Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 70 of 230
Found at i:19130394 original size:26 final size:27
Alignment explanation
Indices: 19130364--19130421 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 27
19130354 ATAACAGTGT
19130364 GTGGGCCTTAGCCCAATATAGTAA-CA
1 GTGGGCCTTAGCCCAATATAGTAATCA
19130390 GTGGGGGCCTTAGCCCAATATAGTAATCA
1 GT--GGGCCTTAGCCCAATATAGTAATCA
19130419 GTG
1 GTG
19130422 CAATGCAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
26 2 0.07
27 1 0.03
28 22 0.76
29 4 0.14
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (27 bp):
GTGGGCCTTAGCCCAATATAGTAATCA
Found at i:19130406 original size:28 final size:30
Alignment explanation
Indices: 19130332--19130421 Score: 121
Period size: 30 Copynumber: 3.0 Consensus size: 30
19130322 TATCAGTAGA
* * * *
19130332 GTGTAGGCCTTAGCCCATTACAATAACAGT
1 GTGTGGGCCTTAGCCCAATATAGTAACAGT
19130362 GTGTGGGCCTTAGCCCAATATAGTAACAGT
1 GTGTGGGCCTTAGCCCAATATAGTAACAGT
19130392 G-G-GGGCCTTAGCCCAATATAGTAATCAGT
1 GTGTGGGCCTTAGCCCAATATAGTAA-CAGT
19130421 G
1 G
19130422 CAATGCAGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
28 22 0.40
29 6 0.11
30 27 0.49
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (30 bp):
GTGTGGGCCTTAGCCCAATATAGTAACAGT
Found at i:19130582 original size:26 final size:26
Alignment explanation
Indices: 19130529--19130589 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
19130519 CCAATATCGT
* *
19130529 AGCAAAGCTGCCAATAATAGTGACGC
1 AGCAAAGCTGCCAATAACAGTAACGC
* *
19130555 AGCAAAGCTGCCAGTAACAGTAATGC
1 AGCAAAGCTGCCAATAACAGTAACGC
*
19130581 AGTAAAGCT
1 AGCAAAGCT
19130590 ACTAGTAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (26 bp):
AGCAAAGCTGCCAATAACAGTAACGC
Found at i:19130596 original size:26 final size:26
Alignment explanation
Indices: 19130529--19130621 Score: 69
Period size: 26 Copynumber: 3.5 Consensus size: 26
19130519 CCAATATCGT
* * * * *
19130529 AGCAAAGCTGCCAATAATAGTGACGC
1 AGCAAAGCTACCAGTAACAGTAATGC
*
19130555 AGCAAAGCTGCCAGTAACAGTAATGC
1 AGCAAAGCTACCAGTAACAGTAATGC
* * * *
19130581 AGTAAAGCTACTAGTAATAGTATATGT
1 AGCAAAGCTACCAGTAACAGTA-ATGC
* *
19130608 GGCAAAGCCACCAG
1 AGCAAAGCTACCAG
19130622 AATAGTATAA
Statistics
Matches: 53, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
26 40 0.75
27 13 0.25
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (26 bp):
AGCAAAGCTACCAGTAACAGTAATGC
Found at i:19130778 original size:27 final size:26
Alignment explanation
Indices: 19130745--19130939 Score: 158
Period size: 27 Copynumber: 7.3 Consensus size: 26
19130735 GAGTATAACA
* *
19130745 GTCATTTTACCATATGGGGGTATTTTG
1 GTCATTTTACC-TTTAGGGGTATTTTG
* *
19130772 GTAATTTTATCCTTTAGGGGTATTTCG
1 GTCATTTTA-CCTTTAGGGGTATTTTG
19130799 GTCATTTTACCTTT-GAGGGTATTTTG
1 GTCATTTTACCTTTAG-GGGTATTTTG
* *
19130825 ATCATATTACCCTTTAGGGGTATTTTG
1 GTCATTTTA-CCTTTAGGGGTATTTTG
* **
19130852 GTCATTTTACCTTTCAAGGGTATTCCG
1 GTCATTTTACCTTT-AGGGGTATTTTG
* * * *
19130879 ATCATTTTACCCTTCGGGCGTATTTCG
1 GTCATTTTACCTTTAGGG-GTATTTTG
* * * * *
19130906 ATTATTTTACCCTTTAAGGATATTTCG
1 GTCATTTTA-CCTTTAGGGGTATTTTG
19130933 GTCATTT
1 GTCATTT
19130940 GCCCATGAAT
Statistics
Matches: 136, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.01
26 28 0.21
27 98 0.72
28 9 0.07
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.46
Consensus pattern (26 bp):
GTCATTTTACCTTTAGGGGTATTTTG
Found at i:19130839 original size:53 final size:53
Alignment explanation
Indices: 19130762--19130939 Score: 196
Period size: 53 Copynumber: 3.3 Consensus size: 53
19130752 TACCATATGG
* * * *
19130762 GGGTATTTTGGTAATTTTATCCTTTAGGGGTATTTCGGTCATTTTACCTTTGA
1 GGGTATTTTGATCATTTTACCCTTTAGGGGTATTTCGGTCATTTTACCTTTAA
* *
19130815 GGGTATTTTGATCATATTACCCTTTAGGGGTATTTTGGTCATTTTACCTTTCAA
1 GGGTATTTTGATCATTTTACCCTTTAGGGGTATTTCGGTCATTTTACCTTT-AA
** * * *
19130869 GGGTATTCCGATCATTTTACCC-TTCGGGCGTATTTCGATTATTTTACCCTTTAA
1 GGGTATTTTGATCATTTTACCCTTTAGGG-GTATTTCGGTCATTTTA-CCTTTAA
* * *
19130923 GGATATTTCGGTCATTT
1 GGGTATTTTGATCATTT
19130940 GCCCATGAAT
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
53 51 0.48
54 50 0.47
55 5 0.05
ACGTcount: A:0.19, C:0.16, G:0.20, T:0.46
Consensus pattern (53 bp):
GGGTATTTTGATCATTTTACCCTTTAGGGGTATTTCGGTCATTTTACCTTTAA
Found at i:19130902 original size:54 final size:53
Alignment explanation
Indices: 19130775--19130939 Score: 197
Period size: 54 Copynumber: 3.1 Consensus size: 53
19130765 TATTTTGGTA
* * *
19130775 ATTTTATCCTTTAGGGGTATTTCGGTCATTTTACCTTTGAGGGTATTTTGATC
1 ATTTTACCCTTTAGGGGTATTTCGGTCATTTTACCTTTAAGGGTATTTCGATC
* * *
19130828 ATATTACCCTTTAGGGGTATTTTGGTCATTTTACCTTTCAAGGGTATTCCGATC
1 ATTTTACCCTTTAGGGGTATTTCGGTCATTTTACCTTT-AAGGGTATTTCGATC
* * * * *
19130882 ATTTTACCC-TTCGGGCGTATTTCGATTATTTTACCCTTTAAGGATATTTCGGTC
1 ATTTTACCCTTTAGGG-GTATTTCGGTCATTTTA-CCTTTAAGGGTATTTCGATC
19130936 ATTT
1 ATTT
19130940 GCCCATGAAT
Statistics
Matches: 95, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
53 40 0.42
54 50 0.53
55 5 0.05
ACGTcount: A:0.19, C:0.17, G:0.18, T:0.46
Consensus pattern (53 bp):
ATTTTACCCTTTAGGGGTATTTCGGTCATTTTACCTTTAAGGGTATTTCGATC
Found at i:19133648 original size:136 final size:136
Alignment explanation
Indices: 19133404--19133676 Score: 345
Period size: 136 Copynumber: 2.0 Consensus size: 136
19133394 ACACGTGACA
* * * * *
19133404 TTTATCTCTACTAATATTAAGTTGTTTACTGATTTCAGTGTCATAAGTTCAGTGACAACAACTAA
1 TTTATCTCTACTAATATTAAGTCGTTTACTAATTTCAGTGACACAAGTTAAGTGACAACAACTAA
* * *
19133469 GTTGGTTAAATTACCAATTAAACCTTTCATATTTAAAATAAGTTATCTTATTACGATGATATTTT
66 GTTGGTTAAATTACCAATTAAACCTTTCATATTAAAAATAAGTTATATTATTACGATGATATTTC
19133534 TATCTT
131 TATCTT
** *
19133540 TTTATCTCTACTAATATTAAGTCGTTTACTAATTTTGGTGACACGAGTTAAGTGAC-ACTAACTC
1 TTTATCTCTACTAATATTAAGTCGTTTACTAATTTCAGTGACACAAGTTAAGTGACAAC-AACT-
* * * * * *
19133604 AA-TTGGTTAAATTACTAATT-AGCCTCTTCTTATTAAAAATAAGTTATATTGTTATGGTGATAT
64 AAGTTGGTTAAATTACCAATTAAACCT-TTCATATTAAAAATAAGTTATATTATTACGATGATAT
19133667 TTCTATCTT
128 TTCTATCTT
19133676 T
1 T
19133677 GCCTATTTTT
Statistics
Matches: 117, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
135 6 0.05
136 109 0.93
137 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (136 bp):
TTTATCTCTACTAATATTAAGTCGTTTACTAATTTCAGTGACACAAGTTAAGTGACAACAACTAA
GTTGGTTAAATTACCAATTAAACCTTTCATATTAAAAATAAGTTATATTATTACGATGATATTTC
TATCTT
Found at i:19133850 original size:164 final size:165
Alignment explanation
Indices: 19133545--19133858 Score: 393
Period size: 164 Copynumber: 1.9 Consensus size: 165
19133535 ATCTTTTTAT
* * *
19133545 CTCTACTAATATTAAGTCGTTTACTAATTTTGGTGACACGAGTTAAGTGACACTAACTCAATTGG
1 CTCTACTAATATTAAGTCGTTTAATAAGTTTGGTGACACGAGTTAAGTGACACCAACTCAATTGG
* * * * *
19133610 TTAAATTACTAATTAGCCTCTTCTTATTAAAAATAAGTTATATTGTTATGGTGATATTTCTATCT
66 TTAAATTACTAATTAACCTCTTCATATTAAAAATAAGTTATACTATTATGATGATATTTCTATCT
* *
19133675 TTGCCTATTTTTTAGGAAAACAAAAAAAAATACAA
131 TTGCATATTTTTTAAGAAAACAAAAAAAAATACAA
* *
19133710 CTCTACTAATA-TAAGTCGTTTAATGAGTTTGGTGACACGAGTTAAGTGACACCAA-TACAGTTG
1 CTCTACTAATATTAAGTCGTTTAATAAGTTTGGTGACACGAGTTAAGTGACACCAACT-CAATTG
* * * * * * *
19133773 GTTAATTTACTAATTAA-CTCTTTCATATTTAAATTATGTTTTACTATTGTGATGATATTTTTAT
65 GTTAAATTACTAATTAACCTC-TTCATATTAAAAATAAGTTATACTATTATGATGATATTTCTAT
*
19133837 CATTT-TATATTTTTTAAGAAAA
129 C-TTTGCATATTTTTTAAGAAAA
19133859 TTAATAAAAA
Statistics
Matches: 126, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
163 4 0.03
164 108 0.86
165 14 0.11
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (165 bp):
CTCTACTAATATTAAGTCGTTTAATAAGTTTGGTGACACGAGTTAAGTGACACCAACTCAATTGG
TTAAATTACTAATTAACCTCTTCATATTAAAAATAAGTTATACTATTATGATGATATTTCTATCT
TTGCATATTTTTTAAGAAAACAAAAAAAAATACAA
Found at i:19140942 original size:42 final size:43
Alignment explanation
Indices: 19140834--19141010 Score: 198
Period size: 42 Copynumber: 4.2 Consensus size: 43
19140824 TTTTAGAAAT
* *
19140834 AAACGCCGCTATAGATCATGGCCTTTAACGACGCTTTTCCCAC
1 AAACGCCGCTATAGATCATGACCTTTAGCGACGCTTTTCCCAC
* * *
19140877 AAACACCGCTATAGATCATGACCTTTAGCGGCGCTTTT-GCAC
1 AAACGCCGCTATAGATCATGACCTTTAGCGACGCTTTTCCCAC
** *
19140919 AGGCGCCGCTATAGGTCGA-GACCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTATAGATC-ATGACCTTTAGCGACGCTTTTCCCAC
* * * * * *
19140962 AAACGCCGCTATAAAACA-AACCTTTAGCGACGCTTCTCACAA
1 AAACGCCGCTATAGATCATGACCTTTAGCGACGCTTTTCCCAC
19141004 AAACGCC
1 AAACGCC
19141011 ACTAAAAACA
Statistics
Matches: 112, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
42 62 0.55
43 50 0.45
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTATAGATCATGACCTTTAGCGACGCTTTTCCCAC
Found at i:19141056 original size:16 final size:14
Alignment explanation
Indices: 19141015--19141057 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 14
19141005 AACGCCACTA
19141015 AAAACATAATATTTT
1 AAAA-ATAATATTTT
19141030 AAAAA-AATATTTT
1 AAAAATAATATTTT
19141043 AATCAAATAATATTT
1 AA--AAATAATATTT
19141058 ATTTTTATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 10 0.40
14 1 0.04
15 7 0.28
16 7 0.28
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (14 bp):
AAAAATAATATTTT
Found at i:19145077 original size:297 final size:297
Alignment explanation
Indices: 19144541--19145485 Score: 1567
Period size: 297 Copynumber: 3.2 Consensus size: 297
19144531 TTTTTGCGGC
*
19144541 CATAAAAGCGCCGCAAAAAAATTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAA
1 CATAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAA
* * *
19144606 AGGAGGCTA-TTTTTTAAAAGTAAAATTATTTTGTAGCGTTTTTTATATAAACGCCGCTATTGCT
66 AGGGGGCTATTTTTTTAAAA-TAAAATTATTTTGTGGCGTTTTTTATATAAACGCTGCTATTGCT
*
19144670 TACCTTTAGCGGCGTTTTTCGTAAAAGCGCCGTAAAAAAAATTCATTTTGAACAAAACTACGCCG
130 TACCTTTAGCGGCGTTTTTCGTAAAAGCGCCG-CAAAAAAATTCATTTTGAACAAAACTACGCCG
*
19144735 TTTTGCTATGTTATGCTAAAAGGGGGCTA-TTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTT
194 TTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTT
19144799 ATATAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTT
259 ATATAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTT
* *
19144838 CGTAAAAGCGCCACAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAA
