAT
44280601 AAAGAAAAATAGAAAATATAAATTAAT
1 AAAGAAAAATAGAAAATATAAATTAAT
44280628 TAAATGGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (27 bp):
AAAGAAAAATAGAAAATATAAATTAAT
Found at i:44289815 original size:56 final size:56
Alignment explanation
Indices: 44289685--44289818 Score: 214
Period size: 56 Copynumber: 2.4 Consensus size: 56
44289675 CAAACAAGGC
* * *
44289685 CTTACTCGCACACATATACCGGAATCACATATCGATGCCAACGTATTAAACGTGGT
1 CTTACTCGCACACATATATCGAAATCACATATCGATGCCAACATATTAAACGTGGT
*
44289741 CTTACTTGCACACATATATCGAAATCACATATCGATGCCAACATATTAAACGTGGT
1 CTTACTCGCACACATATATCGAAATCACATATCGATGCCAACATATTAAACGTGGT
**
44289797 CTTACTCAAACACATATATCGA
1 CTTACTCGCACACATATATCGA
44289819 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 71 1.00
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (56 bp):
CTTACTCGCACACATATATCGAAATCACATATCGATGCCAACATATTAAACGTGGT
Found at i:44294490 original size:15 final size:16
Alignment explanation
Indices: 44294470--44294503 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
44294460 AGATTTATAC
*
44294470 ATTATCACTGA-TTTG
1 ATTATCACCGATTTTG
44294485 ATTATCACCGATTTTG
1 ATTATCACCGATTTTG
44294501 ATT
1 ATT
44294504 CAATTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.47
Consensus pattern (16 bp):
ATTATCACCGATTTTG
Found at i:44296826 original size:39 final size:38
Alignment explanation
Indices: 44296776--44296869 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 38
44296766 TAATAATTAT
* * * **
44296776 AATTACCATAATTATAATATTTTTTTACCAAAAAAATAC
1 AATTACAATAATTATAATAATATTCGACC-AAAAAATAC
* * *
44296815 AATTACAATAATTATAATAATATTCGATCACAAATTAC
1 AATTACAATAATTATAATAATATTCGACCAAAAAATAC
44296853 AATTACAATAATTATAA
1 AATTACAATAATTATAA
44296870 CAAGGATTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
38 24 0.51
39 23 0.49
ACGTcount: A:0.51, C:0.12, G:0.01, T:0.36
Consensus pattern (38 bp):
AATTACAATAATTATAATAATATTCGACCAAAAAATAC
Found at i:44302058 original size:64 final size:64
Alignment explanation
Indices: 44301985--44302201 Score: 145
Period size: 64 Copynumber: 3.3 Consensus size: 64
44301975 CTGGGCCAGA
* *
44301985 GCCCTTTTCAAATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAAAATACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
***** * ** *
44302049 GCCCATTTCAAAATAC-ATGCAACATCAATAACATATGCAAGCCC--ATTTGGGTAACAGTGGTA
1 GCCCATTTCAAAATACAAT--AA-A-CTGGGCCTTA-GC---CCCTTATTCAGATAACA---GTA
* *
44302111 CTGGGCCA-AA
55 -TGGCCCATAG
* * * *
44302121 ACCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAAAATACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
44302185 GCCCATTTCAAAATACA
1 GCCCATTTCAAAATACA
44302202 TGCAACATCA
Statistics
Matches: 105, Mismatches: 32, Indels: 32
0.62 0.19 0.19
Matches are distributed among these distances:
63 8 0.08
64 31 0.30
65 5 0.05
66 1 0.01
67 13 0.12
68 4 0.04
69 13 0.12
70 1 0.01
71 5 0.05
72 16 0.15
73 8 0.08
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAAAATACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:44302195 original size:136 final size:136
Alignment explanation
Indices: 44301951--44302235 Score: 525
Period size: 136 Copynumber: 2.1 Consensus size: 136
44301941 TATTGGGCCT
** * *
44301951 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAACCCTTTTCAAATTACAATAAACTGGGCCTT
44302016 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
44302081 ATATGC
131 ATATGC
*
44302087 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAACCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAACCCTTTTCAAATTACAATAAACTGGGCCTT
44302152 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
44302217 ATATGC
131 ATATGC
44302223 AAGCCCATTTGGG
1 AAGCCCATTTGGG
44302236 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
136 144 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAACCCTTTTCAAATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:44302271 original size:21 final size:21
Alignment explanation
Indices: 44302242--44302289 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
44302232 TGGGGAGACT
*
44302242 ACTCAACCC-ACCAACCACTAC
1 ACTCCACCCTACCAACCA-TAC
*
44302263 ACTCCACCCTACCAGCCATAC
1 ACTCCACCCTACCAACCATAC
44302284 ACTCCA
1 ACTCCA
44302290 TGTGGGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.33, C:0.52, G:0.02, T:0.12
Consensus pattern (21 bp):
ACTCCACCCTACCAACCATAC
Found at i:44302510 original size:26 final size:26
Alignment explanation
Indices: 44302481--44302533 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
44302471 TCAAACATGC
44302481 ATTTAGGTAAATTTAAC-CCTAGGGGT
1 ATTTAGGT-AATTTAACTCCTAGGGGT
* *
44302507 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAGGTAATTTAACTCCTAGGGGT
44302533 A
1 A
44302534 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTAATTTAACTCCTAGGGGT
Found at i:44304049 original size:26 final size:26
Alignment explanation
Indices: 44304013--44304148 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
44304003 CATGATATTC
44304013 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
44304039 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
44304065 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
44304091 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
44304117 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
44304143 TTATCA
1 TTATCA
44304149 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:44305109 original size:9 final size:9
Alignment explanation
Indices: 44305095--44305219 Score: 55
Period size: 9 Copynumber: 13.6 Consensus size: 9
44305085 TTGTCTAATA
44305095 AAAATATAT
1 AAAATATAT
44305104 AAAATATTAT
1 AAAATA-TAT
*
44305114 AAAAT-CAT
1 AAAATATAT
44305122 AAAATAT-T
1 AAAATATAT
*
44305130 ACAAAAATATT
1 A-AAATATA-T
*
44305141 AAAATTATGT
1 AAAA-TATAT
* *
