Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 164 of 427
Found at i:45563738 original size:46 final size:48
Alignment explanation
Indices: 45563684--45563814 Score: 164
Period size: 46 Copynumber: 2.8 Consensus size: 48
45563674 ATATTTGGGC
*
45563684 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ATG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGG
* * *
45563731 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC-AGG
*
45563776 CATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45563815 GCGGGTTACA
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
43 6 0.09
45 4 0.06
46 29 0.41
47 28 0.40
48 2 0.03
50 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGG
Found at i:45567532 original size:49 final size:50
Alignment explanation
Indices: 45567407--45567536 Score: 163
Period size: 50 Copynumber: 2.6 Consensus size: 50
45567397 TATTGTGAGG
* * **
45567407 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACGGCTAGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACGAATAGA
* * * *
45567457 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGA-TAATTGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACGAATAGA
**
45567506 TTGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
45567537 TGCGTACTAG
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
49 31 0.44
50 39 0.56
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACGAATAGA
Found at i:45578572 original size:46 final size:46
Alignment explanation
Indices: 45578522--45578697 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
45578512 TGGTTGAGCA
45578522 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
45578568 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
45578613 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
45578661 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45578698 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45578678 original size:93 final size:93
Alignment explanation
Indices: 45578519--45578690 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
45578509 GGATGGTTGA
* *
45578519 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
45578584 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
45578612 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
45578677 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
45578691 CTTATGGGCG
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:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45582839 original size:18 final size:16
Alignment explanation
Indices: 45582800--45582830 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
45582790 GTTATTGAAA
45582800 GATTATGAGCTTGTTT
1 GATTATGAGCTTGTTT
45582816 GATTATGAGCTTGTT
1 GATTATGAGCTTGTT
45582831 ATTGATTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.06, G:0.26, T:0.48
Consensus pattern (16 bp):
GATTATGAGCTTGTTT
Found at i:45589351 original size:40 final size:39
Alignment explanation
Indices: 45589306--45589513 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
45589296 CGGAATACAA
*
45589306 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
45589346 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
45589386 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
45589426 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
45589466 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
45589506 CCGGATAT
1 CCGGATAT
45589514 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:45589446 original size:80 final size:80
Alignment explanation
Indices: 45589306--45589512 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
45589296 CGGAATACAA
* * *
45589306 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
45589370 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
45589386 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
45589450 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
45589466 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
45589513 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:45591519 original size:16 final size:16
Alignment explanation
Indices: 45591498--45591528 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45591488 ATAAATTTGA
45591498 TTAAGTAAGTAAGTAC
1 TTAAGTAAGTAAGTAC
*
45591514 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
45591529 TTTATGTCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAC
Found at i:45595105 original size:40 final size:40
Alignment explanation
Indices: 45595017--45595265 Score: 304
Period size: 40 Copynumber: 6.2 Consensus size: 40
45595007 CCGGGCTAAG
* * * * *
45595017 TCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAAT
1 TCCCGAAGGCATTTGTGC-GAGTTACCAAAACCGGGTCAAT
*
45595058 TCCCGAAGGCATTTGTGCGAGTTACCAAAACTGGGTCAAT
1 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTCAAT
45595098 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTCAAT
1 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTCAAT
* *
45595138 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAG
1 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTCAAT
* * *
45595178 TCTCGAAGGCATTTGTGCGAGTTACTAAATCCGGG-CTAAT
1 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTC-AAT
* * * * * *
45595218 TCCCGAAGGTAATTGTGCGAATTACTATAACCGGG-CTAT
1 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTCAAT
45595257 GTCCCGAAG
1 -TCCCGAAG
45595266 ACAATCGAGC
Statistics
Matches: 185, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 166 0.90
41 17 0.09
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (40 bp):
TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTCAAT
Found at i:45602172 original size:55 final size:55
Alignment explanation
Indices: 45602085--45602339 Score: 257
Period size: 55 Copynumber: 4.8 Consensus size: 55
45602075 ATTAGGGTTT
*
45602085 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCATAAGGA
* * *
45602140 AAGGATATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTTCTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-ATAAGG-A
* * * *
45602196 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCATAAGGA
* * *
45602248 AAGGATACCATGTAAGACCATGTCGAGACATGG-AAATGGTAAGTTTC---A--A
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCATAAGGA
* * *
45602297 AAGGATACCACGTAAGACCAT-CACAAGTCATGG-AAATGGTAAG
1 AAGGATACCATGTAAGACCATGC-CAAGACATGGCAATTGGTAAG
45602340 GTAACAGTGT
Statistics
Matches: 171, Mismatches: 22, Indels: 20
0.80 0.10 0.09
Matches are distributed among these distances:
49 38 0.22
51 1 0.01
52 4 0.02
53 42 0.25
54 13 0.08
55 68 0.40
56 5 0.03
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCATAAGGA
Found at i:45602291 original size:108 final size:110
Alignment explanation
Indices: 45602092--45602294 Score: 313
Period size: 108 Copynumber: 1.9 Consensus size: 110
45602082 TTTAAGGATA
*
45602092 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGAAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGAAAGGATACCATGTAAGA
* *
45602157 CCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGAAAAGGTC
66 CCATGTCAAGACATGGAAATGATAAGTTTCTATAAGGAAAAGGTC
* *
45602202 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGAAAGGATACCATGTAAG
* *
45602264 ACCATGTCGAGACATGGAAATGGTAAGTTTC
65 ACCATGTCAAGACATGGAAATGATAAGTTTC
45602295 AAAAGGATAC
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGAAAGGATACCATGTAAGA
CCATGTCAAGACATGGAAATGATAAGTTTCTATAAGGAAAAGGTC
Found at i:45602558 original size:16 final size:16
Alignment explanation
Indices: 45602537--45602567 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45602527 ATAAATATGA
45602537 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
45602553 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
45602568 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:45605563 original size:30 final size:31
Alignment explanation
Indices: 45605529--45605586 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
45605519 TTTTTGAGCC
45605529 TAGGGGAAAAATCGTAATTCTG-CAAAGGTT
1 TAGGGGAAAAATCGTAATTCTGCCAAAGGTT
* * *
45605559 TAGGGGGAAAATTGTAATTTTGCCAAAG
1 TAGGGGAAAAATCGTAATTCTGCCAAAG
45605587 TTTGAGTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.28
Consensus pattern (31 bp):
TAGGGGAAAAATCGTAATTCTGCCAAAGGTT
Found at i:45606191 original size:44 final size:44
Alignment explanation
Indices: 45606126--45606210 Score: 111
Period size: 44 Copynumber: 1.9 Consensus size: 44
45606116 TTGATATCTC
* *
45606126 AAAGTCCATGGTTGTACCATGGCAAT-TAAGGAAGAATTGACAGA
1 AAAGTCCATGGTTATAACATGGC-ATCTAAGGAAGAATTGACAGA
*
45606170 AAAGTCCAT-GTTCATAACATGGCATCTAAGGAGGAATTGAC
1 AAAGTCCATGGTT-ATAACATGGCATCTAAGGAAGAATTGAC
45606211 GGTTAAGGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 5 0.14
44 31 0.86
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGCATCTAAGGAAGAATTGACAGA
Found at i:45606407 original size:47 final size:47
Alignment explanation
Indices: 45606349--45606470 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
45606339 ATATTGGCAC
*
45606349 TAAGACAAGGATATCATGTAAAACCATGTTAGGAACATGGCATTTGG
1 TAAGACAAGGATATCATGTAAGACCATGTTAGGAACATGGCATTTGG
* * *
45606396 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGTATTTGG
1 TAAGACAAGGATATCATGTAAGACCATGTTAGGAACATGGCATTTGG
*
45606443 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATATCATGTAAGACCATG
45606471 CCAAGGCATG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATATCATGTAAGACCATGTTAGGAACATGGCATTTGG
Found at i:45606578 original size:55 final size:53
Alignment explanation
Indices: 45606457--45606666 Score: 197
Period size: 55 Copynumber: 3.9 Consensus size: 53
45606447 ATAAGGATAT
* * ** *
45606457 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGTAAAGAAAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGG-AAAGGTAC
* * * *
45606511 CATGTAAGACCATGTCAAGACATGGCATTAATGAGCTACTATAAGGAAAAGGTCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAG-TTCTATAAGG-AAAGGTAC
* * * * *
45606566 CATGTAAGACCATGCCAAGGCGTGGCATTGGTGAGTTC-GTAAGGCAAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGAAAGG-TAC
