Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 128 of 345
Found at i:34418913 original size:37 final size:36
Alignment explanation
Indices: 34418858--34418944 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
34418848 AACTTGGAAA
34418858 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
34418896 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
34418933 TATGTCCGGGTA
1 TATGTCCGGGTA
34418945 AGACTTCGCA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:34431651 original size:40 final size:40
Alignment explanation
Indices: 34431551--34431758 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
34431541 CAGAATTTAA
* * * * **
34431551 CCGGATATAATGACTCGCTCAAATGCCTTCGGGACGAAGC
1 CCGGATATAATAACTAGCACAATTGCCTTCGGGACTTAGC
* * * * * *
34431591 CCGGTTATAGTGACTCGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATAACTAGCACAATTGCCTTCGGGACTTAGC
* * ** * * *
34431631 CAGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATAACTAGCACAATTGCCTTCGGGACTTAGC
* *
34431671 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGACTTAGC
1 CCGGATATAATAACTAGCAC-AATTGCCTTCGGGACTTAGC
*
34431711 CCGGATATAATTACTAGCACAATTGCCTTCGGGACTTAGC
1 CCGGATATAATAACTAGCACAATTGCCTTCGGGACTTAGC
34431751 CCGGATAT
1 CCGGATAT
34431759 CATTCCAATG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAATAACTAGCACAATTGCCTTCGGGACTTAGC
Found at i:34431672 original size:80 final size:80
Alignment explanation
Indices: 34431547--34431758 Score: 230
Period size: 80 Copynumber: 2.7 Consensus size: 80
34431537 CCTTCAGAAT
* * * ** * ***
34431547 TTAACC-GGATATAATGACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTGACTCGCAC
1 TTAACCAGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
*
34431611 -AATTGCCTTCGGGTC
66 GAA-TGCCTTCGGGAC
* ** * *
34431626 TTAACCAGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
1 TTAACCAGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
34431691 GAATGCCTTCGGGAC
66 GAATGCCTTCGGGAC
* * * *
34431706 TTAGCCCGGATATAATTACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAACCAGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
34431759 CATTCCAATG
Statistics
Matches: 108, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
79 6 0.06
80 100 0.93
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
TTAACCAGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACAACTCGCAC
GAATGCCTTCGGGAC
Found at i:34446520 original size:71 final size:71
Alignment explanation
Indices: 34446434--34446597 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
34446424 CGATTTGTCT
34446434 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTGAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTGAT
34446499 CTTTCA
66 CTTTCA
*
34446505 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTGAT
34446570 CTTTCA
66 CTTTCA
34446576 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
34446598 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTGAT
CTTTCA
Found at i:34446635 original size:71 final size:70
Alignment explanation
Indices: 34446434--34446631 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
34446424 CGATTTGTCT
* * * *
34446434 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTGAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTGAT
34446499 CTTTCA
65 CTTTCA
* * * * *
34446505 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTGAT
34446570 CTTTCA
65 CTTTCA
* *
34446576 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
34446632 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 95 0.80
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTGATC
TTTCA
Found at i:34451004 original size:3 final size:3
Alignment explanation
Indices: 34450963--34451030 Score: 72
Period size: 3 Copynumber: 23.7 Consensus size: 3
34450953 AAGTAAAAGA
* * *
34450963 AAT AAA AAT AAT AA- AA- AAT AGT ATT AAT AA- AGA- AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
34451005 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
34451031 AAGAACAAGG
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
2 6 0.11
3 51 0.89
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:34459733 original size:39 final size:40
Alignment explanation
Indices: 34459693--34459804 Score: 127
Period size: 40 Copynumber: 2.8 Consensus size: 40
34459683 CGGAGTTTAA
**
34459693 CCGGATATAGCTA-CTCGTTCAAATACCTTCGGGACATAAC
1 CCGGATATAG-TAGCTCGCACAAATACCTTCGGGACATAAC
* * * *
34459733 CCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTATC
1 CCGGATATAGTAGCTCGCACAAATACCTTCGGGACATAAC