44305151 AAACTTATAA
1 AAA-ATATAT
44305161 AAAATTATTAT
1 AAAA-TA-TAT
* * *
44305172 AAATTCTAA
1 AAAATATAT
44305181 AAAAT-TAT
1 AAAATATAT
44305189 AATAA-ATAT
1 AA-AATATAT
44305198 AAAA-ATTAT
1 AAAATA-TAT
44305207 AAAA-ATAT
1 AAAATATAT
44305215 AAAAT
1 AAAAT
44305220 TTCTTAAAAG
Statistics
Matches: 88, Mismatches: 15, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
8 23 0.26
9 32 0.36
10 24 0.27
11 9 0.10
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (9 bp):
AAAATATAT
Found at i:44305117 original size:20 final size:19
Alignment explanation
Indices: 44305092--44305215 Score: 82
Period size: 20 Copynumber: 6.6 Consensus size: 19
44305082 CATTTGTCTA
44305092 ATAAAAATATATAAAATATT
1 ATAAAAATATATAAAA-ATT
*
44305112 AT-AAAATCATA-AAATATT
1 ATAAAAAT-ATATAAAAATT
*
44305130 ACAAAAATAT-T-AAAATT
1 ATAAAAATATATAAAAATT
* *
44305147 ATGTAAACT-TATAAAAAATT
1 AT-AAAAATATAT-AAAAATT
* *
44305167 ATTATAAAT-TCTAAAAAATT
1 A-TAAAAATATAT-AAAAATT
*
44305187 ATAATAA-ATATAAAAATT
1 ATAAAAATATATAAAAATT
44305205 ATAAAAATATA
1 ATAAAAATATA
44305216 AAATTTCTTA
Statistics
Matches: 80, Mismatches: 14, Indels: 21
0.70 0.12 0.18
Matches are distributed among these distances:
17 7 0.09
18 24 0.30
19 22 0.28
20 26 0.32
21 1 0.01
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (19 bp):
ATAAAAATATATAAAAATT
Found at i:44305228 original size:17 final size:17
Alignment explanation
Indices: 44305095--44305218 Score: 88
Period size: 18 Copynumber: 6.7 Consensus size: 17
44305085 TTGTCTAATA
44305095 AAAATATATAAAATATTAT
1 AAAA-ATATAAAA-ATTAT
*
44305114 -AAAATCATAAAATATTAC
1 AAAAAT-ATAAAA-ATTAT
*
44305132 AAAAATATTAAAATTATGT
1 AAAAATATAAAAATTA--T
**
44305151 AAACTTATAAAAAATTATT
1 AAAAATAT-AAAAATTA-T
* *
44305170 ATAAATTCTAAAAAATTAT
1 A-AAAATAT-AAAAATTAT
44305189 AATAAATATAAAAATTAT
1 AA-AAATATAAAAATTAT
44305207 AAAAATATAAAA
1 AAAAATATAAAA
44305219 TTTCTTAAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
17 16 0.18
18 31 0.36
19 19 0.22
20 21 0.24
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (17 bp):
AAAAATATAAAAATTAT
Found at i:44305263 original size:28 final size:28
Alignment explanation
Indices: 44305180--44305273 Score: 77
Period size: 28 Copynumber: 3.4 Consensus size: 28
44305170 ATAAATTCTA
* *
44305180 AAAAATTATAA--TAAATATAAAAATTAT
1 AAAAATTATAATTTAATTA-AAAAAATAT
* * ***
44305207 AAAAATATAAAATTT-CTTAAAAGCCTAT
1 AAAAAT-TATAATTTAATTAAAAAAATAT
44305235 AAAAATTATAATTTAATTAAAAAAATAT
1 AAAAATTATAATTTAATTAAAAAAATAT
*
44305263 ATAAATTATAA
1 AAAAATTATAA
44305274 AAAAATTTAG
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
27 13 0.25
28 35 0.69
29 2 0.04
30 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (28 bp):
AAAAATTATAATTTAATTAAAAAAATAT
Found at i:44305265 original size:21 final size:18
Alignment explanation
Indices: 44305235--44305280 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
44305225 AAAAGCCTAT
*
44305235 AAAAATTATAATTTAATTAA
1 AAAAATTATAAATT-A-TAA
44305255 AAAAATATATAAATTATAA
1 AAAAAT-TATAAATTATAA
44305274 AAAAATT
1 AAAAATT
44305281 TAGGGGTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 1 0.04
19 9 0.38
20 7 0.29
21 7 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATTATAAATTATAA
Found at i:44305332 original size:17 final size:17
Alignment explanation
Indices: 44305312--44305345 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44305302 AATACATGAC
44305312 TTTTTATAATTATTATA
1 TTTTTATAATTATTATA
*
44305329 TTTTTATAATTTTTATA
1 TTTTTATAATTATTATA
44305346 GCTAATACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTATAATTATTATA
Found at i:44305340 original size:9 final size:9
Alignment explanation
Indices: 44305312--44305549 Score: 115
Period size: 9 Copynumber: 24.8 Consensus size: 9
44305302 AATACATGAC
44305312 TTTTTATAA
1 TTTTTATAA
*
44305321 TTATTAT-A
1 TTTTTATAA
44305329 TTTTTATAA
1 TTTTTATAA
*
44305338 TTTTTATAG
1 TTTTTATAA
* ** *
44305347 CTAATACAA
1 TTTTTATAA
*
44305356 GTTTGTATAAA
1 -TTTTTAT-AA
*
44305367 TTTTTAAATA
1 TTTTTATA-A
44305377 TTTTTA-ATA
1 TTTTTATA-A
*
44305386 TGTTTTATAT
1 T-TTTTATAA
*
44305396 TTTTTATTA
1 TTTTTATAA
*
44305405 TTCTTATAA
1 TTTTTATAA
44305414 TTTTTTATAA
1 -TTTTTATAA
*
44305424 TTTAT-TAA
1 TTTTTATAA
44305432 TTTTT-TAA
1 TTTTTATAA
44305440 TTTTATATAA
1 TTTT-TATAA
44305450 GTTTTTATAA
1 -TTTTTATAA
*
44305460 TATTTATAA
1 TTTTTATAA
*
44305469 TATTTTATGAT
1 T-TTTTAT-AA
44305480 TTTCCTTATAA
1 TTT--TTATAA
*
44305491 GTTTTATAA
1 TTTTTATAA
44305500 GTTTTTTGTATAA
1 ---TTTT-TATAA
**
44305513 AATTTATAA
1 TTTTTATAA
*
44305522 GTTTATATAAA
1 -TTTTTAT-AA
44305533 TTTTTAATAA
1 TTTTT-ATAA
44305543 TTTTTAT
1 TTTTTAT
44305550 TAGAAAATTG
Statistics
Matches: 174, Mismatches: 34, Indels: 42
0.70 0.14 0.17
Matches are distributed among these distances:
8 21 0.12
9 64 0.37
10 61 0.35
11 16 0.09
12 7 0.04
13 5 0.03
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:44305401 original size:19 final size:18
Alignment explanation
Indices: 44305366--44305474 Score: 71
Period size: 19 Copynumber: 5.7 Consensus size: 18
44305356 GTTTGTATAA
*
44305366 ATTTTTAAATATTTTTAAT
1 ATTTTTATAT-TTTTTAAT
*
44305385 ATGTTTTATATTTTTTATT
1 AT-TTTTATATTTTTTAAT
*
44305404 ATTCTTATAATTTTTT-AT
1 ATTTTTAT-ATTTTTTAAT
44305422 AATTTATTA-ATTTTTTAAT
1 -ATTT-TTATATTTTTTAAT
*
44305441 -TTTATATAAGTTTTTATAAT
1 ATTTTTAT-A-TTTTT-TAAT
*
44305461 ATTTATAATATTTT
1 ATTT-TTATATTTT
44305475 ATGATTTTCC
Statistics
Matches: 71, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
16 2 0.03
17 3 0.04
18 14 0.20
19 28 0.39
20 18 0.25
21 4 0.06
22 2 0.03
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (18 bp):
ATTTTTATATTTTTTAAT
Found at i:44305432 original size:18 final size:19
Alignment explanation
Indices: 44305394--44305481 Score: 85