1 CATAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAA
*
19144903 AGGGGGCTATTTTTTTAAAATAAAATTATTTTGTGGCGTTTTTTATAAAAACGCTGCTATTGCTT
66 AGGGGGCTATTTTTTTAAAATAAAATTATTTTGTGGCGTTTTTTATATAAACGCTGCTATTGCTT
*
19144968 ACCTTTAGCGGCGTTTTTCATAAAAGC-CCAGCAAAAAAATTCATTTTGAACAAAACTACGCCGT
131 ACCTTTAGCGGCGTTTTTCGTAAAAGCGCC-GCAAAAAAATTCATTTTGAACAAAACTACGCCGT
*
19145032 TTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTTAAAAGTAAAATTATTTTATGGCGTTTTTTA
195 TTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTA
*
19145097 TATAAACGCCACTATTGCTTACCTTTAGCGGCGTTTTT
260 TATAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTT
* * * *
19145135 CATAAAAGCGTCGCAAAAAAAATCGTTTTAAACAAAACTACGCCGTTTTGCTATGCTATGCTAAA
1 CATAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAA
** *
19145200 AGGGGGCTATTTTTCAAAAATAAAATTATTTTGTGGCGTTTTTTATTTAAACG-TCGCTATTGCT
66 AGGGGGCTATTTTTTTAAAATAAAATTATTTTGTGGCGTTTTTTATATAAACGCT-GCTATTGCT
* **
19145264 TACATTTAGCGGCGTTTTTCGTAAAAGCGCCGCAAAAAAAATTTGTTTTGAACAAAACTACGCCG
130 TACCTTTAGCGGCGTTTTTCGTAAAAGCGCCGC-AAAAAAATTCATTTTGAACAAAACTACGCCG
*
19145329 TTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTT-AAAGTAAAATTATTTTGTGGCATTTTTT
194 TTTTGCTATGCTATGCTAAAAGGGGGCTATTTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTT
* * *
19145393 ATAAAAACGCCGCTATTGCCTACCTTTAGCTGCGTTTTT
259 ATATAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTT
*
19145432 CATAAAAGCGCTGCAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTAT
1 CATAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTAT
19145486 TCTAAAAAAA
Statistics
Matches: 605, Mismatches: 37, Indels: 12
0.93 0.06 0.02
Matches are distributed among these distances:
296 62 0.10
297 466 0.77
298 77 0.13
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (297 bp):
CATAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAA
AGGGGGCTATTTTTTTAAAATAAAATTATTTTGTGGCGTTTTTTATATAAACGCTGCTATTGCTT
ACCTTTAGCGGCGTTTTTCGTAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAACTACGCCGTT
TTGCTATGCTATGCTAAAAGGGGGCTATTTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTAT
ATAAACGCCGCTATTGCTTACCTTTAGCGGCGTTTTT
Found at i:19145511 original size:149 final size:148
Alignment explanation
Indices: 19144541--19145485 Score: 1561
Period size: 149 Copynumber: 6.4 Consensus size: 148
19144531 TTTTTGCGGC
*
19144541 CATAAAAGCGCCGCAAAAAAATTCATTTTGAATAAAACTACGCCGTTTTGCTATGCTATGCTAAA
1 CATAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAA
* *
19144606 AGGAGGCTATTTTTTAAAAGTAAAATTATTTTGTAGCGTTTTTTATATAAACGCCGCTATTGCTT
66 AGGGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATATAAACGCCGCTATTGCTT
19144671 ACCTTTAGCGGCGTTTTT
131 ACCTTTAGCGGCGTTTTT
* * *
19144689 CGTAAAAGCGCCGTAAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGTTATGCTAA
1 CATAAAAGCGCCG-CAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAA
19144754 AAGGGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATATAAACGCCGCTATTGCT
65 AAGGGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATATAAACGCCGCTATTGCT
19144819 TACCTTTAGCGGCGTTTTT
130 TACCTTTAGCGGCGTTTTT
* *
19144838 CGTAAAAGCGCCACAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAA
1 CATAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAA
* *
19144903 AGGGGGCTATTTTTTTAAAA-TAAAATTATTTTGTGGCGTTTTTTATAAAAACGCTGCTATTGCT
66 AGGGGGCTA-TTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATATAAACGCCGCTATTGCT
19144967 TACCTTTAGCGGCGTTTTT
130 TACCTTTAGCGGCGTTTTT
19144986 CATAAAAGC-CCAGCAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAA
1 CATAAAAGCGCC-GCAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAA
* *
19145050 AAGGGGGCTATTTTTTTAAAAGTAAAATTATTTTATGGCGTTTTTTATATAAACGCCACTATTGC
65 AAGGGGGCTA-TTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATATAAACGCCGCTATTGC
19145115 TTACCTTTAGCGGCGTTTTT
129 TTACCTTTAGCGGCGTTTTT
* * * *
19145135 CATAAAAGCGTCGCAAAAAAAATCGTTTTAAACAAAACTACGCCGTTTTGCTATGCTATGCTAAA
1 CATAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAA
* * * *
19145200 AGGGGGCTATTTTTCAAAAATAAAATTATTTTGTGGCGTTTTTTATTTAAACGTCGCTATTGCTT
66 AGGGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATATAAACGCCGCTATTGCTT
*
19145265 ACATTTAGCGGCGTTTTT
131 ACCTTTAGCGGCGTTTTT
* **
19145283 CGTAAAAGCGCCGCAAAAAAAATTTGTTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAA
1 CATAAAAGCGCCGC-AAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAA
* * * *
19145348 AAGGGGGCTATTTTTTTAAAGTAAAATTATTTTGTGGCATTTTTTATAAAAACGCCGCTATTGCC
65 AAGGGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATATAAACGCCGCTATTGCT
*
19145413 TACCTTTAGCTGCGTTTTT
130 TACCTTTAGCGGCGTTTTT
*
19145432 CATAAAAGCGCTGCAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTAT
1 CATAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTAT
19145486 TCTAAAAAAA
Statistics
Matches: 744, Mismatches: 47, Indels: 12
0.93 0.06 0.01
Matches are distributed among these distances:
147 2 0.00
148 329 0.44
149 412 0.55
150 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (148 bp):
CATAAAAGCGCCGCAAAAAAATTCATTTTGAACAAAACTACGCCGTTTTGCTATGCTATGCTAAA
AGGGGGCTATTTTTTAAAAGTAAAATTATTTTGTGGCGTTTTTTATATAAACGCCGCTATTGCTT
ACCTTTAGCGGCGTTTTT
Found at i:19145819 original size:17 final size:18
Alignment explanation
Indices: 19145786--19145819 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19145776 TATCTCTTAA
19145786 ATAATTTAAACTATATTC
1 ATAATTTAAACTATATTC
*
19145804 ATAATTTCAA-TATATT
1 ATAATTTAAACTATATT
19145820 TGATTTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (18 bp):
ATAATTTAAACTATATTC
Found at i:19145936 original size:15 final size:14
Alignment explanation
Indices: 19145921--19145991 Score: 65
Period size: 14 Copynumber: 4.9 Consensus size: 14
19145911 ACCCCTAAAT
*
19145921 CCCTAAACCTTAAAT
1 CCCTAAACCTT-AAC
19145936 CCCT-AACTCTTAAC
1 CCCTAAAC-CTTAAC
*
19145950 CCCT-AACATCTAAC
1 CCCTAAACCT-TAAC
*
19145964 CCCTAAACCCCTAAC
1 CCCTAAA-CCTTAAC
19145979 CCCTAAACCTTAA
1 CCCTAAACCTTAA
19145992 ATCCCAACAC
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
13 1 0.02
14 25 0.53
15 20 0.43
16 1 0.02
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (14 bp):
CCCTAAACCTTAAC
Found at i:19145956 original size:7 final size:7
Alignment explanation
Indices: 19145936--19145984 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
19145926 AACCTTAAAT
19145936 CCCTAAC
1 CCCTAAC
* *
19145943 TCTTAAC
1 CCCTAAC
19145950 CCCTAAC
1 CCCTAAC
**
19145957 ATCTAAC
1 CCCTAAC
19145964 CCCTAAAC
1 CCCT-AAC
19145972 CCCTAAC
1 CCCTAAC
19145979 CCCTAA
1 CCCTAA
19145985 ACCTTAAATC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:19145992 original size:22 final size:22
Alignment explanation
Indices: 19145947--19146008 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 22
19145937 CCTAACTCTT
* *
19145947 AACCCCTAACATCTAACCCCTA
1 AACCCCTAACACCTAAACCCTA
* *
19145969 AACCCCTAACCCCTAAACCTTA
1 AACCCCTAACACCTAAACCCTA
* *
19145991 AATCCC-AACACTTAAACC
1 AACCCCTAACACCTAAACC
19146009 ATAATCCGTA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
21 10 0.30
22 23 0.70
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.18
Consensus pattern (22 bp):
AACCCCTAACACCTAAACCCTA
Found at i:19146045 original size:15 final size:15
Alignment explanation
Indices: 19146022--19146051 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19146012 ATCCGTATTT
19146022 CATAATCCCTAAACC
1 CATAATCCCTAAACC
*
19146037 CATACTCCCTAAACC
1 CATAATCCCTAAACC
19146052 TTAAAATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.20
Consensus pattern (15 bp):
CATAATCCCTAAACC
Found at i:19146270 original size:15 final size:15
Alignment explanation
Indices: 19146250--19146304 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
19146240 CCTAGCACGT
19146250 CTAACCCCTAAACCC
1 CTAACCCCTAAACCC
19146265 CTAACCCTCT-AACCC
1 CTAACCC-CTAAACCC
* * *
19146280 CTAAACCTTAAATCC
1 CTAACCCCTAAACCC
19146295 C-AACCCCTAA
1 CTAACCCCTAA
19146305 TCCATAATCC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
14 8 0.24
15 23 0.70
16 2 0.06
ACGTcount: A:0.35, C:0.47, G:0.00, T:0.18
Consensus pattern (15 bp):
CTAACCCCTAAACCC
Found at i:19146286 original size:8 final size:7
Alignment explanation
Indices: 19146250--19146283 Score: 50
Period size: 8 Copynumber: 4.6 Consensus size: 7
19146240 CCTAGCACGT
19146250 CTAACCC
1 CTAACCC
19146257 CTAAACCC
1 CT-AACCC
19146265 CTAACCC
1 CTAACCC
19146272 TCTAACCC
1 -CTAACCC
19146280 CTAA
1 CTAA
19146284 ACCTTAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 11 0.44
8 14 0.56
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (7 bp):
CTAACCC
Found at i:19146318 original size:14 final size:14
Alignment explanation
Indices: 19146299--19146347 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
19146289 AAATCCCAAC
19146299 CCCTAATCCATAAT
1 CCCTAATCCATAAT
19146313 CCCTAATCCATAAT
1 CCCTAATCCATAAT
* * *
19146327 CTCTAAACCCATACT
1 CCCT-AATCCATAAT
19146342 CCCTAA
1 CCCTAA
19146348 ACCGACCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 19 0.63
15 11 0.37
ACGTcount: A:0.35, C:0.39, G:0.00, T:0.27
Consensus pattern (14 bp):
CCCTAATCCATAAT
Found at i:19146578 original size:73 final size:73
Alignment explanation
Indices: 19146501--19146653 Score: 216
Period size: 73 Copynumber: 2.1 Consensus size: 73
19146491 TTTTTTTGGT
* * * * * * * *
19146501 CGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTTGGCTTATGTTTTTTTGCGGCGCTTTCTT
1 CGCTAAATCCCCGAAAGCTCACAAAACGGCATCGTTGGGCTTAGGTTATTTTGAGGCACTTACTC
*
19146566 TAAAACGC
66 AAAAACGC
19146574 CGCTAAATCCCCGAAAGCTCACAAAACGGCATCGTTGGGCTTAGGTTATTTTGAGGCACTTACTC
1 CGCTAAATCCCCGAAAGCTCACAAAACGGCATCGTTGGGCTTAGGTTATTTTGAGGCACTTACTC
19146639 AAAAACGC
66 AAAAACGC
*
19146647 TGCTAAA
1 CGCTAAA
19146654 GCCGTATGCA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (73 bp):
CGCTAAATCCCCGAAAGCTCACAAAACGGCATCGTTGGGCTTAGGTTATTTTGAGGCACTTACTC
AAAAACGC
Found at i:19146953 original size:113 final size:114
Alignment explanation
Indices: 19146553--19146993 Score: 593
