Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 179 of 255
Found at i:59054896 original size:42 final size:43
Alignment explanation
Indices: 59054825--59054951 Score: 143
Period size: 42 Copynumber: 2.9 Consensus size: 43
59054815 TCTTAAATGT
* *
59054825 AATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACG-A
1 AATCAAATA-CGATGCCAATGTCCTAGACAGGGTCTTACACGTA
* *
59054868 AATCAAATACAATGCCAATGTCCTAGACATGGTCTTACACGTA
1 AATCAAATACGATGCCAATGTCCTAGACAGGGTCTTACACGTA
* *
59054911 AATCATAAGT-CGGTGCCAACGTCCTAGAC-GTGGTCTTACAC
1 AATCA-AA-TACGATGCCAATGTCCTAGACAG-GGTCTTACAC
59054952 AAAAACACAT
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
42 28 0.39
43 15 0.21
44 28 0.39
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
AATCAAATACGATGCCAATGTCCTAGACAGGGTCTTACACGTA
Found at i:59054938 original size:44 final size:42
Alignment explanation
Indices: 59054825--59054951 Score: 132
Period size: 44 Copynumber: 3.0 Consensus size: 42
59054815 TCTTAAATGT
* * *
59054825 AATCAAATATCGATGCC-ACTGTCCCAGACAGGGTCTTACACGA
1 AATCAAATA-CAATGCCAAC-GTCCTAGACATGGTCTTACACGA
*
59054868 AATCAAATACAATGCCAATGTCCTAGACATGGTCTTACACGTA
1 AATCAAATACAATGCCAACGTCCTAGACATGGTCTTACACG-A
** *
59054911 AATCATAAGT-CGGTGCCAACGTCCTAGACGTGGTCTTACAC
1 AATCA-AA-TACAATGCCAACGTCCTAGACATGGTCTTACAC
59054952 AAAAACACAT
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
42 26 0.36
43 16 0.22
44 29 0.40
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
AATCAAATACAATGCCAACGTCCTAGACATGGTCTTACACGA
Found at i:59060000 original size:23 final size:23
Alignment explanation
Indices: 59059972--59060016 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
59059962 AACTTGGTTT
* *
59059972 AGAAGAGTTTAAATGCCATTTGA
1 AGAAGAGGTTAAATGCAATTTGA
*
59059995 AGAAGAGGTTATATGCAATTTG
1 AGAAGAGGTTAAATGCAATTTG
59060017 GTATGTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (23 bp):
AGAAGAGGTTAAATGCAATTTGA
Found at i:59068493 original size:27 final size:28
Alignment explanation
Indices: 59068433--59068495 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
59068423 TCAAAATTTA
*
59068433 TTATAATATTAAGTATAATTCAACATGT
1 TTATAATATTAAGTAAAATTCAACATGT
* *
59068461 TAATAAT-TTAAGTAAAATTTAACTAT-T
1 TTATAATATTAAGTAAAATTCAAC-ATGT
59068488 TTATAATA
1 TTATAATA
59068496 ATTATATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 21 0.72
28 8 0.28
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (28 bp):
TTATAATATTAAGTAAAATTCAACATGT
Found at i:59069599 original size:17 final size:17
Alignment explanation
Indices: 59069577--59069610 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
59069567 TAACTTTATT
59069577 TTATTTT-TGTTCTTAGG
1 TTATTTTATGTT-TTAGG
59069594 TTATTTTATGTTTTAGG
1 TTATTTTATGTTTTAGG
59069611 ATTAGGTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.15, C:0.03, G:0.18, T:0.65
Consensus pattern (17 bp):
TTATTTTATGTTTTAGG
Found at i:59077819 original size:18 final size:19
Alignment explanation
Indices: 59077796--59077832 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
59077786 ACTTCGGTAT
59077796 ATTTGGGCT-ATGGGCCAA
1 ATTTGGGCTAATGGGCCAA
*
59077814 ATTTGGGTTAATGGGCCAA
1 ATTTGGGCTAATGGGCCAA
59077833 CGGGCCGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.24, C:0.14, G:0.32, T:0.30
Consensus pattern (19 bp):
ATTTGGGCTAATGGGCCAA
Found at i:59078136 original size:28 final size:27
Alignment explanation
Indices: 59078096--59078182 Score: 122
Period size: 27 Copynumber: 3.2 Consensus size: 27
59078086 GGTAGAAGCA
59078096 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCAC-AATATCTGT
59078124 TTCTGGTGGCTCTGCCACAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTGT
* * **
59078151 ATCTGGTGACTCTATCACAATATCTG-
1 TTCTGGTGGCTCTGCCACAATATCTGT
59078177 TTCTGG
1 TTCTGG
59078183 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 5 0.09
27 31 0.57
28 18 0.33
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACAATATCTGT
Found at i:59081315 original size:42 final size:41
Alignment explanation
Indices: 59081257--59081345 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 41
59081247 ATGTGTGCAT
59081257 GTGTGGCCTTTTCGAAGGGTACACAGG-CTAGACACATAGAC
1 GTGTGGCCTTTTCGAAGGGTACAC-GGCCTAGACACATAGAC
* *
59081298 GTGTGCGCCTTTTCGAAGGGTACACGGCCTAGACACATGGGC
1 GTGTG-GCCTTTTCGAAGGGTACACGGCCTAGACACATAGAC
59081340 GTGTGG
1 GTGTGG
59081346 TTGGCCGTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
41 8 0.18
42 36 0.82
ACGTcount: A:0.21, C:0.22, G:0.34, T:0.22
Consensus pattern (41 bp):
GTGTGGCCTTTTCGAAGGGTACACGGCCTAGACACATAGAC
Found at i:59084466 original size:13 final size:13
Alignment explanation
Indices: 59084450--59084482 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
59084440 TTTAATTAAA
*
59084450 TTAGTTAATTAGT
1 TTAGATAATTAGT
59084463 TTAGATAATTAGT
1 TTAGATAATTAGT
59084476 TTA-ATAA
1 TTAGATAA
59084483 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:59087471 original size:40 final size:40
Alignment explanation
Indices: 59087441--59087610 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
59087431 GGACTAAGAT
* *
59087441 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
59087481 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** * *
59087521 CCGAAGGCATTCGTGCGAGTTGTTAAATCTGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
59087561 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
59087600 CCGAAGGCATT
1 CCGAAGGCATT
59087611 TGAACGAGGA
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 33 0.28
40 84 0.72
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:59087525 original size:80 final size:79
Alignment explanation
Indices: 59087388--59087612 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 79
59087378 TTGAATGCTG
* * * * * * *
59087388 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
59087452 TGTGCGAGATACTAAA
64 TGTGCGAGATACTAAA
* * *
59087468 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTT
* **
59087533 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * * * *
59087548 TCTGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
59087613 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
79 36 0.30
80 82 0.67
81 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:59095371 original size:40 final size:40
Alignment explanation
Indices: 59095341--59095510 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
59095331 GGACTAAGAT
* *
59095341 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
59095381 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** * *
59095421 CCGAAGGCATTCGTGCGAGTTGTTAAATCTGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
59095461 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
59095500 CCGAAGGCATT
1 CCGAAGGCATT
59095511 TGAACGAGGA
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 33 0.28
40 84 0.72
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:59095425 original size:80 final size:79
Alignment explanation
Indices: 59095288--59095512 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 79
59095278 TTGAATGCTG
* * * * * * *
59095288 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
59095352 TGTGCGAGATACTAAA
64 TGTGCGAGATACTAAA
* * *
59095368 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTT
* **
59095433 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * * * *
59095448 TCTGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
59095513 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
79 36 0.30
80 82 0.67
81 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:59123279 original size:53 final size:53
Alignment explanation
Indices: 59123199--59123308 Score: 220
Period size: 53 Copynumber: 2.1 Consensus size: 53
59123189 CAAATATCTC
59123199 ATAATATGAAATTCTTTTGCTTACACAATTTCTTTTATAATAACCTAGACTCA
1 ATAATATGAAATTCTTTTGCTTACACAATTTCTTTTATAATAACCTAGACTCA
59123252 ATAATATGAAATTCTTTTGCTTACACAATTTCTTTTATAATAACCTAGACTCA
1 ATAATATGAAATTCTTTTGCTTACACAATTTCTTTTATAATAACCTAGACTCA
59123305 ATAA
1 ATAA
59123309 GCTTCCATTC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.41
Consensus pattern (53 bp):
ATAATATGAAATTCTTTTGCTTACACAATTTCTTTTATAATAACCTAGACTCA
Found at i:59143332 original size:20 final size:21
Alignment explanation
Indices: 59143300--59143357 Score: 82
Period size: 20 Copynumber: 2.7 Consensus size: 21
59143290 CTTCAATCTT
59143300 TCAATATTCTCTCAAATTTCTC
1 TCAA-ATTCTCTCAAATTTCTC
59143322 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTTCTC
*
59143342 TTAAATTTCTCTCAAA
1 TCAAA-TTCTCTCAAA
59143358 ACTCTCGCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 19 0.58
21 1 0.03
22 13 0.39
ACGTcount: A:0.31, C:0.26, G:0.00, T:0.43
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTTCTC
Found at i:59143363 original size:11 final size:11
Alignment explanation
Indices: 59143306--59143357 Score: 81
Period size: 11 Copynumber: 4.9 Consensus size: 11
59143296 TCTTTCAATA
59143306 TTCTCTCAAAT
1 TTCTCTCAAAT
59143317 TTCTCTCAAA-
1 TTCTCTCAAAT
59143327 -TCTCTCAAAT
1 TTCTCTCAAAT
*
59143337 TTCTCTTAAAT
1 TTCTCTCAAAT
59143348 TTCTCTCAAA
1 TTCTCTCAAA
59143358 ACTCTCGCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
9 9 0.24
11 28 0.76
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:59143413 original size:16 final size:15
Alignment explanation
Indices: 59143384--59143414 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
59143374 TCAAAAAAAC
*
59143384 TCTAATTTTATTTTT
1 TCTAAATTTATTTTT
59143399 TCTAAATTTATTTTT
1 TCTAAATTTATTTTT
59143414 T
1 T
59143415 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTAAATTTATTTTT
Found at i:59144502 original size:7 final size:7
Alignment explanation
Indices: 59144490--59144516 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
59144480 TAGTGGATTC
59144490 GTATTTA
1 GTATTTA
59144497 GTATTTA
1 GTATTTA
59144504 GTATTTA
1 GTATTTA
59144511 GTATTT
1 GTATTT
59144517 TTTATTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (7 bp):
GTATTTA
Found at i:59145159 original size:18 final size:18
Alignment explanation
Indices: 59145136--59145178 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
59145126 TGCCAGGTAC
*
59145136 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
59145154 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
59145172 GTTTCCT
1 GTATCCT
59145179 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:59145766 original size:116 final size:116
Alignment explanation
Indices: 59145563--59146176 Score: 1113
Period size: 116 Copynumber: 5.3 Consensus size: 116
59145553 TATTTGTACA
*
59145563 AACATTTTGAATA-TTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
59145627 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
59145678 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
59145743 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