Period size: 19 Copynumber: 4.7 Consensus size: 19
44305384 TATGTTTTAT
*
44305394 ATTTTTTATTATTCT-TATA
1 ATTTTTTATAATT-TATATA
44305413 ATTTTTTATAATTTAT-TA
1 ATTTTTTATAATTTATATA
*
44305431 ATTTTTTA-ATTTTATATA
1 ATTTTTTATAATTTATATA
*
44305449 AGTTTTTATAATATT-TATA
1 ATTTTTTATAAT-TTATATA
* *
44305468 ATATTTTATGATTT
1 ATTTTTTATAATTT
44305482 TCCTTATAAG
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
17 6 0.10
18 22 0.38
19 28 0.48
20 2 0.03
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (19 bp):
ATTTTTTATAATTTATATA
Found at i:44309535 original size:27 final size:27
Alignment explanation
Indices: 44309505--44309817 Score: 365
Period size: 27 Copynumber: 11.7 Consensus size: 27
44309495 TAATAAAGAG
* *
44309505 AAATTACTAAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
44309532 AAATTA-TCGAAATACCCCCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
*
44309559 AAATTACTGAAATACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
** *
44309585 AAATTACCAAAATACCCCCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
44309612 AAATTACTGAAACACCCTCGAATTGT-
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
44309638 AAATTACCT-AAACACTCTCAATTTGTG
1 AAATTA-CTGAAATACCCTCGATTTGTA
*
44309665 AAATTAC-GAAAACACCCTCGATTTGTA
1 AAATTACTG-AAATACCCTCGATTTGTA
44309692 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
44309719 AAATTAAC-GAAATACCCTCGATTTGTA
1 AAATT-ACTGAAATACCCTCGATTTGTA
44309746 AAATTAAC-GAAATACCCTCGATTTGTA
1 AAATT-ACTGAAATACCCTCGATTTGTA
*
44309773 AAATTACTGAAACATCCC-CGATTTGTA
1 AAATTACTGAAATA-CCCTCGATTTGTA
44309800 AAATTA-TCGAAATACCCT
1 AAATTACT-GAAATACCCT
44309818 TGTAGTGTAA
Statistics
Matches: 250, Mismatches: 23, Indels: 26
0.84 0.08 0.09
Matches are distributed among these distances:
26 50 0.20
27 193 0.77
28 7 0.03
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:44309638 original size:80 final size:81
Alignment explanation
Indices: 44309504--44309817 Score: 399
Period size: 80 Copynumber: 3.9 Consensus size: 81
44309494 ATAATAAAGA
* * * *
44309504 GAAATTACTAAAATACCCTTGATTTGTAAAATTA-TCGAAATACCCCCGATTTGTAAAATTACTG
1 GAAATTACCAAAATACCCTCGATTTGTAAAATTACT-GAAACACCCTCGATTTGTAAAATTACTG
44309568 AAATACCCTCGA-TTGT
65 AAATACCCTCGATTTGT
* *
44309584 GAAATTACCAAAATACCCCCGATTTGTAAAATTACTGAAACACCCTCGAATTGT-AAATTACCT-
1 GAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTAAAATTA-CTG
* * *
44309647 AAACACTCTCAATTTGT
65 AAATACCCTCGATTTGT
* * *
44309664 GAAATTACGAAAACACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTAAC-G
1 GAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTAAAATT-ACTG
44309728 AAATACCCTCGATTTGT
65 AAATACCCTCGATTTGT
* * *
44309745 AAAATTAACGAAATACCCTCGATTTGTAAAATTACTGAAACATCCC-CGATTTGTAAAATTA-TC
1 GAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAACA-CCCTCGATTTGTAAAATTACT-
44309808 GAAATACCCT
64 GAAATACCCT
44309818 TGTAGTGTAA
Statistics
Matches: 202, Mismatches: 23, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
79 15 0.07
80 102 0.50
81 81 0.40
82 4 0.02
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.30
Consensus pattern (81 bp):
GAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTAAAATTACTGA
AATACCCTCGATTTGT
Found at i:44310956 original size:17 final size:18
Alignment explanation
Indices: 44310924--44310957 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44310914 AGTAAGAAGG
44310924 GTTTTCAATGAAAACATA
1 GTTTTCAATGAAAACATA
44310942 GTTTTCAAT-AAAACAT
1 GTTTTCAATGAAAACAT
44310958 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (18 bp):
GTTTTCAATGAAAACATA
Found at i:44315279 original size:28 final size:27
Alignment explanation
Indices: 44315230--44315292 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 27
44315220 TGGGAAGTAG
* *
44315230 TTGGGCCTGAGGGCCATATGAATGTGA
1 TTGGGCCTGAGGGCCATATGAACGAGA
*
44315257 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGA-GGGCCATATGAACGAGA
44315285 TTGGGCCT
1 TTGGGCCT
44315293 AAAGGGGCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 10 0.31
28 22 0.69
ACGTcount: A:0.19, C:0.17, G:0.38, T:0.25
Consensus pattern (27 bp):
TTGGGCCTGAGGGCCATATGAACGAGA
Found at i:44315647 original size:27 final size:27
Alignment explanation
Indices: 44315609--44316055 Score: 453
Period size: 27 Copynumber: 16.6 Consensus size: 27
44315599 TAATAAAGAG
*
44315609 AAATTACTGAAATGCCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
44315636 AAATTACTGAAATGCCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
44315663 AAATTACTGAAATACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
44315689 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** *
44315716 AAATTACCAAAATACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
44315742 AAATTACTAAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
44315769 AAATTATTGAAATACCCTCGATTTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
44315796 AAATTA-TCGAAACACCCTCGATTTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
44315823 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* **
44315850 AAATTACCT-AAACACCCTTAATTTGTA
1 AAATTA-CTGAAATACCCTCGATTTGTA
* * *
44315877 AATTTATTGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
44315904 AAATTA-TCGAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
44315931 AAATTACCGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** * **
44315958 AAATTACCAAAACACCCTTAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
44315985 AAGTTA-TCAAAATACCCTTG-TAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
* *
44316012 AAATTA-TCGAAATACCCTTG-TAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
* *
44316039 AAATGACTGACATACCC
1 AAATTACTGAAATACCC
44316056 CTGTAGGGTA
Statistics
Matches: 368, Mismatches: 41, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
26 52 0.14