Period size: 114 Copynumber: 3.9 Consensus size: 114
19146543 ATGTTTTTTT
* * *
19146553 GCGGCGCTTTCTTTAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCATCGTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACATCGTTGGGCTTAG
* * * *
19146618 GTTATTTTGAGGCACTTACTCAAAAACGCTGCTAAAG-CCGTATGCATTA
66 GTTATTTTGCGGCGCTTACTCAAAAACGCCGCTAAAGACC-TAAGCATTA
* * * * * *
19146667 GCGGCGCCTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTTGTTTGGCTTAT
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACATCGTTGGGCTTAG
* * * *
19146732 GTTTTTTTGCGGCGCTTTC-CTAAAAACGCCGCTAAAAACTTAAGCATTA
66 GTTATTTTGCGGCGCTTACTC-AAAAACGCCGCTAAAGACCTAAGCATTA
* * *
19146781 GCGGCGCTTCCTTAAAAACGCCGCTAAATCCTCAAAAGCTCACAAAACGACGTCGTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACATCGTTGGGCTTAG
19146846 GTTATTTTGCGGCGCTTACTCAAAAACGCCGCTAAAGACCTAAGCATTA
66 GTTATTTTGCGGCGCTTACTCAAAAACGCCGCTAAAGACCTAAGCATTA
* ** **
19146895 GC-GCGCTTTCTTAAAAACGTCGCTAAATCCCTGAAAGCTCACAAAACGACATTATTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACATCGTTGGGCTTAG
**
19146959 GTT-TTTTGCGGCGCTTTTTCAAAAACGCCGCTAAA
66 GTTATTTTGCGGCGCTTACTCAAAAACGCCGCTAAA
19146994 TCCCCAAAAG
Statistics
Matches: 288, Mismatches: 36, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
112 30 0.10
113 58 0.20
114 198 0.69
115 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (114 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACATCGTTGGGCTTAG
GTTATTTTGCGGCGCTTACTCAAAAACGCCGCTAAAGACCTAAGCATTA
Found at i:19146985 original size:72 final size:71
Alignment explanation
Indices: 19146897--19147064 Score: 228
Period size: 72 Copynumber: 2.3 Consensus size: 71
19146887 AAGCATTAGC
* ** *
19146897 GCGCTTTCTTAAAAACGTCGCTAAATCCCTGAAAGCTCACAAAACGACATTATTGGGCTTAGGTT
1 GCGCTTT-TTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACATCATTGGGCTTAGGTT
19146962 TTTTGCG
65 TTTTGCG
* * * *
19146969 GCGCTTTTTCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTT
1 GCGCTTTTT-AAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACATCATTGGGCTTAGGTT
19147034 TTTTGCG
65 TTTTGCG
*
19147041 GCGCTTTTTGGAAAACGCCGCTAA
1 GCGCTTTTT-AAAAACGCCGCTAA
19147065 TGCTTATTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
71 2 0.02
72 83 0.98
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (71 bp):
GCGCTTTTTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACATCATTGGGCTTAGGTTT
TTTGCG
Found at i:19149174 original size:20 final size:20
Alignment explanation
Indices: 19149114--19149183 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
19149104 TACGGGATTA
*
19149114 CACTTTGGTGCCTCTACTTG
1 CACTTTGGTGCCTCTGCTTG
* * * *
19149134 TACTTCGGTGCCGCTGTTTG
1 CACTTTGGTGCCTCTGCTTG
*
19149154 CACTTTGGTGCCTTTGCTTG
1 CACTTTGGTGCCTCTGCTTG
19149174 CACTTTGGTG
1 CACTTTGGTG
19149184 TGTTTGGGAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.07, C:0.26, G:0.26, T:0.41
Consensus pattern (20 bp):
CACTTTGGTGCCTCTGCTTG
Found at i:19149980 original size:30 final size:30
Alignment explanation
Indices: 19149946--19150009 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
19149936 CACGGGCTGT
* * *
19149946 CACACGATTGTGTGCAACACATGGTCACAC
1 CACACGACTGTGTCCAACACACGGTCACAC
*
19149976 CACACGGCTGTGTCCAACACACGGTCACAC
1 CACACGACTGTGTCCAACACACGGTCACAC
19150006 CACA
1 CACA
19150010 TGGCCATGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.36, G:0.19, T:0.16
Consensus pattern (30 bp):
CACACGACTGTGTCCAACACACGGTCACAC
Found at i:19151131 original size:27 final size:27
Alignment explanation
Indices: 19151094--19151220 Score: 179
Period size: 27 Copynumber: 4.7 Consensus size: 27
19151084 ATAACATTAA
19151094 GCAT-ATAGTCATTTTATAACATAGGG
1 GCATAATAGTCATTTTATAACATAGGG
* *
19151120 GCATAATAGTCATTTTACAATATAGGG
1 GCATAATAGTCATTTTATAACATAGGG
19151147 GCATAACT-GTCATTTTATAACATAGGG
1 GCATAA-TAGTCATTTTATAACATAGGG
**
19151174 GCATAATAGTCATTTTACCACAT-GAGG
1 GCATAATAGTCATTTTATAACATAG-GG
19151201 GCATAATAGTCATTTTATAA
1 GCATAATAGTCATTTTATAA
19151221 TAGTTTGGGG
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
26 6 0.07
27 82 0.92
28 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.34
Consensus pattern (27 bp):
GCATAATAGTCATTTTATAACATAGGG
Found at i:19151160 original size:54 final size:54
Alignment explanation
Indices: 19151094--19151220 Score: 197
Period size: 54 Copynumber: 2.4 Consensus size: 54
19151084 ATAACATTAA
*
19151094 GCAT-ATAGTCATTTTATAACATAGGGGCATAATAGTCATTTTACAATAT-AGGG
1 GCATAATAGTCATTTTATAACATAGGGGCATAATAGTCATTTTACAACATGA-GG
*
19151147 GCATAACT-GTCATTTTATAACATAGGGGCATAATAGTCATTTTACCACATGAGG
1 GCATAA-TAGTCATTTTATAACATAGGGGCATAATAGTCATTTTACAACATGAGG
19151201 GCATAATAGTCATTTTATAA
1 GCATAATAGTCATTTTATAA
19151221 TAGTTTGGGG
Statistics
Matches: 68, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
53 5 0.07
54 61 0.90
55 2 0.03
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.34
Consensus pattern (54 bp):
GCATAATAGTCATTTTATAACATAGGGGCATAATAGTCATTTTACAACATGAGG
Found at i:19160387 original size:50 final size:50
Alignment explanation
Indices: 19160322--19160607 Score: 223
Period size: 50 Copynumber: 5.6 Consensus size: 50
19160312 TCTTGTACTA
* **
19160322 CCAATGCCATATCCCAGATATGGTCTTACAAGAGAGTTCTCATATAGGTG
1 CCAATGCCATATCCCAGACATGGTCTTACAAGAGACCTCTCATATAGGTG
* ** * * *
19160372 TCC-ATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTG
1 -CCAATGCCATATCCCAGACATGGTCTTACAAGAGACCTCTCATATAGGTG
* * * * *
19160422 CCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATG
1 CCAATGCCATATCCCAGACATGGTCTTACAAGAGACCTCTCATATAGGTG
*** * * * * * * *
19160472 CCAACAACATGTCCGAGACATGGTCTTACATGGGACCTCTCATCTCGCTG
1 CCAATGCCATATCCCAGACATGGTCTTACAAGAGACCTCTCATATAGGTG
* * * * * *
19160522 CCAACGCCATGTCCCAAACATGGTCTTACATGAGACCTCTCCTAATCTCAATGATG
1 CCAATGCCATATCCCAGACATGGTCTTACAAGAGACCTCT-C--ATAT--A-GGTG
*
19160578 CCAATGCCATGTCCCAGACATGGTCTTACA
1 CCAATGCCATATCCCAGACATGGTCTTACA
19160608 TGGGATCTCT
Statistics
Matches: 199, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
49 2 0.01
50 159 0.80
51 3 0.02
53 4 0.02
56 31 0.16
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (50 bp):
CCAATGCCATATCCCAGACATGGTCTTACAAGAGACCTCTCATATAGGTG
Found at i:19160432 original size:100 final size:99
Alignment explanation
Indices: 19160322--19160617 Score: 299
Period size: 100 Copynumber: 2.9 Consensus size: 99
19160312 TCTTGTACTA
* * ** * *
19160322 CCAATGCCATATCCCAGATATGGTCTTACAAGAGAGTTCTCATATAGGTGTCCATGC-CATGTCC
1 CCAATGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATATAGATG-CCA-ACACATGTCC
* * *
19160386 CAGACATGGTCTTACGGGGGACCTCTCATCTTGGTG
64 CAGACATGGTCTTACAGGGGACCTCTCATCTCGCTG
* * * *
19160422 CCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACAACATGTCCG
1 CCAATGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATATAGATGCCAAC-ACATGTCCC
*
19160487 AGACATGGTCTTACATGGGACCTCTCATCTCGCTG
65 AGACATGGTCTTACAGGGGACCTCTCATCTCGCTG
* * * *
19160522 CCAACGCCATGTCCCAAACATGGTCTTACATGAGACCTCTCCTAATCTCAATGATGCCAATGC-C
1 CCAATGCCATATCCCAGACATGGTCTTACATGAGACCTCT-C--ATAT--A-GATGCCAA--CAC
* *
19160586 ATGTCCCAGACATGGTCTTACATGGGATCTCT
58 ATGTCCCAGACATGGTCTTACAGGGGACCTCT
19160618 TTACCCAAAT
Statistics
Matches: 165, Mismatches: 21, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
98 1 0.01
99 3 0.02
100 116 0.70
101 1 0.01
103 4 0.02
106 39 0.24
108 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (99 bp):
CCAATGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATATAGATGCCAACACATGTCCCA
GACATGGTCTTACAGGGGACCTCTCATCTCGCTG
Found at i:19173303 original size:43 final size:44
Alignment explanation
Indices: 19173216--19173312 Score: 178
Period size: 43 Copynumber: 2.2 Consensus size: 44
19173206 TCAATAATTG
19173216 TATATACCACAAGTTCAACGAGAGTAAGGTTCTATATTTGGTTT
1 TATATACCACAAGTTCAACGAGAGTAAGGTTCTATATTTGGTTT
*
19173260 TATATACCACAAGTTCAATGAGAGT-AGGTTCTATATTTGGTTT
1 TATATACCACAAGTTCAACGAGAGTAAGGTTCTATATTTGGTTT
19173303 TATATACCAC
1 TATATACCAC
19173313 TACTTATCAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 28 0.54
44 24 0.46
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.37
Consensus pattern (44 bp):
TATATACCACAAGTTCAACGAGAGTAAGGTTCTATATTTGGTTT
Found at i:19179156 original size:25 final size:25
Alignment explanation
Indices: 19179122--19179191 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
19179112 TATATTCCAT
19179122 AGCTCGTGAGAGCATACCGATTTAC
1 AGCTCGTGAGAGCATACCGATTTAC
* *
19179147 AGCTCATGAGAGCATATCGATTTAC
1 AGCTCGTGAGAGCATACCGATTTAC
*
19179172 AGCTCGTGAGAGTATACCGA
1 AGCTCGTGAGAGCATACCGA
19179192 ATTATAACTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (25 bp):
AGCTCGTGAGAGCATACCGATTTAC
Found at i:19190340 original size:25 final size:25
Alignment explanation
Indices: 19190312--19190385 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 25
19190302 ACACAAGTTG
*
19190312 TAAATCGATATGTTCTCACGAGCTA
1 TAAATCGGTATGTTCTCACGAGCTA
* * *
19190337 TAAATTGGTATGCTT-TCACGAGTTG
1 TAAATCGGTATG-TTCTCACGAGCTA
* * *
19190362 TATATCGGTATGCTCTCATGAGCT
1 TAAATCGGTATGTTCTCACGAGCT
19190386 GTGGTTCAGA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
24 1 0.03
25 35 0.92
26 2 0.05
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (25 bp):
TAAATCGGTATGTTCTCACGAGCTA
Found at i:19195998 original size:21 final size:21
Alignment explanation
Indices: 19195959--19196044 Score: 86
Period size: 21 Copynumber: 4.0 Consensus size: 21
19195949 CCTGATCAGT
19195959 ATACGACACATAAGTGCCTGA
1 ATACGACACATAAGTGCCTGA
*
19195980 A-ACGACACATGAGGTGCCT-A
1 ATACGACACAT-AAGTGCCTGA
*
19196000 ATAGGACACATAAAGTGCCTGA
1 ATACGACACAT-AAGTGCCTGA
* *
19196022 TGTACGAAACATAAAGTGCCTGA
1 -ATACGACACAT-AAGTGCCTGA
19196045 TCGGCAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
20 11 0.20
21 23 0.43
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (21 bp):
ATACGACACATAAGTGCCTGA
Found at i:19196286 original size:36 final size:37
Alignment explanation
Indices: 19196246--19196334 Score: 101
Period size: 36 Copynumber: 2.4 Consensus size: 37
19196236 CTCTTCAAAT
* *
19196246 TCACATTTCAATTCAACTTCACTTTTTCACTTTCAA-
