Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 136 of 295
Found at i:41723326 original size:27 final size:26
Alignment explanation
Indices: 41723247--41723331 Score: 116
Period size: 27 Copynumber: 3.2 Consensus size: 26
41723237 AGGAAGCGTC
* *
41723247 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
*
41723274 CTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
41723301 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
41723328 CTGG
1 CTGG
41723332 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
26 2 0.04
27 48 0.92
28 2 0.04
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:41724349 original size:14 final size:15
Alignment explanation
Indices: 41724332--41724360 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
41724322 TCACGAAAAT
41724332 TTCACACAT-ATAAA
1 TTCACACATAATAAA
41724346 TTCACACATAATAAA
1 TTCACACATAATAAA
41724361 CACAAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:41731892 original size:14 final size:15
Alignment explanation
Indices: 41731875--41731903 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
41731865 TCACGAAAAT
41731875 TTCACACAT-ATAAA
1 TTCACACATAATAAA
41731889 TTCACACATAATAAA
1 TTCACACATAATAAA
41731904 CACAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:41734761 original size:47 final size:46
Alignment explanation
Indices: 41734659--41734910 Score: 196
Period size: 47 Copynumber: 5.4 Consensus size: 46
41734649 ACGCCAATGC
* ** * *
41734659 AAGACATGTCTGGGACATGCTTCGGCCACA-TTATGAGAGCCAGAGT
1 AAGACATGTCTGGGACATGCATCGG-CACAGAGATGAGTGCCAGTGT
* *
41734705 AAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCTAGAGT
1 AAGA-CATGTCTGGGACAT-GCATCGGCACAGAGATGAGTGCCAGTGT
*
41734753 AAGACATGTTTGGGACATGCATCGGCCTCGACAGAGAT-A-T-CCAGTGT
1 AAGACATGTCTGGGACATGCATCGG---C-ACAGAGATGAGTGCCAGTGT
* * * *
41734800 AAGACGTGTCTGGGACACGCATCGGCTA-AGAG-T-TGTG-TAGTGT
1 AAGACATGTCTGGGACATGCATCGGC-ACAGAGATGAGTGCCAGTGT
* * * *
41734843 AAGACATGTCTGGGACATGCATCAGCACGCATATATGAGAGCCAGTGT
1 AAGACATGTCTGGGACATGCATCGGCA--CAGAGATGAGTGCCAGTGT
*
41734891 AAGACCATGTCTCGGACATG
1 AAGA-CATGTCTGGGACATG
41734911 GCTAAGCCCA
Statistics
Matches: 167, Mismatches: 23, Indels: 29
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.01
43 33 0.20
44 2 0.01
45 2 0.01
46 12 0.07
47 60 0.36
48 32 0.19
49 16 0.10
50 8 0.05
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
AAGACATGTCTGGGACATGCATCGGCACAGAGATGAGTGCCAGTGT
Found at i:41734921 original size:23 final size:23
Alignment explanation
Indices: 41734890--41734935 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
41734880 AGAGCCAGTG
41734890 TAAGACCATGTCTCGGACATGGC
1 TAAGACCATGTCTCGGACATGGC
*
41734913 TAAGCCCATGTCTCGGACATGGC
1 TAAGACCATGTCTCGGACATGGC
41734936 ATCGGCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.22
Consensus pattern (23 bp):
TAAGACCATGTCTCGGACATGGC
Found at i:41752046 original size:39 final size:39
Alignment explanation
Indices: 41751975--41752164 Score: 228
Period size: 39 Copynumber: 4.9 Consensus size: 39
41751965 ATATTTGATG
*
41751975 TGTATCCGGACTT-AGGTCCGCAGGCTAT-GTGCTGGAAT
1 TGTATCCGGACTTAAGGTCCGCAGGCT-TCGTGCTGGAAA
* *
41752013 TATATCCGGACTTAGGGTCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAA
*
41752052 TGTATCCGGACTTAGGGTCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAA
* *
41752091 TGTATCC-GAGC-CAAAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGA-CTTAAGGT-CCGCAGGCTTCGTGCTGGAAA
* * *
41752130 TGTATCCGG-GTTAAAGTCCCGCAGGCTTTGTGCTG
1 TGTATCCGGACTTAAGGT-CCGCAGGCTTCGTGCTG
41752165 ATAATATAAC
Statistics
Matches: 136, Mismatches: 10, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
38 18 0.13
39 117 0.86
40 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.31, T:0.26
Consensus pattern (39 bp):
TGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAA
Found at i:41766285 original size:40 final size:40
Alignment explanation
Indices: 41766240--41766431 Score: 206
Period size: 40 Copynumber: 4.8 Consensus size: 40
41766230 TATAACCACA
** *
41766240 AGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAGTAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * * *
41766280 CGCACAAATGCCTTTGGATCTTAGTCTGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * **
41766320 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
*
41766360 CA-CACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
1 -AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
41766400 AGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
41766432 TCATTCAAAT
Statistics
Matches: 120, Mismatches: 30, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 118 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
Found at i:41766360 original size:80 final size:80
Alignment explanation
Indices: 41766212--41766432 Score: 293
Period size: 80 Copynumber: 2.8 Consensus size: 80
41766202 ACCCAAGTTT
* * * * *
41766212 CTTCGGAAT-TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAG
1 CTTCGG-ATCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAG
* *
41766275 TAACTCGCACAAATGC
65 CAACTCACACAAATGC
* * * * *
41766291 CTTTGGATCTTAGTCTGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGATCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGC
41766356 AACTCACACAAATGC
66 AACTCACACAAATGC
* *
41766371 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGATCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
41766433 CATTCAAATG
Statistics
Matches: 122, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
78 2 0.02
79 9 0.07
80 111 0.91
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (80 bp):
CTTCGGATCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGC
AACTCACACAAATGC
Found at i:41770612 original size:26 final size:26
Alignment explanation
Indices: 41770576--41770637 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
41770566 GGGTGTTACA
*
41770576 AAAATTTTGACAATTTTACCCTTAAT
1 AAAATTTTGACAATTTTACCCTCAAT
* *
41770602 AAAATTTTGACGATTTTACCCTCAGT
1 AAAATTTTGACAATTTTACCCTCAAT
*
41770628 AAGATTTTGA
1 AAAATTTTGA
41770638 GAAAAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (26 bp):
AAAATTTTGACAATTTTACCCTCAAT
Found at i:41770779 original size:6 final size:6
Alignment explanation
Indices: 41770765--41770803 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
41770755 GGATTGCAAG
* *
41770765 TTTCGA TTTCCA TTTCCA TTTCCA TTTCCA TTTCTA TTT
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTT
41770804 TTTGAAACCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.15, C:0.26, G:0.03, T:0.56
Consensus pattern (6 bp):
TTTCCA
Found at i:41774808 original size:34 final size:34
Alignment explanation
Indices: 41774765--41774830 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
41774755 AGTGTTTTGT
* * *
41774765 AAATAATGAGTTATTTTATGGCTGAATGTTGTGC
1 AAATAATGAGCTATTTTACGACTGAATGTTGTGC
* *
41774799 AAATGATGAGCTCTTTTACGACTGAATGTTGT
1 AAATAATGAGCTATTTTACGACTGAATGTTGT
41774831 TGTATCATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (34 bp):
AAATAATGAGCTATTTTACGACTGAATGTTGTGC
Found at i:41781347 original size:161 final size:161
Alignment explanation
Indices: 41781082--41781404 Score: 637
Period size: 161 Copynumber: 2.0 Consensus size: 161
41781072 ATGAATGAGA
41781082 AAGATTTTAGCAGAATTAACACAATAAGAAACAATTTTAACATAAATAAGCTAGGACAATTACTT
1 AAGATTTTAGCAGAATTAACACAATAAGAAACAATTTTAACATAAATAAGCTAGGACAATTACTT
41781147 TAATTAAACTCAAATTATTATCAACATACTTACCAATATTCGAAAAAAATTCCATGGCAACTCGA
66 TAATTAAACTCAAATTATTATCAACATACTTACCAATATTCGAAAAAAATTCCATGGCAACTCGA
41781212 TCTTTCATGAGTTTGGAAACCACGTTAGGTC
131 TCTTTCATGAGTTTGGAAACCACGTTAGGTC
*
41781243 AAGATTTTAGCAGAATTAACACAATAAGCAACAATTTTAACATAAATAAGCTAGGACAATTACTT
1 AAGATTTTAGCAGAATTAACACAATAAGAAACAATTTTAACATAAATAAGCTAGGACAATTACTT
41781308 TAATTAAACTCAAATTATTATCAACATACTTACCAATATTCGAAAAAAATTCCATGGCAACTCGA
66 TAATTAAACTCAAATTATTATCAACATACTTACCAATATTCGAAAAAAATTCCATGGCAACTCGA
41781373 TCTTTCATGAGTTTGGAAACCACGTTAGGTC
131 TCTTTCATGAGTTTGGAAACCACGTTAGGTC
41781404 A
1 A
41781405 TTTCGGAATC
Statistics
Matches: 161, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
161 161 1.00
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (161 bp):
AAGATTTTAGCAGAATTAACACAATAAGAAACAATTTTAACATAAATAAGCTAGGACAATTACTT
TAATTAAACTCAAATTATTATCAACATACTTACCAATATTCGAAAAAAATTCCATGGCAACTCGA
TCTTTCATGAGTTTGGAAACCACGTTAGGTC
Found at i:41784741 original size:29 final size:28
Alignment explanation
Indices: 41784705--41784782 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
41784695 TCATGAGATT
41784705 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
41784735 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
41784762 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
41784783 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:41785000 original size:174 final size:174
Alignment explanation
Indices: 41784735--41785236 Score: 950
Period size: 174 Copynumber: 2.9 Consensus size: 174
41784725 AAATTGTACA
*
41784735 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
41784800 TGTGCGAACCCAATATATATTTTCTATAAATTATTTATATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTATATTAAGGGTGCGACTTTACCGAGTCGA
41784865 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
41784909 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
41784974 TGTGCGAACCCAATATATATTTTCTATAAATTATTTATATTAAGGGTGCGACTTTACTGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTATATTAAGGGTGCGACTTTACCGAGTCGA
41785039 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
41785083 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * * *
41785148 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGTGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTATATTAAGGGTGCGACTTTACCGAGTCGA
41785213 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
41785237 ACCTTGAGTT
Statistics
Matches: 321, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 321 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTATATTAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:41818202 original size:37 final size:37
Alignment explanation
Indices: 41818120--41818240 Score: 156
Period size: 37 Copynumber: 3.3 Consensus size: 37
41818110 GTACATGGCT
*
41818120 ATGGCATAATCCAA-GGAGGTTCGCCAGA-TTGCCTAC
1 ATGGCATAAT-CAAGGGAGGTTCGCCAAACTTGCCTAC
* *
41818156 ATGGCATAATCAAGGGAGGTTCGCCAAACTTTCTTAC
1 ATGGCATAATCAAGGGAGGTTCGCCAAACTTGCCTAC
* * **
41818193 ATGGCATAATCAAGGAAGGTCCGTTAAACTTGCCTAC
1 ATGGCATAATCAAGGGAGGTTCGCCAAACTTGCCTAC
41818230 ATGGCATAATC
1 ATGGCATAATC
41818241 TAGGTCCGTT
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
35 3 0.04
36 23 0.31
37 48 0.65
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (37 bp):
ATGGCATAATCAAGGGAGGTTCGCCAAACTTGCCTAC
Found at i:41820067 original size:43 final size:43
Alignment explanation
Indices: 41819985--41820070 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
41819975 GCAACTAGAG
*
41819985 AACTAATTAACTTCAACCATCTGAATGATTATCGATTTACTAT
1 AACTAATTAACTTCAACCATCTAAATGATTATCGATTTACTAT
* * * * *
41820028 AACTGATTAGCTTCGACCATCTAAATGATTGTCGGTTTACTAT
1 AACTAATTAACTTCAACCATCTAAATGATTATCGATTTACTAT
41820071 CAAAATTGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (43 bp):
AACTAATTAACTTCAACCATCTAAATGATTATCGATTTACTAT
Found at i:41820488 original size:34 final size:34
Alignment explanation
Indices: 41820445--41820547 Score: 163
Period size: 34 Copynumber: 3.0 Consensus size: 34
41820435 TAAGTAGTTA
*
41820445 ATTAAGTAAAAAGGAATAAATCGTAAAATA-TGTG
1 ATTAAGTAAAAAGGACTAAATCGTAAAA-AGTGTG
*
41820479 ATTAAGTAAAAAGGACTCAATCGTAAAAAGTGTG
1 ATTAAGTAAAAAGGACTAAATCGTAAAAAGTGTG
*
41820513 ATTAAGTAAAAATGACTAAATCGTAAAAAGTGTG
1 ATTAAGTAAAAAGGACTAAATCGTAAAAAGTGTG
41820547 A
1 A
41820548 AAGTTGAGTT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
33 1 0.02
34 63 0.98
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.25
