Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 179 of 433
Found at i:56124567 original size:9 final size:9
Alignment explanation
Indices: 56124510--56124568 Score: 57
Period size: 9 Copynumber: 6.6 Consensus size: 9
56124500 ATAAGTATAA
*
56124510 AATTAATCG
1 AATTAACCG
*
56124519 AATTAATCG
1 AATTAACCG
56124528 AATTAACCG
1 AATTAACCG
*
56124537 AATT-ACTCA
1 AATTAAC-CG
* *
56124546 AATTACCCA
1 AATTAACCG
56124555 AATTAACCG
1 AATTAACCG
56124564 AATTA
1 AATTA
56124569 TTTGTATAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
8 2 0.05
9 40 0.93
10 1 0.02
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:56133496 original size:46 final size:46
Alignment explanation
Indices: 56133443--56133618 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
56133433 TATTTGGGCA
56133443 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
56133489 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
56133536 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
56133582 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56133619 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:56133598 original size:93 final size:93
Alignment explanation
Indices: 56133439--56133610 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
56133429 GGGATATTTG
* *
56133439 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
56133504 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
56133532 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
56133597 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
56133611 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:56136591 original size:15 final size:15
Alignment explanation
Indices: 56136571--56136639 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
56136561 GTATCTTGGG
56136571 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
56136586 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
56136601 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
56136616 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
56136631 TTTCTTTAT
1 TTTCTTTAT
56136640 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:56136640 original size:30 final size:30
Alignment explanation
Indices: 56136562--56136649 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
56136552 CATAGTATCG
* * * *
56136562 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
56136592 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
56136622 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
56136650 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:56139086 original size:46 final size:46
Alignment explanation
Indices: 56139033--56139208 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
56139023 TATTTGGGCA
56139033 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
56139079 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
56139126 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
56139172 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56139209 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:56139188 original size:93 final size:93
Alignment explanation
Indices: 56139029--56139200 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
56139019 GGGATATTTG
* *
56139029 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
56139094 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
56139122 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
56139187 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
56139201 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:56173617 original size:43 final size:42
Alignment explanation
Indices: 56173552--56173635 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 42
56173542 GAAATTTGAG
** * *
56173552 CTTGTTGAGTGGTCTGATTTCGTGATATATGTGAGAATCCGAA
1 CTTGTTGAGTGGTCCAACTTCGTAATATATGTG-GAATCCGAA
*
56173595 CTTGTTGAGTGGTCCAACTTCGTAATATATGTGGCATCCGA
1 CTTGTTGAGTGGTCCAACTTCGTAATATATGTGGAATCCGA
56173636 GCCCGTTGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 7 0.19
43 29 0.81
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (42 bp):
CTTGTTGAGTGGTCCAACTTCGTAATATATGTGGAATCCGAA
Found at i:56173653 original size:42 final size:43
Alignment explanation
Indices: 56173570--56173690 Score: 118
Period size: 43 Copynumber: 2.8 Consensus size: 43
56173560 GTGGTCTGAT
* * * * * *
56173570 TTCGTGATATATGTGAGAATCCGAACTTGTTGAGTGGTCCAAC
1 TTCGTAATATATGTGAGCATCCGAGCTCGTTGAGAGATCCAAC
* *
56173613 TTCGTAATATATGTG-GCATCCGAGCCCGTTGAGAGATCCAAG
1 TTCGTAATATATGTGAGCATCCGAGCTCGTTGAGAGATCCAAC
* * ** *
56173655 TTCATTATGGATGCGAGCATCCGAGCTCGTTGAGAG
1 TTCGTAATATATGTGAGCATCCGAGCTCGTTGAGAG
56173691 GTCTGAGTTC
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
42 30 0.48
43 33 0.52
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
TTCGTAATATATGTGAGCATCCGAGCTCGTTGAGAGATCCAAC
Found at i:56173686 original size:43 final size:43
Alignment explanation
Indices: 56173628--56173710 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
56173618 AATATATGTG
56173628 GCATCCGAGCCCGTTGAGAGATCCAAGTTCATTATGGATGCGA
1 GCATCCGAGCCCGTTGAGAGATCCAAGTTCATTATGGATGCGA
* * **
56173671 GCATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATG
1 GCATCCGAGCCCGTTGAGAGATCCAAGTTCATTATGGATG
56173711 TATACATGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (43 bp):
GCATCCGAGCCCGTTGAGAGATCCAAGTTCATTATGGATGCGA
Found at i:56186280 original size:40 final size:39
Alignment explanation
Indices: 56186235--56186441 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
56186225 CGGAATACAA
*
56186235 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56186275 CCGGATAGAACGACTTGCACAAAT-CCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56186314 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
56186354 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
56186394 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
56186434 CCGGATAT
1 CCGGATAT
56186442 CATTCAATTG
Statistics
Matches: 139, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 38 0.27
40 98 0.71
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56186374 original size:79 final size:79
Alignment explanation
Indices: 56186235--56186440 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 79
56186225 CGGAATACAA
* * *
56186235 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
56186299 CCTTCGGGTATTAGC
65 CCTTCGGGTATTAAC
* * **
56186314 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAAT-
*
56186378 GCCTTCGGGTCTTAAC
64 GCCTTCGGGTATTAAC
** * ** * *
56186394 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
56186441 TCATTCAATT
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
78 3 0.03
79 50 0.47
80 53 0.50
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (79 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGC
CTTCGGGTATTAAC
Found at i:56194301 original size:40 final size:39
Alignment explanation
Indices: 56194256--56194460 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
56194246 CGGAATACAA
*
56194256 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56194296 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56194336 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56194376 CCGGATGT---CACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
56194413 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
56194453 CCGGATAT
1 CCGGATAT
56194461 CATTCAATTG
Statistics
Matches: 139, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
36 1 0.01
37 30 0.22
40 108 0.78
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56194443 original size:77 final size:80
Alignment explanation
Indices: 56194256--56194459 Score: 236
Period size: 77 Copynumber: 2.6 Consensus size: 80
56194246 CGGAATACAA
* * *
56194256 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT
1 CCGGATATAACAACTA-GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAAT
*
56194320 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * * * *
56194336 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-G-TC-ACTAGCACAATTG
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
*
56194398 CCTTCGGGTCTTAAC
66 CCTTCGGGTATTAAC
** * * *
56194413 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
56194460 TCATTCAATT
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
77 62 0.58
78 1 0.01
79 1 0.01
80 42 0.40
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:56198076 original size:40 final size:39
Alignment explanation
Indices: 56198031--56198237 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
56198021 CGGAATACAA
*
56198031 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56198071 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56198111 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
56198151 CCGGATGTGGTCACTAGCAC-AATGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
56198190 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
56198230 CCGGATAT
1 CCGGATAT
56198238 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
39 34 0.24
40 107 0.76
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56198171 original size:80 final size:79
Alignment explanation
Indices: 56198031--56198236 Score: 243
Period size: 79 Copynumber: 2.6 Consensus size: 79
56198021 CGGAATACAA
* * *
56198031 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
56198096 CCTTCGGGTATTAGC
65 CCTTCGGGTATTAAC
* * **
56198111 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
56198175 CCTTCGGGTCTTAAC
65 CCTTCGGGTATTAAC
** * ** * *
56198190 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
56198237 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 55 0.51
80 50 0.47
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (79 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGC
CTTCGGGTATTAAC
Found at i:56205316 original size:17 final size:18
Alignment explanation
Indices: 56205274--56205322 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
56205264 AGTTGAAAAG
56205274 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
56205293 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
56205310 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
