Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 195 of 770
Found at i:58152837 original size:47 final size:46
Alignment explanation
Indices: 58152773--58152867 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 46
58152763 AAAAATTTCT
* *
58152773 TTAACTAAGTAACTTATCCGGAAATAATAAGGGAAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGAAAATAATAAGAG-AAATTTAACAAGC
* *
58152820 TTAACTAAGT-ACTTTATCCGAAAATATTAAGAGCAATTTAACAAGC
1 TTAACTAAGTAAC-TTATCCGAAAATAATAAGAGAAATTTAACAAGC
58152866 TT
1 TT
58152868 TAAATTCAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
46 16 0.37
47 27 0.63
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (46 bp):
TTAACTAAGTAACTTATCCGAAAATAATAAGAGAAATTTAACAAGC
Found at i:58154648 original size:32 final size:32
Alignment explanation
Indices: 58154607--58154671 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
58154597 AAGCGGTACT
58154607 AAAATGCAACTTAGTACCCAATGCTTCTTGCA
1 AAAATGCAACTTAGTACCCAATGCTTCTTGCA
58154639 AAAATGCAACTTAGTACCCAATGCTTCTTGCA
1 AAAATGCAACTTAGTACCCAATGCTTCTTGCA
58154671 A
1 A
58154672 TTTCTTCCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (32 bp):
AAAATGCAACTTAGTACCCAATGCTTCTTGCA
Found at i:58159935 original size:28 final size:29
Alignment explanation
Indices: 58159837--58159935 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
58159827 TCACAAATTG
* *
58159837 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
58159866 GCACTAAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
58159894 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
58159922 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
58159936 GGCTTATTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:58162641 original size:27 final size:27
Alignment explanation
Indices: 58162607--58162806 Score: 256
Period size: 27 Copynumber: 7.4 Consensus size: 27
58162597 TGGATAAGTT
* *
58162607 GTAGAATTACCGAAATACGCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
58162634 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
58162661 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
58162688 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * **
58162715 ATAGGATTATCGAAATACCTTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
58162742 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
58162769 GTAGAATTACCTAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
58162796 GTAAAATTACC
1 GTAGAATTACC
58162807 ATTTTCCCCT
Statistics
Matches: 150, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:58163573 original size:71 final size:65
Alignment explanation
Indices: 58163437--58163573 Score: 166
Period size: 65 Copynumber: 2.0 Consensus size: 65
58163427 GGAGGAGCGT
* * * * *
58163437 TCTGGCAGCCTCGCTGCAATCTGGTGGCCGCCACATATATTTGTTCTGGTGACTTCGTCACAATA
1 TCTGGCAACCTCGCTGCAATCTGGTGGCCGCCACATATATTTATTCTGGTGACCTAGCCACAATA
*
58163502 TCTGGCAACCTCGCTGCAATCTGGTGGCTTCGCCACATATATATATCTATTCTGGTGGCCTAGCC
1 TCTGGCAACCTCGCTGCAATCTGGTGGC--CGCCAC--ATATAT-T-TATTCTGGTGACCTAGCC
58163567 ACAATA
60 ACAATA
58163573 T
1 T
58163574 TTGTATCTGG
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
65 27 0.45
67 6 0.10
69 6 0.10
70 1 0.02
71 20 0.33
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.31
Consensus pattern (65 bp):
TCTGGCAACCTCGCTGCAATCTGGTGGCCGCCACATATATTTATTCTGGTGACCTAGCCACAATA
Found at i:58165507 original size:47 final size:46
Alignment explanation
Indices: 58165449--58165543 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 46
58165439 AAAATTTTCT
*
58165449 TTAACTAAGTAACTTATCCAGAAATAATAAGGGAAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCAGAAATAATAAGAG-AAATTTAACAAGC
* * * * *
58165496 TTAACTGAGTAACTTATCCGGAAATATTAAGAGCAATTTTACAAGC
1 TTAACTAAGTAACTTATCCAGAAATAATAAGAGAAATTTAACAAGC
58165542 TT
1 TT
58165544 TAAATTCAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
46 13 0.31
47 29 0.69
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (46 bp):
TTAACTAAGTAACTTATCCAGAAATAATAAGAGAAATTTAACAAGC
Found at i:58175044 original size:28 final size:26
Alignment explanation
Indices: 58174946--58175061 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 26
58174936 CTTCATGGCT
* * *
58174946 ACCAGAACAGATATTGTGACAGAGTC
1 ACCAGAACAGATATTGTGGCATAGCC
* *
58174972 ACTAGATACAGATATTGTGGCAGAGCC
1 ACCAGA-ACAGATATTGTGGCATAGCC
58174999 ACCAGAACAGATAATTGTGGCATAGCC
1 ACCAGAACAGAT-ATTGTGGCATAGCC
*
58175026 ACCCGAAACAGATATTTGTGGCATAGCC
1 ACCAG-AACAGATA-TTGTGGCATAGCC
58175054 ACCAGAAC
1 ACCAGAAC
58175062 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
26 11 0.14
27 44 0.56
28 24 0.30
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
ACCAGAACAGATATTGTGGCATAGCC
Found at i:58182683 original size:27 final size:27
Alignment explanation
Indices: 58182648--58182760 Score: 149
Period size: 27 Copynumber: 4.2 Consensus size: 27
58182638 CATGGCTGCA
* *
58182648 AGAATAGATA-TTGTGACAGAGTCACC
1 AGAATAGATATTTGTGGCAGAGCCACC
*
58182674 AGATACAGATA-TTGTGGCAGAGCCACC
1 AGA-ATAGATATTTGTGGCAGAGCCACC
*
58182701 AGAATAGATATTTGTGGCATAGCCACC
1 AGAATAGATATTTGTGGCAGAGCCACC
*
58182728 AGAAATAGATATTTGTGGCATAGCCACC
1 AG-AATAGATATTTGTGGCAGAGCCACC
58182756 AGAAT
1 AGAAT
58182761 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 9 0.11
27 43 0.54
28 27 0.34
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (27 bp):
AGAATAGATATTTGTGGCAGAGCCACC
Found at i:58185214 original size:43 final size:42
Alignment explanation
Indices: 58185167--58185261 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 42
58185157 TCCCAGATGT
* * * *
58185167 GGTCTTACATGTAATCAAGTATCGATGC-CACTGTCCTAGACAG
1 GGTCTTACACGAAATCAAATAT-GATGCTCA-TGTCCCAGACAG
* *
58185210 GGTCTTACACGAAATCAAATATGATGCTGATGTCCCAGACAT
1 GGTCTTACACGAAATCAAATATGATGCTCATGTCCCAGACAG
58185252 GGTCTTACAC
1 GGTCTTACAC
58185262 ATAAATCTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 25 0.56
43 20 0.44
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.27
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATATGATGCTCATGTCCCAGACAG
Found at i:58185250 original size:42 final size:43
Alignment explanation
Indices: 58185167--58185318 Score: 116
Period size: 43 Copynumber: 3.5 Consensus size: 43
58185157 TCCCAGATGT
* * * *
58185167 GGTCTTACATGTAATCAAGTATCGATGCCACTGTCCTAGACAG
1 GGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACAG
* *
58185210 GGTCTTACACGAAATCAAATAT-GATGCTGA-TGTCCCAGACAT
1 GGTCTTACACGAAATCAAATATCGATGC-CACTGTCCCAGACAG
* * * * *
58185252 GGTCTTACACATAAATCTCAA-ATCAATTCCAAC-GTACCAGAC-G
1 GGTCTTACAC-GAAATC-AAATATCGATGCC-ACTGTCCCAGACAG
*
58185295 TGGTCTTACACGAAATCACATATC
1 -GGTCTTACACGAAATCAAATATC
58185319 AGAAATCCTA
Statistics
Matches: 85, Mismatches: 16, Indels: 16
0.73 0.14 0.14
Matches are distributed among these distances:
42 26 0.31
43 35 0.41
44 24 0.28
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACAG
Found at i:58200500 original size:68 final size:68
Alignment explanation
Indices: 58200350--58200507 Score: 160
Period size: 68 Copynumber: 2.3 Consensus size: 68
58200340 CTAGCCAATT
* * *
58200350 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
**
58200415 TTTA
65 CATA
* * *
58200419 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
58200481 CTACATA
63 C-ACATA
*
58200488 GTATCTCGTAGCTCTATTGT
1 -TATCTCGTAGCTCTCTTGT
58200508 ACACATGATG
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
68 35 0.47
69 7 0.09
70 6 0.08
71 26 0.35
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAC
ATA
Found at i:58203373 original size:27 final size:26
Alignment explanation
Indices: 58203326--58203376 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
58203316 CGAGGCTGCT
*
58203326 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
58203352 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
58203377 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:58204089 original size:27 final size:27
Alignment explanation
Indices: 58203921--58204092 Score: 231
Period size: 27 Copynumber: 6.4 Consensus size: 27
58203911 GGGGAAAAAT
* * *
58203921 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
58203948 GATAATTCTACCCTACAA-GGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
58203974 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
58204001 AGTAATTCTATCCTACAAGAGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
58204028 GGTAATTCTACCCTAC-AGGGATATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
* *
58204055 GGTAATTCTACCTTAAAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
58204082 GGTAATTCTAC
1 GGTAATTCTAC
58204093 AACTTATCCA
Statistics
Matches: 127, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
26 26 0.20
27 97 0.76
28 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:58210859 original size:27 final size:26
Alignment explanation
Indices: 58210811--58210862 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
58210801 GCGAGGCTGC
*
58210811 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
58210837 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
58210863 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:58211497 original size:26 final size:27
Alignment explanation
Indices: 58211468--58211521 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
58211458 TCACACAAGT
*
58211468 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