1 TCACATTTCAATTCAAATTCACTTTTCCACTTTCAAG
* * *
19196282 TCACAATTCAATTCAAATTTACTTTTCCATTTTCAAG
1 TCACATTTCAATTCAAATTCACTTTTCCACTTTCAAG
*
19196319 TCA-ATATTCATTTCAA
1 TCACAT-TTCAATTCAA
19196335 TTCCACACAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
36 32 0.73
37 12 0.27
ACGTcount: A:0.31, C:0.24, G:0.01, T:0.44
Consensus pattern (37 bp):
TCACATTTCAATTCAAATTCACTTTTCCACTTTCAAG
Found at i:19197206 original size:25 final size:27
Alignment explanation
Indices: 19197169--19197228 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
19197159 ATAGTATAGT
*
19197169 TATTTTGAATTAATTTAATATAATTTATAA
1 TATTTT-AATTAA-ATAATAT-ATTTATAA
*
19197199 TATTTTAATTAAATAATATTTTTATAA
1 TATTTTAATTAAATAATATATTTATAA
19197226 TAT
1 TAT
19197229 AAATCAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 10 0.36
28 6 0.21
29 6 0.21
30 6 0.21
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
TATTTTAATTAAATAATATATTTATAA
Found at i:19197230 original size:16 final size:17
Alignment explanation
Indices: 19197194--19197230 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
19197184 TAATATAATT
19197194 TATAATATTTTAATTAA
1 TATAATATTTTAATTAA
*
19197211 -ATAATATTTTTA-TAA
1 TATAATATTTTAATTAA
19197226 TATAA
1 TATAA
19197231 ATCAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATATTTTAATTAA
Found at i:19203298 original size:23 final size:23
Alignment explanation
Indices: 19203228--19203336 Score: 147
Period size: 23 Copynumber: 5.0 Consensus size: 23
19203218 CCTGATCAGT
19203228 ATACGACACAT-AAGTGCCTGA-
1 ATACGACACATAAAGTGCCTGAG
** *
19203249 A-ACGACACACGAGGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
*
19203269 ATACGACACATAAAGTGTCTGAG
1 ATACGACACATAAAGTGCCTGAG
19203292 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCTGAG
19203315 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
19203337 TCGGCAAAGC
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
20 9 0.12
21 22 0.29
23 45 0.59
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:19203589 original size:16 final size:17
Alignment explanation
Indices: 19203553--19203589 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
19203543 TTATATAATT
19203553 TATAATATTTTAATTAA
1 TATAATATTTTAATTAA
*
19203570 -ATAATATTTTTA-TAA
1 TATAATATTTTAATTAA
19203585 TATAA
1 TATAA
19203590 ATCAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATATTTTAATTAA
Found at i:19203780 original size:16 final size:16
Alignment explanation
Indices: 19203759--19203820 Score: 80
Period size: 16 Copynumber: 4.2 Consensus size: 16
19203749 ATTTACTTAA
19203759 CTACATGTTCAATTTT
1 CTACATGTTCAATTTT
19203775 CTACATGTTCAATTTT
1 CTACATGTTCAATTTT
*
19203791 CTA-A-G---AATTAT
1 CTACATGTTCAATTTT
19203802 CTACATGTTCAATTTT
1 CTACATGTTCAATTTT
19203818 CTA
1 CTA
19203821 AGATGGAGGC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 8 0.21
12 1 0.03
13 1 0.03
14 1 0.03
15 1 0.03
16 27 0.69
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (16 bp):
CTACATGTTCAATTTT
Found at i:19203807 original size:27 final size:27
Alignment explanation
Indices: 19203769--19203823 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
19203759 CTACATGTTC
*
19203769 AATTTTCTACATGTTCAATTTTCTAAG
1 AATTATCTACATGTTCAATTTTCTAAG
19203796 AATTATCTACATGTTCAATTTTCTAAG
1 AATTATCTACATGTTCAATTTTCTAAG
19203823 A
1 A
19203824 TGGAGGCCCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.45
Consensus pattern (27 bp):
AATTATCTACATGTTCAATTTTCTAAG
Found at i:19204852 original size:18 final size:19
Alignment explanation
Indices: 19204829--19204866 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
19204819 CGTGCGTGAC
19204829 TTTCTTT-TCTTC-TTTCTT
1 TTTCTTTCT-TTCTTTTCTT
19204847 TTTCTTTCTTTCTTTTCTT
1 TTTCTTTCTTTCTTTTCTT
19204866 T
1 T
19204867 CTAATTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTCTTTCTTTCTTTTCTT
Found at i:19204863 original size:13 final size:13
Alignment explanation
Indices: 19204828--19204868 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
19204818 TCGTGCGTGA
19204828 CTTTCTTTTC-TT
1 CTTTCTTTTCTTT
19204840 CTTTCTTTTTCTTT
1 CTTTC-TTTTCTTT
19204854 CTTTCTTTTCTTT
1 CTTTCTTTTCTTT
19204867 CT
1 CT
19204869 AATTTGTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.19
13 15 0.56
14 7 0.26
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
CTTTCTTTTCTTT
Found at i:19210018 original size:83 final size:83
Alignment explanation
Indices: 19209879--19210048 Score: 290
Period size: 83 Copynumber: 2.0 Consensus size: 83
19209869 AGAAGTTTTT
*
19209879 TAAAATAGTTACGTATTTGAGTAAATTTTATTAAAACTTTTGGTTCTTTTTAAAAACTCGATTAT
1 TAAAACAGTTACGTATTTGAGTAAATTTTATTAAAACTTTTGGTTCTTTTTAAAAACTCGATTAT
*
19209944 CTCTACTACTAGTC-ATTA
66 CCCTACTACTAG-CAATTA
19209962 TAAAACAGTTACGTATTTGAGTAAATTTTATTAAAA-TGTTTGGTTCTTTTTAAAAACTCGATTA
1 TAAAACAGTTACGTATTTGAGTAAATTTTATTAAAACT-TTTGGTTCTTTTTAAAAACTCGATTA
19210026 TCCCTACTACTAGCAATTA
65 TCCCTACTACTAGCAATTA
19210045 TAAA
1 TAAA
19210049 TCAAAACAAT
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
82 2 0.02
83 81 0.98
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (83 bp):
TAAAACAGTTACGTATTTGAGTAAATTTTATTAAAACTTTTGGTTCTTTTTAAAAACTCGATTAT
CCCTACTACTAGCAATTA
Found at i:19212742 original size:100 final size:100
Alignment explanation
Indices: 19212569--19212839 Score: 411
Period size: 100 Copynumber: 2.7 Consensus size: 100
19212559 AACTTTTGGA
** * * *
19212569 AAGTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCTG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTG
*
19212634 TTGTGGCTTTAATCTGTTCCACTACA-TCGCCTAG-G
66 ATGTGGCTTTAATCTGTTCCACTACACT-GCC-AGAG
*
19212669 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTG
*
19212734 ATGTGGCTTTAATCTGTTCCACTGCACTGCCAGAG
66 ATGTGGCTTTAATCTGTTCCACTACACTGCCAGAG
* **
19212769 AAATAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTAAGGGAAGCAAGATTCACTG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTG
19212834 ATGTGG
66 ATGTGG
19212840 GTATTACACC
Statistics
Matches: 157, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
99 2 0.01
100 154 0.98
101 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (100 bp):
AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTG
ATGTGGCTTTAATCTGTTCCACTACACTGCCAGAG
Found at i:19212808 original size:50 final size:50
Alignment explanation
Indices: 19212569--19212839 Score: 249
Period size: 50 Copynumber: 5.4 Consensus size: 50
19212559 AACTTTTGGA
** * *
19212569 AAGTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGG
1 AAGTAAGATTCGCTGTTGTGGCTTTAATCTTTTTAACTGCAATGCCAGGG
* * * ** *
19212619 AAGCATGATTCGCTGTTGTGGCTTTAATCTGTTCCACTAC-ATCGCCTA-GG
1 AAGTAAGATTCGCTGTTGTGGCTTTAATCTTTTTAACTGCAAT-GCC-AGGG
* * *
19212669 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGG
1 AAGTAAGATTCGCTGTTGTGGCTTTAATCTTTTTAACTGCAATGCCAGGG
* * * * * ** * *
19212719 AAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACTGCCAGAG
1 AAGTAAGATTCGCTGTTGTGGCTTTAATCTTTTTAACTGCAATGCCAGGG
* * **
19212769 AAATAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTAAGGG
1 AAGTAAGATTCGCTGTTGTGGCTTTAATCTTTTTAACTGCAATGCCAGGG
* * *
19212819 AAGCAAGATTCACTGATGTGG
1 AAGTAAGATTCGCTGTTGTGG
19212840 GTATTACACC
Statistics
Matches: 168, Mismatches: 49, Indels: 8
0.75 0.22 0.04
Matches are distributed among these distances:
49 2 0.01
50 164 0.98
51 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (50 bp):
AAGTAAGATTCGCTGTTGTGGCTTTAATCTTTTTAACTGCAATGCCAGGG
Found at i:19217396 original size:20 final size:20
Alignment explanation
Indices: 19217371--19217413 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
19217361 ATACAATAAA
19217371 ATTTCAATTTCATATTGAAT
1 ATTTCAATTTCATATTGAAT
19217391 ATTTCAATTTCATATTGAAT
1 ATTTCAATTTCATATTGAAT
19217411 ATT
1 ATT
19217414 GAATATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (20 bp):
ATTTCAATTTCATATTGAAT
Found at i:19219404 original size:30 final size:31
Alignment explanation
Indices: 19219370--19219437 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
19219360 TTACAAAAAT
** *
19219370 GTCATTGAACTAT-TTGAAAGTTTCATTTAA
1 GTCATTGAACTATATAAAAAATTTCATTTAA
* *
19219400 GTCATTTAACTATATAAAAAATTTTATTTAA
1 GTCATTGAACTATATAAAAAATTTCATTTAA
19219431 GTCATTG
1 GTCATTG
19219438 GGTTGTTAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
30 12 0.39
31 19 0.61
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.44
Consensus pattern (31 bp):
GTCATTGAACTATATAAAAAATTTCATTTAA
Found at i:19220699 original size:17 final size:16
Alignment explanation
Indices: 19220658--19220699 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
19220648 TAATCATTTA
19220658 AAAATTA-TAAAAAAT
1 AAAATTATTAAAAAAT
*
19220673 ATAAACTATTAAAATAAT
1 A-AAATTATTAAAA-AAT
19220691 AAAATTATT
1 AAAATTATT
19220700 TTTTACTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.05
16 5 0.23
17 12 0.55
18 4 0.18
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATTATTAAAAAAT
Found at i:19221312 original size:11 final size:10
Alignment explanation
Indices: 19221270--19221330 Score: 77
Period size: 11 Copynumber: 5.6 Consensus size: 10
19221260 CAACTAAATC
19221270 ATTTCTCTCA
1 ATTTCTCTCA
19221280 ATTTCTCTCTA
1 ATTTCTCTC-A
19221291 ATATTCTCTCA
1 AT-TTCTCTCA
19221302 ATTTCCTCTCA
1 ATTT-CTCTCA
19221313 ATTTCCTCTCAA
1 ATTT-CTCTC-A
19221325 ATTTCT
1 ATTTCT
19221331 ATTTAAAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
10 11 0.23
11 24 0.51
12 12 0.26
ACGTcount: A:0.21, C:0.30, G:0.00, T:0.49
Consensus pattern (10 bp):
ATTTCTCTCA
Found at i:19226181 original size:126 final size:126
Alignment explanation
Indices: 19225956--19226246 Score: 483
Period size: 126 Copynumber: 2.3 Consensus size: 126
19225946 AGGCCAATGC
*
19225956 GCTACTGTAGCAAAAGCGCGTCCATGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAACATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAACATCCT
* *
19226021 ACTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGGA
66 ACTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTGCAGGA
* * * *
19226082 GCTACTGAAGCAAAAACGCGTCCACATGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAACATCCT
*
19226147 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTGCAGGA
66 ACTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTGCAGGA
* * *
19226208 GCTATTGTAGCAAAAGTGGGTCCACGTGGGAGCTTCTTT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
19226247 AAATCAACAA
Statistics
Matches: 151, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 151 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (126 bp):
GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAACATCCT
ACTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTGCAGGA
Found at i:19226440 original size:95 final size:95
Alignment explanation
Indices: 19226321--19226564 Score: 278
Period size: 95 Copynumber: 2.5 Consensus size: 95
19226311 TTAAAAACCT
*
19226321 AAACCCTAAACCTTAAACCCTAATCTAATTTTATAAAAATTTATAATTAATTTACTCAAGTAACC
1 AAACCCTAAACATTAAA-CCTAATCTAATTTT-TAAAAATTTATAATTAATTTACTCAAGTAACC
* * *
19226386 CTGAACCCTAATTTATTTGA-TTTTCCTT-AA
64 CTAAACCCTAATTTAATTAATTTTTCCTTAAA
* * * * *
19226416 AAACCCTTAACTTTAAACCTTAATCTGATTTTTTTAAAAAATT-TAATTAAATTACTCAAGTAAC
1 AAACCCTAAACATTAAACC-TAATCT-A-ATTTTTAAAAATTTATAATTAATTTACTCAAGTAAC
*
19226480 CCTAAACCCTAATTTAATTAATTTTTTCTTAAA
63 CCTAAACCCTAATTTAATTAATTTTTCCTTAAA
** ** * *
19226513 AAACAATAAACACGAAACCTAATCCAATTTTGAAAAATTTATAATTAATTTA
1 AAACCCTAAACATTAAACCTAATCTAATTTTTAAAAATTTATAATTAATTTA
19226565 ATTGACAAAC
Statistics
Matches: 123, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
94 13 0.11
95 70 0.57
96 21 0.17
97 19 0.15
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (95 bp):
AAACCCTAAACATTAAACCTAATCTAATTTTTAAAAATTTATAATTAATTTACTCAAGTAACCCT
AAACCCTAATTTAATTAATTTTTCCTTAAA
Found at i:19227655 original size:10 final size:9
Alignment explanation
Indices: 19227621--19227687 Score: 53
Period size: 9 Copynumber: 6.9 Consensus size: 9
19227611 ACAAGTTAAA
19227621 TATAAAAAT
1 TATAAAAAT
**
19227630 TATTAGAACTT
1 TA-TA-AAAAT
19227641 TATAAATAAT
1 TATAAA-AAT
19227651 TATAAAAAT
1 TATAAAAAT
19227660 TATAGAAAATT
1 TATA-AAAA-T
* *
19227671 TTTAAATAT
1 TATAAAAAT
19227680 TATAAAAA
1 TATAAAAA
19227688 AATTTAGAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
9 18 0.40
10 18 0.40
11 9 0.20
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (9 bp):
TATAAAAAT
Found at i:19227681 original size:29 final size:30
Alignment explanation
Indices: 19227621--19227687 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
19227611 ACAAGTTAAA
*
19227621 TATAAAAATTATTAGAACTTTATAAATAAT
1 TATAAAAATTATTAGAAATTTATAAATAAT
*
19227651 TATAAAAATTA-TAGAAAATTTTTAAAT-AT
1 TATAAAAATTATTAG-AAATTTATAAATAAT
19227680 TATAAAAA
1 TATAAAAA
19227688 AATTTAGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 13 0.38
30 21 0.62
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (30 bp):
TATAAAAATTATTAGAAATTTATAAATAAT
Found at i:19227688 original size:30 final size:31
Alignment explanation
Indices: 19227624--19227703 Score: 87
Period size: 30 Copynumber: 2.6 Consensus size: 31
19227614 AGTTAAATAT
*
19227624 AAAAATTATTAG-AACTTTATAAATAATTAT-
1 AAAAATTA-TAGAAAATTTATAAATAATTATA
*
19227654 AAAAATTATAGAAAATTTTTAAAT-ATTATAA
1 AAAAATTATAGAAAATTTATAAATAATTAT-A
*
19227685 AAAAATT-TAGAAAAATTAT
1 AAAAATTATAGAAAATTTAT
19227704 TGAAACATCA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 8 0.19
30 28 0.65
31 7 0.16
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (31 bp):
AAAAATTATAGAAAATTTATAAATAATTATA
Found at i:19228454 original size:21 final size:21
Alignment explanation
Indices: 19228412--19228454 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
19228402 ATTTGAATAA
* *
19228412 TTTTAACAAAATTTATATATT
1 TTTTAAAAAAATTTATAGATT
19228433 TTTTAAAAAAA-TTATAAGATT
1 TTTTAAAAAAATTTAT-AGATT
19228454 T
1 T
19228455 AAATTTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTTAAAAAAATTTATAGATT
Found at i:19228510 original size:20 final size:21
Alignment explanation
Indices: 19228480--19228525 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
19228470 TTAAAAAAAA
19228480 TTATAA-A-TTTTTATAAATT
1 TTATAATATTTTTTATAAATT
*
19228499 TT-TAATATTTTTTATGAATT
1 TTATAATATTTTTTATAAATT
19228519 TTATAAT
1 TTATAAT
19228526 TTATATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 3 0.13
19 3 0.13
20 13 0.57
21 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TTATAATATTTTTTATAAATT
Found at i:19228877 original size:21 final size:18
Alignment explanation
Indices: 19228851--19228895 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 18
19228841 CTTATTTGGT
*
19228851 ATTTTAACTTTGTTTTAATAA
1 ATTTTAA-TTTATTTT-A-AA
19228872 ATTTTAATTTATTTTAAA
1 ATTTTAATTTATTTTAAA
19228890 ATTTTA
1 ATTTTA
19228896 TTAAAACAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 8 0.35
19 1 0.04
20 7 0.30
21 7 0.30
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
ATTTTAATTTATTTTAAA
Found at i:19229912 original size:16 final size:16
Alignment explanation
Indices: 19229868--19229914 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
19229858 TACTATAAAA
*
19229868 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
19229884 TATTATT-AAATATAT
1 TATAATTAAAATATAT
19229899 TATAATTAAAATATAT
1 TATAATTAAAATATAT
19229915 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:19230020 original size:15 final size:16
Alignment explanation
Indices: 19230002--19230034 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
19229992 ATTTAACATA
*
19230002 ATTATTATTAAA-TAT
1 ATTATAATTAAATTAT
19230017 ATTATAATTAAATTAT
1 ATTATAATTAAATTAT
19230033 AT
1 AT
19230035 AATTTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTATAATTAAATTAT
Found at i:19230152 original size:16 final size:16
Alignment explanation
Indices: 19230108--19230154 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
19230098 TACTATAAAA
*
19230108 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
19230124 TATTATT-AAATATAT
1 TATAATTAAAATATAT
19230139 TATAATTAAAATATAT
1 TATAATTAAAATATAT
19230155 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:19230417 original size:120 final size:120
Alignment explanation
Indices: 19229751--19230408 Score: 1174
Period size: 120 Copynumber: 5.5 Consensus size: 120
19229741 ATTTAATCTT
* *
19229751 ATTTAAACATAATTATTATTAAATAAATTATAATTAAATTATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
19229816 ATCAATATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATA
65 ATCAATATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATA
19229872 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
19229937 TCAATATTCTTATATGAATTTATTCAAATAATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATA
*
19229992 ATTTAACATAATTATTATTAAATATATTATAATTAAATTATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
19230057 TCAATATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATA
19230112 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* * *
19230177 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TCAATATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATA
*
19230232 ATTTAACATAATTACTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
19230297 TCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATA
* * *
19230352 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
19230409 TAAAATAATT
Statistics
Matches: 520, Mismatches: 16, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
120 514 0.99
121 6 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TCAATATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATA
Found at i:19230459 original size:47 final size:46
Alignment explanation
Indices: 19230390--19230558 Score: 154
Period size: 47 Copynumber: 3.7 Consensus size: 46
19230380 TTAATTAAAA
*
19230390 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * *
19230437 TATATGAATTTGTATAATTTAAAATAATTAT--TATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
19230482 TA-AT-AATGATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
19230528 TATATGAATTTATATAATTTAAAATAATTAT
1 TATATGAATTTATATAATTTAAAATAATTAT
19230559 TATTAAATAA
Statistics
Matches: 97, Mismatches: 13, Indels: 25
0.72 0.10 0.19
Matches are distributed among these distances:
43 3 0.03
44 22 0.23
45 9 0.09
46 9 0.09
47 47 0.48
48 7 0.07
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:19239111 original size:62 final size:62
Alignment explanation
Indices: 19239003--19239121 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 62
19238993 ATGGGCAACA
** * *
19239003 GACACGAGCGTGTGCCTGAACCGTGTAACTCACTATTTGTGGTATAATACCACACGGCCAGG
1 GACACGAGCGTGTGCCTGAACCGTGTAACTCACTATTTACGATATAAAACCACACGGCCAGG
* * * *
19239065 GACACGGGCGTGTGCCTTG-GCTGTGTAACTCACTGTTTACGATATAAAACCACACGG
1 GACACGAGCGTGTGCC-TGAACCGTGTAACTCACTATTTACGATATAAAACCACACGG
19239122 TCAAAGACAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
62 46 0.96
63 2 0.04
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (62 bp):
GACACGAGCGTGTGCCTGAACCGTGTAACTCACTATTTACGATATAAAACCACACGGCCAGG
Found at i:19239139 original size:62 final size:62
Alignment explanation
Indices: 19239023--19239165 Score: 144
Period size: 62 Copynumber: 2.3 Consensus size: 62
19239013 TGTGCCTGAA
* ** * * ** * * *
19239023 CCGTGTAACTCACTATTTGTGGTATAATACCACACGGCCAGGGACACGGGCGTGT-GCCTTGG
1 CCGTGTAACTCACTGTTTACGATATAAAACCACACGGCCAAAGACACGGACGTGTAACC-AGG
* * *
19239085 CTGTGTAACTCACTGTTTACGATATAAAACCACACGGTCAAAGACATGGACGTGTAACCAGG
1 CCGTGTAACTCACTGTTTACGATATAAAACCACACGGCCAAAGACACGGACGTGTAACCAGG
*
19239147 CCATGTAACTCACTGTTTA
1 CCGTGTAACTCACTGTTTA
19239166 TGCTTTGAAA
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
62 63 0.97
63 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (62 bp):
CCGTGTAACTCACTGTTTACGATATAAAACCACACGGCCAAAGACACGGACGTGTAACCAGG
Found at i:19239182 original size:62 final size:63
Alignment explanation
Indices: 19239088--19239211 Score: 151
Period size: 62 Copynumber: 2.0 Consensus size: 63
19239078 GCCTTGGCTG
*
19239088 TGTAACTCACTGTTTACGATATAAAACCACACGGTCAAAG-ACATGGACGTGTAACCAGGCCA
1 TGTAACTCACTGTTTACGATATAAAACCACACGGGCAAAGCACATGGACGTGTAACCAGGCCA
* * * * * * ** *