56205323 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:56206349 original size:40 final size:40
Alignment explanation
Indices: 56206145--56206351 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 40
56206135 AAATTGAATG
* * * **
56206145 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGATT
* * * *
56206184 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * *
56206224 ATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * * *
56206264 CTATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
56206304 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGATT
56206344 ATATCCGG
1 ATATCCGG
56206352 TTATATTCCG
Statistics
Matches: 146, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 14 0.10
40 132 0.90
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:56210600 original size:43 final size:43
Alignment explanation
Indices: 56210517--56210600 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
56210507 ATATTAACGA
* * * **
56210517 TATGTGATTATGTGTAAGACCATGTCTGGGGCATTGGCATCAT
1 TATGTGATTATGTATAAGACCATGTATGGGACATCAGCATCAT
56210560 TATGTGATTATGTATAAGACCATGTATGGGACATCAGCATC
1 TATGTGATTATGTATAAGACCATGTATGGGACATCAGCATC
56210601 GTTAATTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.33
Consensus pattern (43 bp):
TATGTGATTATGTATAAGACCATGTATGGGACATCAGCATCAT
Found at i:56214000 original size:8 final size:8
Alignment explanation
Indices: 56213982--56214011 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
56213972 ATGAAAATTA
56213982 TGTGCATTT
1 TGTG-ATTT
56213991 TGTGATTT
1 TGTGATTT
56213999 TGTGATTT
1 TGTGATTT
56214007 TGTGA
1 TGTGA
56214012 ATTAGGGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.13, C:0.03, G:0.27, T:0.57
Consensus pattern (8 bp):
TGTGATTT
Found at i:56214523 original size:42 final size:43
Alignment explanation
Indices: 56214417--56214581 Score: 176
Period size: 43 Copynumber: 3.8 Consensus size: 43
56214407 ATATGTGTTA
*
56214417 TCATGTAAGACCACGTCTGGGACATTGGCATCG-ACTTATGATTT
1 TCATGTAAGACCATGTCTGGGACATTGGCATCGTA-TT-TGATTT
56214461 TCATGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA-TT
1 TCATGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTT
* * * *
56214503 TCGTGTAAGAGCC-TGTCTGGGACAATGGCATCAATATTTGA-CT
1 TCATGTAAGA-CCATGTCTGGGACATTGGCATC-GTATTTGATTT
* * * * *
56214546 ACATGTAAGACCACGTTTGGGACCTTGGCATTGTAT
1 TCATGTAAGACCATGTCTGGGACATTGGCATCGTAT
56214582 AGCTTTTTGA
Statistics
Matches: 104, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
42 34 0.33
43 35 0.34
44 34 0.33
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (43 bp):
TCATGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTT
Found at i:56214555 original size:43 final size:42
Alignment explanation
Indices: 56214418--56214568 Score: 135
Period size: 42 Copynumber: 3.5 Consensus size: 42
56214408 TATGTGTTAT
* * * * *
56214418 CATGTAAGACCACGTCTGGGACATTGGCATCGACT-TATGATTTT
1 CATGTAAGACCATGTCTGGGACAATGGCATC-A-TATTTGA-CTA
* * * *
56214462 CATGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTT
1 CATGTAAGACCATGTCTGGGACAATGGCATCATATTTGACTA
*
56214504 CGTGTAAGAGCC-TGTCTGGGACAATGGCATCAATATTTGACTA
1 CATGTAAGA-CCATGTCTGGGACAATGGCATC-ATATTTGACTA
* *
56214547 CATGTAAGACCACGTTTGGGAC
1 CATGTAAGACCATGTCTGGGAC
56214569 CTTGGCATTG
Statistics
Matches: 92, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
42 32 0.35
43 30 0.33
44 30 0.33
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
CATGTAAGACCATGTCTGGGACAATGGCATCATATTTGACTA
Found at i:56222124 original size:42 final size:43
Alignment explanation
Indices: 56222059--56222182 Score: 128
Period size: 42 Copynumber: 2.9 Consensus size: 43
56222049 GGAACGTTGG
*
56222059 CATCAAT-TTATGATTTTCGTGTAAGACCATGTCTGGGACATTGA
1 CATCAATATT-TGA-TTTCGTGTAAGACCATGTCTGGGACAATGA
* *
56222103 CATC-GTATTTGATTTCGTGTAAGAGCC-TGTCTGGGACAATGG
1 CATCAATATTTGATTTCGTGTAAGA-CCATGTCTGGGACAATGA
* * * * *
56222145 CATCAATATTTGACTACATGTAAGACCACGTTTGGGAC
1 CATCAATATTTGATTTCGTGTAAGACCATGTCTGGGAC
56222183 CTTGGCATTG
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
42 31 0.46
43 30 0.45
44 6 0.09
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.33
Consensus pattern (43 bp):
CATCAATATTTGATTTCGTGTAAGACCATGTCTGGGACAATGA
Found at i:56222155 original size:43 final size:44
Alignment explanation
Indices: 56222056--56222157 Score: 131
Period size: 42 Copynumber: 2.4 Consensus size: 44
56222046 TTTGGAACGT
*
56222056 TGGCATCAAT-TTATGATTTTCGTGTAAGACCATGTCTGGGACAT
1 TGGCATCAATATT-TGATTTTCGTGTAAGACCATGTCTGGGACAA
* *
56222100 TGACATC-GTATTTGA-TTTCGTGTAAGAGCC-TGTCTGGGACAA
1 TGGCATCAATATTTGATTTTCGTGTAAGA-CCATGTCTGGGACAA
56222142 TGGCATCAATATTTGA
1 TGGCATCAATATTTGA
56222158 CTACATGTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
42 29 0.58
43 13 0.26
44 8 0.16
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (44 bp):
TGGCATCAATATTTGATTTTCGTGTAAGACCATGTCTGGGACAA
Found at i:56222189 original size:43 final size:43
Alignment explanation
Indices: 56222031--56222190 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 43
56222021 ATATGTGTCA
* * * *
56222031 TCATGTAAGACCACATTTGGAACGTTGGCATCAAT-TTATGATTT
1 TCATGTAAGACCACGTCTGGGACATTGGCATCAATATT-TGA-TT
* * * *
56222075 TCGTGTAAGACCATGTCTGGGACATTGACATC-GTATTTGATT
1 TCATGTAAGACCACGTCTGGGACATTGGCATCAATATTTGATT
* * * *
56222117 TCGTGTAAGAGCC-TGTCTGGGACAATGGCATCAATATTTGACT
1 TCATGTAAGA-CCACGTCTGGGACATTGGCATCAATATTTGATT
* * *
56222160 ACATGTAAGACCACGTTTGGGACCTTGGCAT
1 TCATGTAAGACCACGTCTGGGACATTGGCAT
56222191 TGTATAGCTT
Statistics
Matches: 94, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
42 31 0.33
43 36 0.38
44 27 0.29
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (43 bp):
TCATGTAAGACCACGTCTGGGACATTGGCATCAATATTTGATT
Found at i:56228816 original size:49 final size:51
Alignment explanation
Indices: 56228736--56228866 Score: 160
Period size: 49 Copynumber: 2.6 Consensus size: 51
56228726 TGTCACTAGT
*
56228736 GACT-CAAGTGTGGTACTATGTGAAGACCACTTTGAGAAG-AGATAGCTTG
1 GACTACAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTG
* * * * *
56228785 GTC-ACAAGTGTGGTACTATGTGAAGGTCACTTTGTGAAGAAGCTAGCTTT
1 GACTACAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTG
* * *
56228835 GACTACATGGGTGGTACTATGTGCAGGCCACT
1 GACTACAAGTGTGGTACTATGTGAAGGCCACT
56228867 AGGTATTCGT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 34 0.50
50 10 0.15
51 24 0.35
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (51 bp):
GACTACAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTG
Found at i:56231451 original size:43 final size:43
Alignment explanation
Indices: 56231403--56231484 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
56231393 TATTAACGAG
* * *
56231403 ATGTGATTGTGTGTAAGACCATGTCTGGGACATTGGCATCATT
1 ATGTGATTATGTATAAGACCATGTCTGGGAAATTGGCATCATT
56231446 ATGTGATTATGTATAAGACCATGTCTGGGAAATTGGCAT
1 ATGTGATTATGTATAAGACCATGTCTGGGAAATTGGCAT
56231485 TGTTAATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (43 bp):
ATGTGATTATGTATAAGACCATGTCTGGGAAATTGGCATCATT
Found at i:56231506 original size:43 final size:43
Alignment explanation
Indices: 56231403--56231510 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 43
56231393 TATTAACGAG
* * *
56231403 ATGTGATTGTGTGTAAGACCATGTCTGGGACATTGGCATCATT
1 ATGTAATTATGTGTAAGACCATGTCTGGGAAATTGGCATCATT
* * **
56231446 ATGTGATTATGTATAAGACCATGTCTGGGAAATTGGCATTGTT
1 ATGTAATTATGTGTAAGACCATGTCTGGGAAATTGGCATCATT
56231489 AAT-TAATT-TCGTGTAAGACCAT
1 -ATGTAATTAT-GTGTAAGACCAT
56231511 AGCTAGGCTA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.02
43 53 0.95
44 2 0.04
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (43 bp):
ATGTAATTATGTGTAAGACCATGTCTGGGAAATTGGCATCATT
Found at i:56238367 original size:23 final size:23
Alignment explanation
Indices: 56238337--56238394 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
56238327 AACAATTAAT
56238337 TAAT-TTTTAAAAAAATTTAAAA
1 TAATATTTTAAAAAAATTTAAAA
* * * **
56238359 TATTATTTTTATAATTTTTAAAA
1 TAATATTTTAAAAAAATTTAAAA
56238382 TAATATTTATAAA
1 TAATATTT-TAAA
56238395 TTTTTCAATT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
22 3 0.12
23 21 0.81
24 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TAATATTTTAAAAAAATTTAAAA
Found at i:56238398 original size:21 final size:22
Alignment explanation
Indices: 56238352--56238398 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
56238342 TTTAAAAAAA
* *
56238352 TTTAAAATATTATTTTTATAATT
1 TTTAAAATA-TATATTTATAAAT
56238375 TTTAAAATA-ATATTTATAAAT
1 TTTAAAATATATATTTATAAAT
56238396 TTT
1 TTT
56238399 TCAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
23 9 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTAAAATATATATTTATAAAT
Found at i:56238399 original size:23 final size:23
Alignment explanation
Indices: 56238352--56238399 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
56238342 TTTAAAAAAA
* *
56238352 TTTAAAATATTATTTTTATAATT
1 TTTAAAATAATATTTATATAATT
56238375 TTTAAAATAATATTTATA-AATT
1 TTTAAAATAATATTTATATAATT
56238397 TTT
1 TTT
56238400 CAATTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTAAAATAATATTTATATAATT
Found at i:56238977 original size:29 final size:30
Alignment explanation
Indices: 56238917--56238982 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 30
56238907 ATTAGATTTG
*
56238917 AATTTTAAAATATGAAAAATAGAAAGATTA
1 AATTTTAAAATATGAAAAATAGAAAGACTA
56238947 AATTTCTAAAA-AT-AAAAATA-AATAGACTA
1 AATTT-TAAAATATGAAAAATAGAA-AGACTA
56238976 AATTTTA
1 AATTTTA
56238983 TATACGTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 4 0.12
29 17 0.52
30 7 0.21
31 5 0.15
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (30 bp):
AATTTTAAAATATGAAAAATAGAAAGACTA
Found at i:56249621 original size:30 final size:29
Alignment explanation
Indices: 56249581--56249641 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
56249571 AAATGGAAGT
*
56249581 TTTGGTACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
56249611 TTTGGCACTAAGTGTGCGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
56249640 TT
1 TT
56249642 CAGCTATTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:56251476 original size:123 final size:123