59145794 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGATTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
59145859 TGTAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
59145910 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAATGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
59145975 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* * *
59146026 AACATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* * *
59146091 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
59146142 AATATTTTGAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
59146177 AAACTATAAA
Statistics
Matches: 481, Mismatches: 17, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
115 13 0.03
116 468 0.97
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.47
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:59149734 original size:126 final size:126
Alignment explanation
Indices: 59149188--59149726 Score: 792
Period size: 126 Copynumber: 4.3 Consensus size: 126
59149178 GCCCAAGTTA
* * * *
59149188 TTTCAGAAACCACTGTAGCAAAAAAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTACTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * **
59149253 TGCATCTTGTTTGAAGCGTTTTTGACACTATTTATGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
59149314 TTTCAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* *
59149379 TGCATCCTGCTTGAAGCGTTTTT-ACCACTATTTGCGCAAACATGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
59149440 TTTCAGAGACTACTGTAGCAAAAGAGCGTCTACGTGGAAGCTTCTTTCAATACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * * * *
59149505 TGCATCCTGCTTGAAGCGTTTTTTATACTATTTGCACAGACACGTTTTCTTAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * * *
59149566 TTTCAGATACTACTGTAGCAAAAGAACGTCTACGTGGGAGCTTCTTTTAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
*
59149631 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
*
59149692 TTTCAGAGACTACTGTAGCAAAAGAGCATCCACGT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
59149727 AGAAGCTTTT
Statistics
Matches: 370, Mismatches: 41, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
125 1 0.00
126 368 0.99
127 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (126 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:59149896 original size:106 final size:95
Alignment explanation
Indices: 59149813--59150017 Score: 254
Period size: 95 Copynumber: 2.1 Consensus size: 95
59149803 TTAAATACCC
* * * *
59149813 TAAAACCCTAAAA-TCTAAAATCC-TAATATAATTTTTTCTAAATTTATAATTAATTTACTCAAG
1 TAAAACCCTAAAACACT-AAA-CCATAATATAA-TTTTT-TAAAATTATAATTAATTTAATCAAC
* *
59149876 TAACCCTAAACCCTAATTTATTTGATTTTTTCCT
62 AAACACTAAACCCTAATTTATTTGATTTTTTCCT
* * *
59149910 TAAAAACC-ATAAACACTAAACCATAATCTAATTTTTTAAAATTATAATTAATTTAATTAACAAA
1 TAAAACCCTA-AAACACTAAACCATAATATAATTTTTTAAAATTATAATTAATTTAATCAACAAA
*
59149974 CACTAAACCCTAATTTATTTAATTTTTTCCT
65 CACTAAACCCTAATTTATTTGATTTTTTCCT
59150005 TAAAACCCTAAAA
1 TAAAACCCTAAAA
59150018 TTTAAAAATT
Statistics
Matches: 93, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
95 62 0.67
96 9 0.10
97 20 0.22
98 2 0.02
ACGTcount: A:0.43, C:0.17, G:0.01, T:0.39
Consensus pattern (95 bp):
TAAAACCCTAAAACACTAAACCATAATATAATTTTTTAAAATTATAATTAATTTAATCAACAAAC
ACTAAACCCTAATTTATTTGATTTTTTCCT
Found at i:59149980 original size:95 final size:97
Alignment explanation
Indices: 59149836--59150009 Score: 262
Period size: 95 Copynumber: 1.8 Consensus size: 97
59149826 TCTAAAATCC
* * ** * *
59149836 TAATATAATTTTTTCTAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAATTTATTTGA
1 TAATATAATTTTTTCTAAAATTATAATTAATTTAATCAACAAACACTAAACCCTAATTTATTTAA
59149901 TTTTTTCCTTAAAAACCATAAACACTAAACCA
66 TTTTTTCCTTAAAAACCATAAACACTAAACCA
* *
59149933 TAATCTAA-TTTTT-TAAAATTATAATTAATTTAATTAACAAACACTAAACCCTAATTTATTTAA
1 TAATATAATTTTTTCTAAAATTATAATTAATTTAATCAACAAACACTAAACCCTAATTTATTTAA
59149996 TTTTTTCCTTAAAA
66 TTTTTTCCTTAAAA
59150010 CCCTAAAATT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
95 57 0.83
96 5 0.07
97 7 0.10
ACGTcount: A:0.41, C:0.15, G:0.01, T:0.43
Consensus pattern (97 bp):
TAATATAATTTTTTCTAAAATTATAATTAATTTAATCAACAAACACTAAACCCTAATTTATTTAA
TTTTTTCCTTAAAAACCATAAACACTAAACCA
Found at i:59151708 original size:31 final size:31
Alignment explanation
Indices: 59151670--59151731 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
59151660 CCGACAATGG
*
59151670 TTCAGGCACACCGATTGCATAGGGTACTTGA
1 TTCAGGCACACCGATTGCATAGGGCACTTGA
59151701 TTCAGGCACACCGATTGCATAGGGCACTTGA
1 TTCAGGCACACCGATTGCATAGGGCACTTGA
59151732 ATAATACAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (31 bp):
TTCAGGCACACCGATTGCATAGGGCACTTGA
Found at i:59158670 original size:14 final size:14
Alignment explanation
Indices: 59158647--59158676 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
59158637 TTGAAAATAT
59158647 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
59158661 GTTGATTTGGATTG
1 GTTGAATTGGATTG
59158675 GT
1 GT
59158677 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:59158749 original size:7 final size:7
Alignment explanation
Indices: 59158737--59158773 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
59158727 AAGTTTTCCT
59158737 AATAAAA
1 AATAAAA
59158744 AATAAAA
1 AATAAAA
59158751 AATAAAA
1 AATAAAA
59158758 AATAAAA
1 AATAAAA
59158765 AATAAAA
1 AATAAAA
59158772 AA
1 AA
59158774 AATAAATTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AATAAAA
Found at i:59162814 original size:23 final size:24
Alignment explanation
Indices: 59162772--59162833 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
59162762 ATACAGGTAT
*
59162772 ATACATGAAATATATGGAAAT-GATG
1 ATACATG--ATATATTGAAATGGATG
*
59162797 GTACATGATATATTGAAATGGATG
1 ATACATGATATATTGAAATGGATG
*
59162821 ATATATG-TATATT
1 ATACATGATATATT
59162834 ATGAAACTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 17 0.53
24 9 0.28
25 6 0.19
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.35
Consensus pattern (24 bp):
ATACATGATATATTGAAATGGATG
Found at i:59165300 original size:17 final size:17
Alignment explanation
Indices: 59165278--59165331 Score: 90
Period size: 17 Copynumber: 3.2 Consensus size: 17
59165268 ACCCCTAACC
* *
59165278 CATATCTATCGTTAGAA
1 CATATCTGTCGTCAGAA
59165295 CATATCTGTCGTCAGAA
1 CATATCTGTCGTCAGAA
59165312 CATATCTGTCGTCAGAA
1 CATATCTGTCGTCAGAA
59165329 CAT
1 CAT
59165332 GGTTTTAGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (17 bp):
CATATCTGTCGTCAGAA
Found at i:59168344 original size:30 final size:30
Alignment explanation
Indices: 59168309--59168369 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
59168299 TCCTTAACTC
*
59168309 AAACTTTTGCAAAATTAAAATTTTGCCCCT
1 AAACTTTTACAAAATTAAAATTTTGCCCCT
* * * *
59168339 AAACTTTTACATATTTACACTTTTGCCCCT
1 AAACTTTTACAAAATTAAAATTTTGCCCCT
59168369 A
1 A
59168370 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:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (30 bp):
AAACTTTTACAAAATTAAAATTTTGCCCCT
Found at i:59170716 original size:58 final size:57
Alignment explanation
Indices: 59170583--59170719 Score: 145
Period size: 58 Copynumber: 2.4 Consensus size: 57
59170573 TGTATACAAC
* * * *
59170583 AGGATTACTAGTCCAGGCTAAATCCCTTTATAACATATGCCCTAAGGAGCTTGATCT
1 AGGATTACCAGTCCAGGCTAAATCCATCTATAACATATGCCCGAAGGAGCTTGATCT
* * * *
59170640 -GGATTACCTGTCCTGGCTAAATCCAATCTATAACATATGCTCGAGAGGA-CTTTTAT-T
1 AGGATTACCAGTCCAGGCTAAATCC-ATCTATAACATATGCCCGA-AGGAGC-TTGATCT
*
59170697 AGGATTACCAGTCCGGGCTAAAT
1 AGGATTACCAGTCCAGGCTAAAT
59170720 TTTTTCATAA
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
56 21 0.32
57 17 0.26
58 28 0.42
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (57 bp):
AGGATTACCAGTCCAGGCTAAATCCATCTATAACATATGCCCGAAGGAGCTTGATCT
Found at i:59172241 original size:5 final size:6
Alignment explanation
Indices: 59172227--59172251 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
59172217 TGAAGGTAGG
59172227 AAAAGA AAAAGA AAAAGA AAAAGA A
1 AAAAGA AAAAGA AAAAGA AAAAGA A
59172252 TTAGTTATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:59172469 original size:44 final size:44
Alignment explanation
Indices: 59172408--59172497 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
59172398 CCTGATCTAC
*
59172408 ACACATACCATGCAATAAGAAGACATCTCTTGGATTTTATTGCT
1 ACACATACCATGCAATAAGAAGACATCTCTTGGATTTTATTACT
*
59172452 ACACATAGCATGCAATAAGAAGACATCTCTTGGATTTTATTACT
1 ACACATACCATGCAATAAGAAGACATCTCTTGGATTTTATTACT
59172496 AC
1 AC
59172498 TAAGAACAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (44 bp):
ACACATACCATGCAATAAGAAGACATCTCTTGGATTTTATTACT
Found at i:59174903 original size:46 final size:46
Alignment explanation
Indices: 59174847--59175025 Score: 216
Period size: 46 Copynumber: 3.9 Consensus size: 46
59174837 GGATATTTGG
*
59174847 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* *** * * *
59174893 GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA
* *
59174939 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGA
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * *
59174986 ACACCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59175026 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
46 75 0.68
47 36 0.32
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:59175005 original size:93 final size:93
Alignment explanation
Indices: 59174846--59175017 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
59174836 GGGATATTTG
* **
59174846 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
59174911 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
59174939 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
59175004 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
59175018 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:59177030 original size:6 final size:6
Alignment explanation
Indices: 59177019--59177058 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
59177009 AATAAAGATT
59177019 AATAAA AAT-AA AATAAA TGAATAAA AATAAA AATAAA AAT
1 AATAAA AATAAA AATAAA --AATAAA AATAAA AATAAA AAT
59177059 GAAACATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 5 0.16
6 20 0.65
8 6 0.19
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:59178568 original size:3 final size:3
Alignment explanation
Indices: 59178560--59178589 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
59178550 TAGGGTTTTT
59178560 ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
59178590 CATAAAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:59179925 original size:17 final size:17
Alignment explanation
Indices: 59179905--59179937 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
59179895 AACTTTCATT
59179905 TCATTTCTCAT-TTCTTC
1 TCATTT-TCATATTCTTC
59179922 TCATTTTCATATTCTT
1 TCATTTTCATATTCTT