27 314 0.85
28 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:44316060 original size:27 final size:27
Alignment explanation
Indices: 44315994--44316074 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
44315984 AAAGTTATCA
*
44315994 AAATACCCTTGTAGTGTAAAATTA-TCG
1 AAATACCCTTGTAGTGTAAAATGACT-G
44316021 AAATACCCTTGTAGTGTAAAATGACTG
1 AAATACCCTTGTAGTGTAAAATGACTG
* * *
44316048 ACATACCCCTGTAGGGTAAAATGACTG
1 AAATACCCTTGTAGTGTAAAATGACTG
44316075 TTTTGCCCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 48 0.98
28 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (27 bp):
AAATACCCTTGTAGTGTAAAATGACTG
Found at i:44317351 original size:26 final size:26
Alignment explanation
Indices: 44317268--44317402 Score: 199
Period size: 26 Copynumber: 5.3 Consensus size: 26
44317258 CTGGAGGCCT
44317268 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
* *
44317292 AGCCCTTTT-GATAAACTAGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
44317316 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
44317342 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
44317368 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
44317394 AGCCCTTTT
1 AGCCCTTTT
44317403 GCACTTCCTC
Statistics
Matches: 103, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
23 7 0.07
24 23 0.22
25 12 0.12
26 61 0.59
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:44317477 original size:20 final size:20
Alignment explanation
Indices: 44317452--44317558 Score: 162
Period size: 20 Copynumber: 5.3 Consensus size: 20
44317442 TTATGATTAC
44317452 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
44317472 ATCATGTGCATATCATACAT
1 ATCATGTGCATTTCATACAT
*
44317492 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
44317512 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
44317532 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
44317552 ATCATGT
1 ATCATGT
44317559 ATATCATATC
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
20 79 0.98
21 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:44317564 original size:9 final size:10
Alignment explanation
Indices: 44317469--44317565 Score: 51
Period size: 9 Copynumber: 9.8 Consensus size: 10
44317459 GCATTTCATA
44317469 CATATCATGT
1 CATATCATGT
*
44317479 GCATATCAT-A
1 -CATATCATGT
44317489 CATATCATGT
1 CATATCATGT
* * *
44317499 GCATTTTAT-A
1 -CATATCATGT
44317509 CATATCATGT
1 CATATCATGT
* * *
44317519 GCATTTTAT-A
1 -CATATCATGT
44317529 CATATCATGT
1 CATATCATGT
*
44317539 GCATATCATAT
1 -CATATCATGT
44317550 CA-ATCATGT
1 CATATCATGT
44317559 -ATATCAT
1 CATATCAT
44317566 ATCCCACGTA
Statistics
Matches: 63, Mismatches: 16, Indels: 16
0.66 0.17 0.17
Matches are distributed among these distances:
8 1 0.02
9 31 0.49
10 2 0.03
11 29 0.46
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (10 bp):
CATATCATGT
Found at i:44325285 original size:17 final size:18
Alignment explanation
Indices: 44325243--44325291 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
44325233 AGTTGAAAAG
44325243 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
44325262 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
44325279 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
44325292 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:44326180 original size:40 final size:40
Alignment explanation
Indices: 44326114--44326264 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
44326104 AAATTGAATG
* * *
44326114 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
44326153 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
44326193 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
44326233 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
44326265 ACTTGATTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:44326278 original size:40 final size:40
Alignment explanation
Indices: 44326150--44326280 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
44326140 TATGCTGGAA
* * * *
44326150 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
** * *
44326190 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
44326230 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
44326270 ATTATATCCGG
1 ATTATATCCGG
44326281 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:44328416 original size:31 final size:31
Alignment explanation
Indices: 44328381--44328444 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
44328371 CCTTTTCATA
*
44328381 TTTCATACTTCATAACACTGGGCCGAAGCCT
1 TTTCATACTTCATAACACTAGGCCGAAGCCT
** **
44328412 TTTCATGTTTCATATTACTAGGCCGAAGCCT
1 TTTCATACTTCATAACACTAGGCCGAAGCCT
44328443 TT
1 TT
44328445 CGTTTAACGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATACTTCATAACACTAGGCCGAAGCCT
Found at i:44328712 original size:26 final size:26
Alignment explanation
Indices: 44328654--44328790 Score: 201
Period size: 26 Copynumber: 5.3 Consensus size: 26
44328644 CTAGAGGCCT
44328654 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*
44328678 AACCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
44328704 AACCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
44328730 AGCCCTTTGT-AATAAACTGGGGCATA
1 AGCCCTTT-TCAATAAACTGGGGCATA
*
44328756 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
44328782 AGCCCTTTT
1 AGCCCTTTT
44328791 GCACTTCCTC
Statistics
Matches: 105, Mismatches: 3, Indels: 8
0.91 0.03 0.07
Matches are distributed among these distances:
23 5 0.05
24 6 0.06
25 11 0.10
26 82 0.78
27 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:44328865 original size:20 final size:20
Alignment explanation
Indices: 44328840--44328946 Score: 162
Period size: 20 Copynumber: 5.3 Consensus size: 20
44328830 TTATGATTAC
44328840 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
44328860 ATCATGTGCATATCATACAT