Alignment explanation
Indices: 56251257--56251597 Score: 583
Period size: 123 Copynumber: 2.8 Consensus size: 123
56251247 GAATTATGTG
*
56251257 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACTCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
56251322 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
56251380 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
56251445 GCTAAGTCCCGAAGGCAAGTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
** * * * *
56251503 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
56251568 GCTAAGTCCCGAAGACATTTATGCTAGTGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGA
56251598 CTATATCCGG
Statistics
Matches: 206, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 206 1.00
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:56251619 original size:40 final size:40
Alignment explanation
Indices: 56251564--56251767 Score: 277
Period size: 40 Copynumber: 5.1 Consensus size: 40
56251554 TGAATGATAC
* * * *
56251564 CCGGGCTAAGT-CCCGAAGACATTTATGCTAG-TGACTATAT
1 CCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTTG-TTATAT
56251604 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
56251644 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
56251684 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * ** *
56251724 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
56251764 CCGG
1 CCGG
56251768 TTGTATTCCG
Statistics
Matches: 151, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 148 0.98
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:56254775 original size:13 final size:13
Alignment explanation
Indices: 56254757--56254793 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
56254747 AGTTAGTTAG
56254757 TTAGTTGTCATCC
1 TTAGTTGTCATCC
56254770 TTAGTTGTCATCC
1 TTAGTTGTCATCC
56254783 TTAGTTGTCAT
1 TTAGTTGTCAT
56254794 TTAGTTGGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.49
Consensus pattern (13 bp):
TTAGTTGTCATCC
Found at i:56256825 original size:43 final size:43
Alignment explanation
Indices: 56256764--56256850 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
56256754 ATGATGTATG
56256764 TTTTGGTTATGTATATAGCCATATGATTTGGCTTATTTTGGTA
1 TTTTGGTTATGTATATAGCCATATGATTTGGCTTATTTTGGTA
56256807 TTTTGGTTATGTATATAGCCATATGATTTGGCTTATTTTGGTA
1 TTTTGGTTATGTATATAGCCATATGATTTGGCTTATTTTGGTA
56256850 T
1 T
56256851 ACTTGATTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.52
Consensus pattern (43 bp):
TTTTGGTTATGTATATAGCCATATGATTTGGCTTATTTTGGTA
Found at i:56262311 original size:14 final size:14
Alignment explanation
Indices: 56262292--56262319 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
56262282 AATGGGAAAA
56262292 GGGGAAAGTAAAGC
1 GGGGAAAGTAAAGC
56262306 GGGGAAAGTAAAGC
1 GGGGAAAGTAAAGC
56262320 AAAGAGAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.43, T:0.07
Consensus pattern (14 bp):
GGGGAAAGTAAAGC
Found at i:56265325 original size:67 final size:67
Alignment explanation
Indices: 56265246--56265393 Score: 185
Period size: 64 Copynumber: 2.2 Consensus size: 67
56265236 AGTTTATCTT
* * *
56265246 GTAGCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACAT-AT-T
1 GTAGCTCTCTTGTCTACATGGTG---TACACATAGAACCACCCATGCGACCTAGCTACATCATAT
56265309 -TCCC
63 GTCCC
* *
56265313 GTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGT
1 GTAGCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATCAT-ATGT
*
56265378 CTC
65 CCC
56265381 GTAGCTCTCTTGT
1 GTAGCTCTCTTGT
56265394 ACACATGATG
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
64 29 0.41
65 2 0.03
67 24 0.34
68 16 0.23
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.32
Consensus pattern (67 bp):
GTAGCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATCATATGTC
CC
Found at i:56265562 original size:19 final size:18
Alignment explanation
Indices: 56265532--56265574 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
56265522 AATTATGATT
*
56265532 CAAAAATCAGCT-ACAATA
1 CAAAAATAAGCTGA-AATA
56265550 CATAAAATAAGCTGAAATA
1 CA-AAAATAAGCTGAAATA
56265569 CAAAAA
1 CAAAAA
56265575 CATAATAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.27
19 15 0.68
20 1 0.05
ACGTcount: A:0.60, C:0.16, G:0.07, T:0.16
Consensus pattern (18 bp):
CAAAAATAAGCTGAAATA
Found at i:56271421 original size:17 final size:18
Alignment explanation
Indices: 56271391--56271424 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
56271381 ATGAAGGAAG
56271391 AAGCACACAAAATAGTTA
1 AAGCACACAAAATAGTTA
56271409 AAGCACA-AAAATAGTT
1 AAGCACACAAAATAGTT
56271425 TGACACATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.56, C:0.15, G:0.12, T:0.18
Consensus pattern (18 bp):
AAGCACACAAAATAGTTA
Found at i:56273007 original size:13 final size:13
Alignment explanation
Indices: 56272989--56273015 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
56272979 TATTATAATT
56272989 ATTTTATGTTAAA
1 ATTTTATGTTAAA
56273002 ATTTTATGTTAAA
1 ATTTTATGTTAAA
56273015 A
1 A
56273016 ATAAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (13 bp):
ATTTTATGTTAAA
Found at i:56274437 original size:40 final size:40
Alignment explanation
Indices: 56274389--56274634 Score: 406
Period size: 40 Copynumber: 6.2 Consensus size: 40
56274379 GGACTAAGAT
56274389 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
56274429 CCGAAGGCATTTGTGCTAGTTACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
56274469 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
56274509 CCGAAGGCATTTGTGCTAGTGACTATATCCAGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
56274549 CCGAAGGCATCTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
56274589 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
56274628 CCGAAGG
1 CCGAAGG
56274635 TACTTGGGTT
Statistics
Matches: 193, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 15 0.08
40 177 0.92
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:56280079 original size:39 final size:39
Alignment explanation
Indices: 56279995--56280147 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
56279985 TATGGTAACC
** * *
56279995 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
56280035 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
56280074 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
56280113 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
56280148 TCGAACATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 86 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:56280121 original size:78 final size:79
Alignment explanation
Indices: 56279964--56280146 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
56279954 TCGTTCAAAC
* * **
56279964 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
56280029 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * *
56280044 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
56280108 CAATTTGCACAATT
66 CAATTTGCACAATT
56280122 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
56280147 CTCGAACATT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:56282020 original size:59 final size:59
Alignment explanation
Indices: 56281928--56282043 Score: 214
Period size: 59 Copynumber: 2.0 Consensus size: 59
56281918 CTAATCGAAA
*
56281928 ATAAGCAAACCGATTGAAAGACTAATATGTCACCTATCAATTCCAATTGGGAAGATTCT
1 ATAAGCAAACCGATTAAAAGACTAATATGTCACCTATCAATTCCAATTGGGAAGATTCT
*
56281987 ATAAGCAAACCGATTAAAAGACTAATATGTCACCTATCAATTCCAATTGGGATGATT
1 ATAAGCAAACCGATTAAAAGACTAATATGTCACCTATCAATTCCAATTGGGAAGATT
56282044 TTTTGTTCTG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.28
Consensus pattern (59 bp):
ATAAGCAAACCGATTAAAAGACTAATATGTCACCTATCAATTCCAATTGGGAAGATTCT
Found at i:56284277 original size:47 final size:47
Alignment explanation
Indices: 56284217--56284385 Score: 186
Period size: 47 Copynumber: 3.6 Consensus size: 47
56284207 ATCCATAAGT
*
56284217 GAACTCGGACTCAACACAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* * * * * *
56284264 GAACTCAGACTCAACTCAACGAGTTTGGA---C-ATTTGCATC-CATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC-T---C
*
56284310 GAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
*
56284357 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
56284386 CATTCGCATC
Statistics
Matches: 99, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
46 27 0.27
47 52 0.53
49 1 0.01
50 8 0.08
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:56284279 original size:93 final size:93
Alignment explanation
Indices: 56284171--56284435 Score: 431
Period size: 93 Copynumber: 2.8 Consensus size: 93
56284161 GCCCATAAGT
* * * * *
56284171 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACACAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56284236 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
56284264 GAACTCAGACTCAACTCAACGAGTTTGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
56284329 CGAGCTTGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
56284357 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
56284422 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
56284436 CAAACATCCT
Statistics
Matches: 157, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 157 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:56284431 original size:46 final size:46
Alignment explanation
Indices: 56284163--56284431 Score: 228
Period size: 46 Copynumber: 5.8 Consensus size: 46
56284153 TGTAACCCGC
* * * *
56284163 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
56284209 CCATAAGTGAACTCGGACTCAACACAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* *** * * *
56284255 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTTGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
56284302 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGC-A--T
* ***
56284348 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
56284395 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56284432 TGCCCAAACA
Statistics
Matches: 176, Mismatches: 31, Indels: 32
0.74 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 6 0.03
46 98 0.56
47 61 0.35
49 7 0.04