* * *
34459773 CCGGATTTAGTAACTCGCACAAATGCCTTCGG
1 CCGGATATAGTAGCTCGCACAAATACCTTCGG
34459805 ATCTTAGTCT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 2 0.03
40 60 0.97
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAGCTCGCACAAATACCTTCGGGACATAAC
Found at i:34459756 original size:40 final size:40
Alignment explanation
Indices: 34459712--34459884 Score: 154
Period size: 40 Copynumber: 4.3 Consensus size: 40
34459702 GCTACTCGTT
* *
34459712 CAAATACCTTCGGGACATAACCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
* *
34459752 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* ** * *
34459792 CAAATGCCTTC-GGATCTTAGTCTGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCGCA
* ** ** *
34459832 CAAATGCCTTC-GGATCTTAGTCTAGATTTAGTAACTCACA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCGCA
*
34459872 CAATTGCCTTCGG
1 CAAATGCCTTCGG
34459885 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.03
40 114 0.95
41 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:34459885 original size:40 final size:40
Alignment explanation
Indices: 34459740--34459907 Score: 216
Period size: 40 Copynumber: 4.2 Consensus size: 40
34459730 AACCCGGTTA
* * **
34459740 TAGTAGCTCGCACAAATGCCTTCGGGA-CTTA-TCCCGGATT
1 TAGTAACTCACACAAATGCCTTC-GGATCTTAGT-CTAGATT
* *
34459780 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCTGGATT
1 TAGTAACTCACACAAATGCCTTCGGATCTTAGTCTAGATT
34459820 TAGTAACTCACACAAATGCCTTCGGATCTTAGTCTAGATT
1 TAGTAACTCACACAAATGCCTTCGGATCTTAGTCTAGATT
* *
34459860 TAGTAACTCACACAATTGCCTTCGGATCTTAGTC-CGAATT
1 TAGTAACTCACACAAATGCCTTCGGATCTTAGTCTAG-ATT
34459900 TAGTAACT
1 TAGTAACT
34459908 TAGCCCACAT
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
39 4 0.03
40 114 0.96
41 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (40 bp):
TAGTAACTCACACAAATGCCTTCGGATCTTAGTCTAGATT
Found at i:34470834 original size:27 final size:27
Alignment explanation
Indices: 34470776--34470834 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
34470766 GAAGTGTACT
*
34470776 ATACTGGTGGCTTTGCCACATATACTG
1 ATACTGGTGGCTTTGCCACATATACAG
*
34470803 TTACTGGTGGCTTTGCCACATATACAG
1 ATACTGGTGGCTTTGCCACATATACAG
34470830 ATACT
1 ATACT
34470835 AGCAGCTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (27 bp):
ATACTGGTGGCTTTGCCACATATACAG
Found at i:34470842 original size:27 final size:27
Alignment explanation
Indices: 34470785--34470843 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
34470775 TATACTGGTG
* * * **
34470785 GCTTTGCCACATATACTGTTACTGGTG
1 GCTTTGCCACATATACAGATACTAGCA
34470812 GCTTTGCCACATATACAGATACTAGCA
1 GCTTTGCCACATATACAGATACTAGCA
34470839 GCTTT
1 GCTTT
34470844 ATTGCGTTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (27 bp):
GCTTTGCCACATATACAGATACTAGCA
Found at i:34471671 original size:14 final size:14
Alignment explanation
Indices: 34471652--34471680 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
34471642 CCAGAAGCAA
34471652 ATAAAATAAAAATT
1 ATAAAATAAAAATT
34471666 ATAAAATAAAAATT
1 ATAAAATAAAAATT
34471680 A
1 A
34471681 AATTAAAAAC
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
ATAAAATAAAAATT
Found at i:34471715 original size:6 final size:6
Alignment explanation
Indices: 34471650--34471700 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
34471640 TTCCAGAAGC
* * *
34471650 AAAT-A AAATAA AAATTATA AAATAA AAATTA AATTAA AAACAA AAATAA
1 AAATAA AAATAA AAA-TA-A AAATAA AAATAA AAATAA AAATAA AAATAA
34471699 AA
1 AA
34471701 TGCAATAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
5 4 0.11
6 25 0.68
7 4 0.11
8 4 0.11
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (6 bp):
AAATAA
Found at i:34472057 original size:17 final size:17
Alignment explanation
Indices: 34472035--34472068 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
34472025 AATACCCAGG
34472035 AAAAAATCCGCCTAGAC
1 AAAAAATCCGCCTAGAC
34472052 AAAAAATCCGCCTAGAC
1 AAAAAATCCGCCTAGAC
34472069 TTCACTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.29, G:0.12, T:0.12
Consensus pattern (17 bp):
AAAAAATCCGCCTAGAC
Found at i:34477814 original size:68 final size:67
Alignment explanation
Indices: 34477742--34477891 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
34477732 CATCATGTGT
* * * *
34477742 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
34477804 ATGTAG
62 ATGTAG
** * *
34477810 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
34477875 AG
66 AG
34477877 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