58211494 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
58211521 T
1 T
58211522 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:58211553 original size:27 final size:27
Alignment explanation
Indices: 58211522--58211665 Score: 225
Period size: 27 Copynumber: 5.3 Consensus size: 27
58211512 GGGGCAAAAT
* * *
58211522 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
58211549 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
58211576 GGTAATTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
58211603 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
58211630 GGTAATTCTACCTTACACGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
58211657 GGTAATTCT
1 GGTAATTCT
58211666 GCAACTTATC
Statistics
Matches: 108, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 108 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:58217502 original size:13 final size:13
Alignment explanation
Indices: 58217484--58217508 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58217474 ACAAACGATA
58217484 AAATTTTCACACG
1 AAATTTTCACACG
58217497 AAATTTTCACAC
1 AAATTTTCACAC
58217509 ATATCACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:58219375 original size:40 final size:39
Alignment explanation
Indices: 58219330--58219494 Score: 174
Period size: 40 Copynumber: 4.2 Consensus size: 39
58219320 CGGAATATAA
58219330 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
58219370 CCGGATAGAATCTC-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTGCACAAATGCCTTCGGGTCTTAGC
** * *
58219408 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * *
58219448 CCGGATATAATTTC-CAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAA--TCACTGCACAAATGCCTTCGGGTCTTAGC
58219487 CCGGATAT
1 CCGGATAT
58219495 CATTCAATTT
Statistics
Matches: 105, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
38 33 0.31
39 13 0.12
40 57 0.54
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAATCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:58227386 original size:40 final size:40
Alignment explanation
Indices: 58227341--58227507 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
58227331 CGGAATATAA
58227341 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
58227381 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
58227421 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
58227461 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
58227500 CCGGATAT
1 CCGGATAT
58227508 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:58227491 original size:80 final size:79
Alignment explanation
Indices: 58227357--58227505 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
58227347 ATAATCACGT
*
58227357 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
58227422 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
58227437 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
58227500 CCGGAT
64 CCGGAT
58227506 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:58236042 original size:40 final size:40
Alignment explanation
Indices: 58235983--58236068 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
58235973 CGGATTACAA
*
58235983 CCGGATATAACCACATGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATAGAACCACATGCACGAATGCCCTCGGGTCTTAGC
* * *
58236023 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACCACATGCACGAATGCCCTCGGGTCTTAGC
58236063 CCGGAT
1 CCGGAT
58236069 GTAGTCACTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (40 bp):
CCGGATAGAACCACATGCACGAATGCCCTCGGGTCTTAGC
Found at i:58236090 original size:40 final size:41
Alignment explanation
Indices: 58235999--58236108 Score: 138
Period size: 40 Copynumber: 2.7 Consensus size: 41
58235989 ATAACCACAT
* *
58235999 GCACGAATGCCCTCGGGTCTTAGCCCGGA-TAGAACGACTT
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTA
*
58236039 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTA
*
58236079 GCAC-AATTGCCTTCGGGTCTTAACCCGGAT
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT
58236109 ATAATTTCCA
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
39 2 0.03
40 57 0.90
41 1 0.02
42 3 0.05
ACGTcount: A:0.21, C:0.29, G:0.26, T:0.24
Consensus pattern (41 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTA
Found at i:58237998 original size:40 final size:40
Alignment explanation
Indices: 58237934--58238031 Score: 115
Period size: 40 Copynumber: 2.5 Consensus size: 40
58237924 TATAATCAAG
* * * *
58237934 GGCACATAAGTGCATTCAGGGGTACTAAAGTACAAATAGA
1 GGCACGTATGTGCAATCAGGGGTACTAAAGTACAAACAGA
* * * *
58237974 GGCATGTATGTGCAATCAGGGGTACTGAATTACAAACAGG
1 GGCACGTATGTGCAATCAGGGGTACTAAAGTACAAACAGA
*
58238014 GGTACGTATGTGCAATCA
1 GGCACGTATGTGCAATCA
58238032 TCAATAATTA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (40 bp):
GGCACGTATGTGCAATCAGGGGTACTAAAGTACAAACAGA
Found at i:58243866 original size:26 final size:28
Alignment explanation
Indices: 58243829--58243882 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
58243819 ATCATAACAC
*
58243829 AAATCAGTCA-TTTACCCTCGAAGGGTA
1 AAATCAGTCATTTTACCCTAGAAGGGTA
*
58243856 AAAT-AGTCATTTTACCCTATAAGGGTA
1 AAATCAGTCATTTTACCCTAGAAGGGTA
58243883 TTTTGATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (28 bp):
AAATCAGTCATTTTACCCTAGAAGGGTA
Found at i:58249238 original size:40 final size:40
Alignment explanation
Indices: 58249035--58249233 Score: 312
Period size: 40 Copynumber: 5.0 Consensus size: 40
58249025 GGATATAGCT
*
58249035 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
**
58249075 GTTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
*
58249115 ACTCGCACAAATGCCTTCGAGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
58249155 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
58249195 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
58249234 CACTATTAAG
Statistics
Matches: 149, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 147 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:58254422 original size:40 final size:40
Alignment explanation
Indices: 58254376--58254599 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
58254366 CTTGCACAAG
* * * *
58254376 GCCTTCGGGTCTTAGCCCGAATATGGTCACTGGCACAGAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
58254416 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
58254456 GCCTTCGGGTCTTAGCTCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
** * *
58254496 GCCTTAAGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * *
58254536 GCCTTCGGATCTTAGTCCAGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
58254577 GCCTTC-GGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
58254600 CATTCGAATA
Statistics
Matches: 151, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 135 0.89
41 15 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:58254561 original size:120 final size:120
Alignment explanation
Indices: 58254383--58254599 Score: 280
Period size: 120 Copynumber: 1.8 Consensus size: 120
58254373 AAGGCCTTCG
* * * *
58254383 GGTCTTAGCCCGAATATGGTCACTGGCACAGATGCCTTCGGGACTTAGCCCGGATATAGTC-GCT
1 GGTCTTAGCCCGAATATAGTCACTCGCACAGATGCCTTCGGGACTTAGCCCAGATATAGTCACCT
* * *
58254447 AGCACAAATGCCTTCGGGTCTTAGCTCGGATATAATCGCTAGCACAAATGCCTTAA
66 AGCACAAAAGCCTTC-GGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTAA
* * *
58254503 GGTCTTAGCCCGGATATAG-CAACTCGCAC-GAATGCCTTC-GGATCTTAGTCCAGTTATAGTCA
1 GGTCTTAGCCCGAATATAGTC-ACTCGCACAG-ATGCCTTCGGGA-CTTAGCCCAGATATAGTCA
58254565 CCTAGCACAAAAGCCTTCGGACTTAGCCCGGATAT
63 CCTAGCACAAAAGCCTTCGGACTTAGCCCGGATAT
58254600 CATTCGAATA
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
119 5 0.06
120 62 0.75
121 16 0.19
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
GGTCTTAGCCCGAATATAGTCACTCGCACAGATGCCTTCGGGACTTAGCCCAGATATAGTCACCT
AGCACAAAAGCCTTCGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTAA
Found at i:58255284 original size:37 final size:37
Alignment explanation
Indices: 58255196--58255316 Score: 233
Period size: 37 Copynumber: 3.2 Consensus size: 37
58255186 CTTACCTATG
58255196 GCCGAACATACACATCAACTTATGTACTCATTCATGT
1 GCCGAACATACACATCAACTTATGTACTCATTCATGT
58255233 GGCCGAACATACACATCAACTTATGTACTCATTCATGT
1 -GCCGAACATACACATCAACTTATGTACTCATTCATGT
58255271 GCCGAACATACACATCAACTTATGTACTCATTCATGT
1 GCCGAACATACACATCAACTTATGTACTCATTCATGT
58255308 GCCGAACAT
1 GCCGAACAT
58255317 GCATGTCTAT
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
37 46 0.55
38 37 0.45
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (37 bp):
GCCGAACATACACATCAACTTATGTACTCATTCATGT
Found at i:58262612 original size:40 final size:39
Alignment explanation
Indices: 58262527--58262730 Score: 288
Period size: 40 Copynumber: 5.1 Consensus size: 39
58262517 TCGGATTTAA
*
58262527 CCGGATATAGCTACTCGCTCAAATGCCTTC-GGACTTAGC
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGC
*
58262566 CCGGATATAGTAGTTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGC
58262606 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
*
58262646 CCGGA-ATTAGTAACTCACACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
*
58262686 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
58262726 CCGGA
1 CCGGA
58262731 ATTAGTCACT
Statistics
Matches: 154, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
38 2 0.01
39 26 0.17
40 125 0.81
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:58275722 original size:15 final size:15