1 ATCATGTGCATTTCATACAT
*
44328880 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
44328900 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
44328920 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
44328940 ATCATGT
1 ATCATGT
44328947 ATATCATATC
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
20 79 0.98
21 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:44328952 original size:9 final size:10
Alignment explanation
Indices: 44328857--44328953 Score: 51
Period size: 9 Copynumber: 9.8 Consensus size: 10
44328847 GCATTTCATA
44328857 CATATCATGT
1 CATATCATGT
*
44328867 GCATATCAT-A
1 -CATATCATGT
44328877 CATATCATGT
1 CATATCATGT
* * *
44328887 GCATTTTAT-A
1 -CATATCATGT
44328897 CATATCATGT
1 CATATCATGT
* * *
44328907 GCATTTTAT-A
1 -CATATCATGT
44328917 CATATCATGT
1 CATATCATGT
*
44328927 GCATATCATAT
1 -CATATCATGT
44328938 CA-ATCATGT
1 CATATCATGT
44328947 -ATATCAT
1 CATATCAT
44328954 ATCCCACGTA
Statistics
Matches: 63, Mismatches: 16, Indels: 16
0.66 0.17 0.17
Matches are distributed among these distances:
8 1 0.02
9 31 0.49
10 2 0.03
11 29 0.46
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (10 bp):
CATATCATGT
Found at i:44332179 original size:34 final size:34
Alignment explanation
Indices: 44332141--44332208 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
44332131 AATTAAAATG
44332141 AAAAATGAAAAATAAACCCTAATCTAATTTCAGT
1 AAAAATGAAAAATAAACCCTAATCTAATTTCAGT
44332175 AAAAATGAAAAATAAACCCTAATCTAATTTCAGT
1 AAAAATGAAAAATAAACCCTAATCTAATTTCAGT
44332209 GTTAGTCTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (34 bp):
AAAAATGAAAAATAAACCCTAATCTAATTTCAGT
Found at i:44337150 original size:42 final size:42
Alignment explanation
Indices: 44337103--44337265 Score: 193
Period size: 42 Copynumber: 3.9 Consensus size: 42
44337093 TACAGTACCA
*
44337103 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCGTATCG
* * * *
44337145 ATGCCAATAGCCCAGCTATGGTCTTACAC-AAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAA-TCTCGTATCG
* * * * *
44337188 ATGCCATATCCCATATATGGTCTTAGACGTAGTCTTGTATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCGTATCG
* *
44337230 ATGCCATATCCCAAATATGGTCTTACACGTAGTCTC
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTC
44337266 AGTAACCCTA
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 66 0.65
43 35 0.35
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCGTATCG
Found at i:44337233 original size:85 final size:84
Alignment explanation
Indices: 44337103--44337266 Score: 220
Period size: 85 Copynumber: 1.9 Consensus size: 84
44337093 TACAGTACCA
* **
44337103 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATGCCAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCGTATCGATGCC-ATAGCCCAAATATGGTC
44337168 TTACACAAAGTCTCATATCG
65 TTACACAAAGTCTCATATCG
* * * * * *
44337188 ATGCCATATCCCATATATGGTCTTAGACGTAGTCTTGTATTGATGCCATATCCCAAATATGGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCGTATCGATGCCATAGCCCAAATATGGTCT
**
44337253 TACACGTAGTCTCA
66 TACACAAAGTCTCA
44337267 GTAACCCTAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 27 0.40
85 41 0.60
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (84 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCGTATCGATGCCATAGCCCAAATATGGTCT
TACACAAAGTCTCATATCG
Found at i:44337813 original size:3 final size:3
Alignment explanation
Indices: 44337805--44337866 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
44337795 AAATAAACTC
44337805 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
44337853 TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TC
44337867 ACATCAAAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:44338925 original size:28 final size:28
Alignment explanation
Indices: 44338894--44338958 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
44338884 TATGATCATG
*
44338894 TTTAGAAA-TTTTAAAGAAAATTATTTTT
1 TTTA-AAATTTTTAAAGAAAATCATTTTT
44338922 TTTAAAATTTTTAAAGAAAATCATTTTT
1 TTTAAAATTTTTAAAGAAAATCATTTTT
*
44338950 TTAAAAATT
1 TTTAAAATT
44338959 AACTCGAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 3 0.09
28 31 0.91
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.49
Consensus pattern (28 bp):
TTTAAAATTTTTAAAGAAAATCATTTTT
Found at i:44342829 original size:37 final size:38
Alignment explanation
Indices: 44342778--44342874 Score: 99
Period size: 40 Copynumber: 2.5 Consensus size: 38
44342768 CAGATAGATT
* *
44342778 CGATGGGGCGTTGGTCGCCAC-TTTGCTTCG-ACTTAGC
1 CGATGAGGCATTGGTCGCCACTTTTGCTTCGAAC-TAGC
* * *
44342815 CGATGAGTCATTGGTCGTCACTTATTTGCTTCGAACTATC
1 CGATGAGGCATTGGTCGCCAC-T-TTTGCTTCGAACTAGC
*
44342855 CGATGAGGCGTTGGTCGCCA
1 CGATGAGGCATTGGTCGCCA
44342875 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
37 17 0.35
40 29 0.60
41 2 0.04
ACGTcount: A:0.15, C:0.25, G:0.29, T:0.31
Consensus pattern (38 bp):
CGATGAGGCATTGGTCGCCACTTTTGCTTCGAACTAGC
Found at i:44342840 original size:77 final size:79
Alignment explanation
Indices: 44342723--44342874 Score: 179
Period size: 77 Copynumber: 1.9 Consensus size: 79
44342713 TTCAAGGATA
* * * *
44342723 CTTCGACTTCGAGTCGATGAGACACTTGGTGTGTCATTA-TTGCTTCAGATA-GATTCGATGGGG
1 CTTCGACTTC-AGCCGATGAGACACTTGGTGCGTCATTATTTGCTTC-GA-ACGATCCGATGAGG
44342786 CGTTGGTCGCCACTTTG
63 CGTTGGTCGCCACTTTG
* *
44342803 CTTCGACTT-AGCCGATGAGTCA-TTGGT-CGTCACTTATTTGCTTCGAACTATCCGATGAGGCG
1 CTTCGACTTCAGCCGATGAGACACTTGGTGCGTCA-TTATTTGCTTCGAACGATCCGATGAGGCG
44342865 TTGGTCGCCA
65 TTGGTCGCCA
44342875 TTCTGGTGTG
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
76 5 0.08
77 31 0.49
78 18 0.29
80 9 0.14
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.33
Consensus pattern (79 bp):
CTTCGACTTCAGCCGATGAGACACTTGGTGCGTCATTATTTGCTTCGAACGATCCGATGAGGCGT
TGGTCGCCACTTTG