Consensus pattern (34 bp):
ATTAAGTAAAAAGGACTAAATCGTAAAAAGTGTG
Found at i:41820721 original size:32 final size:31
Alignment explanation
Indices: 41820658--41820726 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 31
41820648 TGGATAGGTT
*
41820658 TTAATGTAATTATGATAATTTTTAAAAGTTAA
1 TTAA-GTAATTATGATAATTGTTAAAAGTTAA
*
41820690 TTAAGTAATT-TGATAATTAAGTTAAATGTTAA
1 TTAAGTAATTATGATAATT--GTTAAAAGTTAA
41820722 TTAAG
1 TTAAG
41820727 AAAAAGATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 8 0.24
31 6 0.18
32 19 0.58
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (31 bp):
TTAAGTAATTATGATAATTGTTAAAAGTTAA
Found at i:41820722 original size:16 final size:16
Alignment explanation
Indices: 41820679--41820726 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
41820669 ATGATAATTT
*
41820679 TTAAAAGTTAATTAAG
1 TTAAATGTTAATTAAG
* *
41820695 -TAATTTGATAATTAAG
1 TTAA-ATGTTAATTAAG
41820711 TTAAATGTTAATTAAG
1 TTAAATGTTAATTAAG
41820727 AAAAAGATGA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
15 3 0.12
16 19 0.76
17 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (16 bp):
TTAAATGTTAATTAAG
Found at i:41821585 original size:39 final size:40
Alignment explanation
Indices: 41821522--41821629 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
41821512 GGTACCCCTA
* * * *
41821522 ATTGTACATACATGCCCCTGTTTGTACTTT-GCAACCCTG
1 ATTGCACATACGTGCCCCTATTTGTACTTTAGCAACCCAG
* * *
41821561 ATTGCACGTACGTGCCCCTATTTGTACTTTAGTACCCCAG
1 ATTGCACATACGTGCCCCTATTTGTACTTTAGCAACCCAG
* * *
41821601 ATTGCACATATGTACCCCTAATTGTACTT
1 ATTGCACATACGTGCCCCTATTTGTACTT
41821630 CGGTGCCCTG
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 26 0.46
40 31 0.54
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (40 bp):
ATTGCACATACGTGCCCCTATTTGTACTTTAGCAACCCAG
Found at i:41828652 original size:16 final size:16
Alignment explanation
Indices: 41828623--41828656 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
41828613 AGTACTAATT
* *
41828623 TAGTTTATTGTTAAAC
1 TAGTTGATTATTAAAC
41828639 TAGTTGATTATTAAAC
1 TAGTTGATTATTAAAC
41828655 TA
1 TA
41828657 TGAGCCAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (16 bp):
TAGTTGATTATTAAAC
Found at i:41832486 original size:24 final size:22
Alignment explanation
Indices: 41832459--41832512 Score: 54
Period size: 24 Copynumber: 2.4 Consensus size: 22
41832449 TAAGGATGTT
41832459 TAAAAATAAAATTTAAGAACTAA
1 TAAAAATAAAATTTAA-AACTAA
* **
41832482 CTAAACATAATGTTTAAAACTAA
1 -TAAAAATAAAATTTAAAACTAA
*
41832505 TAATAATA
1 TAAAAATA
41832513 CATATGTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 6 0.24
23 6 0.24
24 13 0.52
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (22 bp):
TAAAAATAAAATTTAAAACTAA
Found at i:41837343 original size:43 final size:43
Alignment explanation
Indices: 41837287--41837374 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
41837277 TACTTTATTG
41837287 ATCAAAGGAATAATTACAATACTTCATTAGAGTCTCTATTTAT
1 ATCAAAGGAATAATTACAATACTTCATTAGAGTCTCTATTTAT
41837330 ATCAAAGGAATAATTACAATACTTCATTAGAGTCTCTATTTAT
1 ATCAAAGGAATAATTACAATACTTCATTAGAGTCTCTATTTAT
41837373 AT
1 AT
41837375 GCATAAGAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.38
Consensus pattern (43 bp):
ATCAAAGGAATAATTACAATACTTCATTAGAGTCTCTATTTAT
Found at i:41839184 original size:3 final size:3
Alignment explanation
Indices: 41839178--41839226 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
41839168 TCATGATTTG
41839178 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
41839226 A
1 A
41839227 CTGCAGTATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:41841212 original size:41 final size:41
Alignment explanation
Indices: 41841153--41841235 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
41841143 AAAAAGTAGA
* **
41841153 TAGTAAATGTATCGCTTGGAAAAGCTTGCGGGATTTGATCT
1 TAGTAAATGTATCCCTTGGAAAAGCTTGCAAGATTTGATCT
41841194 TAGTAAATGTATCCCTTGGAAAAGCTTGCAAGATTTGATCT
1 TAGTAAATGTATCCCTTGGAAAAGCTTGCAAGATTTGATCT
41841235 T
1 T
41841236 GGCACATCTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (41 bp):
TAGTAAATGTATCCCTTGGAAAAGCTTGCAAGATTTGATCT
Found at i:41851881 original size:53 final size:55
Alignment explanation
Indices: 41851812--41852018 Score: 186
Period size: 53 Copynumber: 3.8 Consensus size: 55
41851802 TTCCTTTTTA
* *
41851812 AACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G-
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGT
* * * *
41851865 AACTCACCATTGCCATGTCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCGT
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGT
** * * * * * * **
41851920 AGTTTATCAATGCCATGTCTTGACATGGTCTCACATGATTTCCTTGCCTTGT-AA
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGT
* * * * * * *
41851974 AACTTACCAATGTCTTGCCTTGGCATGTTCTTACTTGGTATCCTT
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTT
41852019 AAACCTTAAT
Statistics
Matches: 120, Mismatches: 32, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 46 0.38
54 34 0.28
55 40 0.33
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.39
Consensus pattern (55 bp):
AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGT
Found at i:41851967 original size:55 final size:53
Alignment explanation
Indices: 41851824--41852018 Score: 174
Period size: 55 Copynumber: 3.6 Consensus size: 53
41851814 CTTACCATTT
* *
41851824 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
* * * ** * *
41851877 CCATGTCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G-AACTCACCAATG
* * * * * *
41851932 CCATGTCTTGACATGGTCTCACATGATTTCCTTGCCTTGTAAAACTTACCAATG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATG
* * * * * *
41851986 TCTTGCCTTGGCATGTTCTTACTTGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGTATCCTT
41852019 AAACCTTAAT
Statistics
Matches: 110, Mismatches: 30, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 36 0.33
54 34 0.31
55 40 0.36
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.39
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
Found at i:41855088 original size:44 final size:44
Alignment explanation
Indices: 41855040--41855672 Score: 442
Period size: 44 Copynumber: 13.9 Consensus size: 44
41855030 TCTTGAAGTC
* *
41855040 GAGCAGATTAAAGCTGTAAATCTTATCTCTCTGAAGTTGCAGTA
1 GAGCAGATTAAAGCTATAAATCTTATCTCTCTGAAGTTGCAGTG
* *
41855084 GAGCAGATTGAAGCTACAAATCTTATCT-TCCTGAAGTTGCAGTG
1 GAGCAGATTAAAGCTATAAATCTTATCTCT-CTGAAGTTGCAGTG
* *
41855128 GAGCAGATTAAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTG
1 GAGCAGATTAAAGCTATAAATCTTATCTCTCTGAAGTTGCAGTG
**
41855172 GAGCAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTT-CAAGTG
1 GAGCAGATTAAAGCTATAAATCTTATCTCTCTGAAGTTGC-AGTG
* * * * *
41855216 GAGCAGATTGAAGCTACAAATCTTATCTCCCTAAAGTTACAGTG
1 GAGCAGATTAAAGCTATAAATCTTATCTCTCTGAAGTTGCAGTG
*
41855260 GAGCAGATTAAAGCTGTAAATTACAAATCTTACCT-TCCTGAAGTTGCAGTG
1 GAGCAGATTAAAGC--T--A-T--AAATCTTATCTCT-CTGAAGTTGCAGTG
* * *
41855311 GAGTAGATTGAAA--TGATAAGTCCTATAC-CTCTGAAGTTGCAGTAG
1 GAGCAGATT-AAAGCT-ATAAATCTTAT-CTCTCTGAAGTTGCAGT-G
* *
41855356 G-TCAGATTAAATCTACCATAGCAAGTCTTATCTC-CTTGAAGTTGCAGTG
1 GAGCAGATTAAAGCT---ATA--AA-TCTTATCTCTC-TGAAGTTGCAGTG
* * * *
41855405 GAATAGACTAAAGCTACAAGCTACAAATCTTATCTC-CTTGAAATTGCAGTG
1 G---AG-C-AGA-TTA-AAGCTATAAATCTTATCTCTC-TGAAGTTGCAGTG
* * * ** * * *
41855456 GAGTAGATTGAAGATACGAGTCTCATCTCCCTGAAGTTGCAGTG
1 GAGCAGATTAAAGCTATAAATCTTATCTCTCTGAAGTTGCAGTG
* * * * * * *
41855500 GAACAGATTGAAGTTATAATTCTTATCTCCCTGAAGTTGTAGTT
1 GAGCAGATTAAAGCTATAAATCTTATCTCTCTGAAGTTGCAGTG
* ** * * * *
41855544 GAGCGGATTGGAGCTACAAATTTTATCTCCCTGAAGTTGTAGTG
1 GAGCAGATTAAAGCTATAAATCTTATCTCTCTGAAGTTGCAGTG
* * *
41855588 GAGCAGATTGAAA-TTACAAATCTTATCTCTTTGAAGTTGCAGTG
1 GAGCAGATT-AAAGCTATAAATCTTATCTCTCTGAAGTTGCAGTG
* * * *
41855632 GAGCAGATTAAAACTACAAGTCTAATCTC-CTTGAAGTTGCA
1 GAGCAGATTAAAGCTATAAATCTTATCTCTC-TGAAGTTGCA
41855673 ATGGGTTAGA
Statistics
Matches: 478, Mismatches: 74, Indels: 74
0.76 0.12 0.12
Matches are distributed among these distances:
43 8 0.02
44 356 0.74
45 9 0.02
46 4 0.01
47 4 0.01
48 4 0.01
49 5 0.01
50 18 0.04
51 54 0.11
52 5 0.01
54 3 0.01
55 2 0.00
56 2 0.00
57 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (44 bp):
GAGCAGATTAAAGCTATAAATCTTATCTCTCTGAAGTTGCAGTG
Found at i:41855132 original size:88 final size:88
Alignment explanation
Indices: 41855040--41855672 Score: 501
Period size: 88 Copynumber: 7.0 Consensus size: 88
41855030 TCTTGAAGTC
* * *
41855040 GAGCAGATTAAAGCTGTAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAAT
1 GAGCAGATTAAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAT
41855105 CTTATCTTCCTGAAGTTGCAGTG
66 CTTATCTTCCTGAAGTTGCAGTG
*
41855128 GAGCAGATTAAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGCAAAT
1 GAGCAGATTAAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAT
41855193 CTTATC-TCTCTGAAGTT-CAAGTG
66 CTTATCTTC-CTGAAGTTGC-AGTG
* ** * *
41855216 GAGCAGATTGAAGCTACAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGCTGTAAAT
1 GAGCAGATTAAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-------
*
41855281 TACAAATCTTACCTTCCTGAAGTTGCAGTG
59 TACAAATCTTATCTTCCTGAAGTTGCAGTG
* * * * * *
41855311 GAGTAGATTGAAA--TGATAAGTCCTATAC-CTCTGAAGTTGCAGTAGG-TCAGATTAAATCTAC
1 GAGCAGATT-AAAGCTG-TAAATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTAAAGCTA-
41855372 CATAGCAAGTCTTATC-TCCTTGAAGTTGCAGTG
61 C--A--AA-TCTTATCTTCC-TGAAGTTGCAGTG
** * * * * * *
41855405 GAATAGACTAAAGCTACAAGCTACAAATCTTATCTCCTTGAAATTGCAGTGGAGTAGATTGAAGA
1 GAGCAGATTAAAGCT----G-T--AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
* * * *
41855470 TACGAGTCTCATCTCCCTGAAGTTGCAGTG
59 TACAAATCTTATCTTCCTGAAGTTGCAGTG
* * * * * * * * **
41855500 GAACAGATTGAAGTTATAATTCTTATCTCCCTGAAGTTGTAGTTGAGCGGATTGGAGCTACAAAT
1 GAGCAGATTAAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAT
* * *
41855565 TTTATCTCCCTGAAGTTGTAGTG
66 CTTATCTTCCTGAAGTTGCAGTG
* ** ** * *
41855588 GAGCAGATTGAAA-TTACAAATCTTATCTCTTTGAAGTTGCAGTGGAGCAGATTAAAACTACAAG
1 GAGCAGATT-AAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
*
41855652 TCTAATC-TCCTTGAAGTTGCA
65 TCTTATCTTCC-TGAAGTTGCA
41855673 ATGGGTTAGA
Statistics
Matches: 434, Mismatches: 76, Indels: 70
0.75 0.13 0.12
Matches are distributed among these distances:
87 5 0.01
88 253 0.58
89 3 0.01
90 1 0.00
91 1 0.00
93 8 0.02
94 27 0.06
95 91 0.21
96 11 0.03
99 2 0.00
100 4 0.01
101 28 0.06
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (88 bp):
GAGCAGATTAAAGCTGTAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAT
CTTATCTTCCTGAAGTTGCAGTG
Found at i:41855176 original size:132 final size:134
Alignment explanation
Indices: 41855040--41855672 Score: 536
Period size: 132 Copynumber: 4.6 Consensus size: 134
41855030 TCTTGAAGTC
* *
41855040 GAGCAGATTAAAGCTGTAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACAAAT
1 GAGCAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
41855105 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTG-T-AAATCTTATCTCCCTGAAGTTGC
66 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGATAAAATCTTATCTCCCTGAAGTTGC
41855168 AGTG
131 AGTG
41855172 GAGCAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTT-CAAGTGGAGCAGATTGAAGCTACAAA
1 GAGCAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTTGC-AGTGGAGCAGATTGAAGCTACAAA
* * * * *
41855236 TCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGCTGTAAATTACAAATCTTACCTTCCTGA
65 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTG---A-TA-AAATCTTATCTCCCTGA
41855301 AGTTGCAGTG
125 AGTTGCAGTG
* * * * *
41855311 GAGTAGATTGAAA--TG-ATAAGTCCTATAC-CTCTGAAGTTGCAGTAGG-TCAGATTAAATCTA
1 GAGCAGATT-AAAGCTGCA-AA-TCTTAT-CTCTCTGAAGTTGCAGT-GGAGCAGATTGAAGCTA
** * *
41855371 CCATAGCAAGTCTTATC-TCCTTGAAGTTGCAGTGGAATAGACTAAAGCTACAAGCTACAAATCT
61 -C--A--AA-TCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTAAAGCT----GATA-AAATCT
* *
41855435 TATCTCCTTGAAATTGCAGTG