59179938 TTAGCAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.61
Consensus pattern (17 bp):
TCATTTTCATATTCTTC
Found at i:59181580 original size:46 final size:46
Alignment explanation
Indices: 59181474--59181691 Score: 171
Period size: 46 Copynumber: 4.7 Consensus size: 46
59181464 GTATATCTGT
* *
59181474 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ATACATCTCGTA-
1 GCCGATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACATCTCG-AG
* *
59181520 GCTGATGCATGTCCTAGACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAG
* * * * * *
59181566 GCCGATGCACGTCCTAGACATGTTTTACACTAGC--ACTTGTCTCAAT
1 GCCGATGCATGTCCTAGACATGTCTTACACTGGCTTAC--ATCTCGAG
* * *
59181612 ACCGATGCCATGTCCTAGACATGGTCTTAGCACTGGCTCT-CATAAT-GTG
1 GCCGATG-CATGTCCTAGACAT-GTCTTA-CACTGGCT-TACAT-CTCGAG
*
59181661 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCTAGACATGTCTTACACT
59181692 AGCTCACACA
Statistics
Matches: 139, Mismatches: 21, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
44 12 0.09
45 15 0.11
46 60 0.43
47 19 0.14
48 18 0.13
49 13 0.09
50 1 0.01
51 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAG
Found at i:59181666 original size:95 final size:92
Alignment explanation
Indices: 59181523--59181694 Score: 231
Period size: 95 Copynumber: 1.8 Consensus size: 92
59181513 TCTCGTAGCT
* * *
59181523 GATGCATGTCCTAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATGCACGTCCTAGACATG
1 GATGCATGTCCTAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCACGTCCCAGACATG
*
59181588 TTTTACACTAGCACTTGTCTCAATACC
66 TCTTACACTAGCACTTGTCTCAATACC
* *
59181615 GATGCCATGTCCTAGACATGGTCTTAGCACTGGCTCT-CATAAT-GTGGCCGATGCATGTCCCAG
1 GATG-CATGTCCTAGACAT-GTCTTA-CACTGGCT-TACAT-ATCGAGGCCGATGCACGTCCCAG
59181678 ACATGTCTTACACTAGC
61 ACATGTCTTACACTAGC
59181695 TCACACAAGT
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
92 4 0.06
93 14 0.20
94 6 0.09
95 43 0.62
96 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (92 bp):
GATGCATGTCCTAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCACGTCCCAGACATG
TCTTACACTAGCACTTGTCTCAATACC
Found at i:59184127 original size:13 final size:13
Alignment explanation
Indices: 59184109--59184160 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
59184099 TACTTTAAAC
59184109 ATTATTATAACTA
1 ATTATTATAACTA
*
59184122 ATTATTCA-AACAAAA
1 ATTATT-ATAAC--TA
59184137 CATTATTATAACTA
1 -ATTATTATAACTA
59184151 ATTATTATAA
1 ATTATTATAA
59184161 TATAATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
13 19 0.59
14 2 0.06
15 2 0.06
16 9 0.28
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (13 bp):
ATTATTATAACTA
Found at i:59188267 original size:26 final size:26
Alignment explanation
Indices: 59188229--59188286 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
59188219 TGTCTCTATT
*
59188229 TGCTGTTG-GGTGGTCTGTTTAGTTTC
1 TGCT-TTGTGGTGGTCTGTTTAGCTTC
*
59188255 TTCTTTGTGGTGGTCTGTTTAGCTTC
1 TGCTTTGTGGTGGTCTGTTTAGCTTC
59188281 TGCTTT
1 TGCTTT
59188287 TTACTTTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 3 0.11
26 25 0.89
ACGTcount: A:0.03, C:0.14, G:0.29, T:0.53
Consensus pattern (26 bp):
TGCTTTGTGGTGGTCTGTTTAGCTTC
Found at i:59188494 original size:74 final size:74
Alignment explanation
Indices: 59188356--59188495 Score: 199
Period size: 74 Copynumber: 1.9 Consensus size: 74
59188346 TCATTAAAAA
* * * * * *
59188356 AAACTTTATTCTTTTGTGACTAGTGACTTTGTCACAAACACTCAATATTTTTTGTGATATTTTTT
1 AAACTTTATTCTTTTGTGACTAGTAACTTTGTCACAAAAACTCAAAAATTTCTATGATATTTTTT
59188421 TTTTCATAG
66 TTTTCATAG
* *
59188430 AAACTTTATTCTTTTGTGACTATTAAGTTTGTCACAAAAACTCAAAAATTTCTATGATCATTTTT
1 AAACTTTATTCTTTTGTGACTAGTAACTTTGTCACAAAAACTCAAAAATTTCTATGAT-ATTTTT
59188495 T
65 T
59188496 GTCACAATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
74 50 0.88
75 7 0.12
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.48
Consensus pattern (74 bp):
AAACTTTATTCTTTTGTGACTAGTAACTTTGTCACAAAAACTCAAAAATTTCTATGATATTTTTT
TTTTCATAG
Found at i:59192761 original size:37 final size:37
Alignment explanation
Indices: 59192711--59192789 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
59192701 TTATTACGAA
* * *
59192711 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
59192748 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
59192785 GTCTT
1 GTCTT
59192790 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:59192986 original size:47 final size:47
Alignment explanation
Indices: 59192908--59193259 Score: 542
Period size: 47 Copynumber: 7.3 Consensus size: 47
59192898 CCCTTCGGGA
* * * * * *
59192908 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59192955 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59193002 CTTATCACATATATACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--C------ACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59193057 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59193104 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59193153 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59193200 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59193247 CTTATCACATATA
1 CTTATCACATATA
59193260 CATTCACGTA
Statistics
Matches: 285, Mismatches: 10, Indels: 20
0.90 0.03 0.06
Matches are distributed among these distances:
47 190 0.67
49 48 0.17
53 1 0.00
55 46 0.16
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59193171 original size:96 final size:96
Alignment explanation
Indices: 59192908--59193259 Score: 559
Period size: 96 Copynumber: 3.6 Consensus size: 96
59192898 CCCTTCGGGA
* * * * * * *
59192908 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59192971 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
59193002 CTTATCACATATATACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 CTTATCAC----AT--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
59193067 ATATACACTTTCACATTCATCACATCGGCCATTAGGC
60 ATATACACTTTCACATTCATCACATCGGCCATTAGGC
59193104 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59193169 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
59193200 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
59193260 CATTCACGTA
Statistics
Matches: 243, Mismatches: 7, Indels: 16
0.91 0.03 0.06
Matches are distributed among these distances:
94 60 0.25
96 94 0.39
98 4 0.02
101 1 0.00
102 84 0.35
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59193214 original size:143 final size:145
Alignment explanation
Indices: 59192908--59193259 Score: 550
Period size: 143 Copynumber: 2.4 Consensus size: 145
59192898 CCCTTCGGGA
* * * * * * * *
59192908 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
59192971 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATATATACACTTTCACAT
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-AC----A-ACATATATACACTTTCACAT
59193036 TCATCACATCGGCCATTAGGC
125 TCATCACATCGGCCATTAGGC
59193057 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
59193122 ACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-C-ACATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATACAACATATATACACTTTCACATTCATCA
59193185 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
59193200 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
59193260 CATTCACGTA
Statistics
Matches: 193, Mismatches: 8, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
143 101 0.52
149 48 0.25
151 44 0.23
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (145 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATACAACATATATACACTTTCACATTCATCA
CATCGGCCATTAGGC
Found at i:59196204 original size:40 final size:40
Alignment explanation
Indices: 59196160--59196596 Score: 658
Period size: 40 Copynumber: 10.8 Consensus size: 40
59196150 CCAGCATGAT
* * * *
59196160 TGCTCTTCGGGACCTAACCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
59196200 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
59196240 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
59196280 TGCTCTTCGGAACAGGATTTAACCTGGATATATCACTAGCACGAA
1 TGCTCTTC-G----GGACTTAGCCCGGATATATCACTAGCACGAA
* *
59196325 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
59196365 TGCTCTTCGGGACTTAGCCCCGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
59196405 TGCTCTTCGGGACTTAGCCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
59196445 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
59196485 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
59196525 TGCTCTTTGGGACTTAGCCCAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
59196565 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
59196597 CTCAATTCTC
Statistics
Matches: 366, Mismatches: 26, Indels: 10
0.91 0.06 0.02
Matches are distributed among these distances:
40 329 0.90
41 1 0.00
44 1 0.00
45 35 0.10
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:59197860 original size:37 final size:37
Alignment explanation
Indices: 59197810--59197888 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
59197800 TTATTACGAA
* * *
59197810 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
59197847 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
59197884 GTCTT
1 GTCTT
59197889 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:59198078 original size:47 final size:47
Alignment explanation
Indices: 59198017--59198256 Score: 471
Period size: 47 Copynumber: 5.1 Consensus size: 47
59198007 CTTATCAGAT
59198017 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
59198064 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
59198111 ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
59198158 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
59198205 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
59198252 ATATA
1 ATATA
59198257 CTTTCACGTA
Statistics
Matches: 191, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 191 1.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:59200543 original size:44 final size:44
Alignment explanation
Indices: 59200493--59200777 Score: 390
Period size: 44 Copynumber: 6.5 Consensus size: 44
59200483 TTTCTTATTC
* *
59200493 TTAATTTAAAACACGTTAAATTATAATACAATATTCATGCATAT
1 TTAATTTAAAACACATTAAATTATAATACAATATACATGCATAT
* *
59200537 TTAATTTAAAACACATTAAATTATAATATAATATGCATGCATAT
1 TTAATTTAAAACACATTAAATTATAATACAATATACATGCATAT
* * * * *
59200581 TTATTTTGAAACACATTAAATTATATTAGAATAGACATGCATAT
1 TTAATTTAAAACACATTAAATTATAATACAATATACATGCATAT
* * *
59200625 TTAATTTAAAACACATTAAATTCTAATAGAATATACATGCAAAT
1 TTAATTTAAAACACATTAAATTATAATACAATATACATGCATAT
** * *
59200669 TTAATTTAAAACATGTTAAATTATAATACAATAGACATACATAT
1 TTAATTTAAAACACATTAAATTATAATACAATATACATGCATAT
* *
59200713 TTATTTTAAAACACATTAAATTATAATACAATATACATACATAT
1 TTAATTTAAAACACATTAAATTATAATACAATATACATGCATAT
* *
59200757 TTATTTTGAAACACATTAAAT
1 TTAATTTAAAACACATTAAAT
59200778 ATATTAATTT
Statistics