34477892 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:34477847 original size:64 final size:64
Alignment explanation
Indices: 34477766--34477945 Score: 186
Period size: 67 Copynumber: 2.8 Consensus size: 64
34477756 AGACATTATG
* *
34477766 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
34477830 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
34477895 AA
63 AA
* * * *
34477897 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGA
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGA
34477946 AGCCGAACTA
Statistics
Matches: 94, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 15 0.16
64 21 0.22
65 8 0.09
66 16 0.17
67 31 0.33
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:34485815 original size:43 final size:43
Alignment explanation
Indices: 34485767--34485933 Score: 185
Period size: 43 Copynumber: 3.9 Consensus size: 43
34485757 GTTATCAAGA
* *
34485767 TGTGATTACATGTAAGACCATGTCTGAGACATTCGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
34485810 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * * * **
34485853 TATGATTTCATATAAGACCCTGTCTGGGACAGTGGCA-TCAAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * *
34485895 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATT
34485934 ATGAGAGCTT
Statistics
Matches: 102, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 7 0.07
43 95 0.93
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:34488129 original size:28 final size:23
Alignment explanation
Indices: 34488074--34488120 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
34488064 TAATTTTTAA
34488074 TCACCTTCTTCAAATAAAATGTT
1 TCACCTTCTTCAAATAAAATGTT
34488097 TCACCTTCTTCAAATAAAATGTT
1 TCACCTTCTTCAAATAAAATGTT
34488120 T
1 T
34488121 TTCTTCACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.21, G:0.04, T:0.40
Consensus pattern (23 bp):
TCACCTTCTTCAAATAAAATGTT
Found at i:34493068 original size:12 final size:12
Alignment explanation
Indices: 34493051--34493077 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
34493041 CATTTCCTGT
34493051 TCAAAACACATA
1 TCAAAACACATA
34493063 TCAAAACACATA
1 TCAAAACACATA
34493075 TCA
1 TCA
34493078 CATTTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.26, G:0.00, T:0.19
Consensus pattern (12 bp):
TCAAAACACATA
Found at i:34494187 original size:43 final size:43
Alignment explanation
Indices: 34494140--34494290 Score: 171
Period size: 43 Copynumber: 3.5 Consensus size: 43
34494130 TATCCCAGAT
* *
34494140 ATGGTCTTACAAGTTATCTCATATCGATGCCAATGTCCCAAAC
1 ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAAAC
* * * *
34494183 ATGGTCTTACACGAAATCAT-ATAACGATGTCAATGTCCCAGAC
1 ATGGTCTTACACGTAATC-TCATATCGATGCCAATGTCCCAAAC
* * * *
34494226 ATAGTCTTACACGTAATCACA-ATACAATGCCAATGTCCCACAC
1 ATGGTCTTACACGTAATCTCATAT-CGATGCCAATGTCCCAAAC
*
34494269 ATGGTCTTACATGTAATCTCAT
1 ATGGTCTTACACGTAATCTCAT
34494291 CTTGGAAATC
Statistics
Matches: 88, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
42 1 0.01
43 86 0.98
44 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAAAC
Found at i:34496249 original size:12 final size:12
Alignment explanation
Indices: 34496234--34496267 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
34496224 AAACTGAGCC
34496234 ATAAATATTTTT
1 ATAAATATTTTT
34496246 ATAAATATTTTT
1 ATAAATATTTTT
34496258 ATAAATATTT
1 ATAAATATTT
34496268 ACGGAGAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATAAATATTTTT
Found at i:34498676 original size:21 final size:21
Alignment explanation
Indices: 34498613--34498669 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
34498603 AATCCCCATA
34498613 TGGTGTGTTGATTGGTACGGG
1 TGGTGTGTTGATTGGTACGGG
34498634 TGGTGTGTTGATTGGTACGGG
1 TGGTGTGTTGATTGGTACGGG
*
34498655 TGGTGTGTTGGTTGG
1 TGGTGTGTTGATTGG
34498670 ATTGGGTTGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.07, C:0.04, G:0.49, T:0.40
Consensus pattern (21 bp):
TGGTGTGTTGATTGGTACGGG
Found at i:34508646 original size:5 final size:5
Alignment explanation
Indices: 34508636--34508660 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
34508626 GGTAATTTGA
34508636 TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT
34508661 AAAAACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:34510443 original size:20 final size:20
Alignment explanation
Indices: 34510418--34510456 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
34510408 TTATGCTATA
34510418 TAAATGAAAT-GGAAAGTAAG
1 TAAATGAAATAGG-AAGTAAG
*
34510438 TAAATGGAATAGGAAGTAA
1 TAAATGAAATAGGAAGTAA