Alignment explanation
Indices: 58275693--58275742 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
58275683 CAAAGATAAC
*
58275693 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
58275707 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
58275722 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
58275737 AAGAAA
1 AAGAAA
58275743 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:58275751 original size:15 final size:15
Alignment explanation
Indices: 58275704--58275751 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
58275694 AGAAAACCGA
58275704 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
58275718 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
58275734 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
58275749 ATA
1 ATA
58275752 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:58278727 original size:45 final size:45
Alignment explanation
Indices: 58278663--58278837 Score: 205
Period size: 45 Copynumber: 3.8 Consensus size: 45
58278653 TGTAACCCGC
*
58278663 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-GGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGGTT-GCAT
*
58278708 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G----GTTGCAT
* * **
58278758 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-GGTTGCAT
58278801 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
58278838 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 37 0.33
46 29 0.26
47 30 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGGTTGCAT
Found at i:58278829 original size:93 final size:92
Alignment explanation
Indices: 58278671--58278840 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 92
58278661 GCCCATAAGT
**
58278671 GAACTCGGACTCAACTCAACGAGCTCGGGGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
58278736 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
* *
58278763 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
58278828 CGAGTTCGGATGC
65 CGAGTTCGGATGC
58278841 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 27 0.37
93 46 0.63
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:58286009 original size:50 final size:49
Alignment explanation
Indices: 58285886--58286027 Score: 167
Period size: 50 Copynumber: 2.9 Consensus size: 49
58285876 AGCCGAAGCT
* * * ***
58285886 ATCTGATACGCATAGTAGCCTGCACTTACTACTACACATACGACCAACA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACA
* * * * * *
58285935 ATCCGGTACACGTAGTAGCTTGCACTTAGTACTACAGACGTGACCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AACA
58285985 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
58286028 TCGAAGTCAT
Statistics
Matches: 76, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
49 35 0.46
50 41 0.54
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (49 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACA
Found at i:58289052 original size:17 final size:17
Alignment explanation
Indices: 58289030--58289063 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
58289020 AATGGGTTAA
58289030 AGGTAGGCTTTTCATGG
1 AGGTAGGCTTTTCATGG
58289047 AGGTAGGCTTTTCATGG
1 AGGTAGGCTTTTCATGG
58289064 CATGAGTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.35, T:0.35
Consensus pattern (17 bp):
AGGTAGGCTTTTCATGG
Found at i:58293043 original size:40 final size:40
Alignment explanation
Indices: 58292918--58293069 Score: 121
Period size: 40 Copynumber: 3.8 Consensus size: 40
58292908 TCAAATGATG
* * ** *
58292918 TCCGGGCTACGTCCCGAAGGC-TTTGTGCTAAATGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACCAAA
** * *
58292958 TCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAA
* **
58292998 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCA-AA
* * *
58293039 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
58293070 TCGCTATATC
Statistics
Matches: 89, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
39 1 0.01
40 76 0.85
41 12 0.13
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCAAA
Found at i:58296429 original size:47 final size:46
Alignment explanation
Indices: 58296312--58296484 Score: 187
Period size: 45 Copynumber: 3.8 Consensus size: 46
58296302 GGATGGTTGA
*
58296312 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAT
* *
58296359 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA-T
* * *
58296402 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGC-AAT
*
58296452 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
58296485 TAGGGGCGGG
Statistics
Matches: 108, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 6 0.06
43 1 0.01
44 2 0.02
45 30 0.28
46 29 0.27
47 30 0.28
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAT
Found at i:58296480 original size:46 final size:45
Alignment explanation
Indices: 58296316--58296486 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 45
58296306 GGTTGAGCAT
* *
58296316 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
* * *
58296361 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC---GC
*
58296406 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
*
58296454 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58296487 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 10, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
42 6 0.06
44 2 0.02
45 29 0.27
46 31 0.29
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
Found at i:58296748 original size:19 final size:20
Alignment explanation
Indices: 58296711--58296748 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58296701 ATAAGGTGGT
58296711 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
58296731 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
58296749 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:58303951 original size:46 final size:46
Alignment explanation
Indices: 58303901--58304073 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
58303891 TGGTTGAGCA
*
58303901 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
58303947 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
58303994 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
58304040 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58304074 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:58304057 original size:93 final size:93
Alignment explanation
Indices: 58303898--58304068 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
58303888 GGATGGTTGA
* *
58303898 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
58303963 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
58303991 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
58304056 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
58304069 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:58304335 original size:19 final size:20
Alignment explanation
Indices: 58304298--58304335 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58304288 ATAAGGTGGT
58304298 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
58304318 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
58304336 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:58306273 original size:43 final size:43
Alignment explanation
Indices: 58306106--58306275 Score: 143
Period size: 43 Copynumber: 4.0 Consensus size: 43
58306096 ATATATCGTA
* * * *
58306106 CAATTCCAACGTCCTAGACATGGTCTTACATG-GTATCACATAT
1 CAATGCCAACGTCCCAGACATGGTCTTACACGAG-AACACATAT
* ** * *
58306149 CGATGCC-ACTGTCCCAGACAAAGTCTTACACGA-ATCAAATAT
1 CAATGCCAAC-GTCCCAGACATGGTCTTACACGAGAACACATAT
* * * *
58306191 -GATGCCAATGTCCCAGATATGGTCTTACAC-ATAATCACATAT
1 CAATGCCAACGTCCCAGACATGGTCTTACACGAGAA-CACATAT
* *
58306233 CAATGCCAACGTCCTAGACGTGGTCTTACACGAGAACACATAT
1 CAATGCCAACGTCCCAGACATGGTCTTACACGAGAACACATAT
58306276 AGGAAATCCT
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
40 1 0.01
41 25 0.25
42 17 0.17
43 55 0.54
44 3 0.03
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.25
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACATGGTCTTACACGAGAACACATAT
Found at i:58312741 original size:29 final size:29
Alignment explanation
Indices: 58312640--58312754 Score: 119
Period size: 29 Copynumber: 4.0 Consensus size: 29
58312630 TACATGTATC
* *
58312640 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
58312668 TGGCCCATTAGGCCAAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
* *
58312697 TGGCCTATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* * *
58312726 TGGCCGATTAGACCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
58312754 T
1 T
58312755 TCATGCTCAC
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
28 26 0.36
29 46 0.63
30 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:58314085 original size:28 final size:28
Alignment explanation
Indices: 58314050--58314108 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
58314040 CTAGGGTATA
58314050 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
58314078 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
58314106 TCG
1 TCG
58314109 TGATCTACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:58314760 original size:27 final size:27
Alignment explanation
Indices: 58314730--58314791 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
58314720 GGGCAAAATG
58314730 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
58314757 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
58314784 GTAATTTT