Matches: 214, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 214 1.00
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (44 bp):
TTAATTTAAAACACATTAAATTATAATACAATATACATGCATAT
Found at i:59201204 original size:21 final size:21
Alignment explanation
Indices: 59201166--59201205 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
59201156 AATGAGAGAA
*
59201166 AAATTAATATGAATAAAATGT
1 AAATTAAAATGAATAAAATGT
59201187 AAATTAAAATGGAA-AAAAT
1 AAATTAAAAT-GAATAAAAT
59201206 ATTATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (21 bp):
AAATTAAAATGAATAAAATGT
Found at i:59201277 original size:24 final size:24
Alignment explanation
Indices: 59201193--59201276 Score: 75
Period size: 24 Copynumber: 3.4 Consensus size: 24
59201183 ATGTAAATTA
*
59201193 AAATGGAAAAAATATTATTTAAATG
1 AAATGG-AAAAATATAATTTAAATG
59201218 AAATGAGAAGAAAT-TAAATTTAAATCG
1 AAATG-GAA-AAATAT-AATTTAAAT-G
*
59201245 AAA--AAAAATATATAATTTAAATG
1 AAATGGAAAA-ATATAATTTAAATG
59201268 AAATGGAAA
1 AAATGGAAA
59201277 TGGAAATGGA
Statistics
Matches: 48, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
23 6 0.12
24 13 0.27
25 12 0.25
26 13 0.27
27 4 0.08
ACGTcount: A:0.60, C:0.01, G:0.12, T:0.27
Consensus pattern (24 bp):
AAATGGAAAAATATAATTTAAATG
Found at i:59201278 original size:6 final size:6
Alignment explanation
Indices: 59201263--59201295 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
59201253 TATATAATTT
59201263 AAAT-G AAATGG AAATGG AAATGG AAATGG AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
59201296 AAAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.55, C:0.00, G:0.27, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:59201702 original size:5 final size:5
Alignment explanation
Indices: 59201692--59201730 Score: 51
Period size: 5 Copynumber: 7.2 Consensus size: 5
59201682 AAAAAAAATT
59201692 AATGA AATGA AATGTTA AATGA ATATGA AATGA AATGA A
1 AATGA AATGA AATG--A AATGA A-ATGA AATGA AATGA A
59201731 TTTGTAATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 21 0.68
6 5 0.16
7 5 0.16
ACGTcount: A:0.56, C:0.00, G:0.18, T:0.26
Consensus pattern (5 bp):
AATGA
Found at i:59201723 original size:28 final size:29
Alignment explanation
Indices: 59201692--59201769 Score: 83
Period size: 27 Copynumber: 2.8 Consensus size: 29
59201682 AAAAAAAATT
59201692 AATGAAATGAAATGTT-AAATGAATATGA
1 AATGAAATGAAATGTTCAAATGAATATGA
** * *
59201720 AATGAAATG-AAT-TTGTAATGATTATGG
1 AATGAAATGAAATGTTCAAATGAATATGA
*
59201747 AATGGAATGAAA-GTTCAAATGAA
1 AATGAAATGAAATGTTCAAATGAA
59201770 AATAAATTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
26 2 0.05
27 20 0.50
28 18 0.45
ACGTcount: A:0.49, C:0.01, G:0.21, T:0.29
Consensus pattern (29 bp):
AATGAAATGAAATGTTCAAATGAATATGA
Found at i:59201740 original size:16 final size:16
Alignment explanation
Indices: 59201692--59201731 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
59201682 AAAAAAAATT
59201692 AATGAA-ATGAAATGTTA
1 AATGAATATGAAATG--A
59201709 AATGAATATGAAATGA
1 AATGAATATGAAATGA
59201725 AATGAAT
1 AATGAAT
59201732 TTGTAATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.36
17 6 0.27
18 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.28
Consensus pattern (16 bp):
AATGAATATGAAATGA
Found at i:59201805 original size:18 final size:17
Alignment explanation
Indices: 59201784--59201817 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
59201774 AATTATAAAT
*
59201784 TGAAGTGAAAACAAAAAC
1 TGAAATGAAAA-AAAAAC
59201802 TGAAATGAAAAAAAAA
1 TGAAATGAAAAAAAAA
59201818 TTGAGCTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.68, C:0.06, G:0.15, T:0.12
Consensus pattern (17 bp):
TGAAATGAAAAAAAAAC
Found at i:59201883 original size:22 final size:22
Alignment explanation
Indices: 59201858--59201899 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
59201848 TTGAAATGAG
*
59201858 AAAAAAAAATTTTAATGAAAAA
1 AAAAAAAAATTTAAATGAAAAA
**
59201880 AAAAACTAATTTAAATGAAA
1 AAAAAAAAATTTAAATGAAA
59201900 TGGAAATAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (22 bp):
AAAAAAAAATTTAAATGAAAAA
Found at i:59201900 original size:5 final size:6
Alignment explanation
Indices: 59201892--59201939 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
59201882 AAACTAATTT
*
59201892 AAAT-G AAATGG AAATAG AAATGG -AAT-G AAATGG AAATGG AAAT-G
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG
59201936 AAAT
1 AAAT
59201940 AAAAAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 1 0.03
5 15 0.39
6 22 0.58
ACGTcount: A:0.56, C:0.00, G:0.25, T:0.19
Consensus pattern (6 bp):
AAATGG
Found at i:59201918 original size:22 final size:22
Alignment explanation
Indices: 59201893--59201935 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
59201883 AACTAATTTA
59201893 AATGAAATGGAAATAGAAATGG
1 AATGAAATGGAAATAGAAATGG
*
59201915 AATGAAATGGAAATGGAAATG
1 AATGAAATGGAAATAGAAATG
59201936 AAATAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.28, T:0.19
Consensus pattern (22 bp):
AATGAAATGGAAATAGAAATGG
Found at i:59204735 original size:89 final size:87
Alignment explanation
Indices: 59204512--59204754 Score: 254
Period size: 89 Copynumber: 2.7 Consensus size: 87
59204502 AGTACACAAC
* * *
59204512 AAATTAAATTTATACATACAATAAAATACAAACATTCTAGAATATTAATACACAAAAATATAAAA
1 AAATTAAATTTAAACATACAAAAAAATACAAACATTCTAGAA-ATTAATACACGAAAATATAAAA
59204577 TTCAAACAAAAATAACACGCACT
65 TTCAAACAAAAATAACACGCACT
* * * * * ** * * *
59204600 AGATTAAATTTAAACACACAAGAAACTACAAATAGATGGGTA-AAATTAATAAACGAAAATTTTA
1 AAATTAAATTTAAACATACAAAAAAATAC-AA-ACAT-TCTAGAAATTAATACACGAAAATATAA
* * * *
59204664 AATTCAAACTACATATAATACGGACT
63 AATTCAAAC-AAAAATAACACGCACT
* *
59204690 AAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAA
1 AAATTAAATTTAAACATACAAAAAAATACAAACATTCT-AGAAATTAATACACGAAAATATAAAA
59204755 ATGAAACATT
Statistics
Matches: 121, Mismatches: 28, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
87 1 0.01
88 28 0.23
89 50 0.41
90 40 0.33
91 2 0.02
ACGTcount: A:0.57, C:0.13, G:0.06, T:0.25
Consensus pattern (87 bp):
AAATTAAATTTAAACATACAAAAAAATACAAACATTCTAGAAATTAATACACGAAAATATAAAAT
TCAAACAAAAATAACACGCACT
Found at i:59209266 original size:29 final size:29
Alignment explanation
Indices: 59209233--59209302 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
59209223 AATTAATTAA
59209233 ATTTTAAAAT-ATTTTTTATAATTTTAAAT
1 ATTTTAAAATAATTTTTTA-AATTTTAAAT
* *
59209262 GTTTTAAAATAATTTTTTAATTTTTAAAT
1 ATTTTAAAATAATTTTTTAAATTTTAAAT
59209291 ATTTT-AAATAAT
1 ATTTTAAAATAAT
59209303 CAATTGTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.19
29 22 0.59
30 8 0.22
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (29 bp):
ATTTTAAAATAATTTTTTAAATTTTAAAT
Found at i:59209302 original size:20 final size:19
Alignment explanation
Indices: 59209232--59209300 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
59209222 CAATTAATTA
**
59209232 AATTTTAAAATATTTTTTAT
1 AATTTT-AAATATTTTAAAT
*
59209252 AATTTTAAATGTTTTAAAAT
1 AATTTTAAATATTTT-AAAT
*
59209272 AATTTTTTAAT-TTTTAAAT
1 AA-TTTTAAATATTTTAAAT
59209291 -ATTTTAAATA
1 AATTTTAAATA
59209301 ATCAATTGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
17 7 0.17
18 1 0.02
19 12 0.29
20 14 0.34
21 7 0.17
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (19 bp):
AATTTTAAATATTTTAAAT
Found at i:59211985 original size:40 final size:40
Alignment explanation
Indices: 59211920--59212064 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
59211910 GGTGTCAAAC
* * *
59211920 GCCACTATAAATAGAG-GTTAGCGGCGCTTTTTGAAAAAT
1 GCCACTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAAT
59211959 GCCACTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAAT
1 GCCACTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAAT
* * * * *
59211999 GCCGCTATAGATCAAGCATTAGCGGCGTTTTTTAAAAAAC
1 GCCACTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAAT
* * * *
59212039 ACCGCTATAGGTCGACCATTAGCGGC
1 GCCACTATAGATCGAGCATTAGCGGC
59212065 TGAAAAACGC
Statistics
Matches: 93, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 14 0.15
40 79 0.85
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCACTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAAT
Found at i:59213564 original size:7 final size:8
Alignment explanation
Indices: 59213526--59213588 Score: 81
Period size: 8 Copynumber: 7.4 Consensus size: 8
59213516 TTTATATGTT
59213526 AATTTAAA
1 AATTTAAA
59213534 AATTATAAA
1 AATT-TAAA
59213543 AATCTTCAAAA
1 AAT-TT--AAA
*
59213554 AAATTAAA
1 AATTTAAA
59213562 AATTTAAA
1 AATTTAAA
59213570 AATTTAAA
1 AATTTAAA
59213578 AATTTAAA
1 AATTTAAA
59213586 AAT
1 AAT
59213589 AAAAAACTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
8 33 0.67
9 8 0.16
10 3 0.06
11 5 0.10
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (8 bp):
AATTTAAA
Found at i:59218761 original size:42 final size:43
Alignment explanation
Indices: 59218672--59218822 Score: 128
Period size: 42 Copynumber: 3.6 Consensus size: 43
59218662 ATAATTTTTT
* * * *
59218672 TAAAGGTCATGTTCTTTAGTGGCGTTTGTGGCAAAAGCGTCGT
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGCAAAAGCGCCGC
* *
59218715 TAAAGGTC-TGTTCTATAGCGGCGTTTGTGAG-AACAGTGCCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTG-GCAAAAGCGCCGC
* * ** * * * * *
59218757 TAAAGGTCATGGTCTTTAGTTGCATTTTTGG-GAAAGCACCGT
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGCAAAAGCGCCGC
*
59218799 TAAAGGTCATGTTCTTTAGCGGCG
1 TAAAGGTCATGTTCTATAGCGGCG
59218823 ATTTTTTTCA
Statistics
Matches: 85, Mismatches: 21, Indels: 5
0.77 0.19 0.05
Matches are distributed among these distances:
42 61 0.72
43 24 0.28
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (43 bp):
TAAAGGTCATGTTCTATAGCGGCGTTTGTGGCAAAAGCGCCGC
Found at i:59226091 original size:15 final size:15
Alignment explanation
Indices: 59226071--59226100 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59226061 TTTCACTATC
*
59226071 ATGTCTTTTGTATTT
1 ATGTCTTTTATATTT
59226086 ATGTCTTTTATATTT
1 ATGTCTTTTATATTT
59226101 TGCATGCATA
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:0.17, C:0.07, G:0.10, T:0.67
Consensus pattern (15 bp):
ATGTCTTTTATATTT
Found at i:59227199 original size:13 final size:13
Alignment explanation
Indices: 59227181--59227205 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59227171 GAATTGTTCA
59227181 ATTAAAGAATTTG
1 ATTAAAGAATTTG
59227194 ATTAAAGAATTT
1 ATTAAAGAATTT
59227206 TCTTGAAAAA
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:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
ATTAAAGAATTTG
Found at i:59246053 original size:40 final size:40
Alignment explanation
Indices: 59245873--59246093 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
59245863 CTCGTTCAAG
* * * * *
59245873 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* *
59245912 TGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