34510457 ATAGAGTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.54, C:0.00, G:0.26, T:0.21
Consensus pattern (20 bp):
TAAATGAAATAGGAAGTAAG
Found at i:34510444 original size:15 final size:16
Alignment explanation
Indices: 34510424--34510458 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
34510414 TATATAAATG
*
34510424 AAATGGAA-AGTAAGT
1 AAATGGAATAGGAAGT
34510439 AAATGGAATAGGAAGT
1 AAATGGAATAGGAAGT
34510455 AAAT
1 AAAT
34510459 AGAGTGGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.54, C:0.00, G:0.26, T:0.20
Consensus pattern (16 bp):
AAATGGAATAGGAAGT
Found at i:34511284 original size:2 final size:2
Alignment explanation
Indices: 34511277--34511304 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
34511267 GAGACTAGTC
34511277 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34511305 GTCATGATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34513207 original size:30 final size:30
Alignment explanation
Indices: 34513173--34513233 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
34513163 TCCTTAACTC
34513173 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
34513203 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
34513233 A
1 A
34513234 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:34516085 original size:25 final size:25
Alignment explanation
Indices: 34516056--34516103 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34516046 TTATAATATG
* * *
34516056 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
34516081 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
34516104 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:34516172 original size:20 final size:20
Alignment explanation
Indices: 34516147--34516205 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
34516137 TAAATATGGT
34516147 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
34516167 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
34516187 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
34516206 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:34516187 original size:11 final size:11
Alignment explanation
Indices: 34516151--34516205 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
34516141 TATGGTATGT
34516151 ATGATATGCAC
1 ATGATATGCAC
* *
34516162 ATGAAATG--T
1 ATGATATGCAC
34516171 ATGATATGCAC
1 ATGATATGCAC
*
34516182 ATGATATG--T
1 ATGATATGCAC
34516191 ATGATATGCAC
1 ATGATATGCAC
34516202 ATGA
1 ATGA
34516206 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34516283 original size:24 final size:24
Alignment explanation
Indices: 34516256--34516397 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
34516246 GAGGAAGTGA
34516256 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
34516280 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
34516304 AAAAGGGCTTATG-CCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
34516326 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
34516350 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
34516374 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
34516398 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
22 13 0.12
23 18 0.17
24 67 0.61
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:34516341 original size:46 final size:47
Alignment explanation
Indices: 34516256--34516397 Score: 198
Period size: 46 Copynumber: 3.0 Consensus size: 47
34516246 GAGGAAGTGA
34516256 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
34516304 AAAAGGGCTTATG-CCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
34516350 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
34516398 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
46 34 0.40
47 17 0.20
48 24 0.28
49 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:34516629 original size:31 final size:31
Alignment explanation
Indices: 34516594--34516654 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
34516584 ACAGTAAAGG
34516594 GGCTTCGGCCCAGTAATATGAAATATGAAAA
1 GGCTTCGGCCCAGTAATATGAAATATGAAAA
*
34516625 GGCTTCGGCCCAGTATTATGAAATATGAAA
1 GGCTTCGGCCCAGTAATATGAAATATGAAA
34516655 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
GGCTTCGGCCCAGTAATATGAAATATGAAAA
Found at i:34522830 original size:25 final size:25
Alignment explanation
Indices: 34522801--34522848 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34522791 TTATAATATG
* * *
34522801 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
34522826 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