Found at i:44343795 original size:20 final size:21
Alignment explanation
Indices: 44343770--44343826 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 21
44343760 TTGTCCACGA
44343770 CAGGCCACACGGGCATGTTC-
1 CAGGCCACACGGGCATGTTCT
*
44343790 CAGGCCCCACGGGCATG-TCT
1 CAGGCCACACGGGCATGTTCT
*
44343810 CAGGCCA-ACAGGCATGT
1 CAGGCCACACGGGCATGT
44343827 GCCCCTATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 10 0.31
20 22 0.69
ACGTcount: A:0.21, C:0.35, G:0.30, T:0.14
Consensus pattern (21 bp):
CAGGCCACACGGGCATGTTCT
Found at i:44349181 original size:3 final size:3
Alignment explanation
Indices: 44349173--44349226 Score: 76
Period size: 3 Copynumber: 18.0 Consensus size: 3
44349163 AGGTATTTAC
44349173 TTA TTA TTA TTA TTA TTA TT- TTA TTA TTA TTA TTA TTA TATA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
44349217 TTA TCTA TTA
1 TTA T-TA TTA
44349227 ATTGAGATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.09
3 37 0.79
4 6 0.13
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:44349196 original size:17 final size:17
Alignment explanation
Indices: 44349176--44349209 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44349166 TATTTACTTA
44349176 TTATTATTATTATTATT
1 TTATTATTATTATTATT
44349193 TTATTATTATTATTATT
1 TTATTATTATTATTATT
44349210 ATATATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTATTATTATTATT
Found at i:44349196 original size:20 final size:20
Alignment explanation
Indices: 44349173--44349211 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
44349163 AGGTATTTAC
44349173 TTATTATTATTATTATTATT
1 TTATTATTATTATTATTATT
44349193 TTATTATTATTATTATTAT
1 TTATTATTATTATTATTAT
44349212 ATATTTTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTATTATTATTATTATTATT
Found at i:44351407 original size:20 final size:20
Alignment explanation
Indices: 44351382--44351435 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
44351372 TACCCACGGG
44351382 CAGGCCACACGGGCATGT-T
1 CAGGCCACACGGGCATGTCT
*
44351401 CCAGGCCACACGGGAATGTCT
1 -CAGGCCACACGGGCATGTCT
*
44351422 CAAGCCACACGGGC
1 CAGGCCACACGGGC
44351436 GTGTGCCCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.24, C:0.35, G:0.30, T:0.11
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTCT
Found at i:44357877 original size:40 final size:39
Alignment explanation
Indices: 44357820--44358041 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 39
44357810 TCGAATGATG
* * *
44357820 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
44357860 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
44357900 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
44357939 TCCGGGCTAAG-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
44357977 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
44358017 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
44358042 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
37 23 0.14
38 12 0.07
39 40 0.24
40 83 0.50
41 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44357968 original size:77 final size:79
Alignment explanation
Indices: 44357820--44358039 Score: 297
Period size: 77 Copynumber: 2.8 Consensus size: 79
44357810 TCGAATGATG
* * *
44357820 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCGAAGGCATT
*
44357884 TGTGCGAGTTACTAAA
64 GGTGCGAGTTACTAAA
*
44357900 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATCCGGGCTAAG-CCGAAGGCATTG
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCGAAGGCATTG
44357962 GTGCGAGTTACTAAA
65 GTGCGAGTTACTAAA
* * *
44357977 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGT-CCGAAGGCATT
44358040 TGAACGAGTA
Statistics
Matches: 125, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
76 6 0.05
77 64 0.51
79 22 0.18
80 25 0.20
81 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCGAAGGCATTGG
TGCGAGTTACTAAA
Found at i:44358060 original size:117 final size:118
Alignment explanation
Indices: 44357820--44358048 Score: 281
Period size: 117 Copynumber: 1.9 Consensus size: 118
44357810 TCGAATGATG
* *
44357820 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAG-CCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
**
44357885 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
65 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAA
* * **
44357939 TCCGGGCTAAG-CCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
* *
44358001 TGTGCGAG-TACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGT
64 TGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGT
44358049 AGCTATATCC
Statistics
Matches: 96, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
115 1 0.01
116 32 0.33
117 46 0.48
118 6 0.06
119 11 0.11
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAA
Found at i:44358072 original size:39 final size:39
Alignment explanation
Indices: 44357820--44358074 Score: 236
Period size: 40 Copynumber: 6.5 Consensus size: 39
44357810 TCGAATGATG
* *
44357820 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATA
** *
44357860 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA
**
44357900 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA
* * *
44357939 TCCGGGCTAAG--CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA
44357977 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTACTATA
* * * **
44358016 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATA
* *
44358056 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
44358075 TACGTGATTC
Statistics
Matches: 190, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
37 24 0.13
38 11 0.06
39 58 0.31
40 88 0.46
41 9 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTACTATA
Found at i:44366114 original size:79 final size:80
Alignment explanation
Indices: 44365954--44366176 Score: 251
Period size: 79 Copynumber: 2.8 Consensus size: 80