114 TATCTCCCTGAAGTTGCAGTG
* * * * * * * * * * * *
41855456 GAGTAGATTGAAGATACGAGTCTCATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATAATT
1 GAGCAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
* * * * ** * * *
41855521 CTTATCTCCCTGAAGTTGTAGTTGAGCGGATTGGAGCT-A-CAAATTTTATCTCCCTGAAGTTGT
66 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGATAAAATCTTATCTCCCTGAAGTTGC
41855584 AGTG
131 AGTG
* * * * * *
41855588 GAGCAGATTGAAA-TTACAAATCTTATCTCTTTGAAGTTGCAGTGGAGCAGATTAAAACTACAAG
1 GAGCAGATT-AAAGCTGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAA
*
41855652 TCTAATC-TCCTTGAAGTTGCA
65 TCTTATCTTCC-TGAAGTTGCA
41855673 ATGGGTTAGA
Statistics
Matches: 400, Mismatches: 68, Indels: 66
0.75 0.13 0.12
Matches are distributed among these distances:
131 3 0.01
132 182 0.46
133 2 0.00
137 2 0.00
138 4 0.01
139 89 0.22
140 11 0.03
142 2 0.00
144 9 0.02
145 93 0.23
146 2 0.00
149 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (134 bp):
GAGCAGATTAAAGCTGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT
CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGATAAAATCTTATCTCCCTGAAGTTGC
AGTG
Found at i:41855403 original size:50 final size:49
Alignment explanation
Indices: 41855342--41855462 Score: 129
Period size: 51 Copynumber: 2.4 Consensus size: 49
41855332 CCTATACCTC
* * * *
41855342 TGAAGTTGCAGTAGG-TCAGATTAAATCTACCA-TAGCAAGTCTTATCTCCT
1 TGAAGTTGCAGT-GGAT-AGACTAAAGCTACAACTA-CAAATCTTATCTCCT
41855392 TGAAGTTGCAGTGGAATAGACTAAAGCTACAAGCTACAAATCTTATCTCCT
1 TGAAGTTGCAGTGG-ATAGACTAAAGCTACAA-CTACAAATCTTATCTCCT
*
41855443 TGAAATTGCAGTGGAGTAGA
1 TGAAGTTGCAGTGGA-TAGA
41855463 TTGAAGATAC
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
49 2 0.03
50 25 0.41
51 32 0.52
52 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (49 bp):
TGAAGTTGCAGTGGATAGACTAAAGCTACAACTACAAATCTTATCTCCT
Found at i:41857513 original size:14 final size:14
Alignment explanation
Indices: 41857494--41857522 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
41857484 GATGGCTTCC
41857494 ATGTTTCTTGTGGG
1 ATGTTTCTTGTGGG
41857508 ATGTTTCTTGTGGG
1 ATGTTTCTTGTGGG
41857522 A
1 A
41857523 CTAGTCATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.07, G:0.34, T:0.48
Consensus pattern (14 bp):
ATGTTTCTTGTGGG
Found at i:41875557 original size:63 final size:61
Alignment explanation
Indices: 41875385--41875558 Score: 172
Period size: 63 Copynumber: 2.8 Consensus size: 61
41875375 CTATTTTCAA
* * * *
41875385 ATTTGAGG-CACACGGGCTAAGGACACAGGCGTGTGTCCAGGCCGAGTAAGTCATTGTTTGT
1 ATTT-AGGTCACACGGGCTAAGGACACGGGCGTGTGTCCAGGCCGTGTAACTCATTGTTTGG
* * * * * *
41875446 ATTGTTGGTCACACGAGCTACA-GACACGGGTGTGTGCCCAAGCTGTGTAACTCATTGTTTTGG
1 ATT-TAGGTCACACGGGCTA-AGGACACGGGCGTGTGTCCAGGCCGTGTAACTCATTG-TTTGG
* * *
41875509 ATTTAAGGTCACACGGGCCAGGGACACGGGCGTGTGTCCTGGCCGTGTAA
1 ATTT-AGGTCACACGGGCTAAGGACACGGGCGTGTGTCCAGGCCGTGTAA
41875559 GGGGTTATAA
Statistics
Matches: 88, Mismatches: 19, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
61 5 0.06
62 40 0.45
63 43 0.49
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.25
Consensus pattern (61 bp):
ATTTAGGTCACACGGGCTAAGGACACGGGCGTGTGTCCAGGCCGTGTAACTCATTGTTTGG
Found at i:41878392 original size:40 final size:40
Alignment explanation
Indices: 41878361--41878572 Score: 243
Period size: 40 Copynumber: 5.3 Consensus size: 40
41878351 GGACTAAGAT
41878361 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
41878401 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
* *
41878441 CCGAAGGCCTTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
* * ** * *
41878481 CCGAAGGCATTCGTGCGAGTTGTTAAA-TCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCC
* * * * * *
41878521 CCGAAGGCA-TTGTGTGAGTTACTAAA-ACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
41878560 CCGAAGGCATTTG
1 CCGAAGGCATTTG
41878573 AACGAGGAGC
Statistics
Matches: 154, Mismatches: 14, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
39 32 0.21
40 119 0.77
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
Found at i:41878445 original size:80 final size:80
Alignment explanation
Indices: 41878308--41878572 Score: 272
Period size: 80 Copynumber: 3.3 Consensus size: 80
41878298 TTGAATGCTG
* * ** **
41878308 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGA-ATATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TGACA-A-ATCCGGGTTAAGCCCCGAAGGCA
41878370 TTTGTGCGAGATAC-AAA
63 TTTGTGCGAGATACTAAA
* *
41878387 TTCCGGGTTAAGCCCCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCT
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGGCAT
41878451 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
* * ** * *
41878468 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCA-TT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTT
* *
41878532 GTGTGAGTTACTAAA
66 GTGCGAGATACTAAA
* * *
41878547 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
41878573 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
79 38 0.24
80 102 0.65
81 16 0.10
82 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:41878590 original size:79 final size:80
Alignment explanation
Indices: 41878361--41878605 Score: 205
Period size: 80 Copynumber: 3.1 Consensus size: 80
41878351 GGACTAAGAT
* * * * ** *
41878361 CCGAAGG-CATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGA-GATA
1 CCGAAGGCCA-TTGTGCGAGATACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-G
*
41878423 C-AAATTCCGGGTTAAGCC
63 CTAAA-TCCGGGTTAAGTC
* * * ** ** *
41878441 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
41878506 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * * *
41878521 CCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
41878585 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
41878599 CCGAAGG
1 CCGAAGG
41878606 TACGTGATTT
Statistics
Matches: 137, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
78 14 0.10
79 49 0.36
80 67 0.49
81 7 0.05
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:41880019 original size:19 final size:18
Alignment explanation
Indices: 41879987--41880022 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
41879977 AAATTATTTT
*
41879987 CAAAATTTGTTATTAAAA
1 CAAAATTTGATATTAAAA
41880005 CAAAATTTGAATATTAAA
1 CAAAATTTG-ATATTAAA
41880023 TAATCAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.36
Consensus pattern (18 bp):
CAAAATTTGATATTAAAA
Found at i:41885643 original size:132 final size:132
Alignment explanation
Indices: 41885406--41885670 Score: 467
Period size: 132 Copynumber: 2.0 Consensus size: 132
41885396 TTGACTAATT
* *
41885406 TTGTACTATCAAATATTGGAATAATATTTGATTGATTTCGTACCAAATAAGATAAATGCTTTCTA
1 TTGTACTATCAAATATTGGAATAATATTTGATTGATTTCATACCAAATAAGATAAATACTTTCTA
* *
41885471 TCTATATTGATAGAATTTATTACTACATTCTCATATCCTTCCTCAAAGAATATTAACAGAAACAA
66 TCTATAATGATAGAATTTATTACTACATTCTCATATCCTTCCTCAAAAAATATTAACAGAAACAA
41885536 AA
131 AA
* *
41885538 TTGTACTATCAAATATTGGAATAATTTTTGTTTGATTTCATACCAAATAAGATAAATACTTTCTA
1 TTGTACTATCAAATATTGGAATAATATTTGATTGATTTCATACCAAATAAGATAAATACTTTCTA
*
41885603 TCTATAATGATAGAATTTATTACTACATTCTCATATCCTTCCTCAAAAAATATTAACAGAAATAA
66 TCTATAATGATAGAATTTATTACTACATTCTCATATCCTTCCTCAAAAAATATTAACAGAAACAA
41885668 AA
131 AA
41885670 T
1 T
41885671 ATTTGGGCAT
Statistics
Matches: 126, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 126 1.00
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (132 bp):
TTGTACTATCAAATATTGGAATAATATTTGATTGATTTCATACCAAATAAGATAAATACTTTCTA
TCTATAATGATAGAATTTATTACTACATTCTCATATCCTTCCTCAAAAAATATTAACAGAAACAA
AA
Found at i:41899205 original size:41 final size:41
Alignment explanation
Indices: 41899109--41899298 Score: 188
Period size: 41 Copynumber: 4.7 Consensus size: 41
41899099 AATACTCAAT
* *
41899109 ATCTCACACACTAAGTGCCATACATAGCTGAAGCTATCTC-
1 ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTCG
** * * * * *
41899149 AAATCGCACACTAAGTGTCATGTATAACCGAAGCTATCACG
1 ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTCG
* * *
41899190 ATCTCACACACTAAGTTCCATATATAGCTGAAACTATCTCG
1 ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTCG
** *
41899231 ATCTTGCACACTAAGTGCCATATATAGCCGAAGCTATGTCG
1 ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTCG
* * *
41899272 AAT-T-GCACACTTAGTGCCACATATAGC
1 -ATCTCACACACTAAGTGCCATATATAGC
41899299 TGATTTGTCG
Statistics
Matches: 121, Mismatches: 27, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
40 52 0.43
41 67 0.55
42 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (41 bp):
ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTCG
Found at i:41899281 original size:81 final size:81
Alignment explanation
Indices: 41899109--41899301 Score: 230
Period size: 81 Copynumber: 2.4 Consensus size: 81
41899099 AATACTCAAT
* * * *
41899109 ATCTCACACACTAAGTGCCATACATAGCTGAAGCTATCTCAAATCGCACACTAAGTGTCATGTAT
1 ATCTCACACACTAAGTGCCATATATAGCTGAAACTATCTCAAATCGCACACTAAGTGCCATATAT
41899174 AACCGAAGCTATCACG
66 AACCGAAGCTATCACG
* *
41899190 ATCTCACACACTAAGTTCCATATATAGCTGAAACTATCTC-GATCTTGCACACTAAGTGCCATAT
1 ATCTCACACACTAAGTGCCATATATAGCTGAAACTATCTCAAATC--GCACACTAAGTGCCATAT
* **
41899254 ATAGCCGAAGCTATGTCG
64 ATAACCGAAGCTATCACG
* * *
41899272 AAT-T-GCACACTTAGTGCCACATATAGCTGA
1 -ATCTCACACACTAAGTGCCATATATAGCTGA
41899302 TTTGTCGTCG
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
80 3 0.03
81 59 0.61
82 32 0.33
83 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (81 bp):
ATCTCACACACTAAGTGCCATATATAGCTGAAACTATCTCAAATCGCACACTAAGTGCCATATAT
AACCGAAGCTATCACG
Found at i:41900115 original size:13 final size:14
Alignment explanation
Indices: 41900093--41900121 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
41900083 ATTTATTAAT
41900093 TTACTAAATTAACC
1 TTACTAAATTAACC
41900107 TTACT-AATTAACC
1 TTACTAAATTAACC
41900120 TT
1 TT
41900122 TAAAACAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (14 bp):
TTACTAAATTAACC
Found at i:41905622 original size:13 final size:13
Alignment explanation
Indices: 41905606--41905632 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
41905596 AAGCCAATTT
41905606 ACACGGCTGAGAC
1 ACACGGCTGAGAC
41905619 ACACGGCTGAGAC
1 ACACGGCTGAGAC
41905632 A
1 A
41905633 TGCTCGATTT
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:0.33, C:0.30, G:0.30, T:0.07
Consensus pattern (13 bp):
ACACGGCTGAGAC
Found at i:41906413 original size:41 final size:41
Alignment explanation
Indices: 41906326--41906508 Score: 212
Period size: 41 Copynumber: 4.5 Consensus size: 41
41906316 AATACCTTAT
* * *
41906326 ACACTAAGTGCCATACATAGACAAAGCTATCTCAAAT-T-GC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTC-AATCTCGC
* * * * **
41906366 ACACTAACTGTCATGTATAGCAGAAGCTATCTTGATCTCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCAATCTCGC
41906407 ACACTAAGTGCCATATATAGCCGAAGCTATCTCAATCTCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCAATCTCGC
*
41906448 ACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA--TCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTC-AATCTCGC
* *
41906488 ACATTAAGTGCCACATATAGC
1 ACACTAAGTGCCATATATAGC
41906509 TGATTTTTCA
Statistics
Matches: 122, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 2 0.02
40 49 0.40
41 69 0.57
42 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.25
Consensus pattern (41 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATCTCAATCTCGC
Found at i:41906488 original size:81 final size:81
Alignment explanation
Indices: 41906326--41906508 Score: 226
Period size: 81 Copynumber: 2.3 Consensus size: 81
41906316 AATACCTTAT
* * * *
41906326 ACACTAAGTGCCATACATAGACAAAGCTATCTCAAATTGCACACTAACTGTCATGTATAGCAGAA
1 ACACTAAGTGCCATATATAGCCAAAGCTATCTCAAATTGCACACTAACTGCCATATATAGCAGAA
* *
41906391 GCTATCTTGATCTCGC
66 GCTATCTCGATATCGC
* * *
41906407 ACACTAAGTGCCATATATAGCCGAAGCTATCTC-AATCTCGCACACTAAGTGCCATATATAGCCG
1 ACACTAAGTGCCATATATAGCCAAAGCTATCTCAAAT-T-GCACACTAACTGCCATATATAGCAG
*
41906471 AAGCTATGTCGA-ATCGC