* * * * * *
45606619 CACGTAAGACCATGTCAAGACATGGCAATGATAAGTTCAAAAAGGAAA
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGAAA
45606667 AGGTTCCCGA
Statistics
Matches: 124, Mismatches: 29, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
52 4 0.03
53 38 0.31
54 39 0.31
55 43 0.35
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGAAAGGTAC
Found at i:45612787 original size:16 final size:16
Alignment explanation
Indices: 45612766--45612797 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
45612756 GTAACGCCCC
45612766 AAAAATCTCGAAATCT
1 AAAAATCTCGAAATCT
45612782 AAAAATCTCGAAATCT
1 AAAAATCTCGAAATCT
45612798 TGAATTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (16 bp):
AAAAATCTCGAAATCT
Found at i:45615473 original size:40 final size:40
Alignment explanation
Indices: 45615418--45615627 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
45615408 AACATTGGAA
45615418 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
45615458 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
45615498 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
45615538 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
45615577 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
45615618 CTATATCCGG
1 ATATATCCGG
45615628 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:45624353 original size:40 final size:39
Alignment explanation
Indices: 45624188--45624371 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
45624178 AAATTGAATG
* * *
45624188 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
45624228 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
45624268 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
45624308 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
45624347 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
45624372 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:45624396 original size:80 final size:81
Alignment explanation
Indices: 45624228--45624416 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
45624218 GCTGGAAATT
* * * *
45624228 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
45624293 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
45624309 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
45624372 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
45624388 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
45624417 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:45624991 original size:26 final size:27
Alignment explanation
Indices: 45624955--45625008 Score: 101
Period size: 26 Copynumber: 2.0 Consensus size: 27
45624945 TACGGCCATG
45624955 CGAAAATGGCTCGTAA-AGTGAAGTAT
1 CGAAAATGGCTCGTAATAGTGAAGTAT
45624981 CGAAAATGGCTCGTAATAGTGAAGTAT
1 CGAAAATGGCTCGTAATAGTGAAGTAT
45625008 C
1 C
45625009 AACTTAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (27 bp):
CGAAAATGGCTCGTAATAGTGAAGTAT
Found at i:45632446 original size:40 final size:39
Alignment explanation
Indices: 45632281--45632464 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
45632271 AAATTGAATG
* * *
45632281 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
45632321 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
45632361 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
45632401 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
45632440 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
45632465 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:45632489 original size:80 final size:81
Alignment explanation
Indices: 45632321--45632509 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
45632311 GCTGGAAATT
* * * *
45632321 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
45632386 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
45632402 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
45632465 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
45632481 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
45632510 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:45638376 original size:41 final size:41
Alignment explanation
Indices: 45638331--45638448 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
45638321 TGAAAGATAA
45638331 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
45638372 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
45638402 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
45638443 ATGTAG
1 ATGTAG
45638449 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:45638387 original size:71 final size:71
Alignment explanation
Indices: 45638299--45638462 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
45638289 GAGATGTATC
45638299 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
45638364 AGGACA
66 AGGACA
45638370 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
45638435 AGGACA
66 AGGACA
45638441 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
45638463 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:45646040 original size:39 final size:39
Alignment explanation
Indices: 45645985--45646139 Score: 256
Period size: 39 Copynumber: 4.0 Consensus size: 39
45645975 AAGACACTGA
45645985 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
**
45646024 AAATGTATCCAAGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
45646063 AAATGTATCCGGGCCAAAGTCCCGCAAGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
45646102 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
45646140 ATAATATAAT
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 106 1.00
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:45648860 original size:30 final size:30
Alignment explanation
Indices: 45648815--45648874 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
45648805 ATTTAATGCG
*
45648815 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
45648845 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
45648875 GGATCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:45651951 original size:46 final size:45
Alignment explanation
Indices: 45651811--45651951 Score: 124
Period size: 46 Copynumber: 3.0 Consensus size: 45
45651801 GCCCATAAGC
** * *
45651811 GAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCCA--TACATCT-AGT
* * * * *
45651858 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTC--AGATGCCCATACATCTAGT
*
45651904 GAACTCGGACTCAACTCAACGAGTTCAGATGCCCAAACATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCCATACAT-CTAGT
45651950 GA
1 GA
45651952 CATGTCACTT
Statistics
Matches: 74, Mismatches: 15, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 31 0.42
47 29 0.39
49 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCAGATGCCCATACATCTAGT
Found at i:45652388 original size:30 final size:30
Alignment explanation
Indices: 45652354--45652413 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
45652344 ATTTAATACG
45652354 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
45652384 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
45652414 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:45658774 original size:16 final size:16
Alignment explanation
Indices: 45658755--45658793 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
45658745 CAAGATCCGT
45658755 CTTAGGTTTCATCCTC
1 CTTAGGTTTCATCCTC
45658771 CTTAGGTTTCATCCTC
1 CTTAGGTTTCATCCTC
45658787 CTTAGGT
1 CTTAGGT
45658794 ATTTAGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.13, C:0.28, G:0.15, T:0.44
Consensus pattern (16 bp):
CTTAGGTTTCATCCTC
Found at i:45659553 original size:46 final size:47
Alignment explanation
Indices: 45659438--45659705 Score: 212
Period size: 46 Copynumber: 5.7 Consensus size: 47
45659428 CCACCTTATG
* * ** * * *
45659438 AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATTGGCATTGAGACG-
1 AGAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCAGC-CTAAGATGT
* * *
45659486 AGTGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTTAGGATGT
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGCATCAGCC-TAAGATGT
* *
45659533 A-AGCTAATGTAAGA-CATGTCTGGGACATGCATC-GGCTATGAGATGT
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGCATCAGCCTA--AGATGT
* * * *
45659579 -G-TC-AGTGTAAGACCATGTGTGGGACATGGCATCAGCACAAATATGT
1 AGAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCAGC-CTAAGATGT
45659625 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAAGATG-
1 -AGAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCAGCCT--AAGATGT
* *
45659675 ATAGCCAGTGTAAGACCATGTCTGGGACATG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATG
45659706 GCATTGGCAC
Statistics
Matches: 181, Mismatches: 24, Indels: 30
0.77 0.10 0.13
Matches are distributed among these distances:
44 10 0.06
45 16 0.09
46 56 0.31
47 15 0.08
48 17 0.09
49 30 0.17
50 32 0.18
51 5 0.03
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
AGAGCTAGTGTAAGACCATGTCTGGGACATGCATCAGCCTAAGATGT
Found at i:45673214 original size:29 final size:29
Alignment explanation
Indices: 45673124--45673216 Score: 118
Period size: 28 Copynumber: 3.3 Consensus size: 29
45673114 ATTGCATGAC
* *
45673124 TATGAATGTGATTCGGGCC-GATGAGCCA
1 TATGAATGTGATTAGGGCCTGATGGGCCA
45673152 TATGAATGTGATTAGGG-CTGATGGGCCA
1 TATGAATGTGATTAGGGCCTGATGGGCCA
* * * *
45673180 TATGAATGTGTTTTGGGCCTAATGGGTCA
1 TATGAATGTGATTAGGGCCTGATGGGCCA
45673209 TATGAATG
1 TATGAATG
45673217 AGAGTGGGCC
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 1 0.02
28 39 0.68
29 17 0.30
ACGTcount: A:0.25, C:0.12, G:0.32, T:0.31
Consensus pattern (29 bp):
TATGAATGTGATTAGGGCCTGATGGGCCA
Found at i:45677805 original size:28 final size:27
Alignment explanation
Indices: 45677765--45677864 Score: 130
Period size: 28 Copynumber: 3.6 Consensus size: 27
45677755 TGCATGACTC
45677765 TGAATGTGATTGGAGCCAATGGGCCATA
1 TGAATGTGATTGG-GCCAATGGGCCATA
*
45677793 TGAATATGATTGGGGCCAATGGGCCATA
1 TGAATGTGATT-GGGCCAATGGGCCATA
45677821 T-AATGTGATTTGGGCCTAATGGGCCATA
1 TGAATGTGA-TTGGGCC-AATGGGCCATA
* *
45677849 TGAATGAGAGTGGGCC
1 TGAATGTGATTGGGCC
45677865 TAGTGGGTTG
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