44365944 TCGAATGATG
* * * * *
44365954 TCCGGGCTAAGTCCCGAAGGC-TTTCTGCTAAG-TGACTATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACTATAACCGGGCTAAG-TCCCGAAGGCA
*
44366016 TTTGTGCGAGTTACTAAA
63 TTGGTGCGAGTTACTAAA
* *
44366034 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGCTACTATA-ACCGGGCTAAGTCCCGAAGGCAT
44366096 TGGTGCGAGTTACTAAA
64 TGGTGCGAGTTACTAAA
** * *
44366113 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTCCCAAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATT
44366177 TGAACGAGTA
Statistics
Matches: 124, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
78 1 0.01
79 69 0.56
80 46 0.37
81 8 0.06
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTG
GTGCGAGTTACTAAA
Found at i:44366142 original size:40 final size:40
Alignment explanation
Indices: 44365954--44366178 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
44365944 TCGAATGATG
* * * *
44365954 TCCGGGCTAAGTCCCGAAGGC-TTTCTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
44365994 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
44366034 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44366074 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
44366113 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
44366154 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44366179 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 35 0.21
40 121 0.73
41 9 0.05
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44366177 original size:119 final size:120
Alignment explanation
Indices: 44365954--44366178 Score: 280
Period size: 119 Copynumber: 1.9 Consensus size: 120
44365944 TCGAATGATG
* *
44365954 TCCGGGCTAAGTCCCGAAGGCTTTCTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTGCTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
* *
44366019 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
66 GTGCGAGCTACTAAATCCGGACTAAGATCCAAAGGCATTTGTGCGAGTTACTAAT
* * * **
44366074 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGCTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
* *
44366136 TTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCAAAGGCATTTG
64 TTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCAAAGGCATTTG
44366179 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
118 2 0.02
119 70 0.78
120 18 0.20
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTGCTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGCTACTAAATCCGGACTAAGATCCAAAGGCATTTGTGCGAGTTACTAAT
Found at i:44366200 original size:79 final size:79
Alignment explanation
Indices: 44366022--44366201 Score: 206
Period size: 79 Copynumber: 2.3 Consensus size: 79
44366012 GGCATTTGTG
** * *
44366022 CGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGC
1 CGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGCTACTAATACCGGGCTAAGC
* **
44366086 CCGAAGGCATTGGTG
65 CCAAAGGCATTGGAA
*
44366101 CGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACT-ATAACCGGGCTATGT
1 CGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAT-ACCGGGCTAAG-
*
44366165 CCCAAAGGCATTTGAA
64 CCCAAAGGCATTGGAA
*
44366181 CGAG-TAGCTATATCC-GGTTAA
1 CGAGTTA-CTAAATCCGGGTTAA
44366202 ATTCCAAAGG
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 61 0.70
80 23 0.26
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
CGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATACCGGGCTAAGCC
CAAAGGCATTGGAA
Found at i:44370057 original size:41 final size:41
Alignment explanation
Indices: 44370000--44370081 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
44369990 TCTTACCGAA
44370000 GCCTTATTGTTTCATAATCTCAATAACTATAAGCTTGGCGT
1 GCCTTATTGTTTCATAATCTCAATAACTATAAGCTTGGCGT
*
44370041 GCCTTATTGTTTCATAATCTCAGTAACTATAAGCTTGGCGT
1 GCCTTATTGTTTCATAATCTCAATAACTATAAGCTTGGCGT
44370082 ACATACTTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.39
Consensus pattern (41 bp):
GCCTTATTGTTTCATAATCTCAATAACTATAAGCTTGGCGT
Found at i:44370281 original size:42 final size:42
Alignment explanation
Indices: 44370203--44370401 Score: 130
Period size: 42 Copynumber: 4.6 Consensus size: 42
44370193 TAAGATGCCA
* * * * ** *
44370203 ATGCCATGTCCCATACATGGTCTTACATGGGATCTCACATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
44370245 ATGCCATATCCCAGATATGGTCTTATACGAATTCTCATTTCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * ** ** *
44370287 ACGCCATGTTCCAGACGTGGTCTTACACGAAATCTTGTATCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
44370329 ATGCCGTATCCCAGATATGGTCTCACATGATAA-CTCATACTGATGCTG
1 ATGCCATATCCCAGATATGGTCTTACACGA-AATCTC--A-T-AT-C-G
*
44370377 ATGACATATCCCAGATATGGTCTTA
1 ATGCCATATCCCAGATATGGTCTTA
44370402 TACGGTATCT
Statistics
Matches: 115, Mismatches: 35, Indels: 8
0.73 0.22 0.05
Matches are distributed among these distances:
42 87 0.76
43 2 0.02
45 1 0.01
46 2 0.02
47 1 0.01
48 22 0.19
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:44373916 original size:26 final size:26
Alignment explanation
Indices: 44373844--44373933 Score: 94
Period size: 26 Copynumber: 3.5 Consensus size: 26
44373834 CATTACCGTA
*
44373844 AATGTGAAAGTCCATTAGGACAATCT
1 AATGTGGAAGTCCATTAGGACAATCT
** **
44373870 AAT-TGGAAAGTCTGTCGGGACAATCT
1 AATGTGG-AAGTCCATTAGGACAATCT
*
44373896 AATGTGGAAGCCCATTAGGACAATCT
1 AATGTGGAAGTCCATTAGGACAATCT
44373922 AAT-TAGGAAGTC
1 AATGT-GGAAGTC
44373934 TGCTAGGATG
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
25 3 0.06
26 44 0.88
27 3 0.06
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.26
Consensus pattern (26 bp):
AATGTGGAAGTCCATTAGGACAATCT
Found at i:44373922 original size:52 final size:52
Alignment explanation
Indices: 44373844--44374114 Score: 198
Period size: 52 Copynumber: 5.2 Consensus size: 52
44373834 CATTACCGTA
* *
44373844 AATGTGAAAGTCCATTAGGACAATCTAATTGGAAAGTCTGTCGGGACAATCT