64 AAGCTATCTCGATATCGC
* *
41906488 ACATTAAGTGCCACATATAGC
1 ACACTAAGTGCCATATATAGC
41906509 TGATTTTTCA
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
80 3 0.03
81 54 0.61
82 31 0.35
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.25
Consensus pattern (81 bp):
ACACTAAGTGCCATATATAGCCAAAGCTATCTCAAATTGCACACTAACTGCCATATATAGCAGAA
GCTATCTCGATATCGC
Found at i:41907332 original size:13 final size:14
Alignment explanation
Indices: 41907308--41907336 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
41907298 ATTTACTAAT
41907308 TTACTAAATTAACC
1 TTACTAAATTAACC
41907322 TTACT-AATTAACC
1 TTACTAAATTAACC
41907335 TT
1 TT
41907337 TAAAACAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (14 bp):
TTACTAAATTAACC
Found at i:41907467 original size:34 final size:34
Alignment explanation
Indices: 41907424--41907488 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
41907414 TAAGGTTTTA
41907424 TAGCTATTAGAACTCAAGTTTTACGCTTTACCTT
1 TAGCTATTAGAACTCAAGTTTTACGCTTTACCTT
*
41907458 TAGCTATTAGAACTCAAGTTTTATGCTTTAC
1 TAGCTATTAGAACTCAAGTTTTACGCTTTAC
41907489 GCGATTTAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (34 bp):
TAGCTATTAGAACTCAAGTTTTACGCTTTACCTT
Found at i:41907951 original size:18 final size:18
Alignment explanation
Indices: 41907930--41907974 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 18
41907920 ACTCCCCACT
41907930 ATCCCACTAACCAATCTA
1 ATCCCACTAACCAATCTA
41907948 ATCCCAC-AA--AATCTA
1 ATCCCACTAACCAATCTA
*
41907963 A-CTCACTAACCA
1 ATCCCACTAACCA
41907975 CTTCCAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
14 4 0.17
15 9 0.39
17 3 0.13
18 7 0.30
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.20
Consensus pattern (18 bp):
ATCCCACTAACCAATCTA
Found at i:41911966 original size:17 final size:17
Alignment explanation
Indices: 41911946--41911978 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
41911936 ACAATAATTA
41911946 TAAAA-TACATAAATATT
1 TAAAAGTACA-AAATATT
41911963 TAAAAGTACAAAATAT
1 TAAAAGTACAAAATAT
41911979 AAAACTTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (17 bp):
TAAAAGTACAAAATATT
Found at i:41912474 original size:10 final size:10
Alignment explanation
Indices: 41912461--41912491 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
41912451 TAAAAACTCT
41912461 AAAAAAATAA
1 AAAAAAATAA
41912471 AAAAAAATAA
1 AAAAAAATAA
*
41912481 AAAAAATTAA
1 AAAAAAATAA
41912491 A
1 A
41912492 TATACCAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:41912677 original size:44 final size:44
Alignment explanation
Indices: 41912612--41912695 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
41912602 TCATAAATGT
*
41912612 TAGTTTGTGTGTTAAATTGATCTACGTTAATTTT-TTAAAGCCAC
1 TAGTTTGTGTGTTAAACTGATCTACGTT-ATTTTCTTAAAGCCAC
*
41912656 TAGTTTGTGTTTTAAACTGATCTACGTTATTTTCTTAAAG
1 TAGTTTGTGTGTTAAACTGATCTACGTTATTTTCTTAAAG
41912696 TCACAACCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 5 0.14
44 32 0.86
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (44 bp):
TAGTTTGTGTGTTAAACTGATCTACGTTATTTTCTTAAAGCCAC
Found at i:41917842 original size:47 final size:47
Alignment explanation
Indices: 41917784--41918178 Score: 637
Period size: 47 Copynumber: 8.4 Consensus size: 47
41917774 CAGCCAAGAC
41917784 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
41917831 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * *
41917878 AGTGTATATGTGTGATAAGTCCTAATAGCCGATGTGATGAATGTGAG
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
41917925 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
41917972 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
41918019 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
41918066 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * *
41918113 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
41918160 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
41918179 TCCCGAAGGG
Statistics
Matches: 326, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 326 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:41918353 original size:37 final size:37
Alignment explanation
Indices: 41918297--41918375 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
41918287 CCGAGCTCTA
* *
41918297 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
41918334 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
41918371 AAGAC
1 AAGAC
41918376 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:41920823 original size:41 final size:41
Alignment explanation
Indices: 41920733--41920982 Score: 270
Period size: 41 Copynumber: 6.1 Consensus size: 41
41920723 ATATAACTTA
* * * * *
41920733 CCTGATACAATACATTGGCACGAAGACTGCTAGGCTCAACG
1 CCTGATATAATACATCGGCACGAAGCCTGCTAGGCACAAAG
* * **
41920774 CTTGATATAACACATCGGCATAAAGCCTGCTAGGCACAAAG
1 CCTGATATAATACATCGGCACGAAGCCTGCTAGGCACAAAG
* * * *
41920815 CCTAATATAGTACACTAGG-ACGAAGCCTTCTAGGCACAAAG
1 CCTGATATAATACA-TCGGCACGAAGCCTGCTAGGCACAAAG
* * *
41920856 CCTGACATAATACATTGACACGAAGCCTGCTAGGCACAAAG
1 CCTGATATAATACATCGGCACGAAGCCTGCTAGGCACAAAG
* * * *
41920897 CTTGATATAATACACCGGTACGAAGCCTGCTAGGCACCAAG
1 CCTGATATAATACATCGGCACGAAGCCTGCTAGGCACAAAG
* *
41920938 CCTGATATAATACA-CTGACACGAAGCCTACTAGGCACAAAG
1 CCTGATATAATACATC-GGCACGAAGCCTGCTAGGCACAAAG
41920979 CCTG
1 CCTG
41920983 CTAGGCACAA
Statistics
Matches: 171, Mismatches: 35, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
40 3 0.02
41 165 0.96
42 3 0.02
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (41 bp):
CCTGATATAATACATCGGCACGAAGCCTGCTAGGCACAAAG
Found at i:41920952 original size:123 final size:123
Alignment explanation
Indices: 41920741--41920982 Score: 342
Period size: 123 Copynumber: 2.0 Consensus size: 123
41920731 TACCTGATAC
* * * * *
41920741 AATACATTGGCACGAAGACTGCTAGGCTCAACGCTTGATATAACACATCGGCATAAAGCCTGCTA
1 AATACATTGACACGAAGACTGCTAGGCACAAAGCTTGATATAACACACCGGCACAAAGCCTGCTA
* * *
41920806 GGCACAAAGCCTAATATAGTACACT-AGGACGAAGCCTTCTAGGCACAAAGCCTGACAT
66 GGCACAAAGCCTAATATAATACACTGA-CACGAAGCCTACTAGGCACAAAGCCTGACAT
* * * *
41920864 AATACATTGACACGAAGCCTGCTAGGCACAAAGCTTGATATAATACACCGGTACGAAGCCTGCTA
1 AATACATTGACACGAAGACTGCTAGGCACAAAGCTTGATATAACACACCGGCACAAAGCCTGCTA
* *
41920929 GGCACCAAGCCTGATATAATACACTGACACGAAGCCTACTAGGCACAAAGCCTG
66 GGCACAAAGCCTAATATAATACACTGACACGAAGCCTACTAGGCACAAAGCCTG
41920983 CTAGGCACAA
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
123 103 0.99
124 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (123 bp):
AATACATTGACACGAAGACTGCTAGGCACAAAGCTTGATATAACACACCGGCACAAAGCCTGCTA
GGCACAAAGCCTAATATAATACACTGACACGAAGCCTACTAGGCACAAAGCCTGACAT
Found at i:41920986 original size:57 final size:55
Alignment explanation
Indices: 41920919--41921035 Score: 162
Period size: 55 Copynumber: 2.1 Consensus size: 55
41920909 CACCGGTACG
* * *
41920919 AAGCCTGCTAGGCACCAAGCCTGATATAATACACTGACACGAAGCCTACTAGGCACA
1 AAGCCTGCTAGGCACAAAGCCTGATAT-AT-CACCGACACAAAGCCTACTAGGCACA
* * *
41920976 AAGCCTGCTAGGCACAAAGCCTGATATATCACCGGCACAAAGCTTGCTAGGCACA
1 AAGCCTGCTAGGCACAAAGCCTGATATATCACCGACACAAAGCCTACTAGGCACA
41921031 AAGCC
1 AAGCC
41921036 CAAATATCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 26 0.48
56 2 0.04
57 26 0.48
ACGTcount: A:0.34, C:0.30, G:0.21, T:0.15
Consensus pattern (55 bp):
AAGCCTGCTAGGCACAAAGCCTGATATATCACCGACACAAAGCCTACTAGGCACA
Found at i:41920998 original size:16 final size:16
Alignment explanation
Indices: 41920960--41920998 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
41920950 CACTGACACG
*
41920960 AAGCCTACTAGGCACA
1 AAGCCTGCTAGGCACA
41920976 AAGCCTGCTAGGCACA
1 AAGCCTGCTAGGCACA
41920992 AAGCCTG
1 AAGCCTG
41920999 ATATATCACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.33, C:0.31, G:0.23, T:0.13
Consensus pattern (16 bp):
AAGCCTGCTAGGCACA
Found at i:41921015 original size:39 final size:38
Alignment explanation
Indices: 41920970--41921121 Score: 160
Period size: 38 Copynumber: 4.0 Consensus size: 38
41920960 AAGCCTACTA
* *
41920970 GGCACAAAGCCTGCTAGGCACAAAGCCTGATATATCACC
1 GGCACAAAGCCTGCTAGGCACAAAGCC-CAAATATCACC
* *
41921009 GGCACAAAGCTTGCTAGGCACAAAGCCCAAATATCATC
1 GGCACAAAGCCTGCTAGGCACAAAGCCCAAATATCACC
* * * ** *
41921047 TGTACAAAGCCTGTTAGGCACGGAGCCCAAATATCAGC
1 GGCACAAAGCCTGCTAGGCACAAAGCCCAAATATCACC
* * * * *
41921085 AGCACAAAGCCTGCTAGGTACGAAGCTCGAATATCAC
1 GGCACAAAGCCTGCTAGGCACAAAGCCCAAATATCAC
41921122 TACGTTTTTA
Statistics
Matches: 94, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
38 68 0.72
39 26 0.28
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.16
Consensus pattern (38 bp):
GGCACAAAGCCTGCTAGGCACAAAGCCCAAATATCACC
Found at i:41921100 original size:76 final size:77
Alignment explanation
Indices: 41920973--41921120 Score: 181
Period size: 76 Copynumber: 1.9 Consensus size: 77
41920963 CCTACTAGGC
* * * *
41920973 ACAAAGCCTGCTAGGCACAAAGCCTGATATATCACCGGCACAAAGCTTGCTAGGCACAAAGCCCA
1 ACAAAGCCTGCTAGGCACAAAGCCTCAAATATCACCAGCACAAAGCCTGCTAGGCACAAAGCCCA
41921038 AATATCATCTGT
66 AATATCATCTGT
* ** * * * * *
41921050 ACAAAGCCTGTTAGGCACGGAGCC-CAAATATCAGCAGCACAAAGCCTGCTAGGTACGAAGCTCG
1 ACAAAGCCTGCTAGGCACAAAGCCTCAAATATCACCAGCACAAAGCCTGCTAGGCACAAAGCCCA
41921114 AATATCA
66 AATATCA
41921121 CTACGTTTTT
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
76 38 0.64
77 21 0.36
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.17
Consensus pattern (77 bp):
ACAAAGCCTGCTAGGCACAAAGCCTCAAATATCACCAGCACAAAGCCTGCTAGGCACAAAGCCCA
AATATCATCTGT
Found at i:41923412 original size:96 final size:96
Alignment explanation
Indices: 41923234--41923443 Score: 242
Period size: 96 Copynumber: 2.2 Consensus size: 96
41923224 ACCTTTAAAC
** * * *
41923234 CACGTTGTGGATGAACCACTAATTGTTGTAGATGAACTGCTAACGATAAGATTATTGGTGGATGA
1 CACGTTGTGGATGAACCACTAATCATTGTAGATGAACTACTAACGATAAAAATATTGGTGGATGA
* *
41923299 ACCATCCATTGGAGAAGATGAAAGCTACTAG
66 ACCATCCATCGGAGAAGATCAAAGCTACTAG
* * * *
41923330 TACGTTGTGGATGAACCACTGATCATTGTAGATGAAGTACTAACTATAAAAATATTGGTAGG-TG
1 CACGTTGTGGATGAACCACTAATCATTGTAGATGAACTACTAACGATAAAAATATTGGT-GGATG
* * * * *
41923394 AACTATCTATCGGTGAAGATCAAAGTTGCTAG
65 AACCATCCATCGGAGAAGATCAAAGCTACTAG
* *
41923426 CACATTGTGGATTAACCA
1 CACGTTGTGGATGAACCA
41923444 ATAGTCATAC
Statistics
Matches: 94, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
96 92 0.98
97 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (96 bp):
CACGTTGTGGATGAACCACTAATCATTGTAGATGAACTACTAACGATAAAAATATTGGTGGATGA
ACCATCCATCGGAGAAGATCAAAGCTACTAG
Found at i:41925049 original size:68 final size:66
Alignment explanation
Indices: 41924926--41925077 Score: 205
Period size: 68 Copynumber: 2.3 Consensus size: 66
41924916 ATGCAATATG
* * * *
41924926 AAATGCTTATAACAGATCAATATGGTAGTAATAACATACTTATAACAAGTCGATACAGTAGCAAT
1 AAATGCTTATAATAGATCAATACGATAGCAATAACATACTTATAACAAGTCGATACAGTAGCAAT
41924991 T
66 T
* * * *
41924992 ATAATGCTTAAAATAGATCAATACGATAGCAATAAACATGCTTGTTACAAGTCGATACAGTAGCA
1 A-AATGCTTATAATAGATCAATACGATAGCAAT-AACATACTTATAACAAGTCGATACAGTAGCA
41925057 ATT
64 ATT
41925060 AACATGCTTATAATAGAT
1 AA-ATGCTTATAATAGAT
41925078 AATTACAGTA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
66 1 0.01
67 27 0.36
68 46 0.62
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (66 bp):
AAATGCTTATAATAGATCAATACGATAGCAATAACATACTTATAACAAGTCGATACAGTAGCAAT
T
Found at i:41925085 original size:34 final size:34
Alignment explanation
Indices: 41924928--41925094 Score: 125
Period size: 34 Copynumber: 5.0 Consensus size: 34
41924918 GCAATATGAA
* ** *
41924928 ATGCTTATAACAGATCAATATGGTAGTAA-TAAC
1 ATGCTTATAATAGATCAATACAGTAGCAATTAAC
* * *
41924961 ATACTTATAACA-AGTCGATACAGTAGCAATTATA-
1 ATGCTTATAATAGA-TCAATACAGTAGCAATTA-AC
* *
41924995 ATGCTTAAAATAGATCAATAC-GATAGCAATAAAC
1 ATGCTTATAATAGATCAATACAG-TAGCAATTAAC
* *
41925029 ATGCTTGTTACA-AG-TCGATACAGTAGCAATTAAC
1 ATGCTT-ATA-ATAGATCAATACAGTAGCAATTAAC
41925063 ATGCTTATAATAGAT-AATTACAGTAGC-ATTAA
1 ATGCTTATAATAGATCAA-TACAGTAGCAATTAA
41925095 ACTAGTTTAA