1 GTAATTTT
58314792 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:58314805 original size:54 final size:54
Alignment explanation
Indices: 58314747--58314951 Score: 178
Period size: 54 Copynumber: 3.8 Consensus size: 54
58314737 TACCCCACAA
** * * * *
58314747 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTACTTTAGTAATTTTACAAACCAG
** *
58314801 GGGTATTTTGGTAATTTTATAAACAAAGGGTACTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTACTTTAGTAATTTTACAAACCAG
** * * * * * *
58314855 GGGTATTTTGGTGATTTTATAAACCAATGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTACTTTAGTAATTTTACAAACCAG
** * * * * *
58314909 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTACTTTAGTAATT
58314952 CTGTAAATTG
Statistics
Matches: 134, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
53 2 0.01
54 132 0.99
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTACTTTAGTAATTTTACAAACCAG
Found at i:58314863 original size:81 final size:80
Alignment explanation
Indices: 58314745--58314951 Score: 231
Period size: 81 Copynumber: 2.5 Consensus size: 80
58314735 TTTACCCCAC
** *
58314745 AAGGGTATTTCAGTAATTTTACCCTA-CAGGGGTATTTTAGTAATTTT-TCAAACC-ATGGGTAT
1 AAGGGTATTT-AGTAATTTTA-CAAACCAGGGGTATTTTGGTAATTTTAT-AAACCAAT-GGTAT
* *
58314807 TTTGGTAATTTTATAAACA
62 TTTAGTAATTTTACAAACA
*
58314826 AAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAATGGTATTTT
1 AAGGGTA-TTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAATGGTATTTT
*
58314891 AGTAATTTTACAAACT
65 AGTAATTTTACAAACA
* * * * *
58314907 AGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 AAGGGTA-TTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATT
58314952 CTGTAAATTG
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
80 2 0.02
81 100 0.93
82 6 0.06
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (80 bp):
AAGGGTATTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAATGGTATTTTA
GTAATTTTACAAACA
Found at i:58314958 original size:27 final size:27
Alignment explanation
Indices: 58314774--58314951 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
58314764 TACCCTACAG
* *
58314774 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
58314801 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * * *
58314828 GGGTACTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
58314855 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * * * *
58314882 TGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
58314909 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
58314936 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
58314952 CTGTAAATTG
Statistics
Matches: 124, Mismatches: 26, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
27 123 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:58314965 original size:27 final size:27
Alignment explanation
Indices: 58314935--58315005 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
58314925 TTATAAACCA
* *
58314935 AGGGTATTTTGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTCTGTAAATCG
***
58314962 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTCTGTAAATCG
*
58314989 -GGAGTACTTTGGTAATT
1 AGG-GTAATTTGGTAATT
58315006 TTACAAGTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTGTAAATCG
Found at i:58318031 original size:27 final size:27
Alignment explanation
Indices: 58318001--58318062 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
58317991 TTTAAAACCC
58318001 TAGGGGTATATCGGTAATTTTGCTCTT
1 TAGGGGTATATCGGTAATTTTGCTCTT
*
58318028 TA-GGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGT-ATATCGGTAATTTTGCTCTT
58318055 TAGGGGTA
1 TAGGGGTA
58318063 ATTTCGTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 4 0.12
27 24 0.75
28 4 0.12
ACGTcount: A:0.19, C:0.10, G:0.27, T:0.44
Consensus pattern (27 bp):
TAGGGGTATATCGGTAATTTTGCTCTT
Found at i:58318717 original size:27 final size:27
Alignment explanation
Indices: 58318687--58318748 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
58318677 GGGCAAAATG
58318687 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
58318714 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
58318741 GTAATTTT
1 GTAATTTT
58318749 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:58318819 original size:80 final size:80
Alignment explanation
Indices: 58318700--58318907 Score: 258
Period size: 80 Copynumber: 2.6 Consensus size: 80
58318690 ATTTTACCCC
* ** * *
58318700 ACAAGGGTATTTCAGTAATTTTACCCTA-CAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTA
1 ACAAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTAATTTTAT-AAACCAAGGGTA
* *
58318763 TTTTGGTAATTTTATAA
64 TTTTAGTAATTTTACAA
*
58318780 ACAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATT
1 ACAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATT
58318845 TTAGTAATTTTACAA
66 TTAGTAATTTTACAA
* * * * *
58318860 ACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 A-CAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATT
58318908 CTGTAAATTG
Statistics
Matches: 111, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
79 2 0.02
80 68 0.61
81 41 0.37
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (80 bp):
ACAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATT
TTAGTAATTTTACAA
Found at i:58318914 original size:27 final size:27
Alignment explanation
Indices: 58318731--58318907 Score: 241
Period size: 27 Copynumber: 6.6 Consensus size: 27
58318721 TACCCTACAG
* *
58318731 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
58318758 GGGTATTTTGGTAATTTTATAAA-CAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
58318784 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
58318811 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
58318838 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
58318865 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
58318892 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
58318908 CTGTAAATTG
Statistics
Matches: 130, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
26 23 0.18
27 106 0.82
28 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:58318921 original size:27 final size:27
Alignment explanation
Indices: 58318891--58318961 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
58318881 TTATAAACCA
* *
58318891 AGGGTATTTTGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTCTGTAAATCG
***
58318918 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTCTGTAAATCG
*
58318945 -GGAGTACTTTGGTAATT
1 AGG-GTAATTTGGTAATT
58318962 TTACAAGTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTGTAAATCG
Found at i:58318923 original size:54 final size:54
Alignment explanation
Indices: 58318731--58318907 Score: 311
Period size: 54 Copynumber: 3.3 Consensus size: 54
58318721 TACCCTACAG
* * *
58318731 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAA-CAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
58318784 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
58318838 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
*
58318892 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
58318908 CTGTAAATTG
Statistics
Matches: 119, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
53 47 0.39
54 72 0.61
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
Found at i:58318933 original size:81 final size:80
Alignment explanation
Indices: 58318681--58318934 Score: 179
Period size: 81 Copynumber: 3.1 Consensus size: 80
58318671 CCCTAGGGGC
* ** * ** * *
58318681 AAAATGGTAATTTTACCCCACAAGGGTATTTCAGTAATTTTACCCTA-CAGGGGTATTTTAGTAA
1 AAAACGGTAATTTTA-CAAACAAGGGTATTTTAGTAATTTTA-CAAACCAAGGGTATTTTGGTAA
* *
58318745 TT-TTTCAAACCATGGGT
64 TTCTAT-AAACCAAGGGT
**** * * *
58318762 ATTTTGGTAATTTTATAAACAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATT
1 AAAACGGTAATTTTACAAACAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATT
*
58318827 TTATAAACCAAGGGT
66 CTATAAACCAAGGGT
***** * * * *
58318842 ATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAAT
1 AAAACGGTAATTTTACAAA-CAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAAT
* ***
58318907 TCTGTAAATTGAGGGT
65 TCTATAAACCAAGGGT
58318923 AAAACGGTAATT
1 AAAACGGTAATT
58318935 CTGTAAATCG
Statistics
Matches: 139, Mismatches: 31, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
79 2 0.01
80 66 0.47
81 71 0.51
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (80 bp):
AAAACGGTAATTTTACAAACAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATT
CTATAAACCAAGGGT
Found at i:58320084 original size:16 final size:16
Alignment explanation
Indices: 58320059--58320089 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58320049 GTAGCCAAAC
58320059 TTTCAACTTTTCGGCA
1 TTTCAACTTTTCGGCA
*
58320075 TTTCAGCTTTTCGGC
1 TTTCAACTTTTCGGC
58320090 TTTTTGGTAT
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:0.13, C:0.26, G:0.16, T:0.45
Consensus pattern (16 bp):
TTTCAACTTTTCGGCA
Found at i:58323848 original size:29 final size:29
Alignment explanation
Indices: 58323815--58323974 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
58323805 GTGACGAGAT
58323815 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
58323844 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
58323873 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
58323902 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
58323931 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