59245952 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* * *
59245992 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* ** * * * *
59246032 GGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-AA
1 TGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACGAA
* *
59246072 AGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
59246094 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.22
40 115 0.73
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
Found at i:59246102 original size:41 final size:41
Alignment explanation
Indices: 59246025--59246102 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
59246015 TTAGTATCTC
* * *
59246025 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
59246066 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
59246103 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:59253916 original size:40 final size:40
Alignment explanation
Indices: 59253734--59253956 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
59253724 TCCTCGTTCA
* * * * *
59253734 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
59253773 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
59253813 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
59253853 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
59253893 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
59253933 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
59253957 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:59253965 original size:41 final size:41
Alignment explanation
Indices: 59253888--59253965 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
59253878 TTAGTATCTC
* * *
59253888 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
59253929 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
59253966 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:59268311 original size:40 final size:40
Alignment explanation
Indices: 59268259--59268534 Score: 453
Period size: 40 Copynumber: 6.8 Consensus size: 40
59268249 ATTACCACAA
* * ** *
59268259 GCACAATTGCCTTTGGGTCTTAGCCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
59268299 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
59268339 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
59268379 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
59268419 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGG--ATATATCAACTC
59268461 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
59268501 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
59268535 ATACAAATGC
Statistics
Matches: 221, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
40 181 0.82
42 40 0.18
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:59275474 original size:40 final size:40
Alignment explanation
Indices: 59275369--59275538 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
59275359 TCCTCGTTCA
* * * ** *
59275369 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
59275408 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* *
59275448 AATGCCTTCGGGACTTAACTCAGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * *
59275488 AATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
59275528 AAGGCCTTCGG
1 AATGCCTTCGG
59275539 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 34 0.29
40 82 0.71
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:59275600 original size:41 final size:41
Alignment explanation
Indices: 59275523--59275600 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
59275513 TTAATATCTC
* * *
59275523 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
59275564 GCACAAA-GCCTTCGAGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTCG-GATCTTAGCCCGGACA-CATTCA
59275601 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 18 0.56
41 14 0.44
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:59283335 original size:40 final size:39
Alignment explanation
Indices: 59283246--59283415 Score: 204
Period size: 39 Copynumber: 4.4 Consensus size: 39
59283236 CTCGTTCAAG
* * * * *
59283246 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAA
*
59283285 TGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AA
*
59283325 TGCCTTCGGGACTTAACCCGGATTTAATATCTCGCACAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAA
*
59283364 TGCCTTC-GGATCTTAACCCGGA-TT-ATATCTCGCACAAA
1 TGCCTTCGGGA-CTTAACCCGGATTTAATAACTCGCAC-AA
*
59283402 GGCCTTC-GGACTTA
1 TGCCTTCGGGACTTA
59283416 GCCGGATATT
Statistics
Matches: 119, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
37 15 0.13
38 16 0.13
39 51 0.43
40 37 0.31
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (39 bp):
TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAA
Found at i:59295274 original size:19 final size:19
Alignment explanation
Indices: 59295247--59295297 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
59295237 TTTGGAGAGT
* *
59295247 CACACGCCCGTGTGGCTTT
1 CACACGCCCGTGTAGCTTG
* *
59295266 CATACGCCCATGTAGCTTG
1 CACACGCCCGTGTAGCTTG
*
59295285 GACACGCCCGTGT
1 CACACGCCCGTGT
59295298 CTTCAGCCCG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.16, C:0.35, G:0.25, T:0.24
Consensus pattern (19 bp):
CACACGCCCGTGTAGCTTG
Found at i:59297212 original size:48 final size:48
Alignment explanation
Indices: 59297024--59297283 Score: 280
Period size: 48 Copynumber: 5.4 Consensus size: 48
59297014 GTCATTCCCC
* * * *
59297024 AGACATGGTCTTACACTGAC-C-CATACATCAAGTC-GATGCCATGTCCC
1 AGACATGGTCTTACACTGACTCACAT-C-TCGAGGCTTATGCCATGTCCT
* * ** * *
59297071 AAACATGGTCTTACACTGACTATCACA-ATCGAGGCCGACGCCATGTCCC
1 AGACATGGTCTTACACTGAC--TCACATCTCGAGGCTTATGCCATGTCCT
* * *
59297120 AGACATGGTCTTACACTGGCTCTCACATATCCG-TG-TTGATGCCATGTCCT
1 AGACATGGTCTTACACT-G-ACTCACATCT-CGAGGCTT-ATGCCATGTCCT
59297170 AGACATGGTCTTACACTGACTCACATCTCGAGGCTTATGCCATGTCCT
1 AGACATGGTCTTACACTGACTCACATCTCGAGGCTTATGCCATGTCCT
59297218 AGACATGGTCTTACACTGACTCACATCTCGAGGCTTATGCCATGTCCT
1 AGACATGGTCTTACACTGACTCACATCTCGAGGCTTATGCCATGTCCT
*
59297266 AGACACGGTCTTACACTG
1 AGACATGGTCTTACACTG
59297284 GCTCTCATAA
Statistics
Matches: 185, Mismatches: 16, Indels: 23
0.83 0.07 0.10
Matches are distributed among these distances:
47 21 0.11
48 91 0.49
49 36 0.19
50 32 0.17
51 5 0.03
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
AGACATGGTCTTACACTGACTCACATCTCGAGGCTTATGCCATGTCCT
Found at i:59297276 original size:146 final size:145
Alignment explanation
Indices: 59297024--59297290 Score: 369
Period size: 146 Copynumber: 1.8 Consensus size: 145
59297014 GTCATTCCCC
*
59297024 AGACATGGTCTTACACTGACCCATACATCAAGTCGATGCCATGTCCCAAACATGGTCTTACACTG
1 AGACATGGTCTTACACTGACCCATACATCAAGGCGATGCCATGTCCCAAACATGGTCTTACACTG
*
59297089 ACTATCACAATCGAGGCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCCGT
66 AC-ATCACAATCGAGGCCGACGCCATGTCCCAGACACGGTCTTACACTGGCTCTCACATATCCGT
59297154 GTTGATGCCATGTCCT
130 GTTGATGCCATGTCCT
* * * *
59297170 AGACATGGTCTTACACTGACTCACAT-C-TCGAGGCTTATGCCATGTCCTAGACATGGTCTTACA
1 AGACATGGTCTTACACTGAC-C-CATACATCAAGGC-GATGCCATGTCCCAAACATGGTCTTACA
* ** * *
59297233 CTGAC-TCACATCTCGAGGCTTATGCCATGTCCTAGACACGGTCTTACACTGGCTCTCA
63 CTGACATCACA-ATCGAGGCCGACGCCATGTCCCAGACACGGTCTTACACTGGCTCTCA
59297291 TAATGTGGCC
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
145 5 0.05
146 66 0.62
147 32 0.30
148 3 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (145 bp):
AGACATGGTCTTACACTGACCCATACATCAAGGCGATGCCATGTCCCAAACATGGTCTTACACTG
ACATCACAATCGAGGCCGACGCCATGTCCCAGACACGGTCTTACACTGGCTCTCACATATCCGTG
TTGATGCCATGTCCT
Found at i:59305924 original size:231 final size:229
Alignment explanation
Indices: 59305523--59305963 Score: 548
Period size: 231 Copynumber: 1.9 Consensus size: 229
59305513 AAGAATGCCC
* *
59305523 TTTCATAATTAAAATAAGTAATATTATTTGAGGATAGTTTAGTCTTATCACTTTAAGAAAAACAA
1 TTTCATAATTAAAATAAGTAATACTATTTAAGGATAGTTTAGTCTTATCACTTTAAGAAAAACAA
* * **
59305588 AAAAAAATGCATAAGGTGGGATTTAAACCCACACCAATTGCAATAATAAAACATTTATTTTACCA
66 AAAAAAATGCATAAGATGGGATTTAAACCCACACCAATTACAATAATAAAACATTTATAATACCA
* * * * * * **
59305653 TTGAGTTAAAACTTTATTTTTATATTTTTACACATTTTAATTTTATTATGCACATTTTATTACCT
131 TTGACTAAAAACTTTATTTTTAAATTTTTACACATTTTAATCTTACTATACACACCTTATTACCT
59305718 CCATCACTTGTATATTTATCTATACTTTCCTTTT
196 CCATCACTTGTATATTTATCTATACTTTCCTTTT
* * *
59305752 TTTCATAATTCAAATAAGTAATACTGTTTAAGGGTA-TCTTAGTCTCT-TCACTTTAAGAAAAAC
1 TTTCATAATTAAAATAAGTAATACTATTTAAGGATAGT-TTAGTCT-TATCACTTTAAGAAAAAC
* * * ** * * *
59305815 TAATAAAAATATGCATATA-ATGGGATTTGAACCTACACTGATTACATTGATAAAACTTTTATAA
64 -AA-AAAAAAATGCATA-AGATGGGATTTAAACCCACACCAATTACAATAATAAAACATTTATAA
*
59305879 TACCATTGAACTAAAAACTTTA-TTTTAAATTTTTACACATTTTAATCTTACTATATACACCTTA
126 TACCATTG-ACTAAAAACTTTATTTTTAAATTTTTACACATTTTAATCTTACTATACACACCTTA
* *
59305943 TTACTTCCATCAGTTGTATAT
190 TTACCTCCATCACTTGTATAT
59305964 CTATATTATT
Statistics
Matches: 178, Mismatches: 28, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
228 1 0.01
229 54 0.30
230 3 0.02
231 108 0.61
232 12 0.07
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (229 bp):
TTTCATAATTAAAATAAGTAATACTATTTAAGGATAGTTTAGTCTTATCACTTTAAGAAAAACAA
AAAAAAATGCATAAGATGGGATTTAAACCCACACCAATTACAATAATAAAACATTTATAATACCA
TTGACTAAAAACTTTATTTTTAAATTTTTACACATTTTAATCTTACTATACACACCTTATTACCT
CCATCACTTGTATATTTATCTATACTTTCCTTTT
Found at i:59314825 original size:13 final size:13
Alignment explanation
Indices: 59314809--59314834 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59314799 ATTATATACA
59314809 TATATAAAAAAAT
1 TATATAAAAAAAT
59314822 TATATAAAAAAAT
1 TATATAAAAAAAT
59314835 AATACAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TATATAAAAAAAT
Found at i:59318068 original size:37 final size:37
Alignment explanation
Indices: 59318026--59318098 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
59318016 ATTTGGCAAG
*
59318026 ATCTTAGCGAGCGATTCAACAAGATTGGTAGTTCAAT
1 ATCTTAGCGAGCGATTCAACAAGATTGATAGTTCAAT
*
59318063 ATCTTAGCGAGCGATTCAACAAGATTGATGGTTCAA
1 ATCTTAGCGAGCGATTCAACAAGATTGATAGTTCAA
59318099 GATTCTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (37 bp):
ATCTTAGCGAGCGATTCAACAAGATTGATAGTTCAAT
Found at i:59319418 original size:19 final size:21
Alignment explanation
Indices: 59319379--59319418 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59319369 TAATGTTAAA
*
59319379 ATATATATAATATATACATAT
1 ATATATATAATATATAAATAT
59319400 ATATATATAA-A-ATAAATAT
1 ATATATATAATATATAAATAT
59319419 TGAAAAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 10 0.56
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATATATAATATATAAATAT
Found at i:59319767 original size:3 final size:3
Alignment explanation
Indices: 59319708--59319758 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
59319698 AAGTACCTAT
* *
59319708 TAA TAA TAT TATA TAA -ATA TAA TAA TAA TAA TAA TAA TAA TAA CAA