1 AATGTGGAAGTCCATTAGGACAATCTAATTGGAAAGTCTGTCAGGACAATCT
* **
44373896 AATGTGGAAGCCCATTAGGACAATCTAATTAGG-AAGTCTG-CTAGGATGATCT
1 AATGTGGAAGTCCATTAGGACAATCTAATT-GGAAAGTCTGTC-AGGACAATCT
* * * * * * ** *
44373948 AATGTGG-ACT-CTTGTCAAGACAATCCAATT-GAGAAGTCT-ACAAAGATTATAT
1 AATGTGGAAGTCCAT-T-AGGACAATCTAATTGGA-AAGTCTGTC-AGGACAATCT
** * *
44374000 AATGTGG-AGTCTGTCAGGACAATCTAATTGGAAAGTCTGCCAGGACAATCT
1 AATGTGGAAGTCCATTAGGACAATCTAATTGGAAAGTCTGTCAGGACAATCT
* * ** * * *
44374051 AATGAGGAAGTCCGTCCGGACAATCTATTTGGGAAGTCTGTTAGGACAATCT
1 AATGTGGAAGTCCATTAGGACAATCTAATTGGAAAGTCTGTCAGGACAATCT
44374103 AAT-TGGGAAGTC
1 AATGT-GGAAGTC
44374115 TATAAGGTTG
Statistics
Matches: 174, Mismatches: 33, Indels: 24
0.75 0.14 0.10
Matches are distributed among these distances:
50 3 0.02
51 33 0.19
52 135 0.78
53 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (52 bp):
AATGTGGAAGTCCATTAGGACAATCTAATTGGAAAGTCTGTCAGGACAATCT
Found at i:44373940 original size:26 final size:24
Alignment explanation
Indices: 44373859--44374115 Score: 142
Period size: 26 Copynumber: 10.0 Consensus size: 24
44373849 GAAAGTCCAT
44373859 TAGGACAATCTAATTGGAAAGTCTG
1 TAGGACAATCTAATTGG-AAGTCTG
* *
44373884 TCGGGACAATCTAATGTGGAAGCCCAT-
1 T-AGGACAATCTAAT-TGGAAG-TC-TG
44373911 TAGGACAATCTAATTAGGAAGTCTG
1 TAGGACAATCTAATT-GGAAGTCTG
** *
44373936 CTAGGATGATCTAATGTGG-ACTCTTG
1 -TAGGACAATCTAAT-TGGAAGTC-TG
* * *
44373962 TCAAGACAATCCAATTGAGAAGTCTAC
1 T-AGGACAATCTAATTG-GAAGTCT-G
* * ** *
44373989 AAAGATTATATAATGTGG-AGTCTG
1 TAGGACAATCTAAT-TGGAAGTCTG
44374013 TCAGGACAATCTAATTGGAAAGTCTG
1 T-AGGACAATCTAATTGG-AAGTCTG
* * *
44374039 CCAGGACAATCTAATGAGGAAGTCCG
1 -TAGGACAATCTAAT-TGGAAGTCTG
* *
44374065 TCCGGACAATCTATTTGGGAAGTCTG
1 T-AGGACAATCTAATT-GGAAGTCTG
44374091 TTAGGACAATCTAATTGGGAAGTCT
1 -TAGGACAATCTAATT-GGAAGTCT
44374116 ATAAGGTTGA
Statistics
Matches: 176, Mismatches: 34, Indels: 43
0.70 0.13 0.17
Matches are distributed among these distances:
24 4 0.02
25 23 0.13
26 134 0.76
27 14 0.08
28 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (24 bp):
TAGGACAATCTAATTGGAAGTCTG
Found at i:44385334 original size:93 final size:93
Alignment explanation
Indices: 44385222--44385393 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44385212 CGCCCATAAG
* *
44385222 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44385287 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
44385315 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44385380 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
44385394 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:44385390 original size:46 final size:46
Alignment explanation
Indices: 44385215--44385390 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
44385205 TGTAACCCGC
* * *
44385215 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
44385261 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
44385311 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
44385354 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
44385391 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:44392911 original size:93 final size:93
Alignment explanation
Indices: 44392799--44392970 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44392789 CGCCCATAAG
* *
44392799 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44392864 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
44392892 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44392957 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
44392971 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:44392967 original size:46 final size:46
Alignment explanation
Indices: 44392792--44392967 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
44392782 TGTAACCCGC
* * *
44392792 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
44392838 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
44392888 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
44392931 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
44392968 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:44396480 original size:40 final size:39
Alignment explanation
Indices: 44396424--44396610 Score: 196
Period size: 40 Copynumber: 4.7 Consensus size: 39
44396414 TATAACCACA
* * * * *
44396424 AGCACAATTTCCTTCGGGTCTTAACCCGGATTTGGTATCT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATA-CT
* *
44396464 TGCACAAATGCCTTCGGGTCTTAGCCCGGATATGACAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATGA-TACT
* * *
44396504 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATGAT-ACT
* *
44396544 AGCATAAATGCCTTCGGGACTTAGCCCGGATAT-ATTCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATGA-T-ACT
* *
44396584 AGCATAAATGCCTTCGGGACTTAGCCC
1 AGCACAAATGCCTTCGGGTCTTAGCCC
44396611 AGGTATCATT
Statistics
Matches: 129, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 127 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (39 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATACT
Found at i:44399123 original size:78 final size:78
Alignment explanation
Indices: 44398994--44399152 Score: 300
Period size: 78 Copynumber: 2.0 Consensus size: 78
44398984 GAAAGGAAGT
44398994 GTAACAAGTCACGAAAATAACGGATGAACAGAGAATCTATAAGATTTATCTGGTTGGAGGCTCAT
1 GTAACAAGTCACGAAAATAACGGATGAACAGAGAATCTATAAGATTTATCTGGTTGGAGGCTCAT
*
44399059 TATCTGTGTATTC
66 TATCTGTGTAGTC
*
44399072 GTAACAAGTCGCGAAAATAACGGATGAACAGAGAATCTATAAGATTTATCTGGTTGGAGGCTCAT
1 GTAACAAGTCACGAAAATAACGGATGAACAGAGAATCTATAAGATTTATCTGGTTGGAGGCTCAT
44399137 TATCTGTGTAGTC
66 TATCTGTGTAGTC
44399150 GTA
1 GTA
44399153 TTAAGGGAAG
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (78 bp):
GTAACAAGTCACGAAAATAACGGATGAACAGAGAATCTATAAGATTTATCTGGTTGGAGGCTCAT
TATCTGTGTAGTC
Done.