Statistics
Matches: 106, Mismatches: 16, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
32 2 0.02
33 34 0.32
34 63 0.59
35 6 0.06
36 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (34 bp):
ATGCTTATAATAGATCAATACAGTAGCAATTAAC
Found at i:41925262 original size:20 final size:19
Alignment explanation
Indices: 41925233--41925282 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
41925223 ATATCATGCA
*
41925233 CATATAATATTTC-AATCAAT
1 CATATCATATTTCTAA-C-AT
41925253 CATATCATATATTCTAACAT
1 CATATCATAT-TTCTAACAT
41925273 CAT-TCATATT
1 CATATCATATT
41925283 ACTAGGGACT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 1 0.04
19 6 0.22
20 14 0.52
21 4 0.15
22 2 0.07
ACGTcount: A:0.40, C:0.18, G:0.00, T:0.42
Consensus pattern (19 bp):
CATATCATATTTCTAACAT
Found at i:41927209 original size:54 final size:54
Alignment explanation
Indices: 41927122--41927225 Score: 190
Period size: 54 Copynumber: 1.9 Consensus size: 54
41927112 CTTAATTTTT
* *
41927122 TCATTGTTTTAGGGGAGTTTTCTTAACCATAAAAAACTGAGGTCAAATGATCGA
1 TCATAGTTTTAGGGGAGTTTTCTTAACCATAAAAAACGGAGGTCAAATGATCGA
41927176 TCATAGTTTTAGGGGAGTTTTCTTAACCATAAAAAACGGAGGTCAAATGA
1 TCATAGTTTTAGGGGAGTTTTCTTAACCATAAAAAACGGAGGTCAAATGA
41927226 GTTAAATGGG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (54 bp):
TCATAGTTTTAGGGGAGTTTTCTTAACCATAAAAAACGGAGGTCAAATGATCGA
Found at i:41929945 original size:42 final size:42
Alignment explanation
Indices: 41929886--41929968 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
41929876 TGGGTACATG
41929886 GTAAGTGTTATTTTCTATATCATTAGTTAATATATATTTTTA
1 GTAAGTGTTATTTTCTATATCATTAGTTAATATATATTTTTA
41929928 GTAAGTGTTATTTTCTATATCATTAGTTAATATATATTTTT
1 GTAAGTGTTATTTTCTATATCATTAGTTAATATATATTTTT
41929969 TCAATCAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (42 bp):
GTAAGTGTTATTTTCTATATCATTAGTTAATATATATTTTTA
Found at i:41933121 original size:13 final size:13
Alignment explanation
Indices: 41933103--41933129 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
41933093 CACAAACGAT
41933103 AAAATTTTCACAC
1 AAAATTTTCACAC
41933116 AAAATTTTCACAC
1 AAAATTTTCACAC
41933129 A
1 A
41933130 TATCAATTCA
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:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:41936801 original size:42 final size:44
Alignment explanation
Indices: 41936723--41936825 Score: 113
Period size: 42 Copynumber: 2.4 Consensus size: 44
41936713 ATCGATTTGA
* ***
41936723 GATTTATGTGTAAGACCATGTTTGAGACATCGGCATCG-TATTT
1 GATTTATGTGTAAGACCATGTCTGAGACAGAAGCATCGATATTT
* *
41936766 GATTT-TGTGTAAGACCCTGTCTGGGACAGAAGCATCGATATTT
1 GATTTATGTGTAAGACCATGTCTGAGACAGAAGCATCGATATTT
**
41936809 GA-TTACATGTAAGACCA
1 GATTTATGTGTAAGACCA
41936826 CATTTGGGAC
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 28 0.57
43 21 0.43
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (44 bp):
GATTTATGTGTAAGACCATGTCTGAGACAGAAGCATCGATATTT
Found at i:41939040 original size:93 final size:93
Alignment explanation
Indices: 41938877--41939047 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
41938867 GCCCCTAAGT
*
41938877 GAACTCGGACTCAACTCAACGAGCTCTGGCGTTAGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCTGGCATTAGCATCCATAAGTGAACTCGGACTCAACTCAA
*
41938942 TGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
41938970 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCTGG-CATTAGCATCCATAAGTGAACTCGGACTCAACTCA
41939034 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
41939048 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCTGGCATTAGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:41939042 original size:46 final size:45
Alignment explanation
Indices: 41938872--41939044 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
41938862 AACCCGCCCC
* *
41938872 TAAGTGAACTCGGACTCAACTCAACGAGCTCTGG-CGTTAGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATT-GCATCCA
* * *
41938918 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTGCATCCA
* *
41938966 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCA
41939011 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
41939045 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 12, Indels: 20
0.77 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 58 0.55
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCA
Found at i:41941458 original size:15 final size:15
Alignment explanation
Indices: 41941432--41941487 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
41941422 CAAGGAAACC
41941432 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
41941447 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
*
41941462 GAATAAAGGAATCCA
1 GAATAAAGAAATCCA
41941477 GAATAAAGAAA
1 GAATAAAGAAA
41941488 CCCAAGATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
14 1 0.03
15 33 0.94
16 1 0.03
ACGTcount: A:0.59, C:0.11, G:0.18, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:41944522 original size:46 final size:46
Alignment explanation
Indices: 41944455--41944626 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
41944445 AACTCGCCCC
*
41944455 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTAGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTAGCATCCA
*
41944501 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTAGCATCCA
* * * * *
41944549 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTAGCATCCA
41944594 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
41944627 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 60 0.56
47 28 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTAGCATCCA
Found at i:41944567 original size:93 final size:93
Alignment explanation
Indices: 41944460--41944630 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
41944450 GCCCCTAAGT
* *
41944460 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTAGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTAGCATCCATAAGTGAACTCGGACTCAACTCAA
41944525 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
41944553 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTAGCATCCATAAGTGAACTCGGACTCAACTCAA
41944618 CGAGTTCGGATGC
66 CGAGTTCGGATGC
41944631 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTAGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:41945960 original size:23 final size:22
Alignment explanation
Indices: 41945929--41945971 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
41945919 TTATGAATAA
* *
41945929 TATGTTTTGGTATGACTTTGGCT
1 TATGATTTGATATGA-TTTGGCT
41945952 TATGATTTGATATGATTTGG
1 TATGATTTGATATGATTTGG
41945972 TATGGATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.19, C:0.05, G:0.26, T:0.51
Consensus pattern (22 bp):
TATGATTTGATATGATTTGGCT
Found at i:41950589 original size:45 final size:45
Alignment explanation
Indices: 41950521--41950674 Score: 254
Period size: 45 Copynumber: 3.4 Consensus size: 45
41950511 AGGATTTCGT
*
41950521 TATGTGTTTTCGTGTAAGGCCACGTCTGGGACGTTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATA
* * *
41950566 TATGTGTTTTTGTGTAAGACCACGTTTGGAACGTTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATA
41950611 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATA
* *
41950656 TATGTGGTTACGTGTAAGA
1 TATGTGTTTTCGTGTAAGA
41950675 GGATGTTTGG
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 100 1.00
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.35
Consensus pattern (45 bp):
TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATA
Found at i:41986074 original size:39 final size:39
Alignment explanation
Indices: 41986031--41986106 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 39
41986021 CCCTTGGTCA
41986031 CACTTACATGCCTCTT-TCGTACTTCGGTAGCT-CTGATCG
1 CACTTACATGCC-CTTGTCGTACTTCGGTA-CTCCTGATCG
* * *
41986070 CACTTACGTTCCCTTGTTGTACTTCGGTACTCCTGAT
1 CACTTACATGCCCTTGTCGTACTTCGGTACTCCTGAT
41986107 TGTACGTGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 5 0.16
39 27 0.84
ACGTcount: A:0.14, C:0.30, G:0.17, T:0.38
Consensus pattern (39 bp):
CACTTACATGCCCTTGTCGTACTTCGGTACTCCTGATCG
Found at i:41987961 original size:27 final size:26
Alignment explanation
Indices: 41987905--41988015 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
41987895 AGCATGGCTG
* * *
41987905 CCAGAACAAATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
41987931 CCAGAACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
41987958 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
41987985 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
41988012 CCAG
1 CCAG
41988016 TATGCTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 13 0.17
27 61 0.79
28 3 0.04
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.14
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:41989482 original size:24 final size:24
Alignment explanation
Indices: 41989447--41989522 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
41989437 CCAACACCGT
* *
41989447 TCTCCCTAATCAGCTCCTACATCC
1 TCTCCCTTATCAGCTCCTAAATCC
41989471 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
41989495 TCTCCCTTATTAGCTCCTAAATCT
1 TCTCCCTTATCAGCTCCTAAATCC
41989519 TCTC
1 TCTC
41989523 TTGACAGCCT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.20, C:0.41, G:0.04, T:0.36
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:41994749 original size:15 final size:16
Alignment explanation
Indices: 41994731--41994771 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
41994721 AAATCGAGTT
*
41994731 TTTTTTTAAAT-TTTG
1 TTTTTGTAAATCTTTG
*
41994746 TTTTTGAAAATCTTTG
1 TTTTTGTAAATCTTTG
41994762 TTTTTGTAAA
1 TTTTTGTAAA
41994772 CCCATTCCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.24, C:0.02, G:0.10, T:0.63
Consensus pattern (16 bp):
TTTTTGTAAATCTTTG
Found at i:41995773 original size:27 final size:26
Alignment explanation
Indices: 41995703--41995812 Score: 132
Period size: 27 Copynumber: 4.2 Consensus size: 26
41995693 AGCATGGCTG
** *
41995703 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
41995729 CCA-AATAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
41995755 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
41995782 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
41995809 CCAG
1 CCAG
41995813 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.12
26 15 0.21
27 46 0.63
28 3 0.04
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:42008609 original size:53 final size:53
Alignment explanation
Indices: 42008511--42008620 Score: 143
Period size: 53 Copynumber: 2.1 Consensus size: 53
42008501 AGCATGGCTG
* *
42008511 CCAGAACAGATAATGTGATAGAGTCACCAAAATAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAAAATAGATAATCGTGGCAGAGCCA
* * *
42008564 CCAGAACAGATATATGTGGCAGAGCCACC-AGATCAGATAAT-GTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAAAAT-AGATAATCGTGGCAGAGCCA
42008617 CCAG
1 CCAG
42008621 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
53 30 0.60
54 20 0.40
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAGCCACCAAAATAGATAATCGTGGCAGAGCCA
Found at i:42008615 original size:26 final size:26
Alignment explanation
Indices: 42008511--42008620 Score: 139
Period size: 27 Copynumber: 4.2 Consensus size: 26
42008501 AGCATGGCTG
** *
42008511 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
42008537 CCAAAATAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
42008564 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
42008591 CCAGATCAGATAATGTGGCATAGCCA
1 CCAGAACAGATAATGTGGCAGAGCCA
42008617 CCAG
1 CCAG
42008621 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
26 29 0.40
27 42 0.58
28 2 0.03
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:42010150 original size:24 final size:24
Alignment explanation
Indices: 42010051--42010143 Score: 132
Period size: 24 Copynumber: 3.9 Consensus size: 24
42010041 CCAACACCGT
*
42010051 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* * *