19239150 TGTAACTCACTGTTTATGCTTTGAAACTACACGGGCAAGGCACATGGGTGTGTGACCAGGCC
1 TGTAACTCACTGTTTACGATATAAAACCACACGGGCAAAGCACATGGACGTGTAACCAGGCC
19239212 GTGTGTCATG
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
62 33 0.65
63 18 0.35
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (63 bp):
TGTAACTCACTGTTTACGATATAAAACCACACGGGCAAAGCACATGGACGTGTAACCAGGCCA
Found at i:19240280 original size:38 final size:38
Alignment explanation
Indices: 19240229--19240304 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
19240219 TCATAATGTA
19240229 TGAGAAAAGTAGTTTAATAATAATTTAGTATTTGAATT
1 TGAGAAAAGTAGTTTAATAATAATTTAGTATTTGAATT
19240267 TGAGAAAAGTAGTTTAATAATAATTTAGTATTTGAATT
1 TGAGAAAAGTAGTTTAATAATAATTTAGTATTTGAATT
19240305 AATATAGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (38 bp):
TGAGAAAAGTAGTTTAATAATAATTTAGTATTTGAATT
Found at i:19243025 original size:16 final size:17
Alignment explanation
Indices: 19242998--19243032 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
19242988 AGAGAGTTGA
19242998 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
19243015 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
19243031 GA
1 GA
19243033 AGGATGATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:19246618 original size:13 final size:13
Alignment explanation
Indices: 19246600--19246624 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19246590 CATCTTCTTC
19246600 GTTTGGTACAGGA
1 GTTTGGTACAGGA
19246613 GTTTGGTACAGG
1 GTTTGGTACAGG
19246625 TACGGGTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.08, G:0.40, T:0.32
Consensus pattern (13 bp):
GTTTGGTACAGGA
Found at i:19247332 original size:14 final size:15
Alignment explanation
Indices: 19247301--19247333 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
19247291 GAAACAGTTT
*
19247301 GAATTAAAAATGTTA
1 GAATTAAAAATGTGA
19247316 GAATTAAAAATG-GA
1 GAATTAAAAATGTGA
19247330 GAAT
1 GAAT
19247334 ATTAGAGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (15 bp):
GAATTAAAAATGTGA
Found at i:19248781 original size:22 final size:22
Alignment explanation
Indices: 19248756--19248827 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
19248746 ACAATTTTTA
19248756 TTATTTATAGCAAATTAAAGAG
1 TTATTTATAGCAAATTAAAGAG
* *** * *
19248778 TTATTAATTTAAAATTCTATATA-
1 TTATTTATAGCAAA-T-TAAAGAG
19248801 TTATTTATAGCAAATTAAAGAG
1 TTATTTATAGCAAATTAAAGAG
19248823 TTATT
1 TTATT
19248828 AATTTAAAAG
Statistics
Matches: 35, Mismatches: 12, Indels: 6
0.66 0.23 0.11
Matches are distributed among these distances:
21 4 0.11
22 16 0.46
23 11 0.31
24 4 0.11
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.44
Consensus pattern (22 bp):
TTATTTATAGCAAATTAAAGAG
Found at i:19252634 original size:25 final size:25
Alignment explanation
Indices: 19252599--19252669 Score: 108
Period size: 25 Copynumber: 2.8 Consensus size: 25
19252589 TTTGTTATAG
*
19252599 CAATTAGCAATTAATACAATTAATA
1 CAATTAACAATTAATACAATTAATA
19252624 CAATTAACAATTAATACAATTAATA
1 CAATTAACAATTAATACAATTAATA
*
19252649 CAATTAATAATTTAATA-AATT
1 CAATTAACAA-TTAATACAATT
19252670 TACTAATCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 37 0.86
26 6 0.14
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.35
Consensus pattern (25 bp):
CAATTAACAATTAATACAATTAATA
Found at i:19252669 original size:16 final size:18
Alignment explanation
Indices: 19252606--19252669 Score: 91
Period size: 16 Copynumber: 3.8 Consensus size: 18
19252596 TAGCAATTAG
19252606 CAATTAATACAATTAATA
1 CAATTAATACAATTAATA
19252624 CAATT-A-ACAATTAATA
1 CAATTAATACAATTAATA
19252640 CAATTAATACAATTAATA
1 CAATTAATACAATTAATA
*
19252658 -ATTTAATA-AATT
1 CAATTAATACAATT
19252670 TACTAATCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
16 19 0.44
17 9 0.21
18 15 0.35
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (18 bp):
CAATTAATACAATTAATA
Found at i:19252671 original size:9 final size:9
Alignment explanation
Indices: 19252606--19252669 Score: 91
Period size: 9 Copynumber: 7.6 Consensus size: 9
19252596 TAGCAATTAG
19252606 CAATTAATA
1 CAATTAATA
19252615 CAATTAATA
1 CAATTAATA
19252624 CAATT-A-A
1 CAATTAATA
19252631 CAATTAATA
1 CAATTAATA
19252640 CAATTAATA
1 CAATTAATA
19252649 CAATTAATA
1 CAATTAATA
*
19252658 -ATTTAATA
1 CAATTAATA
19252666 -AATT
1 CAATT
19252670 TACTAATCAA
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
7 6 0.12
8 12 0.24
9 33 0.65
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (9 bp):
CAATTAATA
Found at i:19252752 original size:16 final size:16
Alignment explanation
Indices: 19252731--19252771 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
19252721 ATAATTTCAA
* *
19252731 AATTTTACTACCAATT
1 AATTTTAATAACAATT
19252747 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
19252763 AGTTTTAAT
1 AATTTTAAT
19252772 TTTATTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.46
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:19254778 original size:62 final size:62
Alignment explanation
Indices: 19254646--19254840 Score: 164
Period size: 62 Copynumber: 3.1 Consensus size: 62
19254636 CGTGTGTTTG
* * * * *
19254646 GGCTATGTAACTCACTGTTTATGGTATAAGACCACATGGCCAAGGACACGGGAGTGTGCTTTA
1 GGCTGTGTAACTCACTGTTTATGGTATAAAACCACACGGCCAAGGACACGGGAGTGTAC-TCA
* * * * *
19254709 -GCCGTGTAACTCACTGTTTGTGGTATAAAACCACACGGTCAGGGACACGGGTGTGTAAC-CA
1 GGCTGTGTAACTCACTGTTTATGGTATAAAACCACACGGCCAAGGACACGGGAGTGT-ACTCA
* * * * * *
19254770 GGCTGTGTAATTCACTGTTTAT-ATTTCAAAACCACACGGGCAAGGCACATGGGCGTGTGAC-CA
1 GGCTGTGTAACTCACTGTTTATGGTAT-AAAACCACACGGCCAAGG-ACACGGGAGTGT-ACTCA
*
19254833 GGCCGTGT
1 GGCTGTGT
19254841 GTCATGTTAT
Statistics
Matches: 107, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
61 3 0.03
62 82 0.77
63 22 0.21
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (62 bp):
GGCTGTGTAACTCACTGTTTATGGTATAAAACCACACGGCCAAGGACACGGGAGTGTACTCA
Found at i:19257016 original size:17 final size:17
Alignment explanation
Indices: 19256994--19257027 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
19256984 TTTTACTTGG
19256994 ATTTTTAGATT-TTTATT
1 ATTTTTA-ATTATTTATT
19257011 ATTTTTAATTATTTATT
1 ATTTTTAATTATTTATT
19257028 TAATTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
ATTTTTAATTATTTATT
Found at i:19264915 original size:35 final size:36
Alignment explanation
Indices: 19264852--19264922 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
19264842 ATAAAAGAAA
19264852 AAAAAATTAAATTGTTCTAAAGGAAAAAATATAGGG
1 AAAAAATTAAATTGTTCTAAAGGAAAAAATATAGGG
19264888 AAAAAATTAAATTGTTCTAAAGG-AAAAATATAGGG
1 AAAAAATTAAATTGTTCTAAAGGAAAAAATATAGGG
19264923 GCTAATTGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 12 0.34
36 23 0.66
ACGTcount: A:0.55, C:0.03, G:0.17, T:0.25
Consensus pattern (36 bp):
AAAAAATTAAATTGTTCTAAAGGAAAAAATATAGGG
Found at i:19264964 original size:34 final size:34
Alignment explanation
Indices: 19264911--19264982 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
19264901 GTTCTAAAGG
* * *
19264911 AAAA-ATATAGGGGCTAATTGTAGAATTTAATCT
1 AAAATATATAGGGACCAATTGTAGAATTTAAGCT
19264944 AAAATATATAGGGACCAATTGTAGAATTTAAGCT
1 AAAATATATAGGGACCAATTGTAGAATTTAAGCT
19264978 AAAAT
1 AAAAT
19264983 TTTCGTTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 4 0.11
34 31 0.89
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.31
Consensus pattern (34 bp):
AAAATATATAGGGACCAATTGTAGAATTTAAGCT
Found at i:19265087 original size:31 final size:29
Alignment explanation
Indices: 19265052--19265123 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
19265042 TTAACGGCTC
*
19265052 AGTGACTAAAATGTTACAACACGATAACATA
1 AGTGACTAAAATGTAACAACAC-A-AACATA
* ***
19265083 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAACACAAACATA
19265112 AGTGACTAAAAT
1 AGTGACTAAAAT
19265124 ATAATTTAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 17 0.49
30 1 0.03
31 17 0.49
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAACACAAACATA
Found at i:19266440 original size:95 final size:96
Alignment explanation
Indices: 19266330--19266524 Score: 383
Period size: 95 Copynumber: 2.0 Consensus size: 96
19266320 TACGGCACAA
19266330 CAAATTCATAAGAATTCATTTTCTATGCTAAAAGAGTTGATTGTTGAGGAATGTGATGTGCCATT
1 CAAATTCATAAGAATTCATTTTCTATGCTAAAAGAGTTGATTGTTGAGGAATGTGATGTGCCATT
19266395 TGAATCTTTTTTGTACTTGTTGCTATTGATT
66 TGAATCTTTTTTGTACTTGTTGCTATTGATT
19266426 CAAA-TCATAAGAATTCATTTTCTATGCTAAAAGAGTTGATTGTTGAGGAATGTGATGTGCCATT
1 CAAATTCATAAGAATTCATTTTCTATGCTAAAAGAGTTGATTGTTGAGGAATGTGATGTGCCATT
19266490 TGAATCTTTTTTGTACTTGTTGCTATTGATT
66 TGAATCTTTTTTGTACTTGTTGCTATTGATT
19266521 CAAA
1 CAAA
19266525 AAAGATTTAA
Statistics
Matches: 99, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 95 0.96
96 4 0.04
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (96 bp):
CAAATTCATAAGAATTCATTTTCTATGCTAAAAGAGTTGATTGTTGAGGAATGTGATGTGCCATT
TGAATCTTTTTTGTACTTGTTGCTATTGATT
Found at i:19268959 original size:18 final size:19
Alignment explanation
Indices: 19268936--19268981 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
19268926 TGCACATGAT
*
19268936 CATGGTCATGA-TGATGGA
1 CATGGTCATGAGTCATGGA
19268954 CATGGTCAT-AGTCATGGA
1 CATGGTCATGAGTCATGGA
*
19268972 CATGGACATG
1 CATGGTCATG
19268982 GGCATGAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.26
Consensus pattern (19 bp):
CATGGTCATGAGTCATGGA
Found at i:19268987 original size:18 final size:18
Alignment explanation
Indices: 19268949--19268987 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
19268939 GGTCATGATG
* *
19268949 ATGGACATGGTCATAGTC
1 ATGGACATGGACATAGGC
*
19268967 ATGGACATGGACATGGGC
1 ATGGACATGGACATAGGC
19268985 ATG
1 ATG
19268988 AGCATGGAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.23
Consensus pattern (18 bp):
ATGGACATGGACATAGGC
Found at i:19269147 original size:15 final size:15
Alignment explanation
Indices: 19269127--19269173 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
19269117 ATTATTTTTA
19269127 TTATATTTTAATTAT
1 TTATATTTTAATTAT
*
19269142 TTATATTTGAA--AT
1 TTATATTTTAATTAT
19269155 GTTATATTTTAATTAT
1 -TTATATTTTAATTAT
19269171 TTA
1 TTA