27 11 0.17
28 45 0.70
29 8 0.12
ACGTcount: A:0.27, C:0.14, G:0.33, T:0.26
Consensus pattern (27 bp):
TGAATGTGATTGGGCCAATGGGCCATA
Found at i:45682555 original size:29 final size:29
Alignment explanation
Indices: 45682502--45682590 Score: 101
Period size: 28 Copynumber: 3.1 Consensus size: 29
45682492 ATTGCATGAC
* *
45682502 TATGAATGTGATTGGGGCC-GATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
*
45682530 TATGAATGTGATTTGGGCCTAATGGGTCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
* * * *
45682559 TACGAATGAGA-GTGGGCCTAGTGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
45682587 TATG
1 TATG
45682591 CATATATGCA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
28 35 0.69
29 16 0.31
ACGTcount: A:0.24, C:0.13, G:0.36, T:0.27
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGCCA
Found at i:45683862 original size:17 final size:18
Alignment explanation
Indices: 45683829--45683862 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45683819 TTTAAAGAAG
45683829 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
45683847 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
45683863 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:45687860 original size:49 final size:49
Alignment explanation
Indices: 45687803--45688022 Score: 372
Period size: 49 Copynumber: 4.5 Consensus size: 49
45687793 TATGATATAC
* * * *
45687803 ATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
45687851 -TATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
*
45687899 ATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
*
45687948 ATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
45687997 ATATATATGTGATAAGGCCTAATGGC
1 ATATATATGTGATAAGGCCTAATGGC
45688023 TAATGTAAAA
Statistics
Matches: 164, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
47 43 0.26
49 121 0.74
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (49 bp):
ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
Found at i:45688176 original size:37 final size:37
Alignment explanation
Indices: 45688130--45688244 Score: 212
Period size: 37 Copynumber: 3.1 Consensus size: 37
45688120 TGTTCCGGTG
*
45688130 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTG
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
45688167 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
*
45688204 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
45688241 AGAC
1 AGAC
45688245 TTCGTAATAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 76 1.00
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.22
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:45691010 original size:40 final size:40
Alignment explanation
Indices: 45690965--45691131 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
45690955 CGGAATATAA
45690965 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
45691005 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
45691045 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
45691085 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
45691124 CCGGATAT
1 CCGGATAT
45691132 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 92 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:45691115 original size:80 final size:79
Alignment explanation
Indices: 45690965--45691131 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
45690955 CGGAATATAA
*
45690965 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
45691030 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
45691045 CCGGATATAGCCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
45691107 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
45691124 CCGGATAT
1 CCGGATAT
45691132 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:45699925 original size:40 final size:40
Alignment explanation
Indices: 45699830--45700079 Score: 355
Period size: 40 Copynumber: 6.3 Consensus size: 40
45699820 GTAATGAACA
*
45699830 TTGAAATATCCGGGCTAAGACCCGAA-GCA-TCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
45699868 TT-ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
45699907 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
45699947 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
* * *
45699987 TTGATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
* * * * * *
45700027 -TCACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAG
1 TTGA-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
* *
45700067 TCGCTATATCCGG
1 TTGATATATCCGG
45700080 TTAAATCCCG
Statistics
Matches: 189, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
37 22 0.12
38 5 0.03
39 13 0.07
40 149 0.79
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
Found at i:45707897 original size:40 final size:40
Alignment explanation
Indices: 45707842--45708091 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
45707832 AACATTGGAA
45707842 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
45707882 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
45707922 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
45707962 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
45708002 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
45708041 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
45708082 CTATATCCGG
1 ATATATCCGG
45708092 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:45717501 original size:17 final size:17
Alignment explanation
Indices: 45717473--45717520 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
45717463 TTGGATTGAG
45717473 AAAATT-ATTTAATTAA
1 AAAATTAATTTAATTAA
45717489 AAAATTAATTTAATTAA
1 AAAATTAATTTAATTAA
**
45717506 TTAATTAATTATAAT
1 AAAATTAATT-TAAT
45717521 AATTGGTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.21
17 18 0.64
18 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAAATTAATTTAATTAA
Found at i:45725133 original size:10 final size:10
Alignment explanation
Indices: 45725120--45725167 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
45725110 TTATTTTCAT
45725120 TTATCTTTAA
1 TTATCTTTAA
45725130 TTATCTTTAA
1 TTATCTTTAA
*
45725140 TTATCTTTAT
1 TTATCTTTAA
*
45725150 TTAT-TTGTAT
1 TTATCTT-TAA
45725160 TTATCTTT
1 TTATCTTT
45725168 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:45731766 original size:68 final size:67
Alignment explanation
Indices: 45731694--45731843 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
45731684 CATCATGTGT
* * * *
45731694 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
45731756 ATGTAG
62 ATGTAG
** * *
45731762 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
45731827 AG
66 AG
45731829 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
45731844 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:45731799 original size:64 final size:64
Alignment explanation
Indices: 45731718--45731901 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
45731708 AGACATTATG
* *
45731718 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
45731782 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
45731847 AA
63 AA
* * * *
45731849 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
45731902 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:45735096 original size:5 final size:6
Alignment explanation
Indices: 45735077--45735117 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
45735067 TTTATTTCTC
*
45735077 TTTATT TTTATT TTTATT TTTA-T TTTATT TTAATT ATTTAT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT -TTTAT
45735118 ATCTTAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
5 5 0.16
6 22 0.71
7 4 0.13
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:45735098 original size:18 final size:19
Alignment explanation
Indices: 45735077--45735117 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
45735067 TTTATTTCTC
*
45735077 TTTATTTTTATTTTTATT-
1 TTTATTTTTATTTTAATTA
45735095 TTTA-TTTTATTTTAATTA
1 TTTATTTTTATTTTAATTA
45735113 TTTAT
1 TTTAT
45735118 ATCTTAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTATTTTTATTTTAATTA
Found at i:45735102 original size:11 final size:11
Alignment explanation
Indices: 45735077--45735156 Score: 56
Period size: 12 Copynumber: 6.8 Consensus size: 11
45735067 TTTATTTCTC
45735077 TTTATTTTTATT
1 TTTATTTTTA-T
45735089 TTTATTTTTAT
1 TTTATTTTTAT
45735100 TTTA-TTTTA-
1 TTTATTTTTAT
* *
45735109 ATTATTTATAT
1 TTTATTTTTAT
*
45735120 CTTAATTATTTAT
1 -TTTATT-TTTAT
45735133 TACTTAATTATTTAT
1 T--TT-ATT-TTTAT
45735148 TTTATTTTT
1 TTTATTTTT
45735157 GATATTAATA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
9 3 0.05
10 9 0.16
11 8 0.15
12 18 0.33
13 6 0.11
14 1 0.02
15 10 0.18
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:45735148 original size:15 final size:16
Alignment explanation
Indices: 45735101--45735148 Score: 73
Period size: 15 Copynumber: 3.1 Consensus size: 16
45735091 TATTTTTATT
*
45735101 TTATTTTAATTATTTA
1 TTATCTTAATTATTTA
45735117 -TATCTTAATTATTTA
1 TTATCTTAATTATTTA
45735132 TTA-CTTAATTATTTA
1 TTATCTTAATTATTTA
45735147 TT
1 TT
45735149 TTATTTTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 28 0.93
16 2 0.07
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATCTTAATTATTTA
Found at i:45738201 original size:28 final size:27
Alignment explanation
Indices: 45738135--45738204 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
45738125 ATAGTGAGTC
*
45738135 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
* *
45738162 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
45738190 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45738205 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:45738277 original size:42 final size:42
Alignment explanation
Indices: 45738213--45738318 Score: 194
Period size: 42 Copynumber: 2.5 Consensus size: 42
45738203 CTGTACAAAT
* *
45738213 TTTAAACCCGCACACTTAGTGCCGATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
45738255 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
45738297 TTTATACCCGCACACTTAGTGC
1 TTTATACCCGCACACTTAGTGC