58323960 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
58323975 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:58335148 original size:29 final size:29
Alignment explanation
Indices: 58335115--58335217 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
58335105 GTGACGAGAT
58335115 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
58335144 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
58335173 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
58335202 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
58335218 AGCTCGGAGG
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:58341427 original size:17 final size:18
Alignment explanation
Indices: 58341385--58341433 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
58341375 AGTTGAAAAG
58341385 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
58341404 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
58341421 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
58341434 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:58342321 original size:40 final size:40
Alignment explanation
Indices: 58342255--58342421 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
58342245 AAATTGAATG
* * *
58342255 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
58342294 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
58342334 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
58342374 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
58342414 ATATCCGG
1 ATATCCGG
58342422 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:58349432 original size:17 final size:18
Alignment explanation
Indices: 58349390--58349438 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
58349380 AGTTGAAAAG
58349390 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
58349409 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
58349426 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
58349439 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:58350326 original size:40 final size:40
Alignment explanation
Indices: 58350260--58350426 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
58350250 AAATTGAATG
* * *
58350260 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
58350299 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
58350339 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
58350379 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
58350419 ATATCCGG
1 ATATCCGG
58350427 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:58356505 original size:28 final size:28
Alignment explanation
Indices: 58356465--58356577 Score: 120
Period size: 29 Copynumber: 4.0 Consensus size: 28
58356455 CCTATATCTA
* *
58356465 GCCCATTAAGCCCAATCATATTCATATG
1 GCCCATTAGGCCCAATCACATTCATATG
* *
58356493 GCCCATTAGGCCCAAATCACCTGT-ATATA
1 GCCCATTAGGCCC-AATCACAT-TCATATG
* *
58356522 GCCCATTAGGCCTAAATCACATTTATATG
1 GCCCATTAGGCC-CAATCACATTCATATG
* *
58356551 GCCCGTTAGGCCCAGTCACATTCATAT
1 GCCCATTAGGCCCAATCACATTCATAT
58356578 TCATGCTCAC
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
28 25 0.36
29 44 0.63
30 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.27
Consensus pattern (28 bp):
GCCCATTAGGCCCAATCACATTCATATG
Found at i:58356554 original size:58 final size:57
Alignment explanation
Indices: 58356454--58356564 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 57
58356444 AATTTCACAT
* * *
58356454 ACCTATATCTAGCCCATTAAGCCCAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTATATATAGCCCATTAAGCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
* * * *
58356511 ACCTGTATATAGCCCATTAGGCCTAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTATATATAGCCCATTAAGCC-AAATCACATTCATATGGCCCATTAGGCCCA
58356565 GTCACATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 20 0.43
58 26 0.57
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.27
Consensus pattern (57 bp):
ACCTATATATAGCCCATTAAGCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:58361500 original size:29 final size:29
Alignment explanation
Indices: 58361430--58361529 Score: 96
Period size: 29 Copynumber: 3.5 Consensus size: 29
58361420 CATTAAGCCC
* * * *
58361430 AATCATATTCATATTGCCCACTAGGCCGA
1 AATCACATTCATATGGCCCATTAGGCCTA
* *
58361459 AATCACCTGT-ATATGGCCCATTGGGCCTA
1 AATCACAT-TCATATGGCCCATTAGGCCTA
* *
58361488 AATCACATTTATATGGCCCGTTAGGCCT-
1 AATCACATTCATATGGCCCATTAGGCCTA
*
58361516 AGTCACATTCATAT
1 AATCACATTCATAT
58361530 TCATGCTCAC
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
28 13 0.22
29 44 0.76
30 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (29 bp):
AATCACATTCATATGGCCCATTAGGCCTA
Found at i:58362826 original size:16 final size:17
Alignment explanation
Indices: 58362798--58362833 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
58362788 ATAAAGAAAG
58362798 TTTAGGATTTCGGGATT
1 TTTAGGATTTCGGGATT
58362815 TTTAGG-TTTCGGGATT
1 TTTAGGATTTCGGGATT
58362831 TTT
1 TTT
58362834 GGGGTGTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.14, C:0.06, G:0.28, T:0.53
Consensus pattern (17 bp):
TTTAGGATTTCGGGATT
Found at i:58368167 original size:13 final size:12
Alignment explanation
Indices: 58368129--58368169 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
58368119 CCCTCGTTTC
58368129 TTTTCACTCACT
1 TTTTCACTCACT
58368141 TTTTCACTCACT
1 TTTTCACTCACT
* *
58368153 TTTTCACACACC
1 TTTTCACTCACT
58368165 TTTTC
1 TTTTC
58368170 GCTCTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.17, C:0.34, G:0.00, T:0.49
Consensus pattern (12 bp):
TTTTCACTCACT
Found at i:58371593 original size:50 final size:49
Alignment explanation
Indices: 58371475--58371650 Score: 194
Period size: 50 Copynumber: 3.5 Consensus size: 49
58371465 CTGGTACGCA
* * **
58371475 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
*
58371524 TAGTAGCCTGCACTTAGTACTACACACGTGACATCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC--CAACAGTCTAATACACG
* *** * *
58371574 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG---TCTAATACACG
58371625 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
58371651 TGCGACCTCA
Statistics
Matches: 109, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 30 0.28
50 40 0.37
51 36 0.33
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:58373840 original size:15 final size:15
Alignment explanation
Indices: 58373793--58373848 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
58373783 CAAGAAAATC
*
58373793 GAATGAAGAAATCCA
1 GAATAAAGAAATCCA
*
58373808 -AGATAGAA-AAACCCA
1 GA-ATA-AAGAAATCCA
58373823 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
58373838 GAATAAAGAAA
1 GAATAAAGAAA
58373849 CCCAAATACG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 3 0.09
15 28 0.82
16 3 0.09
ACGTcount: A:0.61, C:0.12, G:0.16, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:58376972 original size:50 final size:49
Alignment explanation
Indices: 58376863--58377038 Score: 176
Period size: 50 Copynumber: 3.5 Consensus size: 49
58376853 CTGGTACGCA
* * * * **
58376863 TAGTATCCTGCACTTAGTACTACGCATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
*
58376912 TAGTAGCCTGCACTTAGTACTACACACGTGACATCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC--CAACAGTCTAATACACG
* *** * *
58376962 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG---TCTAATACACG
58377013 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
58377039 TGCGACCTCA
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 28 0.26
50 40 0.37
51 36 0.34
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:58383499 original size:42 final size:43
Alignment explanation
Indices: 58383405--58383520 Score: 146
Period size: 42 Copynumber: 2.7 Consensus size: 43
58383395 CGGGCACAAT
* *
58383405 GCCGATGTCCTAGACATGGTCTTACATGTAATTCAGTATCGAT
1 GCCGATGTCCCAGACATGGTCTTACATGTAATTCAGTATCGAA
** * *
58383448 GCCTCTGTCCCAAACAGGGTCTTACATG-AATTCAGATAT-GAA
1 GCCGATGTCCCAGACATGGTCTTACATGTAATTCAG-TATCGAA
*
58383490 GCCGATGTCCCAGACATGGTCTTACACGTAA
1 GCCGATGTCCCAGACATGGTCTTACATGTAA
58383521 ATCTCAAATC
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 32 0.53
43 28 0.47
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (43 bp):
GCCGATGTCCCAGACATGGTCTTACATGTAATTCAGTATCGAA
Found at i:58385837 original size:8 final size:8
Alignment explanation
Indices: 58385824--58385848 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
58385814 TTATCAGCTC
58385824 TTATTATT
1 TTATTATT
58385832 TTATTATT
1 TTATTATT
58385840 TTATTATT
1 TTATTATT
58385848 T
1 T
58385849 CAAATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATTATT
Found at i:58386306 original size:13 final size:13
Alignment explanation
Indices: 58386288--58386314 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58386278 TCGTTTCATC
58386288 TTTCACTTTACTT
1 TTTCACTTTACTT
58386301 TTTCACTTTACTT
1 TTTCACTTTACTT
58386314 T
1 T
58386315 AATCTATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.22, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTCACTTTACTT
Found at i:58388777 original size:20 final size:20
Alignment explanation
Indices: 58388749--58388786 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
58388739 AAGGATTTGT
* *
58388749 TTTTGGTAAATTTTTAGATA
1 TTTTAGTAAAGTTTTAGATA
58388769 TTTTAGTAAAGTTTTAGA
1 TTTTAGTAAAGTTTTAGA
58388787 AATAATTTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.53