42010075 TCTTCCTTATCAACTCCTACATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
42010099 TCTCCCTTATCAGCTCATAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
42010123 TCTCTCTTATCAGCTCCTAAA
1 TCTCCCTTATCAGCTCCTAAA
42010144 ACTTCTCCTG
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.24, C:0.39, G:0.03, T:0.34
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:42018479 original size:18 final size:17
Alignment explanation
Indices: 42018444--42018487 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
42018434 GGCAGATTAC
42018444 CTTTTCTCTTTTTCTCT
1 CTTTTCTCTTTTTCTCT
42018461 CTTTT-TCTTTTTGCTTCT
1 CTTTTCTCTTTTT-C-TCT
*
42018479 CTGTTCTCT
1 CTTTTCTCT
42018488 CTTAATTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 7 0.30
17 6 0.26
18 7 0.30
19 3 0.13
ACGTcount: A:0.00, C:0.27, G:0.05, T:0.68
Consensus pattern (17 bp):
CTTTTCTCTTTTTCTCT
Found at i:42024985 original size:79 final size:80
Alignment explanation
Indices: 42024829--42025053 Score: 255
Period size: 79 Copynumber: 2.8 Consensus size: 80
42024819 TTGAATGATG
* * * * * * *
42024829 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAACAT-CCGAAGGCAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAA-GTCCCGAAGGCAT
42024892 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
*
42024909 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCA
*
42024970 TTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAA
** *
42024988 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
42025053 G
66 G
42025054 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
78 2 0.02
79 68 0.54
80 45 0.36
81 9 0.07
82 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:42025017 original size:40 final size:40
Alignment explanation
Indices: 42024829--42025053 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
42024819 TTGAATGATG
* * * *
42024829 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
42024869 TCCGGACTAACAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAA-GTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
42024909 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
42024949 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
42024988 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
42025029 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42025054 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
39 35 0.21
40 118 0.72
41 10 0.06
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42025045 original size:119 final size:120
Alignment explanation
Indices: 42024829--42025053 Score: 282
Period size: 119 Copynumber: 1.9 Consensus size: 120
42024819 TTGAATGATG
*
42024829 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAACATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAACATCCGAAGGCATTT
42024894 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
* * * ** *
42024949 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAA-GTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAACAT-CCGAAGGCAT
* *
42025011 TTGTGCGA-ATTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TTGTGCGAGA-TACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
42025054 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
118 3 0.03
119 68 0.75
120 20 0.22
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAACATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:42025075 original size:79 final size:79
Alignment explanation
Indices: 42024882--42025076 Score: 204
Period size: 79 Copynumber: 2.5 Consensus size: 79
42024872 GGACTAACAT
** **
42024882 CCGAAGGCATTTGTGCGAGAT-ACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATAC
*
42024945 TAATTCCGGGCTAAGC
64 TAATACCGGGCTAAGC
** *
42024961 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACT
*
42025025 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
*
42025041 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAA
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAA
42025077 ATTCTGAAGG
Statistics
Matches: 102, Mismatches: 8, Indels: 12
0.84 0.07 0.10
Matches are distributed among these distances:
78 5 0.05
79 72 0.71
80 25 0.25
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:42030523 original size:12 final size:11
Alignment explanation
Indices: 42030496--42030546 Score: 61
Period size: 10 Copynumber: 4.6 Consensus size: 11
42030486 CCTCCTATAT
*
42030496 TTTTATTATTA
1 TTTTATTCTTA
42030507 -TTTATTCTTA
1 TTTTATTCTTA
42030517 TTCTTATTCTTA
1 TT-TTATTCTTA
42030529 TTTTTATT-TTA
1 -TTTTATTCTTA
42030540 TTTTATT
1 TTTTATT
42030547 TATTTTTGCT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
10 16 0.44
11 4 0.11
12 14 0.39
13 2 0.06
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTATTCTTA
Found at i:42030535 original size:28 final size:28
Alignment explanation
Indices: 42030493--42030546 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
42030483 AATCCTCCTA
*
42030493 TATTTTTATTATTA-TTTATTCTTATTCT
1 TATTCTTATTATTATTTTATT-TTATTCT
*
42030521 TATTCTTATTTTTATTTTATTTTATT
1 TATTCTTATTATTATTTTATTTTATT
42030547 TATTTTTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (28 bp):
TATTCTTATTATTATTTTATTTTATTCT
Found at i:42030550 original size:4 final size:5
Alignment explanation
Indices: 42030496--42030595 Score: 57
Period size: 6 Copynumber: 18.8 Consensus size: 5
42030486 CCTCCTATAT
42030496 TTTTA TTATTA -TTTA TTCTTA TTCTTA TTCTTA TTTTTA TTTTA TTTTA
1 TTTTA TT-TTA TTTTA TT-TTA TT-TTA TT-TTA -TTTTA TTTTA TTTTA
*
42030545 -TTTA TTTT- TGCTTTGA TTTTTA TTTTCA TTTCAA TTTTA --TTA TTTTA
1 TTTTA TTTTA T--TTT-A -TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA
42030592 TTTT
1 TTTT
42030596 GAAAGACATA
Statistics
Matches: 79, Mismatches: 2, Indels: 28
0.72 0.02 0.26
Matches are distributed among these distances:
3 3 0.04
4 8 0.10
5 29 0.37
6 33 0.42
7 5 0.06
9 1 0.01
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:42030568 original size:38 final size:37
Alignment explanation
Indices: 42030496--42030592 Score: 99
Period size: 38 Copynumber: 2.5 Consensus size: 37
42030486 CCTCCTATAT
* *
42030496 TTTTATTATTATTTATTCTTATTCTTATTCTTATTTTTA
1 TTTTATT-TTATTTATT-TTATGCTTATTCTTATTTTCA
*
42030535 TTTTATTTTATTTATTTT-TGCTTTGATTTTTATTTTCA
1 TTTTATTTTATTTATTTTATGC-TT-ATTCTTATTTTCA
*
42030573 TTTCAATTTTA-TTATTTTAT
1 TTT-TATTTTATTTATTTTAT
42030593 TTTGAAAGAC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
36 2 0.04
37 4 0.08
38 30 0.60
39 14 0.28
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (37 bp):
TTTTATTTTATTTATTTTATGCTTATTCTTATTTTCA
Found at i:42030575 original size:12 final size:11
Alignment explanation
Indices: 42030493--42030595 Score: 70
Period size: 12 Copynumber: 9.1 Consensus size: 11
42030483 AATCCTCCTA
42030493 TATTTTTA--T
1 TATTTTTATTT
42030502 TATTATTTATTCT
1 TATT-TTTATT-T
*
42030515 TATTCTTATTCT
1 TATTTTTATT-T
42030527 TATTTTTATTT
1 TATTTTTATTT
42030538 TA-TTTTA-TT
1 TATTTTTATTT
*
42030547 TATTTTTGCTTT
1 TATTTTT-ATTT
*
42030559 GATTTTTATTT
1 TATTTTTATTT
**
42030570 TCATTTCAATTT
1 T-ATTTTTATTT
42030582 TATTATTTTATTT
1 TA-T-TTTTATTT
42030595 T
1 T
42030596 GAAAGACATA
Statistics
Matches: 74, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
9 8 0.11
10 13 0.18
11 7 0.09
12 34 0.46
13 12 0.16
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:42033313 original size:13 final size:13
Alignment explanation
Indices: 42033297--42033329 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
42033287 TTTAATTAAA
*
42033297 TTAGTTAATTAGT
1 TTAGATAATTAGT
42033310 TTAGATAATTAGT
1 TTAGATAATTAGT
42033323 TTA-ATAA
1 TTAGATAA
42033330 ATAAAGCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:42037948 original size:28 final size:28
Alignment explanation
Indices: 42037878--42038115 Score: 379
Period size: 28 Copynumber: 8.5 Consensus size: 28
42037868 CATGAGATTG
* * * *
42037878 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
42037907 GCACTAAGTTTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
42037935 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
42037963 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
42037991 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
42038019 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
42038047 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
42038075 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
42038102 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
42038116 GACTTAACAT
Statistics
Matches: 199, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
27 25 0.13
28 157 0.79
29 17 0.09
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:42078257 original size:27 final size:27
Alignment explanation
Indices: 42078204--42078294 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
42078194 TTATTTACTT
42078204 GTAAAATGACCGAAATAACCCCATAAG
1 GTAAAATGACCGAAATAACCCCATAAG
* * **
42078231 TTAAAATGATCGAAAT-ACCCTTGTAAG
1 GTAAAATGACCGAAATAACCC-CATAAG
* * *
42078258 GTAAAATGACTGTAAT-TCCCCTATAAG
1 GTAAAATGACCGAAATAACCCC-ATAAG
*
42078285 GCAAAATGAC
1 GTAAAATGAC
42078295 TGTTTTGCCT
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
26 4 0.08
27 46 0.92
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (27 bp):
GTAAAATGACCGAAATAACCCCATAAG
Found at i:42078314 original size:54 final size:54
Alignment explanation
Indices: 42078256--42078417 Score: 155
Period size: 54 Copynumber: 3.0 Consensus size: 54
42078246 TACCCTTGTA
* * *
42078256 AGGTAAAATGACTGTAATTCCCCTATAAGGCAAAATGACTGTTTTGCCTTTATG
1 AGGTAAAATGACTGTAATTCCCCTATAAGGTAAAATGATTGTTTTGCCCTTATG
* * * * ** *
42078310 AGGTAAAATGACTAT-TTTGCCCTTATGAGGTGCAATGATTGTTTTTCCCTTATG
1 AGGTAAAATGACTGTAATT-CCCCTATAAGGTAAAATGATTGTTTTGCCCTTATG
* * * * * * *
42078364 TGGTAAAATGACTGAAATGCCCCTACATGGTAAATTGATTGTTTTGCCCCTATG
1 AGGTAAAATGACTGTAATTCCCCTATAAGGTAAAATGATTGTTTTGCCCTTATG
42078418 TGAGGTATTT
Statistics
Matches: 82, Mismatches: 24, Indels: 4
0.75 0.22 0.04
Matches are distributed among these distances:
53 2 0.02
54 79 0.96
55 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (54 bp):
AGGTAAAATGACTGTAATTCCCCTATAAGGTAAAATGATTGTTTTGCCCTTATG
Found at i:42078317 original size:27 final size:27
Alignment explanation
Indices: 42078256--42078377 Score: 129
Period size: 27 Copynumber: 4.5 Consensus size: 27
42078246 TACCCTTGTA
* * *
42078256 AGGTAAAATGACTGTAATT-CCCCTATA
1 AGGTAAAATGACTGT-TTTGCCCTTATG
* *
42078283 AGGCAAAATGACTGTTTTGCCTTTATG
1 AGGTAAAATGACTGTTTTGCCCTTATG
*
42078310 AGGTAAAATGACTATTTTGCCCTTATG
1 AGGTAAAATGACTGTTTTGCCCTTATG
** * *
42078337 AGGTGCAATGATTGTTTTTCCCTTATG
1 AGGTAAAATGACTGTTTTGCCCTTATG
*
42078364 TGGTAAAATGACTG
1 AGGTAAAATGACTG
42078378 AAATGCCCCT
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
26 2 0.03
27 75 0.97
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (27 bp):
AGGTAAAATGACTGTTTTGCCCTTATG
Found at i:42078835 original size:18 final size:18
Alignment explanation
Indices: 42078777--42078836 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
42078767 GTTTAAATTT
*
42078777 TTACTGCACTGATTACTG
1 TTACTGTACTGATTACTG
* *
42078795 TTACCGTACTGATTACTA
1 TTACTGTACTGATTACTG
* *
42078813 TTACTGTTCTGTTTACTG
1 TTACTGTACTGATTACTG
42078831 TTACTG
1 TTACTG
42078837 CAATGGGCCA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (18 bp):
TTACTGTACTGATTACTG
Found at i:42095849 original size:30 final size:30
Alignment explanation
Indices: 42095815--42095875 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42095805 TCCTTAACTC
42095815 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
42095845 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
42095875 A
1 A
42095876 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:42096846 original size:51 final size:51
Alignment explanation
Indices: 42096770--42096871 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
42096760 CCATGATCAG
42096770 AAGTCAGTACGTTACTGTTAACCTCATCATTGTCAGCATGATCAAATCCGT