45738319 TGAGACCAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.30
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:45740309 original size:97 final size:97
Alignment explanation
Indices: 45740200--45740406 Score: 371
Period size: 97 Copynumber: 2.1 Consensus size: 97
45740190 GTTCCTTAGT
45740200 TTAAAATTTCATAGCCATTTGACCCTTTTAACTAATAGAACTTAACTTTTACCATTTTTACGATT
1 TTAAAATTTCATAGCCATTTGACCCTTTTAACTAATAGAACTTAACTTTTACCATTTTTACGATT
*
45740265 TAA-TCTGTTTAATTTAATTAACCATTTAAATA
66 TAATTCT-TTTAATTTAATTAACCATTTAAACA
*
45740297 TTGAAATTTCATAGCCATTTGACCCTTTTAACTAATAGAACTTAACTTTTACCATTTTTACGATT
1 TTAAAATTTCATAGCCATTTGACCCTTTTAACTAATAGAACTTAACTTTTACCATTTTTACGATT
*
45740362 TAATTCTTTTCATTTAATTAACCATTTAAACA
66 TAATTCTTTTAATTTAATTAACCATTTAAACA
45740394 TTAAAATTTCATA
1 TTAAAATTTCATA
45740407 ATGAAATTTT
Statistics
Matches: 105, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
97 102 0.97
98 3 0.03
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.44
Consensus pattern (97 bp):
TTAAAATTTCATAGCCATTTGACCCTTTTAACTAATAGAACTTAACTTTTACCATTTTTACGATT
TAATTCTTTTAATTTAATTAACCATTTAAACA
Found at i:45742734 original size:44 final size:43
Alignment explanation
Indices: 45742593--45742750 Score: 180
Period size: 43 Copynumber: 3.7 Consensus size: 43
45742583 AGCTCGTACA
* * *
45742593 ATGCCAATGTCTCATACATGGTCTTACATGT-AATCAAATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATA-TG
* *
45742636 ATGCCATTGTCCCAGACAAGGTCTTAC-CG-AAATCAAATATG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATATG
** *
45742677 ATGCCAACATCCCAGACGTGGTCTTACACGTAAATCATAA-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCA-AATAT-G
*
45742721 ATGCCAATGTCCCAGACGTGGTCTTACACG
1 ATGCCAATGTCCCAGACATGGTCTTACACG
45742751 ATAACACATA
Statistics
Matches: 98, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
41 24 0.24
42 12 0.12
43 31 0.32
44 31 0.32
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATATG
Found at i:45745234 original size:19 final size:19
Alignment explanation
Indices: 45745210--45745249 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
45745200 TCCTAAAAAG
45745210 TATAGTTTATAGGCACTAA
1 TATAGTTTATAGGCACTAA
45745229 TATAGTTTATAGGCACTAA
1 TATAGTTTATAGGCACTAA
45745248 TA
1 TA
45745250 AAATAGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
TATAGTTTATAGGCACTAA
Found at i:45745637 original size:33 final size:33
Alignment explanation
Indices: 45745574--45745644 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
45745564 CCTTGAATCC
*
45745574 CAAGGTTCGAGGTTTGGATTTGGATCTAAGGTT
1 CAAGGTTCGAGGTTTGAATTTGGATCTAAGGTT
* * *
45745607 CAAGGTTTGA-GTTTGAATTTTGAGTTTAAGGTT
1 CAAGGTTCGAGGTTTGAATTTGGA-TCTAAGGTT
45745640 CAAGG
1 CAAGG
45745645 AATTGGGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 11 0.33
33 22 0.67
ACGTcount: A:0.24, C:0.07, G:0.31, T:0.38
Consensus pattern (33 bp):
CAAGGTTCGAGGTTTGAATTTGGATCTAAGGTT
Found at i:45748417 original size:15 final size:15
Alignment explanation
Indices: 45748392--45748424 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
45748382 GTCATTTCAT
45748392 TCTTCTTCTTTTTTTA
1 TCTTCTTC-TTTTTTA
45748408 TCTT-TTCTTTTTTA
1 TCTTCTTCTTTTTTA
45748422 TCT
1 TCT
45748425 ACAACTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 10 0.59
15 3 0.18
16 4 0.24
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (15 bp):
TCTTCTTCTTTTTTA
Found at i:45749433 original size:30 final size:31
Alignment explanation
Indices: 45749359--45749426 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
45749349 AACTTAATTT
* * *
45749359 CAGCTCAA-CGAGCTCAATCTGGGTTTTATC
1 CAGCTCAATGGAGCTCAATCTCGGTTTGATC
45749389 CAGCTCAATGGAGCTCAAT-TCGGTTTGATGC
1 CAGCTCAATGGAGCTCAATCTCGGTTTGAT-C
*
45749420 TAGCTCA
1 CAGCTCA
45749427 TTGAGCTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 16 0.50
31 16 0.50
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (31 bp):
CAGCTCAATGGAGCTCAATCTCGGTTTGATC
Found at i:45753165 original size:80 final size:80
Alignment explanation
Indices: 45753081--45753229 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
45753071 TATGGTAACC
* * * *
45753081 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
45753145 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
45753161 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
45753226 CCGG
66 CCGG
45753230 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:45753171 original size:40 final size:38
Alignment explanation
Indices: 45753122--45753229 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
45753112 ATCACGATTT
*
45753122 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
45753162 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
45753202 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
45753230 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:45755713 original size:22 final size:22
Alignment explanation
Indices: 45755685--45755759 Score: 89
Period size: 22 Copynumber: 3.4 Consensus size: 22
45755675 CATCAGTGTT
*
45755685 ATCAGTGGCAGTTTATCTACAA
1 ATCAGTGGTAGTTTATCTACAA
45755707 ATCAGTGGTTA-TTTATCTACAA
1 ATCAGTGG-TAGTTTATCTACAA
* * * *
45755729 ATCAATGATAGTTTAACTCCAA
1 ATCAGTGGTAGTTTATCTACAA
45755751 ATCAGTGGT
1 ATCAGTGGT
45755760 GGCTAGTCCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
21 2 0.05
22 41 0.93
23 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (22 bp):
ATCAGTGGTAGTTTATCTACAA
Found at i:45755863 original size:18 final size:18
Alignment explanation
Indices: 45755840--45755876 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45755830 GGGTAGGAAA
*
45755840 ATTTTTAAAATGTGCATC
1 ATTTTTAAAATATGCATC
*
45755858 ATTTTTAAAGTATGCATC
1 ATTTTTAAAATATGCATC
45755876 A
1 A
45755877 ATATGTCCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (18 bp):
ATTTTTAAAATATGCATC
Found at i:45762558 original size:16 final size:16
Alignment explanation
Indices: 45762536--45762587 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
45762526 GGTAAACCCT
*
45762536 AAAATGCTGAAAAGCC
1 AAAATGCCGAAAAGCC
*
45762552 GAAATGCCGAAAAGCC
1 AAAATGCCGAAAAGCC
* *
45762568 AAAATGCCAAAAAGTC
1 AAAATGCCGAAAAGCC
45762584 AAAA
1 AAAA
45762588 GTTTGGCTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.54, C:0.19, G:0.17, T:0.10
Consensus pattern (16 bp):
AAAATGCCGAAAAGCC
Found at i:45762842 original size:29 final size:29
Alignment explanation
Indices: 45762800--45762917 Score: 191
Period size: 29 Copynumber: 4.1 Consensus size: 29
45762790 AAGCATGTAG
45762800 ATGAATGTGATTTGGGCCTAATGGGCCAT
1 ATGAATGTGATTTGGGCCTAATGGGCCAT
45762829 ATGAATGTGATTTGGGCCTAATGGGCCAT
1 ATGAATGTGATTTGGGCCTAATGGGCCAT
** *
45762858 ACAAATGTGATTCGGGCCTAATGGGCCAT
1 ATGAATGTGATTTGGGCCTAATGGGCCAT
* *
45762887 ACGAATGTGATTTGGGCCTAGTGGGCCAT
1 ATGAATGTGATTTGGGCCTAATGGGCCAT
45762916 AT
1 AT
45762918 ACATGTATGT
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 82 1.00
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.29
Consensus pattern (29 bp):
ATGAATGTGATTTGGGCCTAATGGGCCAT
Found at i:45767662 original size:40 final size:40
Alignment explanation
Indices: 45767609--45767760 Score: 182
Period size: 40 Copynumber: 3.8 Consensus size: 40
45767599 ATATAACCCA
* * *** *
45767609 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
45767649 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
45767689 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* * *
45767729 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
45767761 CATTCAAATG
Statistics
Matches: 100, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
39 2 0.02
40 95 0.95
41 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:45775669 original size:40 final size:40
Alignment explanation
Indices: 45775562--45775729 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
45775552 CGGGATTTAA
* * * * *
45775562 CCGGATATAACCACAAGCACAATTGTCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
45775602 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
45775642 CCGGATATAA-CAACTCGTACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* *
45775682 CCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
45775722 CCGGATAT
1 CCGGATAT
45775730 CATTCAAATG
Statistics
Matches: 104, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
40 103 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:45778348 original size:16 final size:16
Alignment explanation
Indices: 45778327--45778362 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
45778317 GAAAAATCCC
45778327 GAAATGTCGAAAAGCT
1 GAAATGTCGAAAAGCT
45778343 GAAATGTCGAAAAGCT
1 GAAATGTCGAAAAGCT
45778359 GAAA
1 GAAA
45778363 GTTTGGCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.11, G:0.25, T:0.17
Consensus pattern (16 bp):
GAAATGTCGAAAAGCT
Found at i:45778639 original size:29 final size:29
Alignment explanation
Indices: 45778572--45778639 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
45778562 GAAAGCATGT
*
45778572 ATATGAATGTGATTTGGGCCTAATAGGCC
1 ATATGAATGTGATTCGGGCCTAATAGGCC
* * *
45778601 ATACGAATGTGATTCGGGCCTAGTGGGCC
1 ATATGAATGTGATTCGGGCCTAATAGGCC
*
45778630 ATATGCATGT
1 ATATGAATGT
45778640 ATGTAGACTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTCGGGCCTAATAGGCC
Found at i:45781129 original size:39 final size:39
Alignment explanation
Indices: 45781072--45781196 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
45781062 GGGCCATGAG
45781072 CCTAGCAGGCCT-GATGCCGGTGTTAAGTTCAGGTTTATA
1 CCTAGCAGGCCTCG-TGCCGGTGTTAAGTTCAGGTTTATA
*
45781111 CCTAGCAGGCCTCGTGCCGGTGTTAAGTTTAGGTTTATA
1 CCTAGCAGGCCTCGTGCCGGTGTTAAGTTCAGGTTTATA
* * *
45781150 CCTAGTAGGCATCGTGCTGGTGTTAAGTTCAGGTTTATA
1 CCTAGCAGGCCTCGTGCCGGTGTTAAGTTCAGGTTTATA
*
45781189 CTTAGCAG
1 CCTAGCAG
45781197 TCATATTGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 77 0.99
40 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (39 bp):
CCTAGCAGGCCTCGTGCCGGTGTTAAGTTCAGGTTTATA
Found at i:45781207 original size:39 final size:39
Alignment explanation
Indices: 45781072--45781210 Score: 172
Period size: 39 Copynumber: 3.6 Consensus size: 39