Consensus pattern (20 bp):
TTTTAGTAAAGTTTTAGATA
Found at i:58390178 original size:22 final size:22
Alignment explanation
Indices: 58390152--58390206 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
58390142 ATACATGATT
*
58390152 AATTTTATTGAACTACCTATAA
1 AATTTTATTGAAATACCTATAA
*
58390174 CATTTTATTGAAATACCTATAA
1 AATTTTATTGAAATACCTATAA
58390196 AATTTTATTGA
1 AATTTTATTGA
58390207 TAATTAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (22 bp):
AATTTTATTGAAATACCTATAA
Found at i:58399558 original size:20 final size:19
Alignment explanation
Indices: 58399529--58399566 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
58399519 AATAGTTTTT
58399529 AAAATTTAAAATATTTATA
1 AAAATTTAAAATATTTATA
58399548 AAAATTTTAAAATATTTAT
1 AAAA-TTTAAAATATTTAT
58399567 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAATTTAAAATATTTATA
Found at i:58403716 original size:20 final size:20
Alignment explanation
Indices: 58403691--58403757 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
58403681 TGCCCACATA
* *
58403691 GGCGTGTCCCAAACCATACG
1 GGCGTGTCCCAAACTACACG
58403711 GGCGTGTCCCAAACTACACG
1 GGCGTGTCCCAAACTACACG
58403731 GGCGTGTCCCAAACTACACG
1 GGCGTGTCCCAAACTACACG
58403751 GGCGTGT
1 GGCGTGT
58403758 GACCCTTGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.22, C:0.33, G:0.28, T:0.16
Consensus pattern (20 bp):
GGCGTGTCCCAAACTACACG
Found at i:58405269 original size:155 final size:155
Alignment explanation
Indices: 58404985--58405269 Score: 453
Period size: 155 Copynumber: 1.8 Consensus size: 155
58404975 ATAGGTAAGG
* *
58404985 TTTGGTATGTTTATCATGGCAAGAATGTACCATTTCATCTTGAGATACAATGCTTGAATGAATCA
1 TTTGGTATGTTTATCATGGAAAGAATGTACCATTTCATCTTGAGATACAATGCTTGAATGAATAA
* * * * *
58405050 TTAGAAAGAATCATGTTGGTATTATAATTGTTAAATGTTTTGGTAATGATTTATGATCTGTTTGT
66 TTAGAAAGAATCATGTTGGTATTATAATTGTTAAATATTTTGATAATGATTTAAGATATATTTGT
58405115 TTAAAAGGTATGGCATGTCTTATGT
131 TTAAAAGGTATGGCATGTCTTATGT
* * * *
58405140 TTTGGTATGTTTATCATGGAAAGAATGTACCATTTCATTTTGAGATGCAATGTTTGGATGAATAA
1 TTTGGTATGTTTATCATGGAAAGAATGTACCATTTCATCTTGAGATACAATGCTTGAATGAATAA
* *
58405205 TTGGAAAGAATCATGTTGGTATTATAATTGTTGAATATTTTGATAATGATTTAAGATATATTTGT
66 TTAGAAAGAATCATGTTGGTATTATAATTGTTAAATATTTTGATAATGATTTAAGATATATTTGT
58405270 GATGATGTCA
Statistics
Matches: 117, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
155 117 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (155 bp):
TTTGGTATGTTTATCATGGAAAGAATGTACCATTTCATCTTGAGATACAATGCTTGAATGAATAA
TTAGAAAGAATCATGTTGGTATTATAATTGTTAAATATTTTGATAATGATTTAAGATATATTTGT
TTAAAAGGTATGGCATGTCTTATGT
Found at i:58410962 original size:67 final size:67
Alignment explanation
Indices: 58410889--58411100 Score: 158
Period size: 67 Copynumber: 3.1 Consensus size: 67
58410879 TTGATCATGG
58410889 AAAATATTAATTGTATATATTTTACCGAATTTATTAATATAAATAATTATATAGATTAATATT-A
1 AAAATATTAATTGTATATATTTTACCGAATTTATTAATATAAATAATTATATAGATTAATATTCA
58410953 GTC
66 -TC
** * ** *
58410956 AAAATA-TAAAAG-ACATGAAAATTA---ATATTCTTTTGGAA-ATAAATTAATTAATATATGAA
1 AAAATATTAATTGTATAT--ATTTTACCGA-ATT-TATT--AATATAAA-TAATT-ATATA-G-A
58411015 TT--TGATTCATAC
56 TTAAT-ATTCAT-C
58411027 AAAATATTAATTGTATATATTTTACCGAATTTATTAATATAAATAATTATATTA-ATTAAT-TTC
1 AAAATATTAATTGTATATATTTTACCGAATTTATTAATATAAATAATTATA-TAGATTAATATTC
58411090 AATC
65 -ATC
58411094 AAAATAT
1 AAAATAT
58411101 AAAAGACATG
Statistics
Matches: 110, Mismatches: 12, Indels: 46
0.65 0.07 0.27
Matches are distributed among these distances:
64 1 0.01
65 6 0.05
66 7 0.06
67 29 0.26
68 9 0.08
69 10 0.09
70 14 0.13
71 20 0.18
72 7 0.06
73 6 0.05
74 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (67 bp):
AAAATATTAATTGTATATATTTTACCGAATTTATTAATATAAATAATTATATAGATTAATATTCA
TC
Found at i:58411033 original size:71 final size:70
Alignment explanation
Indices: 58410955--58411167 Score: 169
Period size: 71 Copynumber: 3.1 Consensus size: 70
58410945 TAATATTAGT
58410955 CAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAATAAATTAATTAATATATGAATTTGA
1 CAAAATATAAAAGACATGAAAATTAATATTCTTTT-GAAATAAATTAATTAATATATGAATTTGA
58411020 TTCATA
65 TTCATA
** * ** *
58411026 CAAAATATTAATTG-TAT-ATATTTTACCGA-ATT-TATT-AATATAAA-TAATT-ATAT-T-AA
1 CAAAATA-TAAAAGACATGA-AAATTA---ATATTCTTTTGAA-ATAAATTAATTAATATATGAA
*
58411082 -TTAATTTCA-A
60 TTTGA-TTCATA
* * *
58411092 TCAAAATATAAAAGACATGGAAATTAATATTCATTTGAAAAAAATATAATTAATATATGAATTTG
1 -CAAAATATAAAAGACATGAAAATTAATATTCTTTTGAAATAAAT-TAATTAATATATGAATTTG
58411157 ATTCATA
64 ATTCATA
58411164 CAAA
1 CAAA
58411168 TTATTAATTT
Statistics
Matches: 105, Mismatches: 17, Indels: 40
0.65 0.10 0.25
Matches are distributed among these distances:
64 1 0.01
65 3 0.03
66 14 0.13
67 21 0.20
68 6 0.06
69 8 0.08
70 9 0.09
71 28 0.27
72 11 0.10
73 3 0.03
74 1 0.01
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.38
Consensus pattern (70 bp):
CAAAATATAAAAGACATGAAAATTAATATTCTTTTGAAATAAATTAATTAATATATGAATTTGAT
TCATA
Found at i:58411256 original size:133 final size:138
Alignment explanation
Indices: 58410864--58411275 Score: 615
Period size: 138 Copynumber: 3.0 Consensus size: 138
58410854 ATATAGATAA
* **
58410864 AATTAATATATAAATTTGA-TCATGGAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* *
58410928 TAAATAATTATA-TAGATTAATATTAGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGG
66 TAAATAATTATATTA-ATTAATTTTAGTCAAAATATAAAAGACATGGAAATTAATATTCTTTT-G
*
58410992 AAATAAAT-T
129 AAAAAAATAT
58411001 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* * *
58411066 TAAATAATTATATTAATTAATTTCAATCAAAATATAAAAGACATGGAAATTAATATTCATTTGAA
66 TAAATAATTATATTAATTAATTTTAGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGAA
58411131 AAAAATAT
131 AAAAATAT
* *
58411139 AATTAATATATGAATTTGATTCATACAAATTATTAA-T-T-T-TATTTTACCAAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
* *
58411200 TAAA-AATTATATTAATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
66 TAAATAATTATATTAATTAATTTTAGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGAA
**
58411264 AAGGATAT
131 AAAAATAT
58411272 AATT
1 AATT
58411276 CCTTTTTCAA
Statistics
Matches: 254, Mismatches: 18, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
133 65 0.26
134 25 0.10
135 1 0.00
136 1 0.00
137 27 0.11
138 133 0.52
139 2 0.01
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (138 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
TAAATAATTATATTAATTAATTTTAGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGAA
AAAAATAT
Found at i:58411396 original size:76 final size:75
Alignment explanation
Indices: 58411251--58411398 Score: 215
Period size: 76 Copynumber: 2.0 Consensus size: 75
58411241 ATGGAAATTA
* * *
58411251 ATATTCTTTTGGAAAGGATATAATTCCTTTTTCAAACTTTCTATTTGACTTCTCTATTAATAAGA
1 ATATTCTTTTGGAAAGAATATAATTCCTTTTTCAAACTTTCCATTTGACTTCTCTATTAACAAGA
58411316 GAATAATCCT
66 GAATAATCCT
* * **
58411326 ATATTCTTTTGGAAAGAATATAATTACTTTTTTCTAACTTTCCATTTGTGTTCTCTATTAACAAG
1 ATATTCTTTTGGAAAGAATATAATT-CCTTTTTCAAACTTTCCATTTGACTTCTCTATTAACAAG
*
58411391 GGAATAAT
65 AGAATAAT
58411399 AATAGTTCTC
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
75 24 0.38
76 40 0.62
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.45
Consensus pattern (75 bp):
ATATTCTTTTGGAAAGAATATAATTCCTTTTTCAAACTTTCCATTTGACTTCTCTATTAACAAGA
GAATAATCCT
Found at i:58415895 original size:39 final size:39
Alignment explanation
Indices: 58415815--58415967 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
58415805 TATGGTAACC
* * * *
58415815 CGCACAAATGCCTTCAGGACTTAACCCGGATATCACCACT
1 CGCACAATTGCCTTC-GGGCTTAGCCCGGATATCACAACT
* * * *
58415855 CGCACGATTGCCTTCGAGCTTAGCCCGGATATTATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
58415894 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
58415933 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
58415968 TCGATCATTC
Statistics
Matches: 100, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 87 0.87
40 13 0.13
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:58415943 original size:78 final size:79
Alignment explanation
Indices: 58415796--58415964 Score: 232
Period size: 78 Copynumber: 2.2 Consensus size: 79
58415786 CTTCGGGACA
* * * *
58415796 TAGCCCGGTTATGGTAACCCGCACAAATGCCTTCAGGACTTAACCCGGATATCACCACTCGCACG
1 TAGCCCGGATATGATAACCCGCACAAATGCCTTCAGGACTTAACCCGGATATCACAACTCGCACA
58415861 ATTGCCTTCGAGCT
66 ATTGCCTTCGAGCT
* * * * * *
58415875 TAGCCCGGATATTATAACTCGCACAATTGCCTTC-GGGCTTAGCCCGGATATCACAATTCGCACA
1 TAGCCCGGATATGATAACCCGCACAAATGCCTTCAGGACTTAACCCGGATATCACAACTCGCACA
*
58415939 ATTGCCTTCGGGCT
66 ATTGCCTTCGAGCT
58415953 TAGCCCGGATAT
1 TAGCCCGGATAT
58415965 CACTCGATCA
Statistics
Matches: 79, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
78 50 0.63
79 29 0.37
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.25
Consensus pattern (79 bp):
TAGCCCGGATATGATAACCCGCACAAATGCCTTCAGGACTTAACCCGGATATCACAACTCGCACA
ATTGCCTTCGAGCT
Found at i:58422678 original size:21 final size:22
Alignment explanation
Indices: 58422644--58422684 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
58422634 AAGTCCAAGT
*
58422644 CCAAAATTACAAAA-AATATCC
1 CCAAAATAACAAAATAATATCC
*
58422665 CCAAAATAATAAAATAATAT
1 CCAAAATAACAAAATAATAT
58422685 GGTAAAGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.61, C:0.17, G:0.00, T:0.22
Consensus pattern (22 bp):
CCAAAATAACAAAATAATATCC