1 TAA TAA TAA TA-A TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
59319754 TAA TA
1 TAA TA
59319759 GCAATAATAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 1 0.02
3 37 0.90
4 3 0.07
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:59319952 original size:3 final size:3
Alignment explanation
Indices: 59319946--59320189 Score: 66
Period size: 3 Copynumber: 79.7 Consensus size: 3
59319936 ATAGTAAATG
* * *
59319946 TAA TAA TAA TAA TAA TAT TAA GT-A TAG T-A TAAA TAA TATG TACA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TA-A TA-A TAA
* * *
59319993 CAG TAA TAA TAA GTAA CAA TAA TAA TAA TAA TAA T-A TAGA -AA TTCAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA -T-AA
* *
59320040 -AA -AA GTAA -ACA TAA T-A TAA TGA TAT TAA -AA TAA -AA T-A TACA
1 TAA TAA -TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * *
59320081 CTAA TAT TTA TAAA TAA TAA TAG TAA -ATA TAA TAA TAA TAT TAA GT-A
1 -TAA TAA TAA T-AA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA -TAA
* * * * *
59320128 TAG T-A TAAA TAA TATG TACA TAA CAG TAA TAA TAA TAA GTAA CAA TAA
1 TAA TAA T-AA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA -TAA TAA TAA
59320176 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
59320190 TAGAAATTCA
Statistics
Matches: 175, Mismatches: 36, Indels: 60
0.65 0.13 0.22
Matches are distributed among these distances:
2 21 0.12
3 121 0.69
4 29 0.17
5 4 0.02
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:59319980 original size:24 final size:24
Alignment explanation
Indices: 59319925--59319983 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
59319915 CAGTAATATT
*
59319925 TATAAATAATAATAGTAAATGTAA
1 TATAAATAATAATAGTAAATATAA
* * *
59319949 TA-ATAATAATAATATTAAGTATAG
1 TATA-AATAATAATAGTAAATATAA
59319973 TATAAATAATA
1 TATAAATAATA
59319984 TGTACATAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.03
24 27 0.93
25 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (24 bp):
TATAAATAATAATAGTAAATATAA
Found at i:59320015 original size:16 final size:16
Alignment explanation
Indices: 59319990--59320020 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59319980 AATATGTACA
*
59319990 TAACAGTAATAATAAG
1 TAACAATAATAATAAG
59320006 TAACAATAATAATAA
1 TAACAATAATAATAA
59320021 TAATAATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.26
Consensus pattern (16 bp):
TAACAATAATAATAAG
Found at i:59320156 original size:158 final size:163
Alignment explanation
Indices: 59319907--59320238 Score: 557
Period size: 158 Copynumber: 2.0 Consensus size: 163
59319897 ATATATAATA
*
59319907 AAAATATACAGTAATATTTATAAATAATAATAGTAAATGTAATAATAATAATAATATTAAGTATA
1 AAAATATACACTAATATTTATAAATAATAATAGT-AA--TAATAATAATAATAATATTAAGTATA
59319972 GTATAAATAATATGTACATAACAG-TAATAATAAGTAACAATAATAATAATAATAATATAGAAAT
63 GTATAAATAATATGTACATAACAGATAATAATAAGTAACAATAATAATAATAATAATATAGAAAT
* *
59320036 TC-AAAAAAGTAAACATAATATAATGATATTAAAAT
128 TCAAAAAAACTAAACATAATATAATAATATTAAAAT
59320071 AAAATATACACTAATATTTATAAATAATAATAGT-A-AAT-ATAATAATAATATTAAGTATAGTA
1 AAAATATACACTAATATTTATAAATAATAATAGTAATAATAATAATAATAATATTAAGTATAGTA
59320133 TAAATAATATGTACATAACAGTAATAATAATAAGTAACAATAATAATAATAATAATATAGAAATT
66 TAAATAATATGTACATAACAG--ATAATAATAAGTAACAATAATAATAATAATAATATAGAAATT
59320198 CAAAAAAACTAAACATAATATAATAATATTAAAAT
129 CAAAAAAACTAAACATAATATAATAATATTAAAAT
59320233 AAAATA
1 AAAATA
59320239 ATTTAAAAAA
Statistics
Matches: 161, Mismatches: 3, Indels: 10
0.93 0.02 0.06
Matches are distributed among these distances:
158 45 0.28
159 3 0.02
161 42 0.26
162 38 0.24
164 33 0.20
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.31
Consensus pattern (163 bp):
AAAATATACACTAATATTTATAAATAATAATAGTAATAATAATAATAATAATATTAAGTATAGTA
TAAATAATATGTACATAACAGATAATAATAAGTAACAATAATAATAATAATAATATAGAAATTCA
AAAAAACTAAACATAATATAATAATATTAAAAT
Found at i:59320176 original size:19 final size:19
Alignment explanation
Indices: 59320148--59320184 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
59320138 AATATGTACA
*
59320148 TAACAGTAATAATAATAAG
1 TAACAATAATAATAATAAG
59320167 TAACAATAATAATAATAA
1 TAACAATAATAATAATAA
59320185 TAATATAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (19 bp):
TAACAATAATAATAATAAG
Found at i:59320247 original size:16 final size:16
Alignment explanation
Indices: 59320214--59320246 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
59320204 AACTAAACAT
*
59320214 AATATAATAATATTAA
1 AATAAAATAATATTAA
59320230 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
59320245 AA
1 AA
59320247 AATACTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:59320325 original size:161 final size:159
Alignment explanation
Indices: 59319909--59320234 Score: 460
Period size: 164 Copynumber: 2.0 Consensus size: 159
59319899 ATATAATAAA
* * *
59319909 AATATACAGTAATATTTATAAATAATAATAGTAAATGTAATAATAATAATAATATTAAGTATAGT
1 AATATACACTAATATTTATAAATAATAATAGTAAATATAATAATAATATTAA-A-TAA--A-A-T
*
59319974 ATAAATAATATGTACATAACAG---TAATAATAAGTAACAATAATAATAATAATAATATAGAAAT
60 ATAAATAATATATACATAACAGTAATAATAATAAGTAACAATAATAATAATAATAATATAGAAAT
* *
59320036 TCAAAAAAGTAAACATAATATAATGATATTAAAAT
125 TCAAAAAACTAAACATAATATAATAATATTAAAAT
* * *
59320071 AAAATATACACTAATATTTATAAATAATAATAGTAAATATAATAATAATATTAAGTATAGTATAA
1 --AATATACACTAATATTTATAAATAATAATAGTAAATATAATAATAATATTAAATAAAATATAA
*
59320136 ATAATATGTACATAACAGTAATAATAATAAGTAACAATAATAATAATAATAATATAGAAATTCAA
64 ATAATATATACATAACAGTAATAATAATAAGTAACAATAATAATAATAATAATATAGAAATTC-A
59320201 AAAAACTAAACATAATATAATAATATTAAAAT
128 AAAAACTAAACATAATATAATAATATTAAAAT
59320233 AA
1 AA
59320235 AATAATTTAA
Statistics
Matches: 150, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
158 23 0.15
160 3 0.02
161 42 0.28
162 33 0.22
164 49 0.33
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.32
Consensus pattern (159 bp):
AATATACACTAATATTTATAAATAATAATAGTAAATATAATAATAATATTAAATAAAATATAAAT
AATATATACATAACAGTAATAATAATAAGTAACAATAATAATAATAATAATATAGAAATTCAAAA
AACTAAACATAATATAATAATATTAAAAT
Found at i:59320886 original size:23 final size:22
Alignment explanation
Indices: 59320850--59320895 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
59320840 TTCTGGCCAT
59320850 GGACCGGTCACCGGTCTGATCGCC
1 GGACCGGTCACCGGTC-G-TCGCC
*
59320874 GGACC-GTCGCCGGTCGTCGCC
1 GGACCGGTCACCGGTCGTCGCC
59320895 G
1 G
59320896 CCGGCCACCG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 1 0.05
23 9 0.43
24 5 0.24
ACGTcount: A:0.09, C:0.39, G:0.37, T:0.15
Consensus pattern (22 bp):
GGACCGGTCACCGGTCGTCGCC
Found at i:59322497 original size:148 final size:146
Alignment explanation
Indices: 59322229--59323286 Score: 983
Period size: 148 Copynumber: 7.0 Consensus size: 146
59322219 ATTGGAAAGT
* * *
59322229 AGAAATTGAAAATACCTCAGCGTGCCCTGACGCTCAACTCACCTCTTGCAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * * ** ** *
59322294 TGAAAAATAGAAATTGAAATTACCTCAGCACGTCTTGAGGCTCAACTCACCTCTCG-TAATGAGT
66 TTAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAAATGAGT
59322358 TGATTTTTTTGAAAGAC
131 TGATTTTTTTGAAA-AC
* * * ** *
59322375 AAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT
* * *
59322440 TTTTTAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
64 TTTTAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAA-ATG
*
59322505 AGTTGAATTTTGAAGCATAAATTAAGAAAC
128 AGTTG-ATTTT------T---TTGA-AAAC
* ** * *
59322535 AAAAATTGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGC-A-ATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * *
59322598 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TT-AAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAA-ATGA
59322663 GTTGATTTTTTTGAAAAC
129 GTTGATTTTTTTGAAAAC
* * * **
59322681 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
1 AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A-TT
* ** * ** **
59322746 TGAAACATAAATTAAGAAACAAAAATTGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTC
64 T------T---TTAA-AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTC
* *
59322811 TCGCATTATGAGTTGATTTTTTTTTGAAAGAT
119 TCGCA-AATGAGTTGA--TTTTTTTGAAA-AC
* *
59322843 AGAAATTGAAAATTCCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
1 AGAAATTGAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * * * *
59322906 TTTTTGAAAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATAT
63 TTTTTAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAA-AT
*
59322971 GAGTTGA--ATTTTGAAAAC
127 GAGTTGATTTTTTTGAAAAC
* *
59322989 AGAAATTGAAATTACCTCAGCTTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT
* * *
59323054 TTTTGAAAAATAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCT
64 TTTT-AAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAA-AT
*
59323119 GAGTTGA--ATTTTGAAAAC
127 GAGTTGATTTTTTTGAAAAC
* * * ** *
59323137 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATT
1 AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * * * *
59323201 TTGAAAATAGAAA-T-AAAAGTTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATA
66 TTAAAAACAGAAATTGAAAA--TACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAA-ATG
* *
59323264 AGTTGA--ATTTTGAAAAT
128 AGTTGATTTTTTTGAAAAC
59323281 AGAAAT
1 AGAAAT
59323287 AAAACTATCA
Statistics
Matches: 764, Mismatches: 103, Indels: 92
0.80 0.11 0.10
Matches are distributed among these distances:
142 4 0.01
143 3 0.00
144 105 0.14
145 4 0.01
146 115 0.15
147 17 0.02
148 186 0.24
149 2 0.00
150 12 0.02
151 57 0.07
152 3 0.00
155 1 0.00
156 12 0.02
157 61 0.08
158 11 0.01
159 57 0.07
160 45 0.06
161 15 0.02
162 19 0.02
163 1 0.00
164 33 0.04
165 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (146 bp):
AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAAATGAGT
TGATTTTTTTGAAAAC
Found at i:59322654 original size:72 final size:73
Alignment explanation
Indices: 59322531--59323286 Score: 656
Period size: 72 Copynumber: 10.1 Consensus size: 73
59322521 ATAAATTAAG
* ** * ** **
59322531 AAACAAAAATTGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGC-A-ATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
59322594 TTTTTTGA
66 TTTTTTGA
* *
59322602 AAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AA-ACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
59322667 ATTTTTTTGA
65 A-TTTTTTGA
* *
59322677 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
59322742 -ATTTTG-
66 TTTTTTGA
* * ** * * ** * * * * *
59322748 AAACATAAATTAAGAAACAAAAAT-TGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCT
1 AAACAGAAATT--GAAA-ATACCTCAG-C-GTGTCT-TGAG-G-CTC-A-ACTC-A-T---TTCT
*
59322812 CGCATTATGAGTTGATTTTTTTTTGA
51 CGCAATATGAGTTGA---TTTTTTGA
* * * * **
59322838 AAGATAGAAATTGAAAATTCCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAG
1 AA-ACAGAAATTGAAAATACCTCAGC--GTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAG
59322902 TTGA-TTTTTGA
62 TTGATTTTTTGA
* * * *
59322913 AAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
59322978 -ATTTTGA
66 TTTTTTGA
* * * **
59322985 AAACAGAAATTGAAATTACCTCAGCTTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
59323050 TTTTTTTTGAA
66 --TTTTTTG-A
* * *
59323061 AAATAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
59323126 -ATTTTGA
66 TTTTTTGA
* *
59323133 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
59323198 -ATTTTGA
66 TTTTTTGA
* * * *
59323205 AAATAGAAA-T-AAAAGTTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATAAGTT
1 AAACAGAAATTGAAAA--TACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
*
59323268 GA-ATTTTGA
64 GATTTTTTGA
*
59323277 AAATAGAAAT
1 AAACAGAAAT
59323287 AAAACTATCA
Statistics
Matches: 564, Mismatches: 85, Indels: 70
0.78 0.12 0.10
Matches are distributed among these distances:
70 3 0.01
71 14 0.02
72 281 0.50
73 10 0.02
74 90 0.16
75 27 0.05
76 61 0.11
77 1 0.00
78 2 0.00
79 19 0.03
80 3 0.01
81 1 0.00
82 1 0.00
83 1 0.00
84 3 0.01
85 18 0.03
86 2 0.00
87 1 0.00
88 5 0.01
89 11 0.02
90 3 0.01
91 7 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (73 bp):
AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
TTTTTTGA
Found at i:59322748 original size:231 final size:231
Alignment explanation
Indices: 59322330--59323205 Score: 1284
Period size: 231 Copynumber: 3.8 Consensus size: 231
59322320 AGCACGTCTT
*
59322330 GAGGCTCAACTCACCTCTCGTA-ATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCA
1 GAGGCTCAACTCACCTCTCGCATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCA
* *
59322394 GCATGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTTTTTAAAACAGAAATTGA
66 GCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA---TTTTTGAAAACAGAAATTGA
59322459 AATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAGCATA
128 AATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAGCATA
59322524 AATTAAGAAACAAAAATTGCCAATACCTCAGCGTGCCCC
193 AATTAAGAAACAAAAATTGCCAATACCTCAGCGTGCCCC
59322563 GAGGCTCAACTCACCTCTCGCA-ATGAGTTGA-TTTTTTGAAAGACAAAAATTGAAAATACCTCA
1 GAGGCTCAACTCACCTCTCGCATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCA
59322626 GCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAA
66 GCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--TTTTTGAAAACAGAAATTGAA
*
59322691 ATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAACATAA
129 ATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAGCATAA
59322756 ATTAAGAAACAAAAATTGCCAATACCTCAGCGTGCCCC
194 ATTAAGAAACAAAAATTGCCAATACCTCAGCGTGCCCC
* * *
59322794 GAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTGAAAGATAGAAATTGAAAATTCC
1 GAGGCTCAACTCACCTCTCGCA-TATGAGTTGA--TTTTTTTGAAAGACAAAAATTGAAAATACC
* ** *
59322859 TCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATAAAT
63 TCAGCATGT---CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAAT
* * *
59322923 TGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTTGAATTTT---G-
125 TGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAGC
* * * * *
59322984 --------A-AAACAGAAATTG-AAATTACCTCAGCTTGTCCT
190 ATAAATTAAGAAACAAAAATTGCCAA-TACCTCAGCGTGCCCC
* * *
59323017 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAGAAATTGAAAATACCT
1 GAGGCTCAACTCACCTCTCGC-ATATGAGTTGA-TTTTTTTGAAAGACAAAAATTGAAAATACCT
* *
59323082 CAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGAATTTTGAAAACAGAAATTGAA
64 CAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAA
59323147 ATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
129 ATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
59323206 AATAGAAATA
Statistics
Matches: 598, Mismatches: 31, Indels: 38
0.90 0.05 0.06
Matches are distributed among these distances:
219 1 0.00
220 102 0.17
222 40 0.07
223 55 0.09
224 2 0.00
231 146 0.24
232 73 0.12
233 39 0.07
236 108 0.18
238 31 0.05
239 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (231 bp):
GAGGCTCAACTCACCTCTCGCATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCA
GCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAT
TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAGCATAAAT
TAAGAAACAAAAATTGCCAATACCTCAGCGTGCCCC
Found at i:59323163 original size:220 final size:220
Alignment explanation
Indices: 59322778--59323274 Score: 719
Period size: 220 Copynumber: 2.2 Consensus size: 220
59322768 AAATTGCCAA
* * * *
59322778 TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTGAAAGAT
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTGAAAAAT
* *
59322843 AGAAATTGAAAATTCCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
65 AGAAATTGAAAATACCTCAGCATGT--ACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
* *
59322908 TTTGAAAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGA
128 TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTACTCGCAATATGA
*
59322973 GTTGAATTTTGAAAACAGAAATTGAAA-T
193 GTTGAATTTTGAAAACAGAAA-TAAAAGT
*
59323001 TACCTCAGCTTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATA
* ** *
59323066 GAAATTGAAAATACCTCAGCATGT-CTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGAATTT
66 GAAATTGAAAATACCTCAGCATGTAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTT
* *
59323130 TGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
130 TGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTACTCGCAATATGAGT
*
59323195 TGAATTTTGAAAATAGAAATAAAAGT
195 TGAATTTTGAAAACAGAAATAAAAGT
* * ** * * *
59323221 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATAAGTTGAATTTT
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
59323275 GAAAATAGAA
Statistics
Matches: 247, Mismatches: 25, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
219 5 0.02
220 159 0.64
222 38 0.15
223 45 0.18
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (220 bp):
TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATA
GAAATTGAAAATACCTCAGCATGTACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT
GAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTACTCGCAATATGAGTT
GAATTTTGAAAACAGAAATAAAAGT
Found at i:59331571 original size:96 final size:96
Alignment explanation
Indices: 59331469--59331963 Score: 881
Period size: 96 Copynumber: 5.2 Consensus size: 96
59331459 TACATGATAG
59331469 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
59331534 GAATGGCCAATGTGATGAATGTGAAAGTGTA
66 TAATGGCCGATGTGATGAATGTGAAAGTGTA
59331565 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
59331630 GAATGGCCGATGTGATGAATGTGAAAGTGTA
66 TAATGGCCGATGTGATGAATGTGAAAGTGTA
59331661 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
59331726 CCTAATGGCCGATGTGATGAATGTGAAAGTGTA
64 CCTAATGGCCGATGTGATGAATGTGAAAGTGTA
59331759 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
59331824 TAATGGCCGATGTGATGAATGTGAAA--GTA
66 TAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
59331853 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
59331918 CCTAATGGCCGATGTGATGAATGTGAAAGTGTA
64 CCTAATGGCCGATGTGATGAATGTGAAAGTGTA
59331951 TA-A-ATGTGATAAG
1 TATATATGTGATAAG
59331964 TCCCGAAGGG
Statistics
Matches: 389, Mismatches: 4, Indels: 12
0.96 0.01 0.03
Matches are distributed among these distances:
94 48 0.12
96 240 0.62
97 1 0.00
98 100 0.26
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:59331588 original size:49 final size:49
Alignment explanation
Indices: 59331469--59331963 Score: 875
Period size: 49 Copynumber: 10.3 Consensus size: 49
59331459 TACATGATAG
59331469 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
59331516 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
59331565 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
59331612 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
59331661 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
59331710 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
59331759 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
59331806 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
59331853 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
59331902 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
59331951 TA-A-ATGTGATAAG
1 TATATATGTGATAAG
59331964 TCCCGAAGGG
Statistics
Matches: 430, Mismatches: 10, Indels: 16
0.94 0.02 0.04
Matches are distributed among these distances:
45 1 0.00
47 187 0.43
48 1 0.00
49 241 0.56
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:59332132 original size:37 final size:37
Alignment explanation
Indices: 59332082--59332189 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
59332072 CCGAGCTCTA
59332082 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
59332119 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* * *
59332156 AAGACCCGATAACTTCGTGTGGAGATTACGTCCG
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCG
59332190 AGCTAAAGGT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:59339398 original size:17 final size:19
Alignment explanation
Indices: 59339357--59339398 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
59339347 CTAGTAATGT
59339357 TAAA-ATATATATAATATA
1 TAAATATATATATAATATA
*
59339375 TACATATATATATAA-A-A
1 TAAATATATATATAATATA
59339392 TAAATAT
1 TAAATAT
59339399 TGAAAAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 7 0.33
18 4 0.19
19 10 0.48
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATATATATATAATATA
Found at i:59339747 original size:3 final size:3
Alignment explanation
Indices: 59339688--59339738 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
59339678 AAGTACCTAT
* *
59339688 TAA TAA TAT TATA TAA -ATA TAA TAA TAA TAA TAA TAA TAA TAA CAA
1 TAA TAA TAA TA-A TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
59339734 TAA TA
1 TAA TA
59339739 GCAATAATAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 1 0.02
3 37 0.90
4 3 0.07
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:59339933 original size:3 final size:3
Alignment explanation
Indices: 59339927--59340197 Score: 111
Period size: 3 Copynumber: 88.7 Consensus size: 3
59339917 ATAGGAAATG
* * *
59339927 TAA TAA TAA TAA TAA TAT TAA GT-A TAG T-A TAAA TAA TATG TACA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TA-A TA-A TAA
* * *
59339974 CAG TAA TAA TAA TAA GTAA CAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
59340020 T-A TAGA -AA TTCAA -AA -AA GTAA -ACA TAA T-A TAA TGA TAT TAA
1 TAA TA-A TAA -T-AA TAA TAA -TAA TA-A TAA TAA TAA TAA TAA TAA
* * *
59340061 -AA TAA -AA T-A TACA CTAA TAT TTA TAAA TAA TAG TAA -ATA TAA TAA
1 TAA TAA TAA TAA TA-A -TAA TAA TAA T-AA TAA TAA TAA TA-A TAA TAA
* * * *
59340106 TAA TAA TAA TGA TAA TAA TAA TAT TAA GT-A TAG T-A TAAA TAA TATG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TA-A
* * *
59340152 TACA TAA CAG TAA TAA TAA TAA GTAA CAA TAA TAA TAA TAA TAA TA
1 TA-A TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TA