45781062 GGGCCATGAG
* *
45781072 CCTAGCAGGCCT-GATGCCGGTGTTAAGTTCAGGTTTATA
1 CCTAGCAGGCATCG-TGCTGGTGTTAAGTTCAGGTTTATA
* * *
45781111 CCTAGCAGGCCTCGTGCCGGTGTTAAGTTTAGGTTTATA
1 CCTAGCAGGCATCGTGCTGGTGTTAAGTTCAGGTTTATA
*
45781150 CCTAGTAGGCATCGTGCTGGTGTTAAGTTCAGGTTTATA
1 CCTAGCAGGCATCGTGCTGGTGTTAAGTTCAGGTTTATA
* * **
45781189 CTTAGCAGTCATATTGCTGGTG
1 CCTAGCAGGCATCGTGCTGGTG
45781211 AAACAATAAC
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 88 0.99
40 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (39 bp):
CCTAGCAGGCATCGTGCTGGTGTTAAGTTCAGGTTTATA
Found at i:45787644 original size:101 final size:101
Alignment explanation
Indices: 45787469--45787671 Score: 361
Period size: 101 Copynumber: 2.0 Consensus size: 101
45787459 GATTTGTGAG
* *
45787469 TTTTTTAGCAGGTAAAAGCAGAGCATCAGGTACCGTCGGGATTATTATAGCCTATTATGATTCCA
1 TTTTTTAGCAGGTAAAAGCAGAGCATCAGGTACCATCGAGATTATTATAGCCTATTATGATTCCA
45787534 TAGTGGAAGTGAGAGTGAGTCACAATGAATTTCATA
66 TAGTGGAAGTGAGAGTGAGTCACAATGAATTTCATA
* *
45787570 TTTTTTAGCAGGTAAAAGCAGATCATCAGGTACCATCGAGATTATTATAGCCTGTTATGATTCCA
1 TTTTTTAGCAGGTAAAAGCAGAGCATCAGGTACCATCGAGATTATTATAGCCTATTATGATTCCA
*
45787635 TAGTGGAAGTGAGAGTGAGTCACAATGTATTTCATA
66 TAGTGGAAGTGAGAGTGAGTCACAATGAATTTCATA
45787671 T
1 T
45787672 CTCGTTTGCC
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 97 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (101 bp):
TTTTTTAGCAGGTAAAAGCAGAGCATCAGGTACCATCGAGATTATTATAGCCTATTATGATTCCA
TAGTGGAAGTGAGAGTGAGTCACAATGAATTTCATA
Found at i:45789904 original size:20 final size:20
Alignment explanation
Indices: 45789881--45789965 Score: 66
Period size: 20 Copynumber: 4.2 Consensus size: 20
45789871 ACCCTATTTA
45789881 TACTTCAGTACCCCTGATTG
1 TACTTCAGTACCCCTGATTG
** * *
45789901 TACTT-ATGTGGCCTTGTTTG
1 TACTTCA-GTACCCCTGATTG
** *
45789921 TACTTTGGTACCCCTGTTTG
1 TACTTCAGTACCCCTGATTG
45789941 TACTTC-GATACCCCTGATTG
1 TACTTCAG-TACCCCTGATTG
*
45789961 CACTT
1 TACTT
45789966 TTGTGCCCCT
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
19 2 0.04
20 49 0.96
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.41
Consensus pattern (20 bp):
TACTTCAGTACCCCTGATTG
Found at i:45789979 original size:60 final size:60
Alignment explanation
Indices: 45789872--45789984 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
45789862 ACTTACATGA
* * * *
45789872 CCCTATTTATACTTCAGTACCCCTGATTGTACTTATGTGGCCTTGTTTGTACTTTGGTAC
1 CCCTATTTATACTTCAGTACCCCTGATTGCACTTATGTGCCCCTGTTTATACTTTGGTAC
* * *
45789932 CCCTGTTTGTACTTC-GATACCCCTGATTGCACTTTTGTGCCCCTGTTTATACT
1 CCCTATTTATACTTCAG-TACCCCTGATTGCACTTATGTGCCCCTGTTTATACT
45789985 CTAGTAACTC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
59 1 0.02
60 44 0.98
ACGTcount: A:0.15, C:0.27, G:0.16, T:0.42
Consensus pattern (60 bp):
CCCTATTTATACTTCAGTACCCCTGATTGCACTTATGTGCCCCTGTTTATACTTTGGTAC
Found at i:45793673 original size:20 final size:20
Alignment explanation
Indices: 45793648--45793686 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
45793638 AACATTCAAA
45793648 ATACCATAATCACAA-CCAAG
1 ATACCATAA-CACAAGCCAAG
45793668 ATACCATAACACAAGCCAA
1 ATACCATAACACAAGCCAA
45793687 ACCATATAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.51, C:0.31, G:0.05, T:0.13
Consensus pattern (20 bp):
ATACCATAACACAAGCCAAG
Found at i:45795105 original size:48 final size:48
Alignment explanation
Indices: 45795034--45795171 Score: 231
Period size: 48 Copynumber: 2.9 Consensus size: 48
45795024 TTGTACATCG
* * *
45795034 TTGGATTTATGTCGTTTTATAACACAGTACATTGCATACTAAACGTCA
1 TTGGATTTATGTCGTTTCATAACACGGTAAATTGCATACTAAACGTCA
*
45795082 TTGGATTTATGTCGTTTCATAACACGGTAAATTGCATACTAAACGTCG
1 TTGGATTTATGTCGTTTCATAACACGGTAAATTGCATACTAAACGTCA
*
45795130 TTGGATTTATGTCGTTTCATAACACGGTAAATTGCAAACTAA
1 TTGGATTTATGTCGTTTCATAACACGGTAAATTGCATACTAA
45795172 TATATATATT
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 85 1.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (48 bp):
TTGGATTTATGTCGTTTCATAACACGGTAAATTGCATACTAAACGTCA
Found at i:45801794 original size:29 final size:29
Alignment explanation
Indices: 45801755--45801833 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
45801745 CTTAATAATC
* *
45801755 AACCACGCACACTTAGTGCCGTGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
45801785 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
45801814 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
45801834 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:45813224 original size:19 final size:20
Alignment explanation
Indices: 45813202--45813278 Score: 81
Period size: 19 Copynumber: 4.0 Consensus size: 20
45813192 GTGTTACACA
45813202 GATGAATTACTG-TTATATG
1 GATGAATTACTGTTTATATG
* *
45813221 GATGAAGTACTGTTTAAATG
1 GATGAATTACTGTTTATATG
*
45813241 GAT-AAGTTACTG-TTAT-CG
1 GATGAA-TTACTGTTTATATG
*
45813259 AATGAATTACTGTTTATATG
1 GATGAATTACTGTTTATATG
45813279 ATTGAGAGTG
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
18 9 0.20
19 22 0.48
20 15 0.33
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.40
Consensus pattern (20 bp):
GATGAATTACTGTTTATATG
Found at i:45813243 original size:20 final size:20
Alignment explanation
Indices: 45813202--45813254 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
45813192 GTGTTACACA
* *
45813202 GATGAATTACTG-TTATATG
1 GATGAAGTACTGTTTAAATG
45813221 GATGAAGTACTGTTTAAATG
1 GATGAAGTACTGTTTAAATG
45813241 GAT-AAGTTACTGTT
1 GATGAAG-TACTGTT
45813255 ATCGAATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.40
Consensus pattern (20 bp):
GATGAAGTACTGTTTAAATG
Found at i:45818916 original size:27 final size:27
Alignment explanation
Indices: 45818886--45819153 Score: 297
Period size: 27 Copynumber: 9.9 Consensus size: 27
45818876 CCTTAATTGA
* *
45818886 TAAAATGACTATTTTGCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
45818913 TAAAATGATTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
45818940 TAAAATAACTGTTTTGTCCTTATG-GG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
45818966 ATAAAATGATTGTTTTGCCCTTATGAGG
1 -TAAAATGACTGTTTTGCCCTTATGAGG
* * * *
45818994 TAAAATGATTGTTTTCCCCTTACGGGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
45819021 TAAAATAATTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
45819048 TAAGATAACTGTTTTGCCCCTTATGAGG
1 TAAAATGACTGTTTTG-CCCTTATGAGG
* * *
45819076 TAAAATAACTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
45819103 TAAAATGACTGTTATGCCCTT-TTATGG
1 TAAAATGACTGTTTTGCCCTTATGA-GG
* *
45819130 TAAGATGACTGTTTTACCCTTATG
1 TAAAATGACTGTTTTGCCCTTATG
45819154 TGATGTATGT
Statistics
Matches: 206, Mismatches: 30, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.01
27 175 0.85
28 28 0.14
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGAGG
Found at i:45819014 original size:81 final size:82
Alignment explanation
Indices: 45818884--45819153 Score: 332
Period size: 81 Copynumber: 3.3 Consensus size: 82
45818874 ACCCTTAATT
* *
45818884 GATAAAATGACTATTTTGCCCTTATGGGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATAAC
1 GATAAAATGACTGTTTTGCCCTTATGAGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATAAC
*
45818949 TGTTTTGTCCTTATG-G
66 TGTTTTGCCCTTATGAG
* * * * *
45818965 GATAAAATGATTGTTTTGCCCTTATGAGGTAAAATGATTGTTTTCCCCTTACGGGGTAAAATAAT
1 GATAAAATGACTGTTTTGCCCTTATGAGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATAAC
45819030 TGTTTTGCCCTTATGAG
66 TGTTTTGCCCTTATGAG
* * * * * *
45819047 G-TAAGATAACTGTTTTGCCCCTTATGAGGTAAAATAACTATTTTGCCCTTATGTGGTAAAATGA
1 GATAAAATGACTGTTTTG-CCCTTATGAGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATAA
* *
45819111 CTGTTATGCCCTT-TTATG
65 CTGTTTTGCCCTTATGA-G
* *
45819129 G-TAAGATGACTGTTTTACCCTTATG
1 GATAAAATGACTGTTTTGCCCTTATG
45819154 TGATGTATGT
Statistics
Matches: 163, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
81 95 0.58
82 68 0.42
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (82 bp):
GATAAAATGACTGTTTTGCCCTTATGAGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATAAC
TGTTTTGCCCTTATGAG
Found at i:45819782 original size:34 final size:35
Alignment explanation
Indices: 45819736--45819814 Score: 133
Period size: 35 Copynumber: 2.3 Consensus size: 35
45819726 CTTGCTTTCT
*
45819736 TATTTGATTTTTAATTTATAA-TAATTTAATTTGGG
1 TATTTG-TTTTTAATTTATAAGCAATTTAATTTGGG
45819771 TATTTGTTTTTAATTTATAAGCAATTTAATTTGGG
1 TATTTGTTTTTAATTTATAAGCAATTTAATTTGGG
45819806 TATTTGTTT
1 TATTTGTTT
45819815 ATGTAATAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
34 14 0.33
35 28 0.67
ACGTcount: A:0.28, C:0.01, G:0.13, T:0.58
Consensus pattern (35 bp):
TATTTGTTTTTAATTTATAAGCAATTTAATTTGGG
Found at i:45821426 original size:40 final size:40
Alignment explanation
Indices: 45821373--45821603 Score: 358
Period size: 40 Copynumber: 5.8 Consensus size: 40
45821363 AGTTATATAG
45821373 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
*
45821413 CCGGGCTATGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
*
45821453 CCGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
*
45821493 CCGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
** * * *
45821533 CCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
*
45821573 CCGGGCTAA-ACCTCGAAG-GCATTCGTGCTGG
1 CCGGGCTAAGTCC-CGAAGAGCATTCGTGCTGG
45821604 AATTATGAGG
Statistics
Matches: 177, Mismatches: 13, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 12 0.07
40 165 0.93
ACGTcount: A:0.19, C:0.22, G:0.32, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGT
Found at i:45821645 original size:28 final size:28
Alignment explanation
Indices: 45821613--45821767 Score: 96
Period size: 28 Copynumber: 5.5 Consensus size: 28
45821603 GAATTATGAG
* *
45821613 GCACTGTGTGTGCAAGTTCTTTAACCGA
1 GCACTATGTGTGCAAGTTCTTTAATCGA
* * ** * *
45821641 GCACTATGTGTGCCAGATCAGTAGTTGA
1 GCACTATGTGTGCAAGTTCTTTAATCGA
* * *
45821669 GGCACTGTGTGTGCAACTTCTTCAATCGA
1 -GCACTATGTGTGCAAGTTCTTTAATCGA
* * *** *
45821698 GCACTATGTGTACGAGATT-GGCAATTGA
1 GCACTATGTGTGCAAG-TTCTTTAATCGA
**
45821726 GGCACTATGTGTGTGAGTTCTTTAATCGA
1 -GCACTATGTGTGCAAGTTCTTTAATCGA
*
45821755 GCGCTATGTGTGC