1 AAGTCAGTACGTTACTGTTAACCTCATCATTGTCAGCATGATCAAATCCGT
42096821 AAGTCAGTACGTTACTGTTAACCTCATCATTGTCAGCATGATCAAATCCGT
1 AAGTCAGTACGTTACTGTTAACCTCATCATTGTCAGCATGATCAAATCCGT
42096872 CTGATATTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (51 bp):
AAGTCAGTACGTTACTGTTAACCTCATCATTGTCAGCATGATCAAATCCGT
Found at i:42098538 original size:43 final size:43
Alignment explanation
Indices: 42098477--42098565 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
42098467 TAATACAAAT
* *
42098477 GTTAAATTTTAATCGTACAAACTTATTGGACTAAATTGTACTC
1 GTTAAATTTTAACCGTACAAACTTACTGGACTAAATTGTACTC
*
42098520 GTTAAATTTTAACCGTACAAACTTACTGGACTAAATTGTAGTC
1 GTTAAATTTTAACCGTACAAACTTACTGGACTAAATTGTACTC
42098563 GTT
1 GTT
42098566 GAAGAAATTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (43 bp):
GTTAAATTTTAACCGTACAAACTTACTGGACTAAATTGTACTC
Found at i:42101307 original size:119 final size:120
Alignment explanation
Indices: 42101125--42101347 Score: 274
Period size: 119 Copynumber: 1.9 Consensus size: 120
42101115 TCCTCGTTCA
** *
42101125 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATACCTTCAGGACTTAACCCGGAT
* *
42101190 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * **
42101245 AATGCCTTC-GGACTTAGCCCAGAAT-TAGTATCTCGCACGAATACCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCC-GAATATAGTAACTCGCACAAATACCTTCAGGA-CTTAACCCGG
* * *
42101307 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
42101348 CATCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 65 0.75
120 19 0.22
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATACCTTCAGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:42101347 original size:40 final size:40
Alignment explanation
Indices: 42101123--42101347 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
42101113 GCTCCTCGTT
* *
42101123 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
42101163 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
42101203 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
42101243 CCAATGCCTTC-GGACTTAGCCCAGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * * *
42101282 CGAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
42101323 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42101348 CATCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
39 35 0.22
40 112 0.71
41 11 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:42109335 original size:119 final size:120
Alignment explanation
Indices: 42109152--42109374 Score: 267
Period size: 119 Copynumber: 1.9 Consensus size: 120
42109142 TCCTCGTTCA
* **
42109152 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATAACTTCGGGACTTAACTCGGAT
* *
42109217 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * *
42109272 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACGAATAACTTC-GGATCTT-AGTCCG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATAACTTCGGGA-CTTAACT-CG
* * *
42109333 GATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
63 GATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
42109375 CATCATTCAA
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
118 6 0.07
119 61 0.70
120 20 0.23
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATAACTTCGGGACTTAACTCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:42109374 original size:40 final size:40
Alignment explanation
Indices: 42109150--42109374 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
42109140 ACTCCTCGTT
* *
42109150 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
42109190 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
42109230 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
42109270 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* ** * * * *
42109309 CGAATAACTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
42109350 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42109375 CATCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
38 2 0.01
39 29 0.18
40 115 0.73
41 11 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:42133547 original size:49 final size:49
Alignment explanation
Indices: 42133485--42133705 Score: 197
Period size: 49 Copynumber: 4.6 Consensus size: 49
42133475 ACATTAAAGT
* *
42133485 CGATGCCGTGTCCCAGACATGTCTTACACTAACTTTCATATATCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGC
* ** * * * *
42133534 CGATGCAATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGGGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGC
* * *
42133583 CGATGCCATGTCCCAGACAGGTCTTACACTGAC--ACATA-A-C-AAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGC
* * * * *
42133627 TGACGCCATGTCCCAGACAGGTCTTTCACTAGCTTGT-ATAT-CCTGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTT-TCATATATC-GAGGC
* *
42133676 TGATG-CATGTCCCAGACATGTCTTACACTA
1 CGATGCCATGTCCCAGACAGGTCTTACACTA
42133706 GCTCACGACT
Statistics
Matches: 139, Mismatches: 26, Indels: 15
0.77 0.14 0.08
Matches are distributed among these distances:
44 29 0.21
45 1 0.01
46 4 0.03
47 4 0.03
48 23 0.17
49 78 0.56
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGC
Found at i:42138683 original size:24 final size:24
Alignment explanation
Indices: 42138646--42138698 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
42138636 ATGTCACAAT
*
42138646 TATAATATCTAAGCATATAAACACA
1 TATAACATCTAAGCATATAAA-ACA
* *
42138671 TATAACAT-TAAGCTTATAAATCA
1 TATAACATCTAAGCATATAAAACA
42138694 TATAA
1 TATAA
42138699 ACTTACCTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 7 0.28
24 11 0.44
25 7 0.28
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (24 bp):
TATAACATCTAAGCATATAAAACA
Found at i:42145881 original size:131 final size:131
Alignment explanation
Indices: 42145709--42146052 Score: 370
Period size: 131 Copynumber: 2.6 Consensus size: 131
42145699 CAATATCTGG
* * * *
42145709 CAATTCGCGGAATCGTGCCCTAACATGTTGGGTTGCAATTTCACGTTTGTTCGAAATAATCGAAT
1 CAATTCG-GGAATCATGCCCTATCGTGTTGGGTTGCAATTTCACGTTTGTTCAAAATAATCGAAT
* * * *
42145774 ATCCCTTC-AAACTTTCACCCATGTCTTCCAAAAATCCTTCAAAAAGAAGGCAATACTCGGTGTT
65 ATCCCTTCGAAA-TTTCACCCATGTCTTCCAAAAACCCTTCAAAAAGAAAGAAATACTCGATGTT
42145838 TGA
129 TGA
** * * *
42145841 CAATTCGGGAATCATGCCCTATCGTGTTGGGTTGTGATTTCTCGTTTCTTCAAAACAATCGAATA
1 CAATTCGGGAATCATGCCCTATCGTGTTGGGTTGCAATTTCACGTTTGTTCAAAATAATCGAATA
** * * * * * *
42145906 -CCCTTCGAAATTTCATTCATGTTTTCTAAAAACCCTTTAAAATGAAAGAAATATTTGATGTTTG
66 TCCCTTCGAAATTTCACCCATGTCTTCCAAAAACCCTTCAAAAAGAAAGAAATACTCGATGTTTG
*
42145970 G
131 A
* * * * *
42145971 CGATTTGGGGAAT-AGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAA
1 C-AATTCGGGAATCA-TGCCCTATCGTGTTGGGTTGCAATTTCACGTTTGTTCAAAATAATCGAA
* *
42146035 TGTCTCTTCGAAATTTCA
64 TATCCCTTCGAAATTTCA
42146053 TTCGTATTTT
Statistics
Matches: 175, Mismatches: 33, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
130 50 0.29
131 104 0.59
132 21 0.12
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (131 bp):
CAATTCGGGAATCATGCCCTATCGTGTTGGGTTGCAATTTCACGTTTGTTCAAAATAATCGAATA
TCCCTTCGAAATTTCACCCATGTCTTCCAAAAACCCTTCAAAAAGAAAGAAATACTCGATGTTTG
A
Found at i:42155330 original size:39 final size:39
Alignment explanation
Indices: 42155213--42155420 Score: 312
Period size: 39 Copynumber: 5.3 Consensus size: 39
42155203 GCTCCTCGTT
* *
42155213 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
42155253 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
42155293 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
42155332 CAAATGCCTTCGGGCTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
42155371 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
42155410 CAAATGCCTTC
1 CAAATGCCTTC
42155421 CGATCTTAGT
Statistics
Matches: 158, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 110 0.70
40 46 0.29
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:42155458 original size:78 final size:78
Alignment explanation
Indices: 42155213--42155474 Score: 284
Period size: 78 Copynumber: 3.3 Consensus size: 78
42155203 GCTCCTCGTT
* * * *
42155213 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGAG-CTTAGCCC
* * * *
42155276 GGATTTAGTAACTCGCA
62 AGAATTAGTATCTAGCA
*
42155293 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCAGAA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGAGCTTAGCCCAGAA
*
42155358 TTAGTATCTCGCA
66 TTAGTATCTAGCA
* * *
42155371 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCCGATCTTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTT-CGAGCTTAGCCCAGA
42155436 TATT-GTCA-CTTAGCA
65 -ATTAGT-ATC-TAGCA
42155451 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
42155475 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
78 81 0.49
79 59 0.36
80 24 0.15
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGAGCTTAGCCCAGAA
TTAGTATCTAGCA
Found at i:42171733 original size:43 final size:43
Alignment explanation
Indices: 42171685--42171801 Score: 198
Period size: 43 Copynumber: 2.7 Consensus size: 43
42171675 CGGCATTATC
* *
42171685 CTAGGCACGAAGACCCGAATACACATCACTGGCACGAAGCCTA
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTA
*
42171728 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTA
*
42171771 CTAGGCACAAAGGCCCGAATACACATCACCG
1 CTAGGCACGAAGGCCCGAATACACATCACCG
42171802 AGTTTCATGC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.33, C:0.34, G:0.22, T:0.10
Consensus pattern (43 bp):
CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTA
Found at i:42173926 original size:68 final size:68
Alignment explanation
Indices: 42173789--42173945 Score: 192
Period size: 68 Copynumber: 2.3 Consensus size: 68
42173779 TTAACTGTGA
* * * * *
42173789 AATC-AACAGATTTGGACAGCTACATTTACTAAATAAAACAGCATATATGGTAGTGCATCGAACA
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAGTGCATCGAACA
42173853 ATG
66 ATG
* * * *
42173856 AATTTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGAT-GATGCTTTGAAT
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAG-TGCATCGAAC
*
42173920 AGTG
65 AATG
*
42173924 AATCTAACACATTCGAACAGCT
1 AATCTAACACATTCGGACAGCT
42173946 TAATTTTAAG
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
67 4 0.05
68 72 0.95
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (68 bp):
AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAGTGCATCGAACA
ATG
Found at i:42176627 original size:18 final size:19
Alignment explanation
Indices: 42176590--42176627 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
42176580 AATATCTATC
* *
42176590 TTCTCAAAATTTTTAGTCA
1 TTCTCAAAATTTTCACTCA
42176609 TTCT-AAAATTTTCACTCA
1 TTCTCAAAATTTTCACTCA
42176627 T
1 T
42176628 GGCAATAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.47
Consensus pattern (19 bp):
TTCTCAAAATTTTCACTCA
Found at i:42180549 original size:140 final size:140
Alignment explanation
Indices: 42180297--42180853 Score: 765
Period size: 140 Copynumber: 4.0 Consensus size: 140
42180287 AGTTCTAAGA
* * * *
42180297 CGACATTTTTGGGCCGACACTTTTCTAAGTGTTAGGATAGACTTGCCAACATACGCTTTGGCCAA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAA
* * * *
42180362 CTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGACAACGCTTAAATAAGAGTTGGCTTTGCCC
66 CTCCTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCC
*
42180427 AACACTATGT
131 AACACTATGC
* * * *
42180437 CGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGGCTTGCTGACATATGCTTTGGCCAA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAA
*
42180502 CTCCTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAATGCTTAAATAAGAGTCGGCTTTGTCC
66 CTCCTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCC
*
42180567 AATACTATGC
131 AACACTATGC
* * * * *
42180577 CTACACTTTTGGGCTGACACTTTCTTAAGTGTTGGGATATACTTGCCGAAATACGCTTTGGCCAA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAA
* * *
42180642 CTCTTTGTATAAGGGTTGGGATATGCATGCCTAAAGCAACGCTTAAATAAAAGTCGGCTTTGTCC
66 CTCCTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCC
42180707 AACACTATGC
131 AACACTATGC