19269174 CGTTATCGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 2 0.07
14 10 0.37
15 13 0.48
16 2 0.07
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (15 bp):
TTATATTTTAATTAT
Found at i:19269419 original size:22 final size:21
Alignment explanation
Indices: 19269389--19269445 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
19269379 AGAAGAAAAT
*
19269389 AAAAAATAAATAAAAGTGTTA
1 AAAAAATAAAAAAAAGTGTTA
* *
19269410 AAAAACATAAAAAAAATTGTTC
1 AAAAA-ATAAAAAAAAGTGTTA
*
19269432 AAAACA-AAAAAAAA
1 AAAAAATAAAAAAAA
19269446 TATGGAGATC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 8 0.26
21 6 0.19
22 17 0.55
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.18
Consensus pattern (21 bp):
AAAAAATAAAAAAAAGTGTTA
Found at i:19271038 original size:27 final size:28
Alignment explanation
Indices: 19270988--19271040 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
19270978 AAATTTGATC
19270988 ATCAACCTTCTAAAAACAGTTGAATTTG
1 ATCAACCTTCTAAAAACAGTTGAATTTG
* * *
19271016 ATCAACTTTTTAAAAAGAG-TGAATT
1 ATCAACCTTCTAAAAACAGTTGAATT
19271041 GATGTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (28 bp):
ATCAACCTTCTAAAAACAGTTGAATTTG
Found at i:19277216 original size:24 final size:24
Alignment explanation
Indices: 19277167--19277221 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
19277157 TAAAGTAGGT
* *
19277167 TATA-TATTATTTTTATAATATTA
1 TATATTATGATTTTTATAATATCA
19277190 TATATTATGATTTTTATTAAT-TCA
1 TATATTATGATTTTTA-TAATATCA
*
19277214 TATTTTAT
1 TATATTAT
19277222 TAATGATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 4 0.15
24 19 0.70
25 4 0.15
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
TATATTATGATTTTTATAATATCA
Found at i:19280424 original size:14 final size:14
Alignment explanation
Indices: 19280405--19280439 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
19280395 TGACATTTTT
* *
19280405 TTCTAATGATATTA
1 TTCTAACGATACTA
19280419 TTCTAACGATACTA
1 TTCTAACGATACTA
19280433 TTCTAAC
1 TTCTAAC
19280440 ATGTAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:19281091 original size:6 final size:6
Alignment explanation
Indices: 19281080--19281107 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
19281070 ATAGAGGTCA
19281080 AGCCAG AGCCAG AGCCAG AGCCAG AGCC
1 AGCCAG AGCCAG AGCCAG AGCCAG AGCC
19281108 CCAGCCCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.32, T:0.00
Consensus pattern (6 bp):
AGCCAG
Found at i:19281750 original size:48 final size:48
Alignment explanation
Indices: 19281686--19281777 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
19281676 TAACATTTCA
* *
19281686 ACATTAAAACACTAAAACTTGGAACAAATTTTGTAATATAAATTAAAT
1 ACATTAAAACACTAAAAATTGGAACAAACTTTGTAATATAAATTAAAT
* *
19281734 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATT
1 ACATTAAAACACTAAAAATTGGAACAAACTTTGTAATATAAATT
19281778 TTGTTATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.32
Consensus pattern (48 bp):
ACATTAAAACACTAAAAATTGGAACAAACTTTGTAATATAAATTAAAT
Found at i:19281787 original size:62 final size:62
Alignment explanation
Indices: 19281711--19281901 Score: 355
Period size: 62 Copynumber: 3.1 Consensus size: 62
19281701 AACTTGGAAC
*
19281711 AAATTTTGTAATATAAATTAAATACATTACAACATTAAAAATTGGAACAAACTTTGTAATAT
1 AAATTTTGTTATATAAATTAAATACATTACAACATTAAAAATTGGAACAAACTTTGTAATAT
* *
19281773 AAATTTTGTTATATAAATTAAATACATTGCAACATTAAAAATTGGAACAAACTTTATAATAT
1 AAATTTTGTTATATAAATTAAATACATTACAACATTAAAAATTGGAACAAACTTTGTAATAT
19281835 AAATTTTGTTATATAAATTAAATACATTACAACATTAAAAATTGGAACAAACTTTGTAATAT
1 AAATTTTGTTATATAAATTAAATACATTACAACATTAAAAATTGGAACAAACTTTGTAATAT
19281897 AAATT
1 AAATT
19281902 AGGTACATTG
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 124 1.00
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (62 bp):
AAATTTTGTTATATAAATTAAATACATTACAACATTAAAAATTGGAACAAACTTTGTAATAT
Found at i:19283198 original size:16 final size:16
Alignment explanation
Indices: 19283177--19283229 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
19283167 TTGGTTCACT
19283177 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
19283193 GTAATGGAATAGAAGC
1 GTAATGGAATAGAGGC
19283209 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
19283225 GTAAT
1 GTAAT
19283230 AGGTAATTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.40, C:0.06, G:0.34, T:0.21
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:19283297 original size:44 final size:46
Alignment explanation
Indices: 19283211--19283303 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 46
19283201 ATAGAAGCGT
* *
19283211 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAAGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
19283257 AATGGAATAGAAGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAAGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
19283301 AAT
1 AAT
19283304 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 24 0.53
45 3 0.07
46 18 0.40
ACGTcount: A:0.29, C:0.04, G:0.30, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAAGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
Found at i:19283299 original size:39 final size:44
Alignment explanation
Indices: 19283211--19283316 Score: 123
Period size: 39 Copynumber: 2.5 Consensus size: 44
19283201 ATAGAAGCGT
* *
19283211 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAAGCGTAATAGGTAATTCTTGTGTTTGGTT--ATGG
19283257 AATGGAATAGAAGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T-G
1 AATGGAATAGAAGCGTAATAGGTAATTCTTGTGTTTGGTTATGG
* *
19283296 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAAGCGTAATAG
19283317 CATAAGTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
39 18 0.33
40 2 0.04
43 1 0.02
44 13 0.24
45 3 0.05
46 18 0.33
ACGTcount: A:0.30, C:0.04, G:0.31, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAAGCGTAATAGGTAATTCTTGTGTTTGGTTATGG
Found at i:19283575 original size:21 final size:21
Alignment explanation
Indices: 19283532--19283575 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
19283522 TATATGAATT
*
19283532 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATAAAA
*
19283553 TACTATAAAT-ATAATTTAAAA
1 TACTA-AAATCATAATATAAAA
19283574 TA
1 TA
19283576 ATTATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (21 bp):
TACTAAAATCATAATATAAAA
Found at i:19310547 original size:16 final size:16
Alignment explanation
Indices: 19310526--19310561 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
19310516 TGAATCCTTA
*
19310526 AAATCTTTAAATCCCT
1 AAATCTTGAAATCCCT
*
19310542 AAATCTTGAAATCCTT
1 AAATCTTGAAATCCCT
19310558 AAAT
1 AAAT
19310562 TGTTAGCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.36
Consensus pattern (16 bp):
AAATCTTGAAATCCCT
Found at i:19314082 original size:28 final size:28
Alignment explanation
Indices: 19314049--19314102 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
19314039 TATAGTGTGG
19314049 GCCTTAGCCAAATACAGTAACAGTATGA
1 GCCTTAGCCAAATACAGTAACAGTATGA
* * *
19314077 GCCTTATCCCAATACAGTATCAGTAT
1 GCCTTAGCCAAATACAGTAACAGTAT
19314103 AATGCAGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (28 bp):
GCCTTAGCCAAATACAGTAACAGTATGA
Found at i:19314232 original size:26 final size:26
Alignment explanation
Indices: 19314203--19314256 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
19314193 AACACACCAA
* * *
19314203 TATCGCAGCAAAGTTGCCAGTAATAG
1 TATCACAGCAAAGCTGCCAGTAACAG
* *
19314229 TATCACAGCGAAGCTGCTAGTAACAG
1 TATCACAGCAAAGCTGCCAGTAACAG
19314255 TA
1 TA
19314257 AATGTGGCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAGTAACAG
Found at i:19314527 original size:27 final size:28
Alignment explanation
Indices: 19314449--19314527 Score: 126
Period size: 27 Copynumber: 2.9 Consensus size: 28
19314439 GTATACCAGC
*
19314449 CATTTTACCCTATGAGGGTATTT-TAGT
1 CATTTTACCCTATGAGGGTATTTCGAGT
19314476 CATTTTACCCTATGAGGGTATTTCGA-T
1 CATTTTACCCTATGAGGGTATTTCGAGT
*
19314503 CATTTTACCCTATGAGAGTATTTCG
1 CATTTTACCCTATGAGGGTATTTCG
19314528 GGGGTATTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 48 0.98
28 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.42
Consensus pattern (28 bp):
CATTTTACCCTATGAGGGTATTTCGAGT
Found at i:19314534 original size:38 final size:38
Alignment explanation
Indices: 19314491--19314563 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
19314481 TACCCTATGA
*
19314491 GGGTATTTCGATCATTTTACCCTATGAGAGTATTTCGG
1 GGGTATTTCGATCAATTTACCCTATGAGAGTATTTCGG
* * * *
19314529 GGGTATTTTGGTCAATTTACCTTATGAGGGTATTT
1 GGGTATTTCGATCAATTTACCCTATGAGAGTATTT
19314564 TGGTCATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.42
Consensus pattern (38 bp):
GGGTATTTCGATCAATTTACCCTATGAGAGTATTTCGG
Found at i:19314571 original size:65 final size:65
Alignment explanation
Indices: 19314464--19314592 Score: 186
Period size: 65 Copynumber: 2.0 Consensus size: 65
19314454 TACCCTATGA
*
19314464 GGGTATTTTAGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGAGAGTATTTCGG
1 GGGTATTTTAGTCAATTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGAGAGTATTTCGG
* * * * * * *
19314529 GGGTATTTTGGTCAATTTACCTTATGAGGGTATTTTGGTCATTTTACTCTATGGGGGTATTTCG
1 GGGTATTTTAGTCAATTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGAGAGTATTTCG
19314593 ATCATTTATC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.19, C:0.13, G:0.24, T:0.43
Consensus pattern (65 bp):
GGGTATTTTAGTCAATTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGAGAGTATTTCGG
Found at i:19314597 original size:27 final size:27
Alignment explanation
Indices: 19314527--19314599 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
19314517 AGAGTATTTC
*
19314527 GGGGGTATTTTGGTCAATTTACCTTAT
1 GGGGGTATTTTGGTCATTTTACCTTAT
*
19314554 GAGGGTATTTTGGTCATTTTA-CTCTAT
1 GGGGGTATTTTGGTCATTTTACCT-TAT
* *
19314581 GGGGGTATTTCGATCATTT
1 GGGGGTATTTTGGTCATTT
19314600 ATCGGCCTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 2 0.05
27 38 0.95
ACGTcount: A:0.18, C:0.11, G:0.26, T:0.45
Consensus pattern (27 bp):
GGGGGTATTTTGGTCATTTTACCTTAT
Found at i:19316041 original size:50 final size:50
Alignment explanation
Indices: 19315982--19316105 Score: 122