50 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:56288022 original size:27 final size:26
Alignment explanation
Indices: 56287966--56288022 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
56287956 CAACCTTAAC
* *
56287966 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTTTACA
* *
56287992 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTACA
56288019 CCTA
1 CCTA
56288023 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTACA
Found at i:56294894 original size:19 final size:18
Alignment explanation
Indices: 56294870--56294942 Score: 94
Period size: 19 Copynumber: 4.0 Consensus size: 18
56294860 CTTTAAGAAT
56294870 ATGCAATCTTAGATATGA
1 ATGCAATCTTAGATATGA
*
56294888 CATGCAATCTTAGATGTGA
1 -ATGCAATCTTAGATATGA
*
56294907 TATGAAATCTTAGATATG-
1 -ATGCAATCTTAGATATGA
*
56294925 ATACAATCTTAGATATGA
1 ATGCAATCTTAGATATGA
56294943 TATGATATGA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
17 15 0.32
19 32 0.68
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.34
Consensus pattern (18 bp):
ATGCAATCTTAGATATGA
Found at i:56294924 original size:14 final size:15
Alignment explanation
Indices: 56294905--56294942 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
56294895 TCTTAGATGT
56294905 GATATGA-AATCTTA
1 GATATGACAATCTTA
56294919 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
56294936 GATATGA
1 GATATGA
56294943 TATGATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
16 1 0.05
17 13 0.62
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:56294932 original size:36 final size:37
Alignment explanation
Indices: 56294868--56294947 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 37
56294858 ATCTTTAAGA
* * *
56294868 ATATGCAATCTTAGATATGACATGCAATCTTAGATGTG
1 ATATGAAATCTTAGATATGA-ATACAATCTTAGATATG
56294906 ATATGAAATCTTAGATATG-ATACAATCTTAGATATG
1 ATATGAAATCTTAGATATGAATACAATCTTAGATATG
56294942 ATATGA
1 ATATGA
56294948 TATGATATGC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
36 21 0.54
38 18 0.46
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (37 bp):
ATATGAAATCTTAGATATGAATACAATCTTAGATATG
Found at i:56300164 original size:7 final size:8
Alignment explanation
Indices: 56300153--56300196 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
56300143 AAAAGTAAAA
56300153 AAAAAGAG
1 AAAAAGAG
*
56300161 AAAAAAAG
1 AAAAAGAG
56300169 AAAAAGA-
1 AAAAAGAG
56300176 AAAAAGAG
1 AAAAAGAG
*
56300184 AAAAAAAG
1 AAAAAGAG
56300192 AAAAA
1 AAAAA
56300197 TGGAGAGGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
7 7 0.22
8 25 0.78
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (8 bp):
AAAAAGAG
Found at i:56300166 original size:23 final size:22
Alignment explanation
Indices: 56300129--56300196 Score: 104
Period size: 23 Copynumber: 3.1 Consensus size: 22
56300119 CTTCTATTTC
*
56300129 AAAAAAAAAG-GAAAAAAAG-T
1 AAAAAAAAAGAGAAAAAAAGAA
56300149 AAAAAAAAAGAGAAAAAAAGAA
1 AAAAAAAAAGAGAAAAAAAGAA
56300171 AAAGAAAAAAGAGAAAAAAAGAA
1 AAA-AAAAAAGAGAAAAAAAGAA
56300194 AAA
1 AAA
56300197 TGGAGAGGCC
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
20 10 0.23
21 9 0.20
22 3 0.07
23 22 0.50
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.01
Consensus pattern (22 bp):
AAAAAAAAAGAGAAAAAAAGAA
Found at i:56300202 original size:18 final size:17
Alignment explanation
Indices: 56300131--56300196 Score: 64
Period size: 17 Copynumber: 3.8 Consensus size: 17
56300121 TCTATTTCAA
*
56300131 AAAAAAAGGAAAAAAAGTAA
1 AAAAAAA-G-AAAAAAG-AG
56300151 AAAAAAAGAGAAAAA-A-
1 AAAAAAAGA-AAAAAGAG
*
56300167 AGAAAAAGAAAAAAGAG
1 AAAAAAAGAAAAAAGAG
56300184 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
56300197 TGGAGAGGCC
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
15 5 0.12
16 9 0.22
17 13 0.32
18 1 0.02
19 6 0.15
20 7 0.17
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (17 bp):
AAAAAAAGAAAAAAGAG
Found at i:56301200 original size:43 final size:43
Alignment explanation
Indices: 56301152--56301372 Score: 178
Period size: 43 Copynumber: 5.2 Consensus size: 43
56301142 CGCCTTAATC
56301152 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
* * * * *
56301195 CCCTAAGCAGTAGTGG-AGCAGATCGAAGA-CT-C-G-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAGATCTT-ATCT
*
56301236 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
* * * * *
56301279 CCCTAAGCAGTAGTGG-AGCAGATCGAAGA-CT-C-G-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAGATCTT-ATCT
*
56301320 CCCTAAGCAATAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
56301363 CCCTAAGCAG
1 CCCTAAGCAG
56301373 CAATGGAGCA
Statistics
Matches: 134, Mismatches: 24, Indels: 40
0.68 0.12 0.20
Matches are distributed among these distances:
39 2 0.01
40 10 0.07
41 43 0.32
42 14 0.10
43 53 0.40
44 10 0.07
45 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
Found at i:56301283 original size:84 final size:84
Alignment explanation
Indices: 56301142--56301846 Score: 1018
Period size: 84 Copynumber: 8.4 Consensus size: 84
56301132 CAAAATTCAG
56301142 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
56301207 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
*
56301226 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
56301291 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* *
56301310 CGCCTTAATCCCCTAAGCAATAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGCA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
56301375 ATGGAGCAGATCAAAGACT
66 GTGGAGCAGATCGAAGACT
* ** * * *
56301394 CGCCTTAATCCTCTAAATAGTAGGATAAGAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
**
56301454 GCAGAGCAGATCGACGACGACT
66 GTGGAGCAGATCGA--A-GACT
56301476 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
56301541 GTGGAGCAGATCGAAGACC
66 GTGGAGCAGATCGAAGACT
*
56301560 CGCCTTAATCCCCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
56301625 GTAGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* * * *
56301644 CGCCTTAATCCCCTAAGCAGTAAGGTAACAGG-----TTCGCAGATTTTATCTCCCTAAGCAATA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
56301704 GTAGAGCAGATCGACGACGACT
66 GTGGAGCAGATCGA--A-GACT
* * * *
56301726 CGCCTTAATCCCCTAAGCAGTAAGGTAACAGATTAAATTTGAAGAACTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
56301791 GTGGAGCAGATCGAATA-T
66 GTGGAGCAGATCGAAGACT
* *
56301809 GTGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAA
1 -CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA
56301847 GTATAGCAGA
Statistics
Matches: 557, Mismatches: 47, Indels: 34
0.87 0.07 0.05
Matches are distributed among these distances:
79 75 0.13
81 2 0.00
82 66 0.12
83 1 0.00
84 336 0.60
85 2 0.00
87 75 0.13
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (84 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACT
Found at i:56301541 original size:43 final size:43
Alignment explanation
Indices: 56301486--56301625 Score: 144
Period size: 43 Copynumber: 3.3 Consensus size: 43
56301476 CGCCTTAATC
56301486 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
* * ** *** * *
56301529 CCCTAAGCAGTAGTGG-AGCAGATCGAA-GACCCG-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTTAAATTTGCAGATCTT-ATCT
*
56301570 CCCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
56301613 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
56301626 TAGAGCAGAT
Statistics
Matches: 71, Mismatches: 20, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
40 2 0.03
41 22 0.31
42 10 0.14
43 35 0.49
44 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
Found at i:56301620 original size:250 final size:250
Alignment explanation
Indices: 56301142--56301846 Score: 1076
Period size: 250 Copynumber: 2.8 Consensus size: 250
56301132 CAAAATTCAG
* * *
56301142 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAACAGTAAGGTAACAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTA
*
56301207 GTGGAGCAGATCGA--A-GACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCA
61 GTAGAGCAGATCGACGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCA
* * *
56301269 AATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAATAGG
126 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGG
*
56301334 GTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGCAATGGAGCAGATCAAAGACT
191 GTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGCAATAGAGCAGATCAAAGACT
* * * *
56301394 CGCCTTAATCCTCTAAATAGT-AGGATAAGAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCAG
1 CGCCTTAATCCCCTAAACAGTAAGG-TAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGTAG
56301458 AGCAGATCGACGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATC
65 AGCAGATCGACGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATC
*
56301523 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCGGTAGGGTAA
130 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGTAA
* * *
56301588 CAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACT
195 CAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGCAATAGAGCAGATCAAAGACT
* * *
56301644 CGCCTTAATCCCCTAAGCAGTAAGGTAACAGGTTCGCAGATTTTATCTCCCTAAGCAATAGTAGA
1 CGCCTTAATCCCCTAAACAGTAAGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGTAGA
* * * *
56301709 GCAGATCGACGACGACTCGCCTTAATCCCCTAAGCAGTAAGGTAACAGATTAAATTTGAAGAACT
66 GCAGATCGACGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
* *** *
56301774 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAATATGTGCCTTAACCCCCTAAGCAGTAGGGTAAC
131 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGTAAC
56301839 AGGTTAAA
196 AGGTTAAA
56301847 GTATAGCAGA
Statistics
Matches: 415, Mismatches: 33, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
247 39 0.09
249 1 0.00
250 346 0.83
251 5 0.01
252 24 0.06
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (250 bp):
CGCCTTAATCCCCTAAACAGTAAGGTAACAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGTAGA
GCAGATCGACGACGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGTAAC
AGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGCAATAGAGCAGATCAAAGACT
Found at i:56301753 original size:82 final size:79
Alignment explanation
Indices: 56301600--56301843 Score: 301
Period size: 79 Copynumber: 3.0 Consensus size: 79
56301590 GGTTAAATTT