* * * * * **
42180717 CAATACTTTTGGGCTGACACTTTCCTAAGTGTTGGGATAGACTTGACGACATATGCTTTGGTAAA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAA
* * * ** * *
42180782 CT-CTTGGTATAAGGTTTGAGATATGCATGCCTATGGCAATACTTAAATAAGATTTGGCTTTGTC
66 CTCCTT-GTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTC
42180846 CAACACTA
130 CAACACTA
42180854 CGCCTAAGGC
Statistics
Matches: 368, Mismatches: 48, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
139 2 0.01
140 366 0.99
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (140 bp):
CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCCAA
CTCCTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCC
AACACTATGC
Found at i:42181850 original size:12 final size:13
Alignment explanation
Indices: 42181822--42181850 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
42181812 TTTTAATTTA
42181822 TTTTGACATCAGT
1 TTTTGACATCAGT
42181835 TTTTGACATCAGT
1 TTTTGACATCAGT
42181848 TTT
1 TTT
42181851 ACTTTTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.52
Consensus pattern (13 bp):
TTTTGACATCAGT
Found at i:42183121 original size:35 final size:35
Alignment explanation
Indices: 42183076--42183636 Score: 348
Period size: 35 Copynumber: 15.8 Consensus size: 35
42183066 TAAGATTTAT
* * **
42183076 CCCAA-CTTTTTAAGTTTTCCTTAGACATGTCTAC
1 CCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTAC
* * *
42183110 CCCAACCTTTTTAGGGTTTCTTTAGACGGGTCTAC
1 CCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTAC
* * * *
42183145 CCTAACCTTTTTAGGGTTGCCTTAAACGTGTCTAC
1 CCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTAC
* * ** *
42183180 CCCAACCTTTTTAGGGTTGCCTTAAACATGTCTAT
1 CCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTAC
* *
42183215 CCCAACCTTTTTAAGGTTGCCTTAGATGGGTCTAT
1 CCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTAC
*
42183250 CCCAACCGTTTTTAAAGGTTGCCTTAGACGGGTCTAT
1 CCCAACC-TTTTT-AAGGTTGCCTTAGACGGGTCTAC
** * * *
42183287 CCCAACCATTTTTAAAGGTTGTTTTA-ACCAAGGTTTAT
1 CCCAACC-TTTTT-AAGGTTGCCTTAGA-C-GGGTCTAC
* * * * * *
42183325 CCTAACATTTTTAAAGTTGCCTTAAACAAGGTCTAT
1 CCCAACCTTTTTAAGGTTGCCTTAGAC-GGGTCTAC
* * *
42183361 CCCAACC---TT----TTGCCTTAAATGGGTCTAT
1 CCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTAC
** * *
42183389 CCCAATATTTTTTATAGGTTGCCTTAGACAAGGTCTAT
1 CCCAA-CCTTTTTA-AGGTTGCCTTAGAC-GGGTCTAC
* *
42183427 TCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTAT
1 CCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTAC
** * * ** * *
42183462 CCTGACCTTTTTTAAAGATTTCCTTAGACAATGTTTAT
1 CCCAACC-TTTTT-AAGGTTGCCTTAGAC-GGGTCTAC
** * * *
42183500 CCCAATTTTTTTAAGGTTGCCTTTGACAAGGTCTAT
1 CCCAACCTTTTTAAGGTTGCCTTAGAC-GGGTCTAC
* * * * *
42183536 CCCAACTTTTTTTAAAAGTTGCCTTAGACAAGGTTTAT
1 CCCAAC-CTTTTT-AAGGTTGCCTTAGAC-GGGTCTAC
* * *
42183574 CCCAACCTTTTTAAGGATGCCTTAGACAAGGTCTAT
1 CCCAACCTTTTTAAGGTTGCCTTAGAC-GGGTCTAC
*
42183610 CCGAACCTTTTTAAGGTTGCCTTAGAC
1 CCCAACCTTTTTAAGGTTGCCTTAGAC
42183637 AAGGTCTATC
Statistics
Matches: 436, Mismatches: 70, Indels: 40
0.80 0.13 0.07
Matches are distributed among these distances:
28 12 0.03
29 10 0.02
32 2 0.00
33 2 0.00
34 5 0.01
35 134 0.31
36 118 0.27
37 96 0.22
38 57 0.13
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.38
Consensus pattern (35 bp):
CCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTAC
Found at i:42183358 original size:74 final size:72
Alignment explanation
Indices: 42183073--42183653 Score: 421
Period size: 74 Copynumber: 8.2 Consensus size: 72
42183063 AAATAAGATT
* * * * * * * * *
42183073 TATCCCAA-CTTTTTAAGTTTTCCTTAGACATGTCTACCCCAACC-TTTTT-AGGGTTTCTTTAG
1 TATCCCAACCTTTTTAAGGTTGCCTTAGAAAGGTCTATCCCAACCATTTTTAAAGGTTGCCTTAA
*
42183135 ACGGGTC
66 ACAGGTC
* * * *
42183142 TA-CCCTAACCTTTTTAGGGTTGCCTTA-AACGTGTCTACCCCAACC-TTTTT-AGGGTTGCCTT
1 TATCCC-AACCTTTTTAAGGTTGCCTTAGAAAG-GTCTATCCCAACCATTTTTAAAGGTTGCCTT
*
42183203 AAACATGTC
64 AAACAGGTC
** * *
42183212 TATCCCAACCTTTTTAAGGTTGCCTTAGATGGGTCTATCCCAACCGTTTTTAAAGGTTGCCTTAG
1 TATCCCAACCTTTTTAAGGTTGCCTTAGAAAGGTCTATCCCAACCATTTTTAAAGGTTGCCTTAA
*
42183277 ACGGGTC
66 ACAGGTC
** * *
42183284 TATCCCAACCATTTTTAAAGGTTGTTTTA-ACCAAGGTTTATCCTAA-CATTTTTAAA-GTTGCC
1 TATCCCAACC-TTTTT-AAGGTTGCCTTAGA--AAGGTCTATCCCAACCATTTTTAAAGGTTGCC
42183346 TTAAACAAGGTC
62 TTAAAC-AGGTC
* * *
42183358 TATCCCAACC---TT----TTGCCTTA-AATGGGTCTATCCCAA-TATTTTTTATAGGTTGCCTT
1 TATCCCAACCTTTTTAAGGTTGCCTTAGAA-AGGTCTATCCCAACCA-TTTTTAAAGGTTGCCTT
*
42183414 AGACAAGGTC
64 AAAC-AGGTC
* ** ** * * * *
42183424 TATTCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCTGACCTTTTTTAAAGATTTCCTTAG
1 TATCCCAACCTTTTTAAGGTTGCCTTAGAAAGGTCTATCCCAACCATTTTTAAAGGTTGCCTTAA
* *
42183489 ACAATGTT
66 AC-AGGTC
** * ** *
42183497 TATCCCAATTTTTTTAAGGTTGCCTTTGACAAGGTCTATCCCAACTTTTTTTAAAAGTTGCCTTA
1 TATCCCAACCTTTTTAAGGTTGCCTTAGA-AAGGTCTATCCCAACCATTTTTAAAGGTTGCCTTA
* *
42183562 GACAAGGTT
65 AAC-AGGTC
* *
42183571 TATCCCAACCTTTTTAAGGATGCCTTAGACAAGGTCTATCCGAACC-TTTTT-AAGGTTGCCTTA
1 TATCCCAACCTTTTTAAGGTTGCCTTAGA-AAGGTCTATCCCAACCATTTTTAAAGGTTGCCTTA
*
42183634 GACAAGGTC
65 AAC-AGGTC
*
42183643 TATCCTAACCT
1 TATCCCAACCT
42183654 GTATAGGCCA
Statistics
Matches: 418, Mismatches: 69, Indels: 47
0.78 0.13 0.09
Matches are distributed among these distances:
63 1 0.00
64 11 0.03
65 14 0.03
66 26 0.06
68 3 0.01
69 7 0.02
70 84 0.20
71 10 0.02
72 55 0.13
73 88 0.21
74 109 0.26
75 10 0.02
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (72 bp):
TATCCCAACCTTTTTAAGGTTGCCTTAGAAAGGTCTATCCCAACCATTTTTAAAGGTTGCCTTAA
ACAGGTC
Found at i:42183362 original size:36 final size:36
Alignment explanation
Indices: 42183073--42183653 Score: 500
Period size: 36 Copynumber: 16.3 Consensus size: 36
42183063 AAATAAGATT
* * *
42183073 TATCCCAA-CTTTTTAAGTTTTCCTTAGAC-ATGTC
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTC
* * * * *
42183107 TACCCCAACCTTTTTAGGGTTTCTTTAGAC-GGGTC
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTC
* *
42183142 TA-CCCTAACCTTTTTAGGGTTGCCTTA-A-ACGTGTC
1 TATCCC-AACCTTTTTAAGGTTGCCTTAGACAAG-GTC
* * * *
42183177 TACCCCAACCTTTTTAGGGTTGCCTTAAAC-ATGTC
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTC
**
42183212 TATCCCAACCTTTTTAAGGTTGCCTTAGA-TGGGTC
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTC
*
42183247 TATCCCAACCGTTTTTAAAGGTTGCCTTAGAC-GGGTC
1 TATCCCAACC-TTTTT-AAGGTTGCCTTAGACAAGGTC
** *
42183284 TATCCCAACCATTTTTAAAGGTTGTTTTA-ACCAAGGTT
1 TATCCCAACC-TTTTT-AAGGTTGCCTTAGA-CAAGGTC
* * * *
42183322 TATCCTAACATTTTTAAAGTTGCCTTAAACAAGGTC
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTC
*
42183358 TATCCCAACC---TT----TTGCCTTA-A-ATGGGTC
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACA-AGGTC
**
42183386 TATCCCAATATTTTTTATAGGTTGCCTTAGACAAGGTC
1 TATCCCAA-CCTTTTTA-AGGTTGCCTTAGACAAGGTC
* *
42183424 TATTCCAACCTTTTTAAGGTTGCCTTAGAC-GGGTC
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTC
** * * * *
42183459 TATCCTGACCTTTTTTAAAGATTTCCTTAGACAATGTT
1 TATCCCAACC-TTTTT-AAGGTTGCCTTAGACAAGGTC
** *
42183497 TATCCCAATTTTTTTAAGGTTGCCTTTGACAAGGTC
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTC
* * *
42183533 TATCCCAACTTTTTTTAAAAGTTGCCTTAGACAAGGTT
1 TATCCCAAC-CTTTTT-AAGGTTGCCTTAGACAAGGTC
*
42183571 TATCCCAACCTTTTTAAGGATGCCTTAGACAAGGTC
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTC
*
42183607 TATCCGAACCTTTTTAAGGTTGCCTTAGACAAGGTC
1 TATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTC
*
42183643 TATCCTAACCT
1 TATCCCAACCT
42183654 GTATAGGCCA
Statistics
Matches: 451, Mismatches: 65, Indels: 60
0.78 0.11 0.10
Matches are distributed among these distances:
27 1 0.00
28 13 0.03
29 8 0.02
32 2 0.00
33 2 0.00
34 12 0.03
35 121 0.27
36 138 0.31
37 95 0.21
38 58 0.13
39 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (36 bp):
TATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTC
Found at i:42183389 original size:102 final size:101
Alignment explanation
Indices: 42183268--42183645 Score: 239
Period size: 102 Copynumber: 3.6 Consensus size: 101
42183258 TTTTTAAAGG
* ** *
42183268 TTGCCTTAGACGGGTCTATCCCAACCA-TTTTTAAAGGTTGTTTTA-ACCAAGGTTTA-TCCTAA
1 TTGCCTTAAACGGGTCTATCCCAA-CATTTTTTAAAGGTTGCCTTAGA-CAAGGTCTATTCC-AA
42183330 CATTTTTAAAGTTGCCTTAAACAAGGTCTATCCCAACCTT
63 CATTTTTAAAGTTGCCTTAAAC-AGGTCTATCCCAACCTT
* * * *
42183370 TTGCCTTAAATGGGTCTATCCCAATATTTTTTATAGGTTGCCTTAGACAAGGTCTATTCCAACCT
1 TTGCCTTAAACGGGTCTATCCCAACATTTTTTAAAGGTTGCCTTAGACAAGGTCTATTCCAACAT
* * * **
42183435 TTTTAAGGTTGCCTTAGACGGGTCTATCCTGACCTTTT
66 TTTTAAAGTTGCCTTAAACAGGTCTATCCCAACC--TT
* ** * * *
42183473 TTAAAGATTTCCTTAGACAATGTTTATCCC-A-ATTTTTTTAAGGTTGCCTTTGACAAGGTCTAT
1 TT---G----CCTTAAAC-GGGTCTATCCCAACATTTTTTAAAGGTTGCCTTAGACAAGGTCTAT
* * * *
42183536 CCCAACTTTTTTTAAAAGTTGCCTTAGACAAGGTTTATCCCAACCTTTT
58 TCCAAC-ATTTTT-AAAGTTGCCTTAAAC-AGGTCTATCCCAACC--TT
* * * *
42183585 TAAGGATGCCTTAGACAAGGTCTATCCGAAC-CTTTTT-AAGGTTGCCTTAGACAAGGTCTAT
1 T-----TGCCTTAAAC-GGGTCTATCCCAACATTTTTTAAAGGTTGCCTTAGACAAGGTCTAT
42183646 CCTAACCTGT
Statistics
Matches: 220, Mismatches: 33, Indels: 38
0.76 0.11 0.13
Matches are distributed among these distances:
101 13 0.06
102 66 0.30
103 8 0.04
106 1 0.00
109 34 0.15
110 52 0.24
111 28 0.13
112 16 0.07
114 1 0.00
117 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.38
Consensus pattern (101 bp):
TTGCCTTAAACGGGTCTATCCCAACATTTTTTAAAGGTTGCCTTAGACAAGGTCTATTCCAACAT
TTTTAAAGTTGCCTTAAACAGGTCTATCCCAACCTT
Found at i:42183557 original size:147 final size:146
Alignment explanation
Indices: 42183138--42183647 Score: 423
Period size: 147 Copynumber: 3.6 Consensus size: 146
42183128 TCTTTAGACG
* * * * * * *
42183138 GGTCTA-CCCTAACCTTTTTAGGGTTGCCTTA-A-ACGTGTCTACCCCAACCTTTTTAGGGTTGC
1 GGTCTATCCC-AACCTTTTTAAGGATGCCTTAGACAAG-GTCTATCCGAACCTTTTTAAGATTGC
* * ** * ** ***
42183200 CTTAAAC-ATGTCTATCCCAACCTTTTTAAGGTTGCCTTAGA-TGGGTCTATCCCAACCGTTTTT
64 CTTAGACAAGGTCTATCCCAATTTTTTTAAGGTTGCCTTTGACAAGGTCTATCCCAATATTTTTT
* *
42183263 AAAGGTTGCCTTAGAC-G
129 AAAAGTTGCCTTAGACAA
* ** * * *
42183280 GGTCTATCCCAACCATTTTTAAAGGTTGTTTTA-ACCAAGGTTTATCCTAACATTTTTAA-AGTT
1 GGTCTATCCCAACC-TTTTT-AAGGATGCCTTAGA-CAAGGTCTATCCGAACCTTTTTAAGA-TT
* **
42183343 GCCTTAAACAAGGTCTATCCCAA---CCTT----TTGCC-TT-A-AATGGGTCTATCCCAATATT
62 GCCTTAGACAAGGTCTATCCCAATTTTTTTAAGGTTGCCTTTGACAA--GGTCTATCCCAATATT
* *
42183398 TTTTATAGGTTGCCTTAGACAA
125 TTTTAAAAGTTGCCTTAGACAA
* * * *
42183420 GGTCTATTCCAACCTTTTTAAGGTTGCCTTAGAC-GGGTCTATCCTG-ACCTTTTTTAAAGATTT
1 GGTCTATCCCAACCTTTTTAAGGATGCCTTAGACAAGGTCTATCC-GAACC-TTTTT-AAGATTG
* *
42183483 CCTTAGACAATGTTTATCCCAATTTTTTTAAGGTTGCCTTTGACAAGGTCTATCCCAACT-TTTT
63 CCTTAGACAAGGTCTATCCCAATTTTTTTAAGGTTGCCTTTGACAAGGTCTATCCCAA-TATTTT
42183547 TTAAAAGTTGCCTTAGACAA
127 TTAAAAGTTGCCTTAGACAA
* *
42183567 GGTTTATCCCAACCTTTTTAAGGATGCCTTAGACAAGGTCTATCCGAACCTTTTTAAGGTTGCCT
1 GGTCTATCCCAACCTTTTTAAGGATGCCTTAGACAAGGTCTATCCGAACCTTTTTAAGATTGCCT
42183632 TAGACAAGGTCTATCC
66 TAGACAAGGTCTATCC
42183648 TAACCTGTAT
Statistics
Matches: 296, Mismatches: 44, Indels: 52
0.76 0.11 0.13
Matches are distributed among these distances:
137 11 0.04
138 17 0.06
139 66 0.22
140 14 0.05
142 12 0.04
143 10 0.03
144 10 0.03
145 26 0.09
146 41 0.14
147 73 0.25
148 14 0.05
149 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (146 bp):
GGTCTATCCCAACCTTTTTAAGGATGCCTTAGACAAGGTCTATCCGAACCTTTTTAAGATTGCCT
TAGACAAGGTCTATCCCAATTTTTTTAAGGTTGCCTTTGACAAGGTCTATCCCAATATTTTTTAA
AAGTTGCCTTAGACAA
Found at i:42187898 original size:10 final size:10
Alignment explanation
Indices: 42187883--42187930 Score: 71
Period size: 10 Copynumber: 4.8 Consensus size: 10
42187873 AATTTAGGAT
42187883 TTATCTTTAA
1 TTATCTTTAA
42187893 TTATCTTTAA
1 TTATCTTTAA
42187903 TTATCTTTAA
1 TTATCTTTAA
*
42187913 TTAT-TTGTAT
1 TTATCTT-TAA
42187923 TTATCTTT
1 TTATCTTT
42187931 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:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (10 bp):
TTATCTTTAA
Done.