Period size: 50 Copynumber: 2.5 Consensus size: 50
19315972 TATTGAGATT
* * * * *
19315982 ATGAAAGGTCCTATGTAAGACCATGGCTACGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGGCTACGACATGGCATGGGCACCGAA
**** * **
19316032 ATGAGAGGTCCCCCAAAAGACCATGTCTGGGACATGGCATGGGCACCGAA
1 ATGAGAGGTCCCATGTAAGACCATGGCTACGACATGGCATGGGCACCGAA
**
19316082 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAGGTCCCATGTAAGACCAT
19316106 ATCTGGGATA
Statistics
Matches: 56, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.18
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGGCTACGACATGGCATGGGCACCGAA
Found at i:19316174 original size:49 final size:49
Alignment explanation
Indices: 19316048--19316175 Score: 161
Period size: 49 Copynumber: 2.6 Consensus size: 49
19316038 GGTCCCCCAA
* *
19316048 AAGACCATGTCTGGGACATGGCATGGGCACCGAAATGAGAACTCCCATGT
1 AAGACCATGTCTGGGACATGGCATTGGCA-CGAAAAGAGAACTCCCATGT
* *
19316098 AAGACCATATCTGGGATATGGCATTGGCA-GTAAAAGA-AACATCCCATGT
1 AAGACCATGTCTGGGACATGGCATTGGCACG-AAAAGAGAAC-TCCCATGT
* *
19316147 AAGACCATGTCTGGGACATAGCTTTGGCA
1 AAGACCATGTCTGGGACATGGCATTGGCA
19316176 TGTTATTATC
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
48 4 0.06
49 38 0.56
50 26 0.38
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (49 bp):
AAGACCATGTCTGGGACATGGCATTGGCACGAAAAGAGAACTCCCATGT
Found at i:19317637 original size:5 final size:5
Alignment explanation
Indices: 19317627--19317664 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
19317617 TGGAAGATTA
* *
19317627 AAAAT AAAAT AAAAC AATA- AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
19317665 GTGGATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:19317886 original size:2 final size:2
Alignment explanation
Indices: 19317877--19317905 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19317867 TAAAAAAACC
19317877 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19317906 GAAAGAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:19326469 original size:56 final size:56
Alignment explanation
Indices: 19326384--19326531 Score: 271
Period size: 56 Copynumber: 2.7 Consensus size: 56
19326374 GGTAAAGAGA
19326384 TCCCATGT-AGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTACGAAAGG
1 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTACGAAAGG
*
19326439 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAAAGG
1 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTACGAAAGG
*
19326495 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
1 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCA
19326532 CCGAGATGAG
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
55 8 0.09
56 82 0.91
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (56 bp):
TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTACGAAAGG
Found at i:19326546 original size:50 final size:52
Alignment explanation
Indices: 19326379--19326627 Score: 238
Period size: 56 Copynumber: 4.7 Consensus size: 52
19326369 ATTTGGGTAA
* * *
19326379 AGAGATCCCATGT-AGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CGAGA-T--G
* * *
19326434 AAAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CGAG---ATG
*
19326490 AAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C-CGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGATG
** * * *
19326540 AGAGGTCCCCCGTAAGACCATGTCTGGAACATGGCATGGGCA-C-CGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGATG
** * * *
19326590 AGAATTCCCATGTAAGACCATATCTGGGATATGACATT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATT
19326628 AGTTTTAAAA
Statistics
Matches: 171, Mismatches: 19, Indels: 13
0.84 0.09 0.06
Matches are distributed among these distances:
50 76 0.44
53 3 0.02
55 12 0.07
56 78 0.46
58 1 0.01
59 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (52 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGATG
Found at i:19331770 original size:51 final size:51
Alignment explanation
Indices: 19331684--19331796 Score: 181
Period size: 51 Copynumber: 2.2 Consensus size: 51
19331674 CCACTATGTG
* * *
19331684 CAACACCAATATTATCCAGTCCATCTGATGTTGCAAAATCACCAGCATATT
1 CAACAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATT
* *
19331735 CATCAGCAACATTATCCACTCCATTTGATGTTGCAAAATCACCAGCATATT
1 CAACAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATT
19331786 CAACAGCAACA
1 CAACAGCAACA
19331797 ACTTCACTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.36, C:0.28, G:0.10, T:0.26
Consensus pattern (51 bp):
CAACAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATT
Found at i:19331998 original size:33 final size:34
Alignment explanation
Indices: 19331929--19332033 Score: 101
Period size: 33 Copynumber: 3.1 Consensus size: 34
19331919 CTCTCCTACT
* * *
19331929 TCACCCTCC-CCACCAGATTCTACCTTTTCCAT-A
1 TCACCTTCCACCATCAGATTCTACCTCTT-CATCA
*
19331962 TCACCTT-CACCATCAGATTCTACCCCTTCATCA
1 TCACCTTCCACCATCAGATTCTACCTCTTCATCA
* * *
19331995 TCACCTTCCCCCATCA-ACTTCCACCTCTTCAACA
1 TCACCTTCCACCATCAGA-TTCTACCTCTTCATCA
19332029 TCACC
1 TCACC
19332034 CTCCCCAGTA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
32 4 0.07
33 31 0.52
34 25 0.42
ACGTcount: A:0.23, C:0.47, G:0.02, T:0.29
Consensus pattern (34 bp):
TCACCTTCCACCATCAGATTCTACCTCTTCATCA
Found at i:19332025 original size:34 final size:34
Alignment explanation
Indices: 19331961--19332039 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 34
19331951 CCTTTTCCAT
* * *
19331961 ATCACCTT-CACCATCAGATTCTACCCCTTCATC
1 ATCACCTTCCCCCATCAGATTCCACCCCTTCAAC
*
19331994 ATCACCTTCCCCCATCA-ACTTCCACCTCTTCAAC
1 ATCACCTTCCCCCATCAGA-TTCCACCCCTTCAAC
*
19332028 ATCACCCTCCCC
1 ATCACCTTCCCC
19332040 AGTAGTCAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
33 9 0.23
34 30 0.77
ACGTcount: A:0.23, C:0.49, G:0.01, T:0.27
Consensus pattern (34 bp):
ATCACCTTCCCCCATCAGATTCCACCCCTTCAAC
Found at i:19333061 original size:14 final size:15
Alignment explanation
Indices: 19333042--19333084 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
19333032 GGATGCTAAC
19333042 GATTTAAGGATT-AA
1 GATTTAAGGATTGAA
*
19333056 GATTTAGGGATTTGAA
1 GATTTAAGGA-TTGAA
19333072 GATTTTAAGGATT
1 GA-TTTAAGGATT
19333085 CAATGAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 9 0.38
15 2 0.08
16 6 0.25
17 7 0.29
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.40
Consensus pattern (15 bp):
GATTTAAGGATTGAA
Found at i:19334957 original size:45 final size:44
Alignment explanation
Indices: 19334907--19335008 Score: 123
Period size: 45 Copynumber: 2.3 Consensus size: 44
19334897 CATGATGCCA
* * * *
19334907 TTACTCATTGTTCCCATGATGTCATAGCATCTTTCAACTATGGTT
1 TTACTCATT-TTACCATGATGACATAGCATCTTTCAACTATAGTC
** *
19334952 TTACTCACTTTTATTATGATGACATAGCATTTTTCAACTATAGTC
1 TTACTCA-TTTTACCATGATGACATAGCATCTTTCAACTATAGTC
19334997 TTACTCATTTTA
1 TTACTCATTTTA
19335009 GGCGTATAGC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
44 5 0.10
45 42 0.86
46 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.45
Consensus pattern (44 bp):
TTACTCATTTTACCATGATGACATAGCATCTTTCAACTATAGTC
Found at i:19344007 original size:17 final size:17
Alignment explanation
Indices: 19343985--19344018 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
19343975 TATAGGGGCT
19343985 GCGTCTAGATAAAAGAG
1 GCGTCTAGATAAAAGAG
19344002 GCGTCTAGATAAAAGAG
1 GCGTCTAGATAAAAGAG
19344019 AATTAGGGAT
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:0.41, C:0.12, G:0.29, T:0.18
Consensus pattern (17 bp):
GCGTCTAGATAAAAGAG
Found at i:19346256 original size:22 final size:22
Alignment explanation
Indices: 19346212--19346253 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
19346202 CTCGTAAGTC
*
19346212 AAGGAAAATAATATGCATAAAT
1 AAGGAAAATAATATACATAAAT
*
19346234 AAGGAAAA-GATATACATAAA
1 AAGGAAAATAATATACATAAA
19346254 ATATTCTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.62, C:0.05, G:0.14, T:0.19
Consensus pattern (22 bp):
AAGGAAAATAATATACATAAAT
Found at i:19370774 original size:11 final size:12
Alignment explanation
Indices: 19370754--19370793 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
19370744 AAAATAAAAA
19370754 TATT-TGTATT-
1 TATTATGTATTG
19370764 TATTATGTATTG
1 TATTATGTATTG
19370776 T-TTATGTATTG
1 TATTATGTATTG
19370787 TA-TATGT
1 TATTATGT
19370794 TATATTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 4 0.15
11 22 0.81
12 1 0.04
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (12 bp):
TATTATGTATTG
Found at i:19371457 original size:21 final size:21
Alignment explanation
Indices: 19371433--19371473 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
19371423 TTTATAACAC
19371433 ATAAAAATTAAATCTATAGTA
1 ATAAAAATTAAATCTATAGTA
* **
19371454 ATAAATATTACTTCTATAGT
1 ATAAAAATTAAATCTATAGT
19371474 GTATACATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (21 bp):
ATAAAAATTAAATCTATAGTA
Found at i:19373513 original size:2 final size:2
Alignment explanation
Indices: 19373508--19373542 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
19373498 TTTAATATCT
19373508 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
19373543 TTTATCTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:19379055 original size:22 final size:23
Alignment explanation
Indices: 19379030--19379073 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
19379020 AAACCTAGAC
19379030 TAAT-CAGAGTTTAACTAGGAAA
1 TAATACAGAGTTTAACTAGGAAA
*
19379052 TAATAGTAGAGTTTAACTAGGA
1 TAATA-CAGAGTTTAACTAGGA
19379074 GAAGAAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
24 15 0.79
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (23 bp):
TAATACAGAGTTTAACTAGGAAA
Found at i:19387963 original size:21 final size:22
Alignment explanation
Indices: 19387937--19387981 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
19387927 TAAATGTGAA
*
19387937 TATGAT-GGTATATTTCTCAAT
1 TATGATAGCTATATTTCTCAAT
*
19387958 TATGATAATCTATATTTCTCAAT
1 TATGAT-AGCTATATTTCTCAAT
19387981 T
1 T
19387982 CCTTTCCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
23 14 0.70
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (22 bp):
TATGATAGCTATATTTCTCAAT
Done.