56301600 GCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGT
1 GCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGT
56301665 AAGGTAACAGGTTC
66 AAGGTAACAGGTTC
* *
56301679 GCAGATTTTATCTCCCTAAGCAATAGTAGAGCAGATCGACGACGACTCGCCTTAATCCCCTAAGC
1 GCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGA--A-GACTCGCCTTAATCCCCTAAGC
* *
56301744 AGTAAGGTAACAGATTAAATTT
63 AGTAAGGTAACAG-----GTTC
* * * * * *
56301766 GAAGAACTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATA-TGTGCCTTAACCCCCTAAGCAG
1 GCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACT-CGCCTTAATCCCCTAAGCAG
*
56301830 TAGGGTAACAGGTT
65 TAAGGTAACAGGTT
56301844 AAAGTATAGC
Statistics
Matches: 142, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
79 39 0.27
81 1 0.01
82 35 0.25
83 1 0.01
84 29 0.20
85 1 0.01
87 36 0.25
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (79 bp):
GCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGT
AAGGTAACAGGTTC
Found at i:56301817 original size:334 final size:329
Alignment explanation
Indices: 56301142--56301846 Score: 1013
Period size: 334 Copynumber: 2.1 Consensus size: 329
56301132 CAAAATTCAG
56301142 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
56301207 GTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAAT
66 GTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAAT
* *
56301272 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAATAGGGTA
131 CTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAATAAGGTA
* * *
56301337 ACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGCAATGGAGCAGATCAAAGACTCGCCTTAA
196 ACAGG----ATTCGCAGATCTTATCTCCCTAAGCAACAATAGAGCAGATCAAAGACTCGCCTTAA
* * ** * *
56301402 TCCTCTAAATAGTAGGATAAGAGGTTCGCAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATCG
257 TCCCCTAAACAGTAGGATAAGAAATTCGAAGAACTTATCTCCCTAAGCAGTAGCAGAGCAGATCG
*
56301467 ACGACGACT
322 AAGACGA-T
56301476 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
56301541 GTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGAT
66 GTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAAT
*
56301606 CTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAAGGTA
131 CTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAATAAGGTA
* * * *
56301671 ACAGG-TTCGCAGATTTTATCTCCCTAAGCAATAGTAGAGCAGATCGACGACGACTCGCCTTAAT
196 ACAGGATTCGCAGATCTTATCTCCCTAAGCAACAATAGAGCAGATC-A--AAGACTCGCCTTAAT
* * **
56301735 CCCCTAAGCAGTAAGG-TAACAGATTAAATTTGAAGAACTTATCTCCCTAAGCAGTAGTGGAGCA
258 CCCCTAAACAGT-AGGAT-A-AG---AAATTCGAAGAACTTATCTCCCTAAGCAGTAGCAGAGCA
* *
56301799 GATCGAATATG-T
317 GATCGAAGACGAT
*
56301811 -GCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA
56301847 GTATAGCAGA
Statistics
Matches: 335, Mismatches: 27, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
329 34 0.10
330 1 0.00
332 24 0.07
333 4 0.01
334 231 0.69
335 1 0.00
337 40 0.12
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (329 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAAAT
CTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAATAAGGTA
ACAGGATTCGCAGATCTTATCTCCCTAAGCAACAATAGAGCAGATCAAAGACTCGCCTTAATCCC
CTAAACAGTAGGATAAGAAATTCGAAGAACTTATCTCCCTAAGCAGTAGCAGAGCAGATCGAAGA
CGAT
Found at i:56302767 original size:19 final size:19
Alignment explanation
Indices: 56302743--56302822 Score: 137
Period size: 19 Copynumber: 4.3 Consensus size: 19
56302733 AATCTTTAAG
56302743 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
56302762 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
56302781 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
56302800 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
56302817 GATATG
1 GATATG
56302823 ATATGATATG
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
17 17 0.30
19 40 0.70
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:56306290 original size:29 final size:29
Alignment explanation
Indices: 56306262--56306363 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
56306252 CCTCCGAGCT
** * * *
56306262 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
56306291 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
56306320 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
56306349 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
56306364 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:56314141 original size:29 final size:29
Alignment explanation
Indices: 56314113--56314214 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
56314103 CCTCCGAGCT
** * * *
56314113 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
56314142 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
56314171 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
56314200 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
56314215 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:56318007 original size:22 final size:22
Alignment explanation
Indices: 56317973--56318016 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
56317963 CAAATTTGTG
* *
56317973 AAAATTTATTATAAAAATAATT
1 AAAATTAAATATAAAAATAATT
**
56317995 AAAATTAAATATATTAATAATT
1 AAAATTAAATATAAAAATAATT
56318017 TAAGTGCAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAAATATAAAAATAATT
Found at i:56320523 original size:43 final size:41
Alignment explanation
Indices: 56320446--56320541 Score: 102
Period size: 43 Copynumber: 2.3 Consensus size: 41
56320436 TGAGTTTACA
* * ** *
56320446 TGTAAGACCATATCCAGTATATGGCATCTTTATGAAAATTTTG
1 TGTAAGACCATATCCAGGACATGGCATCGATATGAAAA--TAG
* * *
56320489 TGTAAGACCATGTCTAGGACATGGCATCGATATGAGAATAG
1 TGTAAGACCATATCCAGGACATGGCATCGATATGAAAATAG
56320530 TGTAAGACCATA
1 TGTAAGACCATA
56320542 GCTGGGCTAT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 13 0.30
43 31 0.70
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (41 bp):
TGTAAGACCATATCCAGGACATGGCATCGATATGAAAATAG
Found at i:56322337 original size:27 final size:28
Alignment explanation
Indices: 56322280--56322349 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
56322270 AAACTTGTAC
*
56322280 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
56322308 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
56322335 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56322350 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:56322360 original size:27 final size:27
Alignment explanation
Indices: 56322280--56322361 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
56322270 AAACTTGTAC
* * *
56322280 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
56322308 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
56322335 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
56322362 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:56330846 original size:11 final size:11
Alignment explanation
Indices: 56330830--56330854 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
56330820 GCTTTATCAA
56330830 TCTATATATAG
1 TCTATATATAG
56330841 TCTATATATAG
1 TCTATATATAG
56330852 TCT
1 TCT
56330855 TTATCAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (11 bp):
TCTATATATAG
Found at i:56333443 original size:70 final size:70
Alignment explanation
Indices: 56333330--56333479 Score: 291
Period size: 70 Copynumber: 2.1 Consensus size: 70
56333320 CATGATTTTC
*
56333330 TTTCTTCAGATACCTTTTTCTTCTTTCCTTTCTGGAAAAAGAAAAATCAAATTTCTTCCTCCTTC
1 TTTCTTCAAATACCTTTTTCTTCTTTCCTTTCTGGAAAAAGAAAAATCAAATTTCTTCCTCCTTC
56333395 AGTTA
66 AGTTA
56333400 TTTCTTCAAATACCTTTTTCTTCTTTCCTTTCTGGAAAAAGAAAAATCAAATTTCTTCCTCCTTC
1 TTTCTTCAAATACCTTTTTCTTCTTTCCTTTCTGGAAAAAGAAAAATCAAATTTCTTCCTCCTTC
56333465 AGTTA
66 AGTTA
56333470 TTTCTTCAAA
1 TTTCTTCAAA
56333480 CCATTATTAT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 79 1.00
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.45
Consensus pattern (70 bp):
TTTCTTCAAATACCTTTTTCTTCTTTCCTTTCTGGAAAAAGAAAAATCAAATTTCTTCCTCCTTC
AGTTA
Found at i:56336604 original size:21 final size:21
Alignment explanation
Indices: 56336578--56336617 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
56336568 CTACTAGAAA
56336578 ACAATT-TTTTGCTTGATTTCC
1 ACAATTGTTTT-CTTGATTTCC
*
56336599 ACAATTGTTTTCTTTATTT
1 ACAATTGTTTTCTTGATTT
56336618 GAGGCTAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.57
Consensus pattern (21 bp):
ACAATTGTTTTCTTGATTTCC
Found at i:56338635 original size:336 final size:337
Alignment explanation
Indices: 56338022--56338696 Score: 1109
Period size: 336 Copynumber: 2.0 Consensus size: 337
56338012 TGGTACTAGA
* * *
56338022 TAAGAGTTCAACCTATGTATATACCAAACCTATAGGAGACAACACTTAAAGAATTTGTACTTACT
1 TAAGAGTTCAACCTATGTATATACCAAACCTATAAGAGACAACACTTAAAGAATTTATACCTACT
*
56338087 CTTCAAGCTTTGATAAGGTGATGAAATCTCCTGAAGTGGGCATGGGTTCTATTGGAACATCGATA
66 CTTCAAGCTTTGATAAGGTGATAAAATCTCCTGAAGTGGGCATGGGTTCTATTGGAACATCGATA
* *
56338152 TGCCTCCTGGCACAGCGAAAAAATAATTTTGGTGATCACAACCCATGGTATAAGCAAGTGACATA
131 TGCCTCCTGGCACAACGAAAAAATAATTCTGGTGATCACAACCCATGGTATAAGCAAGTGACATA
* * *
56338217 TTAAGAATATGAGCACCACCATAATGTAATACTAAACCCACAATCAAGCCTTCATCCCAATAAGA
196 TTAAGAATACGAGCACCACCATAAGGTAATACTAAACCCACAATCAAGCCTTCATCCCAACAAGA
* *
56338282 ACCATCAACACTCAATAGCTCACTGAACTCCATATCTTTCAGCCCATCCAATGGAACCAAGTCAA
261 ACCATCAACACTCAATAGCTCACTGAACTCCATATCTTCCAGCCCATCCAACGGAACCAAGTCAA
56338347 CC-AAAAATTGT
326 CCAAAAAATTGT
*
56338358 TAAGAGTTCAACCTATGTATATACCAAACCTATAAGAGACAACACTTAAAGAATTTATACCTATT
1 TAAGAGTTCAACCTATGTATATACCAAACCTATAAGAGACAACACTTAAAGAATTTATACCTACT
* * * * * *
56338423 CTTCAAGCTTTGCTGAGGTGATAAAATGTCTTGAAGTGGGCATGGGTTCTATTGGAATATCGGTA
66 CTTCAAGCTTTGATAAGGTGATAAAATCTCCTGAAGTGGGCATGGGTTCTATTGGAACATCGATA
* * * *
56338488 TGCCTCGTGGTACAACGATAAAATAATTCTGGTGATCATAACCCATGGTATAAGCAAGTGACATA
131 TGCCTCCTGGCACAACGAAAAAATAATTCTGGTGATCACAACCCATGGTATAAGCAAGTGACATA
* *
56338553 TTAAGAATACGAGCACCACCATAAGGTAATAGTAAACCCACAATCAAGCCTTCATCCTAACAAGA
196 TTAAGAATACGAGCACCACCATAAGGTAATACTAAACCCACAATCAAGCCTTCATCCCAACAAGA
* *
56338618 ACCATCAACACTCAATAGCTCATTGAACTCCATATCTTCCAGCCTATCCAACGGAACCAAGTCAA
261 ACCATCAACACTCAATAGCTCACTGAACTCCATATCTTCCAGCCCATCCAACGGAACCAAGTCAA
56338683 CCAAAAAATTGT
326 CCAAAAAATTGT
56338695 TA
1 TA
56338697 TCACAAAAAA
Statistics