Found at i:58430478 original size:15 final size:15
Alignment explanation
Indices: 58430458--58430502 Score: 81
Period size: 15 Copynumber: 3.0 Consensus size: 15
58430448 GTTCGGTTTC
58430458 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
58430473 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
*
58430488 GGCAATAAGTGTGCG
1 GGCACTAAGTGTGCG
58430503 TGGTGACGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.22, C:0.18, G:0.40, T:0.20
Consensus pattern (15 bp):
GGCACTAAGTGTGCG
Found at i:58433484 original size:28 final size:28
Alignment explanation
Indices: 58433452--58433516 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
58433442 ATTTACTAGA
*
58433452 ATACCCCTATATATGCAAAATTACCATT
1 ATACCCCTATATATGCAAAATGACCATT
* *
58433480 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATATATGCAAAATGACCATT
58433508 ATACCCCTA
1 ATACCCCTA
58433517 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.35, C:0.28, G:0.06, T:0.31
Consensus pattern (28 bp):
ATACCCCTATATATGCAAAATGACCATT
Found at i:58433680 original size:27 final size:27
Alignment explanation
Indices: 58433622--58433711 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
58433612 AGGAAGCGTC
58433622 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
58433650 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
58433677 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
58433706 CTGGTG
1 CTGGTG
58433712 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:58433730 original size:55 final size:56
Alignment explanation
Indices: 58433622--58433736 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
58433612 AGGAAGCGTC
* *
58433622 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
58433677 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
58433733 CTGG
1 CTGG
58433737 CAACCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:58434199 original size:19 final size:19
Alignment explanation
Indices: 58434175--58434213 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
58434165 TTTTAATTAT
* *
58434175 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
58434194 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
58434213 T
1 T
58434214 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:58441347 original size:28 final size:28
Alignment explanation
Indices: 58441316--58441380 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
58441306 ATTTACTAGA
* *
58441316 ATACCCTTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
58441344 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
58441372 ATACCCCTA
1 ATACCCCTA
58441381 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:58441544 original size:27 final size:27
Alignment explanation
Indices: 58441486--58441567 Score: 103
Period size: 28 Copynumber: 3.0 Consensus size: 27
58441476 AGGAAGCGTC
58441486 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
58441514 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
*
58441541 CTGGTGGGACTGCCACAAAATATCTGT
1 CTGGTGGCACTGCCAC-AAATATCTGT
58441568 ATCTAGTGAC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 22 0.47
28 25 0.53
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:58441578 original size:27 final size:27
Alignment explanation
Indices: 58441496--58441567 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 27
58441486 CTGGTGGCTA
* *
58441496 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGG-AC
*
58441524 TGCCAC-ATATATCTGTTCTGGTGGGAC
1 TGCCACAAAATATCTGTTCTGGT-GGAC
58441551 TGCCACAAAATATCTGT
1 TGCCACAAAATATCTGT
58441568 ATCTAGTGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (27 bp):
TGCCACAAAATATCTGTTCTGGTGGAC
Found at i:58441594 original size:55 final size:56
Alignment explanation
Indices: 58441496--58441600 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 56
58441486 CTGGTGGCTA
* * *
58441496 TGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-TCTGGTGGGAC
1 TGCCACAAAATATCTGTTCTAGTGACCCTGCCACATATATCTGTATCTGGTGGGAC
* * *
58441551 TGCCACAAAATATCTGTATCTAGTGACTCTGTCACAT-TTTCTGTATCTGG
1 TGCCACAAAATATCTGT-TCTAGTGACCCTGCCACATATATCTGTATCTGG
58441601 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
55 22 0.52
56 20 0.48
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (56 bp):
TGCCACAAAATATCTGTTCTAGTGACCCTGCCACATATATCTGTATCTGGTGGGAC
Found at i:58442063 original size:19 final size:19
Alignment explanation
Indices: 58442039--58442077 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
58442029 TTTTAATTAT
* *
58442039 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
58442058 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
58442077 T
1 T
58442078 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:58445378 original size:39 final size:39
Alignment explanation
Indices: 58445297--58445459 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
58445287 TATGGTAACC
* *
58445297 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
58445337 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
58445376 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
58445415 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
58445454 CGCACA
1 CGCACA
58445460 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:58450118 original size:9 final size:9
Alignment explanation
Indices: 58450104--58450128 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
58450094 AGTCCTGAGG
58450104 AATGTGTTA
1 AATGTGTTA
58450113 AATGTGTTA
1 AATGTGTTA
58450122 AATGTGT
1 AATGTGT
58450129 CGTTTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (9 bp):
AATGTGTTA
Found at i:58458101 original size:8 final size:8
Alignment explanation
Indices: 58458088--58458123 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
58458078 TTTAATAAGA
58458088 TATTTTAT
1 TATTTTAT
58458096 TATTTTAT
1 TATTTTAT
58458104 TATTTTAT
1 TATTTTAT
58458112 TAATATTTAT
1 T-AT-TTTAT
58458122 TA
1 TA
58458124 AGTATAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 17 0.65
9 3 0.12
10 6 0.23
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
TATTTTAT
Found at i:58463365 original size:40 final size:40
Alignment explanation
Indices: 58463310--58463467 Score: 271
Period size: 40 Copynumber: 4.0 Consensus size: 40
58463300 TGGAAAAAAA
*
58463310 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
58463350 TATAACCGGGTTAAGTCCCGAAGGCATACGTGCGGGATAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
58463390 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
58463430 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
58463468 GTTACATCCG
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 111 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:58463491 original size:80 final size:80
Alignment explanation
Indices: 58463325--58463493 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 80
58463315 CCGGGTTAAG
58463325 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATACGTGCGGGATAT
1 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATACGTGCGGGATAT
* * * *
58463390 TATAACCGGGTTAAG
66 TACAACCGAGTCAAA
* ** * * *
58463405 TCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGT
1 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATACGTGCGGGATAT
*
58463470 TACATCCGAGTCAAA
66 TACAACCGAGTCAAA
*
58463485 TTCCGAAGG
1 TCCCGAAGG
58463494 TATTTTTTGT
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (80 bp):
TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATACGTGCGGGATAT
TACAACCGAGTCAAA
Found at i:58466641 original size:14 final size:14
Alignment explanation
Indices: 58466622--58466654 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
58466612 ATCTCCTTTA
58466622 GTTATCATGAATAT
1 GTTATCATGAATAT
58466636 GTTATCATGAATAT
1 GTTATCATGAATAT
58466650 GTTAT
1 GTTAT
58466655 TAAAGTTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.45
Consensus pattern (14 bp):
GTTATCATGAATAT
Found at i:58467470 original size:49 final size:49
Alignment explanation
Indices: 58467363--58467484 Score: 122
Period size: 49 Copynumber: 2.5 Consensus size: 49
58467353 TCGATGCCAT
* * *
58467363 GTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCCAATGTTGT
1 GTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGACAATGTTGC
* * * * *
58467412 GTACTAGACAGGTCTTACACTGGCTCTCATCTATCG-GTGACGATG-TGAC
1 GTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG-GACAATGTTG-C
* *
58467461 GTCCCAGACAGGCCTAACACTGAC
1 GTCCCAGACAGGTCTTACACTGAC
58467485 ACACAACAAG
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
48 3 0.05
49 55 0.95
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (49 bp):
GTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGACAATGTTGC
Found at i:58471146 original size:2 final size:2
Alignment explanation
Indices: 58471139--58471163 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
58471129 ATTACCACTC
58471139 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
58471164 CATAATAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58477041 original size:49 final size:49
Alignment explanation
Indices: 58476969--58477068 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
58476959 ACCTAAATCA
*
58476969 TGAGTTAGTCACTGGCCATGCGTATGTAACCCATGTGCTTTGATATAAG
1 TGAGTTAGTCACTGACCATGCGTATGTAACCCATGTGCTTTGATATAAG
58477018 TGAGTTAGTCACTGACCATGCGTATGTAACCCATGTGCTTTGATATAAG
1 TGAGTTAGTCACTGACCATGCGTATGTAACCCATGTGCTTTGATATAAG