59340198 TAGAAATTCA
Statistics
Matches: 200, Mismatches: 38, Indels: 60
0.67 0.13 0.20
Matches are distributed among these distances:
2 21 0.10
3 146 0.73
4 29 0.14
5 4 0.02
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:59340017 original size:176 final size:184
Alignment explanation
Indices: 59339870--59340197 Score: 503
Period size: 185 Copynumber: 1.8 Consensus size: 184
59339860 TAAAGAGTAT
* * *
59339870 ATATAAACATA-TATAATAAAAATATACACTAATATTTATAAAT-A-A-T-AATAGGA-AAT-GT
1 ATATAAACATATTAAAAT-AAAATATACACTAATATTTATAAATAATAGTAAATAGAATAATAAT
59339928 AAT-A-ATAATAATAATATTAAGTATAGTATAAATAATATGTACATAACAGTAATAATAATAAGT
65 AATAAGATAATAATAATATTAAGTATAGTATAAATAATATGTACATAACAGTAATAATAATAAGT
* *
59339991 AACAATAATAATAATAATAATAATAATAATATAGAAATTCAAAAAAGTAAACATA
130 AACAATAATAATAATAATAATAATAATAATATAAAAATACAAAAAAGTAAACATA
** *
59340046 ATATAATGATATTAAAATAAAATATACACTAATATTTATAAATAATAGTAAATATAATAATAATA
1 ATATAAACATATTAAAATAAAATATACACTAATATTTATAAATAATAGTAAATAGAATAATAATA
59340111 ATAATGATAATAATAATATTAAGTATAGTATAAATAATATGTACATAACAGTAATAATAATAAGT
66 ATAA-GATAATAATAATATTAAGTATAGTATAAATAATATGTACATAACAGTAATAATAATAAGT
59340176 AACAATAATAATAATAATAATA
130 AACAATAATAATAATAATAATA
59340198 TAGAAATTCA
Statistics
Matches: 136, Mismatches: 6, Indels: 11
0.89 0.04 0.07
Matches are distributed among these distances:
176 34 0.25
177 6 0.04
178 1 0.01
179 1 0.01
180 5 0.04
181 3 0.02
182 4 0.03
183 1 0.01
185 81 0.60
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (184 bp):
ATATAAACATATTAAAATAAAATATACACTAATATTTATAAATAATAGTAAATAGAATAATAATA
ATAAGATAATAATAATATTAAGTATAGTATAAATAATATGTACATAACAGTAATAATAATAAGTA
ACAATAATAATAATAATAATAATAATAATATAAAAATACAAAAAAGTAAACATA
Found at i:59340255 original size:16 final size:16
Alignment explanation
Indices: 59340222--59340254 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
59340212 AACTAAACAT
*
59340222 AATATAATAATATTAA
1 AATAAAATAATATTAA
59340238 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
59340253 AA
1 AA
59340255 AATACTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:59348594 original size:18 final size:19
Alignment explanation
Indices: 59348564--59348599 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
59348554 TTTAACTTTC
*
59348564 TTTATATATTTTTTAAAAT
1 TTTATATATTTTTCAAAAT
59348583 TTTATA-ATTTTTCAAAA
1 TTTATATATTTTTCAAAA
59348600 ATATATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTATATATTTTTCAAAAT
Found at i:59348600 original size:19 final size:19
Alignment explanation
Indices: 59348564--59348612 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
59348554 TTTAACTTTC
*
59348564 TTTATATATTTTTTAAAAT-
1 TTTATA-ATTTTTAAAAATA
59348583 TTTATAATTTTTCAAAAATA
1 TTTATAATTTTT-AAAAATA
*
59348603 TATATAATTT
1 TTTATAATTT
59348613 GGAATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 6 0.23
19 11 0.42
20 9 0.35
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTATAATTTTTAAAAATA
Found at i:59348711 original size:20 final size:19
Alignment explanation
Indices: 59348682--59348721 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
59348672 AAGAAAATGA
59348682 TTTTTGGAAAATGATTTAC
1 TTTTTGGAAAATGATTTAC
59348701 TTTTCTGGAAAATGATTTAC
1 TTTT-TGGAAAATGATTTAC
59348721 T
1 T
59348722 GAAAATACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.47
Consensus pattern (19 bp):
TTTTTGGAAAATGATTTAC
Found at i:59348844 original size:20 final size:20
Alignment explanation
Indices: 59348819--59348857 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
59348809 GTTTTTACAT
59348819 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
59348839 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
59348858 TTTTAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:59352782 original size:33 final size:33
Alignment explanation
Indices: 59352745--59352841 Score: 110
Period size: 33 Copynumber: 3.0 Consensus size: 33
59352735 ACACATTACA
* *
59352745 TAGCTCGCTCATTACACAACTCGCACATCATTG
1 TAGCTCGCACATTACACAACTCACACATCATTG
* *
59352778 TAGCTCACACATTACACAGCTCACACAT-ACTATG
1 TAGCTCGCACATTACACAACTCACACATCA-T-TG
*
59352812 -A-CTCGCAAATTACACAACTCACACATCATT
1 TAGCTCGCACATTACACAACTCACACATCATT
59352842 ACGACTCGCA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
31 1 0.02
32 24 0.44
33 27 0.50
34 2 0.04
ACGTcount: A:0.34, C:0.33, G:0.08, T:0.25
Consensus pattern (33 bp):
TAGCTCGCACATTACACAACTCACACATCATTG
Found at i:59352800 original size:16 final size:16
Alignment explanation
Indices: 59352727--59352805 Score: 68
Period size: 16 Copynumber: 4.9 Consensus size: 16
59352717 TGCATATTTT
59352727 CACAGCTCACACATTA
1 CACAGCTCACACATTA
* * *
59352743 CATAGCTCGCTCATTA
1 CACAGCTCACACATTA
* * *
59352759 CACAACTCGCACATCA
1 CACAGCTCACACATTA
***
59352775 TTGTAGCTCACACATTA
1 -CACAGCTCACACATTA
59352792 CACAGCTCACACAT
1 CACAGCTCACACAT
59352806 ACTATGACTC
Statistics
Matches: 46, Mismatches: 16, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
16 36 0.78
17 10 0.22
ACGTcount: A:0.33, C:0.35, G:0.09, T:0.23
Consensus pattern (16 bp):
CACAGCTCACACATTA
Found at i:59352833 original size:32 final size:33
Alignment explanation
Indices: 59352788--59352851 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
59352778 TAGCTCACAC
* *
59352788 ATTACACAGCTCACACAT-ACTATGACTCGCAA
1 ATTACACAACTCACACATCACTACGACTCGCAA
*
59352820 ATTACACAACTCACACATCATTACGACTCGCA
1 ATTACACAACTCACACATCACTACGACTCGCA
59352852 CATTGATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.38, C:0.33, G:0.08, T:0.22
Consensus pattern (33 bp):
ATTACACAACTCACACATCACTACGACTCGCAA
Found at i:59357110 original size:11 final size:12
Alignment explanation
Indices: 59357094--59357139 Score: 60
Period size: 11 Copynumber: 3.9 Consensus size: 12
59357084 TAGAGAACAT
59357094 ATATAT-AATTA
1 ATATATGAATTA
*
59357105 ATATATGAATTTG
1 ATATATGAA-TTA
59357118 ATATAT-AATTA
1 ATATATGAATTA
59357129 ATATATGAATT
1 ATATATGAATT
59357140 TGATTCATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 14 0.47
12 8 0.27
13 8 0.27
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.46
Consensus pattern (12 bp):
ATATATGAATTA
Found at i:59357126 original size:24 final size:24
Alignment explanation
Indices: 59357094--59357143 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
59357084 TAGAGAACAT
59357094 ATATATAATTAATATATGAATTTG
1 ATATATAATTAATATATGAATTTG
59357118 ATATATAATTAATATATGAATTTG
1 ATATATAATTAATATATGAATTTG
59357142 AT
1 AT
59357144 TCATACAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (24 bp):
ATATATAATTAATATATGAATTTG
Found at i:59357270 original size:136 final size:138
Alignment explanation
Indices: 59357120--59357402 Score: 491
Period size: 138 Copynumber: 2.1 Consensus size: 138
59357110 TGAATTTGAT
59357120 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTA-C-AATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* *
59357183 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGTCATGGAAATT-AATATTATT
66 AATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAAATATTATT
59357247 TTGGAAAGA
131 TTGGAAA-A
59357256 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* *
59357321 AATATAAACAGTTATATTAATTAATTTTGATCAAAATATAAAAGACATGGAAATTAAATATTCTT
66 AATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAAATATTATT
59357386 TTGGAAAA
131 TTGGAAAA
59357394 AGTATAATT
1 A-TATAATT
59357403 CTTTTTTCTA
Statistics
Matches: 139, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
136 54 0.39
137 1 0.01
138 62 0.45
139 22 0.16
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.41
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
AATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAAGACATGGAAATTAAATATTATT
TTGGAAAA
Found at i:59360728 original size:13 final size:13
Alignment explanation
Indices: 59360710--59360735 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59360700 GGAATTGTTC
59360710 AATTAAAGAATTT
1 AATTAAAGAATTT
59360723 AATTAAAGAATTT
1 AATTAAAGAATTT
59360736 TCTTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
AATTAAAGAATTT
Found at i:59360807 original size:16 final size:16
Alignment explanation
Indices: 59360783--59360824 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
59360773 TTTGGTTCGC
* *
59360783 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
59360799 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
59360815 TGTAATGGAA
1 TGTAATGGAA
59360825 AAGCTGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:59361090 original size:18 final size:17
Alignment explanation
Indices: 59361069--59361103 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59361059 TTATTATTAA
*
59361069 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
59361087 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
59361104 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:59361111 original size:79 final size:78
Alignment explanation
Indices: 59361028--59361261 Score: 200
Period size: 79 Copynumber: 3.0 Consensus size: 78
59361018 TTATTATCAA
59361028 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
1 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATT-AAATATATAA
59361093 TTTAATAAAATTCT
65 TTTAATAAAATTCT
* * * * **** * * *
59361107 TAATAATTAGCA-TAAAT-TTGTTTTGGTA-AATTATTATT--GT-TATTGTTATTTAAAT-TTT
1 TAATAAATA--ATTTAATCATATTTAAACATAATTATTATTAAATATATT-TTAATTAAATATAT
* * *
59361165 AA--TAAGATTAATATCAA
63 AATTTAATA-AAAT-TC-T
*
59361182 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAATATATAAT
1 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAATATATAAT
59361247 TTAAT-AAATTCT
66 TTAATAAAATTCT
59361259 TAA
1 TAA
59361262 AATTAATATT
Statistics
Matches: 111, Mismatches: 29, Indels: 32
0.65 0.17 0.19
Matches are distributed among these distances:
72 4 0.04
73 4 0.04
74 10 0.09
75 21 0.19
76 16 0.14
77 3 0.03
78 21 0.19
79 24 0.22
80 4 0.04
81 4 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (78 bp):
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAATATATAAT
TTAATAAAATTCT
Found at i:59361236 original size:15 final size:15
Alignment explanation
Indices: 59361212--59361243 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
59361202 TTTAAACATA
*
59361212 ATTATTATTAAATAT
1 ATTATAATTAAATAT
59361227 ATTATAATTAAATAT
1 ATTATAATTAAATAT
59361242 AT
1 AT
59361244 AATTTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:59361368 original size:14 final size:15
Alignment explanation
Indices: 59361319--59361370 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
59361309 GTAAAATATA
59361319 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
59361334 TATTAAATATATTAT
1 AATTAAATATATTAT
59361349 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
59361362 AATTTAATA
1 AATTAAATA
59361371 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Done.