Matches: 312, Mismatches: 26, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
336 301 0.96
337 11 0.04
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (337 bp):
TAAGAGTTCAACCTATGTATATACCAAACCTATAAGAGACAACACTTAAAGAATTTATACCTACT
CTTCAAGCTTTGATAAGGTGATAAAATCTCCTGAAGTGGGCATGGGTTCTATTGGAACATCGATA
TGCCTCCTGGCACAACGAAAAAATAATTCTGGTGATCACAACCCATGGTATAAGCAAGTGACATA
TTAAGAATACGAGCACCACCATAAGGTAATACTAAACCCACAATCAAGCCTTCATCCCAACAAGA
ACCATCAACACTCAATAGCTCACTGAACTCCATATCTTCCAGCCCATCCAACGGAACCAAGTCAA
CCAAAAAATTGT
Found at i:56339828 original size:20 final size:20
Alignment explanation
Indices: 56339803--56339841 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
56339793 CTCAATTTAG
**
56339803 GATAATTAATTATTTAATTA
1 GATAATTAAAGATTTAATTA
56339823 GATAATTAAAGATTTAATT
1 GATAATTAAAGATTTAATT
56339842 GATCATAGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (20 bp):
GATAATTAAAGATTTAATTA
Found at i:56343712 original size:79 final size:80
Alignment explanation
Indices: 56343576--56343793 Score: 232
Period size: 79 Copynumber: 2.8 Consensus size: 80
56343566 GAATCACGTA
*** * **
56343576 CCTTCGGAAT-TTAA-CCGGATATAACGACTCGCTCAAATGCCTTCGGGACAAAGCCCGG-TTAT
1 CCTTCGG-ATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-T
*
56343638 AGTAACTCGCACGAATG
64 AGTAACTCGCACGAACG
* *
56343655 CCTTCGGGA-CTTAACCCGGGTTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTA
1 CCTTC-GGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTA
*
56343718 TTAACTCGCACGAACG
65 GTAACTCGCACGAACG
** * *
56343734 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
56343794 CATCATTCAA
Statistics
Matches: 116, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
78 3 0.03
79 63 0.54
80 50 0.43
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAG
TAACTCGCACGAACG
Found at i:56343793 original size:40 final size:39
Alignment explanation
Indices: 56343602--56343793 Score: 190
Period size: 40 Copynumber: 4.8 Consensus size: 39
56343592 GGATATAACG
* ** *
56343602 ACTCGCTCAAATGCCTTCGGGACAAAGCCCGGTTATAGTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
56343642 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* *
56343682 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * *
56343721 ACTCGCACGAACGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
56343761 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
56343794 CATCATTCAA
Statistics
Matches: 126, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 83 0.66
41 10 0.08
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:56351727 original size:79 final size:80
Alignment explanation
Indices: 56351591--56351808 Score: 232
Period size: 79 Copynumber: 2.8 Consensus size: 80
56351581 GAATCACGTA
*** * **
56351591 CCTTCGGAAT-TTAA-CCGGATATAACGACTCGCTCAAATGCCTTCGGGACAAAGCCCGG-TTAT
1 CCTTCGG-ATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-T
*
56351653 AGTAACTCGCACGAATG
64 AGTAACTCGCACGAACG
* *
56351670 CCTTCGGGA-CTTAACCCGGGTTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTA
1 CCTTC-GGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTA
*
56351733 TTAACTCGCACGAACG
65 GTAACTCGCACGAACG
** * *
56351749 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
56351809 CATCATTCAA
Statistics
Matches: 116, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
78 3 0.03
79 63 0.54
80 50 0.43
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAG
TAACTCGCACGAACG
Found at i:56351808 original size:40 final size:39
Alignment explanation
Indices: 56351617--56351808 Score: 190
Period size: 40 Copynumber: 4.8 Consensus size: 39
56351607 GGATATAACG
* ** *
56351617 ACTCGCTCAAATGCCTTCGGGACAAAGCCCGGTTATAGTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
56351657 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* *
56351697 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * *
56351736 ACTCGCACGAACGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
56351776 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
56351809 CATCATTCAA
Statistics
Matches: 126, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 83 0.66
41 10 0.08
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:56356464 original size:11 final size:11
Alignment explanation
Indices: 56356448--56356477 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
56356438 AAATGAGCCT
*
56356448 TTTACCACAAG
1 TTTACCAAAAG
56356459 TTTACCAAAAG
1 TTTACCAAAAG
56356470 TTTACCAA
1 TTTACCAA
56356478 CCCTGCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (11 bp):
TTTACCAAAAG
Found at i:56358272 original size:5 final size:5
Alignment explanation
Indices: 56358264--56358306 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
56358254 CTTTATGTTT
56358264 TATTA TATTA TATTA TATTA T-TATA TTATTA TATTAA TATTA T
1 TATTA TATTA TATTA TATTA TAT-TA -TATTA TATT-A TATTA T
56358307 TATAATGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
4 1 0.03
5 24 0.71
6 8 0.24
7 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:56358285 original size:3 final size:3
Alignment explanation
Indices: 56358263--56358309 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
56358253 ACTTTATGTT
*
56358263 TTA TTA -TA TTA -TA TTA -TA TTA TTA -TA TTA TTA -TA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
56358306 TTA T
1 TTA T
56358310 AATGTATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 10 0.27
3 27 0.73
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:56358285 original size:8 final size:8
Alignment explanation
Indices: 56358263--56358310 Score: 64
Period size: 8 Copynumber: 6.0 Consensus size: 8
56358253 ACTTTATGTT
56358263 TTATTATA
1 TTATTATA
56358271 TTATATTATA
1 -T-TATTATA
56358281 TTATTATA
1 TTATTATA
56358289 TTATTATA
1 TTATTATA
56358297 TTA--ATA
1 TTATTATA
56358303 TTATTATA
1 TTATTATA
56358311 ATGTATATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
6 6 0.17
8 21 0.58
9 2 0.06
10 7 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TTATTATA
Found at i:56359088 original size:41 final size:41
Alignment explanation
Indices: 56359031--56359111 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
56359021 CTAATTATGG
* *
56359031 GCACTTAGTGTGCGAGATTGAGATAGCTTTGGTTATATATT
1 GCACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATATATT
56359072 GCACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATATAT
1 GCACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATATAT
56359112 ATACATTGGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.36
Consensus pattern (41 bp):
GCACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATATATT
Found at i:56361696 original size:43 final size:43
Alignment explanation
Indices: 56361605--56361711 Score: 151
Period size: 43 Copynumber: 2.5 Consensus size: 43
56361595 TAGCCTAGCT
* * *
56361605 ATGGTCTTACACAAAATCAAATAATGATGCCAATGTCCCAGAC
1 ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAAAC
* *
56361648 ATGGTCTTACACGTAATCACATAATGATGCCAATGTCCCAAAT
1 ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAAAC
* *
56361691 GTGGTCTTATACATAATCACA
1 ATGGTCTTACACATAATCACA
56361712 ACTCATCAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAAAC
Found at i:56363949 original size:57 final size:58
Alignment explanation
Indices: 56363854--56363993 Score: 158
Period size: 57 Copynumber: 2.4 Consensus size: 58
56363844 ATGTATACAA
* ** ** * *
56363854 CAGGATTACCAGTCCAGGCTAAATCCTTTTTATGACATATGCTCTAAAGAGA-TT-TAT
1 CAGGATTACCCGTCCAGGCTAAATCCAATCCATAACATATGCTCGAAAG-GACTTATAT
* * *
56363911 CTGGATTACCCGTCCAGGATAAATCCAATCCATAACATATGCTCGAGAGGACTTATAT
1 CAGGATTACCCGTCCAGGCTAAATCCAATCCATAACATATGCTCGAAAGGACTTATAT
*
56363969 CAGGATTACCCATCCAGGCTAAATC
1 CAGGATTACCCGTCCAGGCTAAATC
56363994 TTTCTATAAT
Statistics
Matches: 68, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
56 2 0.03
57 41 0.60
58 25 0.37
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (58 bp):
CAGGATTACCCGTCCAGGCTAAATCCAATCCATAACATATGCTCGAAAGGACTTATAT
Found at i:56367239 original size:2 final size:2
Alignment explanation
Indices: 56367232--56367301 Score: 101
Period size: 2 Copynumber: 36.0 Consensus size: 2
56367222 TCATTTAAGT
56367232 TA TA TA TA -A GTA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
56367273 TA TA TA TA TA TA TA TA TA TA AA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56367302 ATTATTAACC
Statistics
Matches: 62, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
1 3 0.05
2 58 0.94
3 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:56367333 original size:3 final size:3
Alignment explanation
Indices: 56367327--56367368 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
56367317 TATGGTTTTA
56367327 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
56367369 AAAATAAAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:56368814 original size:23 final size:23
Alignment explanation
Indices: 56368787--56368868 Score: 107
Period size: 23 Copynumber: 3.7 Consensus size: 23
56368777 GGCTTTGCCG
56368787 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
56368810 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* * * *
56368833 TTCAGGCACTTCATGCGTGGT-T
1 ATCAGGCACTTTATGTGTCGTAT
56368855 -TCAGGCAC-TTATGT
1 ATCAGGCACTTTATGT
56368869 AACACCCCGA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.08
21 8 0.15
22 1 0.02
23 40 0.75
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:56370450 original size:28 final size:28
Alignment explanation
Indices: 56370410--56370477 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 28
56370400 ATAGTAAGTC
*
56370410 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
56370438 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
56370466 CGCACACTTAGT
1 CGCACACTTAGT
56370478 ACCAATCTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 36 0.97
29 1 0.03
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:56371035 original size:2 final size:2
Alignment explanation
Indices: 56371028--56371058 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
56371018 ATGGGCATAC
56371028 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