58477067 TG
1 TG
58477069 GAGGCTTATG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (49 bp):
TGAGTTAGTCACTGACCATGCGTATGTAACCCATGTGCTTTGATATAAG
Found at i:58479803 original size:42 final size:42
Alignment explanation
Indices: 58479756--58479836 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
58479746 CGTTTATTAA
* *
58479756 ATCACAC-GACCTATCACACGGGCGGCTACACGCCTGTGTTCG
1 ATCACACAG-CCTATCACACGGGCGACTACACGCCCGTGTTCG
*
58479798 ATCACACAGCCTATCACACGGGCGATTACACGCCCGTGT
1 ATCACACAGCCTATCACACGGGCGACTACACGCCCGTGT
58479837 GGTATCGACA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 34 0.97
43 1 0.03
ACGTcount: A:0.23, C:0.36, G:0.22, T:0.19
Consensus pattern (42 bp):
ATCACACAGCCTATCACACGGGCGACTACACGCCCGTGTTCG
Found at i:58483997 original size:26 final size:26
Alignment explanation
Indices: 58483968--58484075 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
58483958 TGGTACAAAT
58483968 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
58483994 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
58484020 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
58484046 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58484072 TGAT
1 TGAT
58484076 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:58485729 original size:27 final size:26
Alignment explanation
Indices: 58485689--58485883 Score: 239
Period size: 27 Copynumber: 7.2 Consensus size: 26
58485679 AGGAAGCGTC
*
58485689 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
58485716 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
58485743 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
58485770 CTGGTGACTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
58485796 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCAC-ATTATCTGAT
**
58485824 CTGGTGGCTCTGCCACATATATCTTTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
58485851 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
58485878 CTGGTG
1 CTGGTG
58485884 ACTTCGTCAC
Statistics
Matches: 146, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
26 12 0.08
27 129 0.88
28 5 0.03
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:58485771 original size:54 final size:54
Alignment explanation
Indices: 58485689--58485883 Score: 329
Period size: 54 Copynumber: 3.6 Consensus size: 54
58485679 AGGAAGCGTC
58485689 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
58485743 CTGGTGGCTATGCCACGATTATCTGATCTGGTGACTCTGCCACATATATCTGTC
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
58485797 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTTTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
58485851 CTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
58485884 ACTTCGTCAC
Statistics
Matches: 132, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
53 6 0.05
54 126 0.95
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:58488867 original size:41 final size:41
Alignment explanation
Indices: 58488763--58488877 Score: 108
Period size: 41 Copynumber: 2.8 Consensus size: 41
58488753 CGATATCTCA
* * *
58488763 CACACTAAGTGTCAAAGCATAGCCAAAGCTATTATAATCTCG
1 CACACTAAGTGTCATA-TATAGCCAAAGCTATTATAACCTCG
* * * *
58488805 CACACTAAGTG-CCTTTCATAGCCAAAGCT-TTTTCAACCTTG
1 CACACTAAGTGTCATAT-ATAGCCAAAGCTATTAT-AACCTCG
**
58488846 CACACTAAGTGTCATATATAGCTGAAGCTATT
1 CACACTAAGTGTCATATATAGCCAAAGCTATT
58488878 CCAATTCGCA
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
40 3 0.05
41 39 0.67
42 16 0.28
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (41 bp):
CACACTAAGTGTCATATATAGCCAAAGCTATTATAACCTCG
Found at i:58488914 original size:81 final size:82
Alignment explanation
Indices: 58488763--58488946 Score: 198
Period size: 81 Copynumber: 2.3 Consensus size: 82
58488753 CGATATCTCA
*
58488763 CACACTAAGTGTCAAAGCATAGCCAAAGCTATTATAATCTCGCACACTAAGTGCCTTTCATAGCC
1 CACACTAAGTGTCAAAGCATAGCCAAAGCTATTACAATCTCGCACACTAAGTGCCTTTCATAGCC
* * *
58488828 AAAGCTTTTTC-AACCTTG
66 AAAGCTATCTCAAAAC--G
* * ** * * *
58488846 CACACTAAGTGTCATA-TATAGCTGAAGCTATTCCAAT-TCGCATACTAAGTG-CTTTACATAGT
1 CACACTAAGTGTCAAAGCATAGCCAAAGCTATTACAATCTCGCACACTAAGTGCCTTT-CATAGC
*
58488908 CGAAGCTATCTCAAAACG
65 CAAAGCTATCTCAAAACG
58488926 CACACTAAGTGTCAAA-CATAG
1 CACACTAAGTGTCAAAGCATAG
58488947 TTGATTTGCC
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
80 24 0.28
81 27 0.32
82 19 0.22
83 15 0.18
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.27
Consensus pattern (82 bp):
CACACTAAGTGTCAAAGCATAGCCAAAGCTATTACAATCTCGCACACTAAGTGCCTTTCATAGCC
AAAGCTATCTCAAAACG
Found at i:58488945 original size:40 final size:41
Alignment explanation
Indices: 58488845--58488947 Score: 106
Period size: 40 Copynumber: 2.6 Consensus size: 41
58488835 TTTCAACCTT
* **
58488845 GCACACTAAGTGTCATATATAG-CTGAAGCTATTCCAATTC
1 GCACACTAAGTGTCATACATAGTCTGAAGCTATTCCAAAAC
* *
58488885 GCATACTAAGTG-CTTTACATAGTC-GAAGCTA-TCTCAAAAC
1 GCACACTAAGTGTC-ATACATAGTCTGAAGCTATTC-CAAAAC
*
58488925 GCACACTAAGTGTCAAACATAGT
1 GCACACTAAGTGTCATACATAGT
58488948 TGATTTGCCG
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
39 3 0.06
40 46 0.90
41 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (41 bp):
GCACACTAAGTGTCATACATAGTCTGAAGCTATTCCAAAAC
Found at i:58494205 original size:18 final size:18
Alignment explanation
Indices: 58494182--58494222 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
58494172 AATTTATATG
*
58494182 AAAATCCTTTAAGGATTT
1 AAAATCCCTTAAGGATTT
58494200 AAAATCCCTTAAGGATTT
1 AAAATCCCTTAAGGATTT
58494218 AAAAT
1 AAAAT
58494223 TCTAGAAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (18 bp):
AAAATCCCTTAAGGATTT
Found at i:58501571 original size:25 final size:24
Alignment explanation
Indices: 58501448--58501572 Score: 74
Period size: 25 Copynumber: 5.0 Consensus size: 24
58501438 CTTATAAGCA
*
58501448 TCCCGATATATGGCTCTTTGTGAGCT
1 TCCCGATA-ATGGCTCTTCG-GAGCT
** * *
58501474 TCCTAATTAATGGCTCTCCGAAGCT
1 TCCCGA-TAATGGCTCTTCGGAGCT
*
58501499 TCCCGATAATGGCTCGCTT--GAACT
1 TCCCGATAATGGCT--CTTCGGAGCT
* * * * *
58501523 TCTCAATATATGGCTATCCAGAGCT
1 TCCCGATA-ATGGCTCTTCGGAGCT
58501548 TCCCGACTAATGGCTCTTCGGAGCT
1 TCCCGA-TAATGGCTCTTCGGAGCT
58501573 ACTCGTTATT
Statistics
Matches: 72, Mismatches: 20, Indels: 15
0.67 0.19 0.14
Matches are distributed among these distances:
23 1 0.01
24 17 0.24
25 35 0.49
26 17 0.24
27 2 0.03
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (24 bp):
TCCCGATAATGGCTCTTCGGAGCT
Found at i:58507198 original size:31 final size:31
Alignment explanation
Indices: 58507157--58507223 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
58507147 TACAATTTGA
* * *
58507157 TCATTGAATTATTCGAAAGTTTTCATTTAAG
1 TCATTAAATTATTCAAAAGTTTTAATTTAAG
*
58507188 TCATTAAATTATTTAAAAGTTTTAATTTAAG
1 TCATTAAATTATTCAAAAGTTTTAATTTAAG
58507219 TCATT
1 TCATT
58507224 GGGCTATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (31 bp):
TCATTAAATTATTCAAAAGTTTTAATTTAAG
Found at i:58519443 original size:28 final size:29
Alignment explanation
Indices: 58519374--58519447 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
58519364 TAATCAACCA
*
58519374 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
*
58519403 CGCACACTTAGTGCCATGCA-TTTCAAGC-
1 CGCACACTTAGTGCCATGCACTTT-AAACT
58519431 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
58519448 TCTCTCAACC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
28 20 0.48
29 22 0.52
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:58528455 original size:40 final size:40
Alignment explanation
Indices: 58528334--58528456 Score: 126
Period size: 40 Copynumber: 3.1 Consensus size: 40
58528324 TGAATGATAC
* * * ***
58528334 CCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATAT
* * *
58528373 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATAT
58528413 CCGGGCTAAGACCCGAAGGC-ATTCGTGC-ACGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTA-GTGGTTATAT
58528453 CCGG
1 CCGG
58528457 TTGTATTCCG
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
39 13 0.19
40 56 0.81
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATAT
Found at i:58529611 original size:51 final size:51
Alignment explanation
Indices: 58529506--58529621 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 51
58529496 TACCACCAAA
* * * **
58529506 TATAATATCATATCTTCTAAGATTACATATCTTAGATAAGATATGTAATCT
1 TATAATATCATATCTTATAAGATTACATATCATAGATAAGATATCTAAGAT
* * * ** *
58529557 TATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATCTCTAAGAT
1 TATAATATCATATCTTATAAGATTACATATCATAGATAAGATATCTAAGAT
58529608 TATAATATCATATC
1 TATAATATCATATC
58529622 ATGTTTCCAT
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (51 bp):
TATAATATCATATCTTATAAGATTACATATCATAGATAAGATATCTAAGAT
Found at i:58532409 original size:51 final size:51
Alignment explanation
Indices: 58532304--58532419 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 51
58532294 TACCACCAAA
* * * **
58532304 TATAATATCATATCTTCTAAGATTACATATCTTAGATAAGATATGTAATCT
1 TATAATATCATATCTTATAAGATTACATATCATAGATAAGATATCTAAGAT
* * * ** *
58532355 TATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATCTCTAAGAT
1 TATAATATCATATCTTATAAGATTACATATCATAGATAAGATATCTAAGAT
58532406 TATAATATCATATC
1 TATAATATCATATC
58532420 ATGTTTCCAT
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (51 bp):
TATAATATCATATCTTATAAGATTACATATCATAGATAAGATATCTAAGAT
Done.