1 GCACTATGTGTGC
45821768 GAATTCAGTC
Statistics
Matches: 91, Mismatches: 32, Indels: 8
0.69 0.24 0.06
Matches are distributed among these distances:
28 51 0.56
29 40 0.44
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTATGTGTGCAAGTTCTTTAATCGA
Found at i:45821699 original size:57 final size:57
Alignment explanation
Indices: 45821609--45821767 Score: 201
Period size: 57 Copynumber: 2.8 Consensus size: 57
45821599 GCTGGAATTA
* * *
45821609 TGAGGCACTGTGTGTGCAAGTTCTTTAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTGTGTGTGCAAGTTCTTTAATCGAGCACTATGTGTGCCAGATCAGCAAT
* * * * **
45821666 TGAGGCACTGTGTGTGCAACTTCTTCAATCGAGCACTATGTGTACGAGATTGGCAAT
1 TGAGGCACTGTGTGTGCAAGTTCTTTAATCGAGCACTATGTGTGCCAGATCAGCAAT
* ** *
45821723 TGAGGCACTATGTGTGTGAGTTCTTTAATCGAGCGCTATGTGTGC
1 TGAGGCACTGTGTGTGCAAGTTCTTTAATCGAGCACTATGTGTGC
45821768 GAATTCAGTC
Statistics
Matches: 86, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 86 1.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (57 bp):
TGAGGCACTGTGTGTGCAAGTTCTTTAATCGAGCACTATGTGTGCCAGATCAGCAAT
Found at i:45823475 original size:6 final size:6
Alignment explanation
Indices: 45823464--45823493 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
45823454 CATTTTAATT
45823464 AGAACA AGAACA AGAACA AGAACA A-AACA A
1 AGAACA AGAACA AGAACA AGAACA AGAACA A
45823494 TTATTCCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.70, C:0.17, G:0.13, T:0.00
Consensus pattern (6 bp):
AGAACA
Found at i:45824172 original size:11 final size:10
Alignment explanation
Indices: 45824143--45824181 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 10
45824133 GGATAAAATT
45824143 TAATATAAAA
1 TAATATAAAA
45824153 T-ATATAAAA
1 TAATATAAAA
45824162 TAATCATAAAA
1 TAAT-ATAAAA
45824173 TAATGATAA
1 TAAT-ATAA
45824182 TTTTGACCGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 9 0.35
10 3 0.12
11 14 0.54
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (10 bp):
TAATATAAAA
Found at i:45825058 original size:3 final size:3
Alignment explanation
Indices: 45825050--45825129 Score: 151
Period size: 3 Copynumber: 26.7 Consensus size: 3
45825040 CATATGCTCT
*
45825050 TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
45825098 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
45825130 TTCAATACAA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:45826419 original size:3 final size:3
Alignment explanation
Indices: 45826411--45826460 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
45826401 CTCAGTGGGA
45826411 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
45826459 TC
1 TC
45826461 GAGATCCTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:45827205 original size:74 final size:74
Alignment explanation
Indices: 45827082--45827220 Score: 224
Period size: 74 Copynumber: 1.9 Consensus size: 74
45827072 CGCCCGTGTT
** * * *
45827082 GTTAATTAATTCAATTTGAAATTAGGTGCAGGTTTCACACAGCCTAGACACACACCCGTGTTCTA
1 GTTAATTAATTCAATTCAAAATTAGGTGCAAGTTTCACACAGCCAAGACACACACCCATGTTCTA
45827147 GGCCGTATG
66 GGCCGTATG
*
45827156 GTTAATTAATTCAATTCAAAATTAGGTGCAAGTTTCACACAGCCAAGACACACGCCCATGTTCTA
1 GTTAATTAATTCAATTCAAAATTAGGTGCAAGTTTCACACAGCCAAGACACACACCCATGTTCTA
45827221 AGCTGTGTAG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 59 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (74 bp):
GTTAATTAATTCAATTCAAAATTAGGTGCAAGTTTCACACAGCCAAGACACACACCCATGTTCTA
GGCCGTATG
Found at i:45829714 original size:42 final size:43
Alignment explanation
Indices: 45829621--45829777 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 43
45829611 TAATGCCTAC
* * *
45829621 GTCCCAGACGTGGTCTTACATGTAATCAAAAATCGATGCCATT
1 GTCCCAGACATGGTCTTACACGAAATCAAAAATCGATGCCATT
*
45829664 GTCCCAGACA-GCGTCTTACACGAAATCAAATAT-GATGCCGA-T
1 GTCCCAGACATG-GTCTTACACGAAATCAAAAATCGATGCC-ATT
* * ** * *
45829706 GTCCCAGACATGGTCTTACGCATAAATCTCAAACCGATGCCAAT
1 GTCCCAGACATGGTCTTACAC-GAAATCAAAAATCGATGCCATT
* *
45829750 GTCCTAGACGTGGTCTTACACGAAATCA
1 GTCCCAGACATGGTCTTACACGAAATCA
45829778 CATATCAAAA
Statistics
Matches: 93, Mismatches: 15, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
42 26 0.28
43 42 0.45
44 25 0.27
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATCAAAAATCGATGCCATT
Found at i:45830859 original size:26 final size:26
Alignment explanation
Indices: 45830824--45830880 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
45830814 TAATTTTTCC
45830824 ATAATATGATTTTTGGGTCACAATGA
1 ATAATATGATTTTTGGGTCACAATGA
45830850 ATAATATGATTTTTGGGTCACAATGA
1 ATAATATGATTTTTGGGTCACAATGA
45830876 ATAAT
1 ATAAT
45830881 GTGACTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.39
Consensus pattern (26 bp):
ATAATATGATTTTTGGGTCACAATGA
Found at i:45835323 original size:39 final size:39
Alignment explanation
Indices: 45835242--45835471 Score: 379
Period size: 39 Copynumber: 5.9 Consensus size: 39
45835232 TTATGGTAAC
* * * *
45835242 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
45835282 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
45835321 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
45835360 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
* *
45835399 CGCACAATTGCCTTTGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
45835438 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
45835472 CTCGAACATC
Statistics
Matches: 180, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 163 0.91
40 17 0.09
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:45842936 original size:39 final size:38
Alignment explanation
Indices: 45842795--45843006 Score: 288
Period size: 39 Copynumber: 5.9 Consensus size: 38
45842785 TATGGTAACC
* * *
45842795 CGCACAAATGCCTTCGGACTTA--CCGGTATCACA-CT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGTATCATAGCT
45842830 CGCACAATTGCCTTCGGGCTTAGCCCGGT-TCATA--T
1 CGCACAATTGCCTTCGGGCTTAGCCCGGTATCATAGCT
45842865 CGCACAA---CCTTCGGGC-TAG--CGG-ATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGTATCATAGCT
45842896 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
45842935 CGCACAATTGCCTTCGGGCTTAGCCCGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGTATCATAGCT
45842973 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCA
45843007 CTCGAACATT
Statistics
Matches: 160, Mismatches: 3, Indels: 24
0.86 0.02 0.13
Matches are distributed among these distances:
29 8 0.05
31 11 0.07
32 9 0.06
34 9 0.06
35 31 0.19
36 4 0.03
37 8 0.05
38 38 0.24
39 42 0.26
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.25
Consensus pattern (38 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGTATCATAGCT
Found at i:45842995 original size:77 final size:73
Alignment explanation
Indices: 45842795--45843006 Score: 298
Period size: 77 Copynumber: 3.0 Consensus size: 73
45842785 TATGGTAACC
* *
45842795 CGCACAAATGCCTTCGGACTTA-CCGGTATCACA-CTCGCACAATTGCCTTCGGGCTTAGCCCGG
1 CGCAC-AATGCCTTCGGGCTTAGCCGGTATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGG
45842858 -T-TCATAT
65 ATATCATAT
45842865 CGCACAA--CCTTCGGGC-TAG-CGG-ATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGA
1 CGCACAATGCCTTCGGGCTTAGCCGGTATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGA
45842925 TATCATAGCT
66 TATCATA--T
45842935 CGCACAATTGCCTTCGGGCTTAGCCCGGTATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCCG
1 CGCACAA-TGCCTTCGGGCTTAG-CCGGTATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCCG
45843000 GATATCA
64 GATATCA
45843007 CTCGAACATT
Statistics
Matches: 127, Mismatches: 2, Indels: 19
0.86 0.01 0.13
Matches are distributed among these distances:
65 5 0.04
66 35 0.28
67 9 0.07
68 5 0.04
69 2 0.02
70 13 0.10
73 9 0.07
74 3 0.02
76 3 0.02
77 43 0.34
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.25
Consensus pattern (73 bp):
CGCACAATGCCTTCGGGCTTAGCCGGTATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGA
TATCATAT
Found at i:45847994 original size:40 final size:40
Alignment explanation
Indices: 45847939--45848119 Score: 240
Period size: 40 Copynumber: 4.5 Consensus size: 40
45847929 TATTCGGATG
** * *
45847939 ATATCCGGGCTAAGTCCTAAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
45847979 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* **
45848019 ATATCCGGGCTAAGTCCTGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
45848059 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
45848099 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
45848120 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 13 0.10
40 109 0.88
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:45860927 original size:26 final size:28
Alignment explanation
Indices: 45860892--45860955 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 28
45860882 TTCTTGAATT
45860892 TTTGATGAAATGAGCTATTT-G-GG-CTAA
1 TTTG-TGAAATGAGCT-TTTGGAGGACTAA
*
45860919 TTTGTGAAAATGAGGTTTTGGAGGACTAA
1 TTTGTG-AAATGAGCTTTTGGAGGACTAA
45860948 TTTGTGAA
1 TTTGTGAA
45860956 TTTAACATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 5 0.16
27 13 0.41
28 4 0.12
29 10 0.31
ACGTcount: A:0.30, C:0.05, G:0.28, T:0.38
Consensus pattern (28 bp):
TTTGTGAAATGAGCTTTTGGAGGACTAA
Found at i:45860929 original size:27 final size:29
Alignment explanation
Indices: 45860899--45860955 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
45860889 ATTTTTGATG
45860899 AAATGAGCTATTT-G-GG-CTAATTTGTGA
1 AAATGAGCT-TTTGGAGGACTAATTTGTGA
*
45860926 AAATGAGGTTTTGGAGGACTAATTTGTGA
1 AAATGAGCTTTTGGAGGACTAATTTGTGA
45860955 A
1 A
45860956 TTTAACATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 3 0.12
27 9 0.35
28 2 0.08
29 12 0.46
ACGTcount: A:0.32, C:0.05, G:0.28, T:0.35
Consensus pattern (29 bp):
AAATGAGCTTTTGGAGGACTAATTTGTGA
Found at i:45861996 original size:12 final size:13
Alignment explanation
Indices: 45861979--45862010 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
45861969 GCAAATGTTA
45861979 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
45861991 AGTTTTGATGCAT
1 AGTTTTGATGCAT
45862004 -GTTTTGA
1 AGTTTTGA