56371059 GCCGAATGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:56379922 original size:36 final size:36
Alignment explanation
Indices: 56379881--56379952 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
56379871 AATATCTCTA
56379881 CAATTTCAACTATTAGAATTATAAATCAAATAGATT
1 CAATTTCAACTATTAGAATTATAAATCAAATAGATT
56379917 CAATTTCAACTATTAGAATTATAAATCAAATAGATT
1 CAATTTCAACTATTAGAATTATAAATCAAATAGATT
56379953 GAGTTGAAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (36 bp):
CAATTTCAACTATTAGAATTATAAATCAAATAGATT
Found at i:56386657 original size:14 final size:14
Alignment explanation
Indices: 56386635--56386673 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
56386625 TCAAATATAC
*
56386635 ATTATAAAATTAAAA
1 ATTA-AAAATAAAAA
56386650 ATTAAAAATAAAAA
1 ATTAAAAATAAAAA
*
56386664 ATTTAAAATA
1 ATTAAAAATA
56386674 GAAATCTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
ATTAAAAATAAAAA
Found at i:56391576 original size:11 final size:10
Alignment explanation
Indices: 56391545--56391583 Score: 55
Period size: 11 Copynumber: 4.0 Consensus size: 10
56391535 AGCAACAATT
56391545 TCAAAAA-CA
1 TCAAAAATCA
56391554 T-AAAAATCA
1 TCAAAAATCA
56391563 TCAAAAATCGA
1 TCAAAAATC-A
56391574 TCAAAAATCA
1 TCAAAAATCA
56391584 CATACCAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 5 0.19
9 4 0.15
10 8 0.30
11 10 0.37
ACGTcount: A:0.62, C:0.18, G:0.03, T:0.18
Consensus pattern (10 bp):
TCAAAAATCA
Found at i:56394607 original size:39 final size:39
Alignment explanation
Indices: 56394553--56394695 Score: 232
Period size: 39 Copynumber: 3.6 Consensus size: 39
56394543 AATGTTCGAG
56394553 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTA
* * *
56394592 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTA
*
56394631 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTA
*
56394670 TGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
56394696 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 86 0.91
40 9 0.09
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTA
Found at i:56394641 original size:78 final size:79
Alignment explanation
Indices: 56394553--56394735 Score: 260
Period size: 78 Copynumber: 2.3 Consensus size: 79
56394543 AATGTTCGAG
56394553 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATACCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATACCCGGGCTAAGTCCCGAAGGC
56394617 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
* * *
56394631 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATACCCGGGCTAAGTCCCGAAGGC
** *
56394696 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
56394710 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
56394736 GTTTGAACGA
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
78 52 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATACCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:56402606 original size:38 final size:39
Alignment explanation
Indices: 56402554--56402696 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
56402544 GAATGTTCGA
56402554 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
56402593 GTGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
56402631 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
56402670 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
56402697 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:56402642 original size:77 final size:79
Alignment explanation
Indices: 56402555--56402736 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
56402545 AATGTTCGAG
56402555 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATA-CCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
56402618 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
56402632 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
56402697 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
56402711 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
56402737 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:56408656 original size:37 final size:36
Alignment explanation
Indices: 56408586--56408657 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 36
56408576 AAAAAAGTAG
* * *
56408586 TCCAACCGAAACATGGCAAACGTTCATAAGAGCTAA
1 TCCAACCGAAACACGCCAAACGCTCATAAGAGCTAA
* *
56408622 TCCAACCGATAACACGCCAAATGCTCATATGAGCTA
1 TCCAACCGA-AACACGCCAAACGCTCATAAGAGCTA
56408658 TATATCCGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 9 0.30
37 21 0.70
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.18
Consensus pattern (36 bp):
TCCAACCGAAACACGCCAAACGCTCATAAGAGCTAA
Found at i:56410096 original size:15 final size:15
Alignment explanation
Indices: 56410076--56410115 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
56410066 TAATTTCATG
*
56410076 AAATTTACTTGTTTA
1 AAATTTAATTGTTTA
56410091 AAATTTAATTGTTTA
1 AAATTTAATTGTTTA
56410106 AAATTTAATT
1 AAATTTAATT
56410116 TGTCTCTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (15 bp):
AAATTTAATTGTTTA
Found at i:56414832 original size:64 final size:64
Alignment explanation
Indices: 56414751--56414934 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
56414741 AGAAATTATG
* * *
56414751 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
56414815 ATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACTATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
56414880 AA
63 AA
* * *
56414882 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
56414935 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 25 0.26
66 21 0.22
67 32 0.33
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:56418601 original size:21 final size:21
Alignment explanation
Indices: 56418577--56418636 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
56418567 GGATCACATG
56418577 CCCGTGTGGCCATGGGACGCA
1 CCCGTGTGGCCATGGGACGCA
* *
56418598 CCCGTGTGACCATGAGACGCA
1 CCCGTGTGGCCATGGGACGCA
* *
56418619 CCTGTATGGCCATGGGAC
1 CCCGTGTGGCCATGGGAC
56418637 ACGCCCTCGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.18, C:0.32, G:0.33, T:0.17
Consensus pattern (21 bp):
CCCGTGTGGCCATGGGACGCA
Found at i:56424890 original size:72 final size:68
Alignment explanation
Indices: 56424753--56424891 Score: 188
Period size: 72 Copynumber: 2.0 Consensus size: 68
56424743 TTTTAATAAA
* *
56424753 CTTAATATTAAATTTAATTTAATATTTACCTAAATAGTATTTTATTAATTTAATATTAAAATGAT
1 CTTAATATTAAATTTAATTTAATATTTACCTAAATAATATTATATTAATTTAATATTAAAATGAT
56424818 TAT
66 TAT
* * * *
56424821 CTTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTATATTAATTTAATATTAAAG
1 CTTAATATTAAATTTAATTTAATATTTA-C--CTAAAT-AATATTATATTAATTTAATATTAAAA
56424886 TGATTA
62 TGATTA
56424892 AGTTTAATCA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
68 27 0.44
69 1 0.02
71 4 0.07
72 29 0.48
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.50
Consensus pattern (68 bp):
CTTAATATTAAATTTAATTTAATATTTACCTAAATAATATTATATTAATTTAATATTAAAATGAT
TAT
Found at i:56433666 original size:8 final size:9
Alignment explanation
Indices: 56433627--56433674 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
56433617 TTAATAAATG
56433627 TTTTATATA
1 TTTTATATA
56433636 TTTTTATATA
1 -TTTTATATA
* *
56433646 TTTTGTATT
1 TTTTATATA
56433655 TTTTATA-A
1 TTTTATATA
56433663 TTTTATA-A
1 TTTTATATA
56433671 TTTT
1 TTTT
56433675 TGCAAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
8 12 0.35
9 13 0.38
10 9 0.26
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (9 bp):
TTTTATATA
Found at i:56433712 original size:27 final size:26
Alignment explanation
Indices: 56433656--56433708 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
56433646 TTTTGTATTT
*
56433656 TTTATAATTTTATAATTTTTGCAAGTA
1 TTTATAATTTTATAATTTTT-CAAATA
*
56433683 TTTATAATTTTAATACTTTTT-AAATA
1 TTTATAATTTT-ATAATTTTTCAAATA
56433709 ATTTTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 4 0.17
27 11 0.48
28 8 0.35
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (26 bp):
TTTATAATTTTATAATTTTTCAAATA
Found at i:56443142 original size:31 final size:31
Alignment explanation
Indices: 56443090--56443164 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
56443080 TAAAAACTTA
* * * *
56443090 AATATAATAAATAAATTATATTTATATTATTT
1 AATATAAT-GATAAATGATATTTAAATAATTT
56443122 AATATAATGATAAATGATATTTAAATAATTT
1 AATATAATGATAAATGATATTTAAATAATTT
*
56443153 GATATAATGATA
1 AATATAATGATA
56443165 CATAAATTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
31 30 0.79
32 8 0.21
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (31 bp):
AATATAATGATAAATGATATTTAAATAATTT
Found at i:56443155 original size:23 final size:23
Alignment explanation
Indices: 56443117--56443164 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
56443107 ATATTTATAT
56443117 TATTTAATATAATGATA-AATGA
1 TATTTAATATAATGATATAATGA
56443139 TATTTAA-ATAATTTGATATAATGA
1 TATTTAATATAA--TGATATAATGA
56443163 TA
1 TA
56443165 CATAAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 7 0.30
23 5 0.22
24 7 0.30
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (23 bp):
TATTTAATATAATGATATAATGA
Found at i:56443178 original size:31 final size:31
Alignment explanation
Indices: 56443090--56443189 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 31
56443080 TAAAAACTTA
* * * * *
56443090 AATATAATAAATAAATTATATTTATATTATTT
1 AATATAAT-GATAAATGAAATTTAAATAATTT
*
56443122 AATATAATGATAAATGATATTTAAATAATTT
1 AATATAATGATAAATGAAATTTAAATAATTT
* * *
56443153 GATATAATGATACAT-AAATTATAAATTAATCT
1 AATATAATGATAAATGAAATT-TAAA-TAATTT
56443185 AATAT
1 AATAT
56443190 TTTTTTAGAT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
30 4 0.07
31 36 0.63
32 17 0.30
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (31 bp):
AATATAATGATAAATGAAATTTAAATAATTT
Found at i:56443503 original size:118 final size:118
Alignment explanation
Indices: 56443295--56443532 Score: 377
Period size: 118 Copynumber: 2.0 Consensus size: 118
56443285 ACACTTGAAT
* * *
56443295 GAAAAAAAAACTTTTTCATCACAATTTTGACCCCAAAAGCCAGATGTCCTTCATTGCTCTTGCGG
1 GAAAAAAAAACTTTTTCACCACAATTTTGACCCCAAAAACCAGATGTCCTTCATTGCTCATGCGG
56443360 TGAAAATCCACTTTTGGCTTCTCAAATGCAATGAAGAATGAGACTTTAATAAA
66 TGAAAATCCACTTTTGGCTTCTCAAATGCAATGAAGAATGAGACTTTAATAAA
* * * * * *
56443413 GAAAAAGACACTTTTTCACCCCAATTTTGACCCCAAAAACTAGATGTCTTTCATTGCTCATGTGG
1 GAAAAAAAAACTTTTTCACCACAATTTTGACCCCAAAAACCAGATGTCCTTCATTGCTCATGCGG
* *
56443478 TGAAAATCTACTTTTGGCTTCTCAAATGCAATGAAGAATGAGACTTTAGTAAA
66 TGAAAATCCACTTTTGGCTTCTCAAATGCAATGAAGAATGAGACTTTAATAAA
56443531 GA
1 GA
56443533 CAACGACGAC
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
118 109 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (118 bp):
GAAAAAAAAACTTTTTCACCACAATTTTGACCCCAAAAACCAGATGTCCTTCATTGCTCATGCGG
TGAAAATCCACTTTTGGCTTCTCAAATGCAATGAAGAATGAGACTTTAATAAA
Found at i:56454750 original size:24 final size:24
Alignment explanation
Indices: 56454701--56454765 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 24
56454691 ACGACTCTTC
56454701 GTGAGCTTCCT-ATTAATTGGCTCTAT
1 GTGAGCTTCCTGA-T-A-TGGCTCTAT
56454727 GTGAGCTTCCTGATATGGCTCTAT
1 GTGAGCTTCCTGATATGGCTCTAT
* *
56454751 -TGAACTTTCTGATAT
1 GTGAGCTTCCTGATAT
56454766 ATGGATATCC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 13 0.36
24 9 0.25
25 1 0.03
26 12 0.33
27 1 0.03
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (24 bp):
GTGAGCTTCCTGATATGGCTCTAT
Found at i:56457113 original size:48 final size:47
Alignment explanation
Indices: 56457043--56457422 Score: 340
Period size: 48 Copynumber: 7.9 Consensus size: 47
56457033 GGGTAAATTA
* * * *
56457043 CCGATGCCATGTCTCAGACATAGTCTTACACTGGCTCACATGTCGAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAG
* * * * *
56457090 ACCGATGCCATGTCCCAGACATAGTTTTACACTAACTCTCATAAT-GTGG
1 -CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCG-AG
*
56457139 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGA-G
* * * *
56457187 CCGATGCCATGTCCTAGACATGGTCTTACATTGGCTTTCATAATAT-G-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGC--TCA-CATATCGAG
* * * *
56457235 CCGATGCCATGTCCCAAACATGGTCTTACACTAACACACATATCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGA-G
* * * * *
56457283 TCGATGCCATGTCCCAAATATGGTCTTACACTAG-TACACATATCAACA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-CACATATCGA-G
* ** *
56457331 CCGATGCCATGTCCCAAACATGGTCTTACACT-GCCTCTTATAAT-GTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCACAT-ATCG-AG
* *
56457379 CCGATTCCATGTCCCAGACATGGTCTTACACTAGCACACATATC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC
56457423 ACCCAATTGT
Statistics
Matches: 271, Mismatches: 44, Indels: 34
0.78 0.13 0.10
Matches are distributed among these distances:
45 4 0.01
46 2 0.01
47 4 0.01
48 248 0.92
49 6 0.02
50 4 0.01
51 3 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAG
Found at i:56457306 original size:144 final size:145
Alignment explanation
Indices: 56457091--56457423 Score: 426
Period size: 144 Copynumber: 2.3 Consensus size: 145
56457081 CATGTCGAGA
* * * *
56457091 CCGATGCCATGTCCCAGACATAGTTTTACACTAACTCTC--AT-AATGTGGCCGATGCCATGTCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAACACACATATCAATGT-G-CGATGCCATGTCC
* * * ** * *
56457153 CAGACATGGTCTTACACTAGCT-CACATGTCGAGGCCGATGCCATGTCCTAGACATGGTCTTACA
64 CAAACATGGTCTTACACTAG-TACACATATCAACACCGATGCCATGTCCCAAACATGGTCTTACA
* *
56457217 TTGGCT-TTCATAATATGG
128 CTGCCTCTT-ATAATATGG
*
56457235 CCGATGCCATGTCCCAAACATGGTCTTACACTAACACACATATCAATGT-CGATGCCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAACACACATATCAATGTGCGATGCCATGTCCCA
*
56457299 AATATGGTCTTACACTAGTACACATATCAACACCGATGCCATGTCCCAAACATGGTCTTACACTG
66 AACATGGTCTTACACTAGTACACATATCAACACCGATGCCATGTCCCAAACATGGTCTTACACTG
*
56457364 CCTCTTATAATGTGG
131 CCTCTTATAATATGG
* *
56457379 CCGATTCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAACACACATATCA
56457424 CCCAATTGTC
Statistics
Matches: 165, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
143 1 0.01
144 155 0.94
145 2 0.01
146 2 0.01
147 5 0.03
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (145 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAACACACATATCAATGTGCGATGCCATGTCCCA
AACATGGTCTTACACTAGTACACATATCAACACCGATGCCATGTCCCAAACATGGTCTTACACTG
CCTCTTATAATATGG
Found at i:56459659 original size:47 final size:47
Alignment explanation
Indices: 56459607--56459796 Score: 163
Period size: 47 Copynumber: 4.1 Consensus size: 47
56459597 TGGTTGGACG
* * * * *
56459607 ATGGCAAC-ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCT
1 ATGGCATCGATGTGATATGTG-CTTCCATATAAGACCATAGCTGAGAT
* * * *
56459654 ATGGCATCGGTGTGATATGAGCTTCCGTATAAGACCATATCTGAGAT
1 ATGGCATCGATGTGATATGTGCTTCCATATAAGACCATAGCTGAGAT
* * * * *
56459701 ATGGCATCGGTATGATATGTGCTTCTATGTAAGACCATATCT-AGGAT
1 ATGGCATCGATGTGATATGTGCTTCCATATAAGACCATAGCTGA-GAT
* * * *
56459748 ATGGCATC-AGTGTGATATGTG-ATCCATGTAAGACCATGGCTGAGCT
1 ATGGCATCGA-TGTGATATGTGCTTCCATATAAGACCATAGCTGAGAT
56459794 ATG
1 ATG
56459797 ACTTCAGTGT
Statistics
Matches: 120, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
46 22 0.18
47 88 0.73
48 10 0.08
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (47 bp):
ATGGCATCGATGTGATATGTGCTTCCATATAAGACCATAGCTGAGAT
Found at i:56466891 original size:40 final size:40
Alignment explanation
Indices: 56466806--56466956 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
56466796 AATTGAATGA
* * *
56466806 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
56466846 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
56466887 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
56466926 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
56466957 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:56466970 original size:40 final size:40
Alignment explanation
Indices: 56466842--56466972 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
56466832 TATGCTGGAA
* * *
56466842 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
56466882 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
56466922 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
56466962 ATTATATCCGG
1 ATTATATCCGG
56466973 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:56474895 original size:40 final size:40
Alignment explanation
Indices: 56474810--56474960 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
56474800 AATTGAATGA
* * *
56474810 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
56474850 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
56474891 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
56474930 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
56474961 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:56474974 original size:40 final size:40
Alignment explanation
Indices: 56474846--56474976 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
56474836 TATGCTGGAA
* * *
56474846 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
56474886 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
56474926 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
56474966 ATTATATCCGG
1 ATTATATCCGG
56474977 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:56477577 original size:49 final size:49
Alignment explanation
Indices: 56477521--56477616 Score: 192
Period size: 49 Copynumber: 2.0 Consensus size: 49
56477511 TATTCATGAG
56477521 CCAGATGTAGGCATAGATGTAACTTACTCATTACCAACCATACAAGTAC
1 CCAGATGTAGGCATAGATGTAACTTACTCATTACCAACCATACAAGTAC
56477570 CCAGATGTAGGCATAGATGTAACTTACTCATTACCAACCATACAAGT
1 CCAGATGTAGGCATAGATGTAACTTACTCATTACCAACCATACAAGT
56477617 CACATAATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (49 bp):
CCAGATGTAGGCATAGATGTAACTTACTCATTACCAACCATACAAGTAC
Found at i:56477874 original size:46 final size:46
Alignment explanation
Indices: 56477786--56478006 Score: 229
Period size: 46 Copynumber: 4.7 Consensus size: 46
56477776 GGGTAAGGTT
56477786 CCGATGCCATGTCCCAGACATGGTCTTACACT-GAC-TATCATCTCGTAG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTA-CATCTCGTAG
* *
56477834 TCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCG-AGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGTA-G
* *
56477880 CCGATGCATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAGT-G
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC-TTACATCTC-GTAG
* * * * *
56477926 CCGATGCCATGTACCAGACATGGTTTTACACTAGCTTCCATAAT-GTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACAT-CTCGTAG
56477974 CCGATGCATGTCCCAGACATGTCTTACACTAGC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC
56478007 ACACACAAGT
Statistics
Matches: 150, Mismatches: 12, Indels: 24
0.81 0.06 0.13
Matches are distributed among these distances:
45 1 0.01
46 74 0.49
47 48 0.32
48 26 0.17
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGTAG
Found at i:56477993 original size:94 final size:93
Alignment explanation
Indices: 56477786--56478009 Score: 278
Period size: 94 Copynumber: 2.4 Consensus size: 93
56477776 GGGTAAGGTT
* *
56477786 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTATCATCTCGTAGTCGATGCATGTCCCA
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-ATCATCTCGTAGCCGATGCATGTACCA
* *
56477849 GACATGTCTTACACTGGCTTACATCTCGAGG
63 GACATGTCTTACACTAGCTTACATATCGAGG
*
56477880 CCGATGCATGTCCCAGACATGTCTTACACTAGCAC-TCGTCTCAGT-GCCGATGCCATGTACCAG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACATCATCTC-GTAGCCGATG-CATGTACCAG
* * *
56477943 ACATGGTTTTACACTAGCTTCCATAAT-GTGG
64 ACAT-GTCTTACACTAGCTTACAT-ATCGAGG
56477974 CCGATGCATGTCCCAGACATGTCTTACACTAGCACA
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACA
56478010 CACAAGTGAC
Statistics
Matches: 115, Mismatches: 8, Indels: 13
0.85 0.06 0.10
Matches are distributed among these distances:
92 22 0.19
93 30 0.26
94 62 0.54
95 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (93 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCACATCATCTCGTAGCCGATGCATGTACCAGAC
ATGTCTTACACTAGCTTACATATCGAGG
Found at i:56488105 original size:28 final size:28
Alignment explanation
Indices: 56488036--56488136 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
56488026 GACAAGATTG
* * * *
56488036 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
56488066 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
56488094 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
56488123 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56488137 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Done.