45862011 AATGTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:45868000 original size:6 final size:6
Alignment explanation
Indices: 45867989--45868169 Score: 160
Period size: 6 Copynumber: 29.8 Consensus size: 6
45867979 AACCAAAATG
* *
45867989 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATT AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
45868037 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
45868086 AGAATC AGTAA-C AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* *
45868134 AGAATC AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
45868170 ATGAATGCAA
Statistics
Matches: 143, Mismatches: 16, Indels: 32
0.75 0.08 0.17
Matches are distributed among these distances:
5 11 0.08
6 119 0.83
7 10 0.07
8 3 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:45868004 original size:30 final size:30
Alignment explanation
Indices: 45867968--45868144 Score: 150
Period size: 30 Copynumber: 5.9 Consensus size: 30
45867958 AAGAAACATT
* *
45867968 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAGAATCAGAATCAGA
* * *
45867998 ATCAGAATCAGTAACAGAATCAGAATTAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
45868028 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
*
45868058 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
* * *
45868089 ATCAGTAA-CA-GAATCAGAATCAGTATTAGTA
1 ATCAG-AATTAGGAA-CAGAATCAGAATCAG-A
*
45868120 A-CAGAATCA-GAATCAGAATCAGAAT
1 ATCAGAATTAGGAA-CAGAATCAGAAT
45868145 TACGTGACAG
Statistics
Matches: 125, Mismatches: 14, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
29 4 0.03
30 90 0.72
31 29 0.23
32 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:45868125 original size:79 final size:79
Alignment explanation
Indices: 45867994--45868169 Score: 293
Period size: 79 Copynumber: 2.2 Consensus size: 79
45867984 AAATGAGAAT
*
45867994 CAGAATCAGAATCAGTAA-CAGAATCAGAATTAGAATCAATATTAGTAACAGAATCAGAATCAGA
1 CAGAATCAGAATCAG-AATCAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGA
*
45868058 ATCAGAATTAGGTGA
65 ATCAGAATTACGTGA
*
45868073 CAGAATCAGAATCAGAATCAGTAA-CAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGA
1 CAGAATCAGAATCAGAATCAG-AATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGA
45868137 ATCAGAATTACGTGA
65 ATCAGAATTACGTGA
45868152 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
45868170 ATGAATGCAA
Statistics
Matches: 92, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
78 2 0.02
79 88 0.96
80 2 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (79 bp):
CAGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAA
TCAGAATTACGTGA
Found at i:45868335 original size:27 final size:27
Alignment explanation
Indices: 45868287--45868360 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 27
45868277 AGCATGGCTG
* * * *
45868287 CCAGAA-CAGATATCGTGACAGAGTCA
1 CCAGAATCAAATATTGTGGCAGAGCCA
45868313 CCA-AATACAAATATTGTGGCAGAGCCA
1 CCAGAAT-CAAATATTGTGGCAGAGCCA
* *
45868340 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAAATATTGTGGCA
45868361 AACCCACCTA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
25 2 0.05
26 3 0.08
27 31 0.79
28 3 0.08
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.18
Consensus pattern (27 bp):
CCAGAATCAAATATTGTGGCAGAGCCA
Found at i:45868573 original size:22 final size:22
Alignment explanation
Indices: 45868525--45868583 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
45868515 GTAAATACGT
*
45868525 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
45868547 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
45868569 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
45868584 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:45868736 original size:27 final size:26
Alignment explanation
Indices: 45868674--45868753 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 26
45868664 ATCGGTCAAT
* * *
45868674 AGATATTGTGACAGAGTCACCAAATAC
1 AGATATTGTGGCAGAGCCACCAGA-AC
*
45868701 AGATATTGTGGCAGAGCCACCGGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
*
45868727 AGATATTTGTGGCATAGCCACCAGAAC
1 AGATA-TTGTGGCAGAGCCACCAGAAC
45868754 GCTTCCTCCG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 7 0.15
27 39 0.85
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:45868981 original size:27 final size:27
Alignment explanation
Indices: 45868951--45869138 Score: 205
Period size: 27 Copynumber: 7.0 Consensus size: 27
45868941 GGGGCAAAAT
* * *
45868951 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
45868978 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
45869005 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
45869032 GATGATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
45869059 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
45869086 AGTAAATCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
45869113 GAAAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
45869139 TAGTAATTTC
Statistics
Matches: 133, Mismatches: 28, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 133 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:45869017 original size:54 final size:54
Alignment explanation
Indices: 45868951--45869138 Score: 241
Period size: 54 Copynumber: 3.5 Consensus size: 54
45868941 GGGGCAAAAT
* * *
45868951 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
* * * * *
45869005 GGTATTTCTACCCTACAAGGGTATTTCGATGATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
* * * *
45869059 GGTAATTCTATCCTATAAGGGTATTTCAGTAAATCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
** *
45869113 GAAAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
45869139 TAGTAATTTC
Statistics
Matches: 112, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 112 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
Found at i:45869096 original size:81 final size:81
Alignment explanation
Indices: 45868954--45869146 Score: 251
Period size: 81 Copynumber: 2.4 Consensus size: 81
45868944 GCAAAATGGT
* * * * * * * **
45868954 AATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCT
1 AATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTATAAGGGTATTTCAGTAAATCTACCCT
*
45869019 ACAAGGGTATTTCGAT
66 ACAAGGGTATTTCGAA
* *
45869035 GATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAGTAAATCTACCCT
1 AATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTATAAGGGTATTTCAGTAAATCTACCCT
* *
45869100 ATAGGGGTATTTCGAA
66 ACAAGGGTATTTCGAA
*
45869116 AATTCTACCCTACAGGGGTATTTTAGTAATT
1 AATTCTACCCTACAGGGGTATTTTGGTAATT
45869147 TCACAATCAA
Statistics
Matches: 96, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 96 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (81 bp):
AATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTATAAGGGTATTTCAGTAAATCTACCCT
ACAAGGGTATTTCGAA
Found at i:45869245 original size:27 final size:27
Alignment explanation
Indices: 45869158--45869688 Score: 632
Period size: 27 Copynumber: 19.9 Consensus size: 27
45869148 CACAATCAAA
*
45869158 GGTAAAACGGTAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
** *
45869185 GG-AAAAC-G--ATAGT-TAACT-GAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* * * *
45869206 GGTAAACCAGTAATTCTGTAAATCAAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* *
45869233 GGTAAAACGGTAATTTTACAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* *
45869260 GGTAAAATGGTAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
** * *
45869287 GGTAAAATAGTACTTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTATAAATC-GAG
* * * *
45869314 GGTAAAATGGTAATTTTGTAAATCGAA
1 GGTAAAACGGTAATTCTATAAATCGAG
* *
45869341 GGTAAAACGGTAATTTTACAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
*
45869368 GGTAAAACAGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
**
45869395 GGTAAAATAGTAATTCTATAAAAT-GAG
1 GGTAAAACGGTAATTCTAT-AAATCGAG
* *
45869422 GGTAAAACGGTAATTCTGTAAATCGAA
1 GGTAAAACGGTAATTCTATAAATCGAG
* *
45869449 GGTAAAACGGTAATTTTACAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
45869476 GGTAAAACGGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
*
45869503 GGTAAAACAGTAATTCTATAAAT-GAG
1 GGTAAAACGGTAATTCTATAAATCGAG
*
45869529 GGTAAAACGGTAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* *
45869556 GGTAAAACGGTAATTTTACAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
45869583 GGTAAAACGGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
*
45869610 GGTAAAACAGTAATTCTATAAA-CTGAG
1 GGTAAAACGGTAATTCTATAAATC-GAG
*
45869637 GGTAAAACGGTAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTATAAATCGAG
* *
45869664 GGTAAAACTGTAATTCTGTAAATCG
1 GGTAAAACGGTAATTCTATAAATCG
45869689 GAGTACTTTG
Statistics
Matches: 437, Mismatches: 54, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.01
22 8 0.02
23 4 0.01
25 4 0.01
26 39 0.09
27 371 0.85
28 6 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
GGTAAAACGGTAATTCTATAAATCGAG
Found at i:45869345 original size:108 final size:108
Alignment explanation
Indices: 45869141--45869678 Score: 815
Period size: 108 Copynumber: 5.1 Consensus size: 108
45869131 GGGTATTTTA
* * * * **
45869141 GTAATTTCAC-AATCAAAGGTAAAACGGTAATTCTGTAAATCGAGGG-AAAAC-G--ATAGT-T-
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
* *
45869199 AACTGAGGGTAAACCAGTAATTCTGTAAATC-AAGGGTAAAACG
66 AACTGAGGGTAAAACGGTAATTCTGTAAATCGAA-GGTAAAACG
* * * * *
45869242 GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAGTACTTCTGTA
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
* *
45869307 AACTGAGGGTAAAATGGTAATTTTGTAAATCGAAGGTAAAACG
66 AACTGAGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAACG
* *
45869350 GTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTATA
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
*
45869415 AAATGAGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAACG
66 AACTGAGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAACG
45869458 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
*
45869523 AA-TGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
66 AACTGAGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAACG
45869565 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
* *
45869630 AACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACT
66 AACTGAGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAACG
45869673 GTAATT
1 GTAATT
45869679 CTGTAAATCG
Statistics
Matches: 404, Mismatches: 24, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
101 9 0.02
102 33 0.08
103 4 0.01
104 1 0.00
106 2 0.00
107 107 0.26
108 246 0.61
109 2 0.00
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (108 bp):
GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
AACTGAGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAACG
Found at i:45871705 original size:6 final size:6
Alignment explanation
Indices: 45871694--45871880 Score: 179
Period size: 6 Copynumber: 30.8 Consensus size: 6
45871684 AACCAAAATG
*
45871694 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
45871742 AGTATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
* *
45871791 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* * *
45871839 AGAATC AGAATC AAAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
45871881 GTGAATGCAA
Statistics
Matches: 149, Mismatches: 18, Indels: 28
0.76 0.09 0.14
Matches are distributed among these distances:
5 9 0.06
6 130 0.87
7 8 0.05
8 2 0.01
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:45871867 original size:85 final size:84
Alignment explanation
Indices: 45871694--45871880 Score: 261
Period size: 85 Copynumber: 2.2 Consensus size: 84
45871684 AACCAAAATG
*
45871694 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTATCAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
* * *
45871759 TAGGTGACAGAATCAGAATC
66 CAGAT-ACAAAATCAGAATC
*
45871779 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
* *
45871844 CAGA-ATCAAAATTACGTGA-C
66 CAGATA-CAAAATCA-G-AATC
45871864 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
45871881 GTGAATGCAA
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
83 1 0.01
84 6 0.07
85 84 0.91
86 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (84 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGATACAAAATCAGAATC
Found at i:45872035 original size:27 final size:26
Alignment explanation
Indices: 45871998--45872063 Score: 96
Period size: 27 Copynumber: 2.5 Consensus size: 26
45871988 AGCATGGCTG
45871998 CCAGAACAGATATCGTGACAGAGCCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
45872024 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
45872051 CCAGAATCAGATA
1 CCAGAA-CAGATA
45872064 ATGTGGCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 6 0.17
27 30 0.83
ACGTcount: A:0.38, C:0.24, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:45872068 original size:27 final size:27
Alignment explanation
Indices: 45871998--45872080 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
45871988 AGCATGGCTG
*
45871998 CCAGAA-CAGAT-ATCGTGACAGAGCCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
45872024 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
* *
45872051 CCAGAATCAGATAATGTGGCAAACCCA
1 CCAGAATCAGATAATGTGGCAGAGCCA
45872078 CCA
1 CCA
45872081 AACAGAATAC
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
25 1 0.02
26 4 0.08
27 40 0.83
28 3 0.06
ACGTcount: A:0.37, C:0.27, G:0.22, T:0.14
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:45872284 original size:22 final size:22
Alignment explanation
Indices: 45872236--45872294 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
45872226 GTAGATACGT
*
45872236 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
45872258 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
45872280 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
45872295 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:45872463 original size:27 final size:26
Alignment explanation
Indices: 45872382--45872464 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
45872372 TCGATCAATC
* * * *
45872382 AACAGATATTATGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
45872408 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
* *
45872435 AACAGATATTTGTGGCATAGCCACTAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
45872462 AAC
1 AAC
45872465 GCTTCCTCCG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 8 0.16
27 41 0.84
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:45872693 original size:27 final size:27
Alignment explanation
Indices: 45872663--45872858 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
45872653 GGGGTAAAAT
* * *
45872663 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
45872690 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
45872717 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
45872744 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
45872771 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
45872798 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
45872825 GAAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
45872852 AGTAATT
1 GGTAATT
45872859 TTACAATCAA
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:45872852 original size:54 final size:54
Alignment explanation
Indices: 45872663--45872858 Score: 257
Period size: 54 Copynumber: 3.6 Consensus size: 54
45872653 GGGGTAAAAT
* * * **
45872663 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
* * *
45872717 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
* * *
45872771 GGTAATTCTATCCTATAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
** * *
45872825 GAAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATT
45872859 TTACAATCAA
Statistics
Matches: 124, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 124 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
Found at i:45872893 original size:27 final size:27
Alignment explanation
Indices: 45872863--45873235 Score: 428
Period size: 27 Copynumber: 13.8 Consensus size: 27
45872853 GTAATTTTAC
* *
45872863 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
45872890 AATCGAGGGGAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
45872917 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
** * *
45872944 AATTAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
45872971 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
** *
45872998 AATCGAGGGTAAAATAGTACTTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
45873025 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
45873052 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
45873079 AATCGAGGGTTAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
45873106 AATCGAGGGTAAAACAGTTATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
45873133 AA-CTAAGGATAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
45873160 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
45873187 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
45873214 AATCGAGGGTAAAACAGTAATT
1 AATCGAGGGTAAAACGGTAATT
45873236 TCGAAATGGC
Statistics
Matches: 289, Mismatches: 51, Indels: 12
0.82 0.14 0.03
Matches are distributed among these distances:
26 3 0.01
27 284 0.98
28 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:45873231 original size:108 final size:108
Alignment explanation
Indices: 45872853--45873231 Score: 575
Period size: 108 Copynumber: 3.5 Consensus size: 108
45872843 GGGTATTTCA
* * * * * *
45872853 GTAATTTTAC-AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGGAAAAC-GATAATTTTGT
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG-TTATTCTAT
* * **
45872916 AAACTGAGGGTAAACCAGTAATTCTGTAAATTAAGGGTAAAACG
65 AAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * *
45872960 GTAATTTTACAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAG-TACTTCTAT
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTTA-TTCTAT
45873024 AAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
65 AAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
*
45873068 GTAATTTTACAAATCGAGGGTTAAACGGTAATTCTATAAATCGAGGGTAAAACAGTTATTCTATA
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTTATTCTATA
* *
45873133 AACTAAGGATAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
66 AACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
45873176 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGT
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGT
45873232 AATTTCGAAA
Statistics
Matches: 250, Mismatches: 18, Indels: 7
0.91 0.07 0.03
Matches are distributed among these distances:
107 11 0.04
108 236 0.94
109 3 0.01
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (108 bp):
GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTTATTCTATA
AACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:45882925 original size:47 final size:47
Alignment explanation
Indices: 45882807--45882979 Score: 191
Period size: 45 Copynumber: 3.7 Consensus size: 47
45882797 GGATGGTTGA
*
45882807 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
45882855 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
*
45882898 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
45882947 -C-GCCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
45882980 TAGGGGCGGG
Statistics
Matches: 108, Mismatches: 8, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 33 0.31
46 30 0.28
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:45884609 original size:42 final size:42
Alignment explanation
Indices: 45884497--45884657 Score: 153
Period size: 43 Copynumber: 3.8 Consensus size: 42
45884487 AGAAATCTCG
* * * *
45884497 TACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAA
* * * *
45884539 TATCGATGCCACTGTCCCAGACAGGGTCTTACATGAAATTAAA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAA
* *
45884582 TACAATGCTAATGTCCCAGACATGGTCTTACACGTAAATCATAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATG-AAATCA-AA
* * * *
45884626 GT-CGATGCCAACGTCCTAGACGTGGTCTTACA
1 -TACAATGCCAATGTCCCAGACATGGTCTTACA
45884658 CGATAACACA
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 29 0.30
43 39 0.41
44 27 0.28
45 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAA
Done.