34522849 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:34522917 original size:20 final size:20
Alignment explanation
Indices: 34522892--34522950 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
34522882 TAAATATGGT
34522892 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
34522912 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
34522932 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
34522951 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:34522932 original size:11 final size:11
Alignment explanation
Indices: 34522896--34522950 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
34522886 TATGGTATGT
34522896 ATGATATGCAC
1 ATGATATGCAC
* *
34522907 ATGAAATG--T
1 ATGATATGCAC
34522916 ATGATATGCAC
1 ATGATATGCAC
*
34522927 ATGATATG--T
1 ATGATATGCAC
34522936 ATGATATGCAC
1 ATGATATGCAC
34522947 ATGA
1 ATGA
34522951 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34523045 original size:23 final size:24
Alignment explanation
Indices: 34523001--34523141 Score: 182
Period size: 24 Copynumber: 6.0 Consensus size: 24
34522991 GAGGAAGTGA
34523001 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
34523025 AAAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
34523048 AAAAGGGCTTATG-CCTAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
34523070 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
34523094 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
34523118 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
34523142 ATGATAAAGC
Statistics
Matches: 106, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
22 13 0.12
23 39 0.37
24 43 0.41
25 11 0.10
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:34523368 original size:31 final size:31
Alignment explanation
Indices: 34523333--34523396 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
34523323 CGTTTACAGT
34523333 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
34523364 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
34523395 AA
1 AA
34523397 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:34524716 original size:29 final size:29
Alignment explanation
Indices: 34524682--34524786 Score: 86
Period size: 29 Copynumber: 3.6 Consensus size: 29
34524672 TACTCGATTT
* * *
34524682 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
34524711 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
34524740 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
34524769 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
34524787 TATTTCCAGC
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:34524774 original size:58 final size:59
Alignment explanation
Indices: 34524720--34524841 Score: 178
Period size: 58 Copynumber: 2.1 Consensus size: 59
34524710 CCGCACACAC
* *
34524720 AGTGCCATACCCTTCGAGC-TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
* * *
34524778 AGTGCCATATATTTCCAGCAT-GCACACTCAGTGCCATAT-TTTCCAGCATGCACACTT
1 AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
34524835 AGTGCCA
1 AGTGCCA
34524842 ATCTCGTCAC
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
57 25 0.43
58 32 0.55
59 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (59 bp):
AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
Found at i:34524829 original size:28 final size:29
Alignment explanation
Indices: 34524741--34524841 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
34524731 CTTCGAGCTC
34524741 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
34524770 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
34524799 GCACACTCAGTGCCATAT-TTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
34524827 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
34524842 ATCTCGTCAC
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
28 24 0.34
29 46 0.66
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:34532671 original size:29 final size:29
Alignment explanation
Indices: 34532637--34532741 Score: 86
Period size: 29 Copynumber: 3.6 Consensus size: 29
34532627 TACTCGATTT
* * *
34532637 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
34532666 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
34532695 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
34532724 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
34532742 TATTTCCAGC
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:34532729 original size:58 final size:59
Alignment explanation
Indices: 34532675--34532797 Score: 178
Period size: 58 Copynumber: 2.1 Consensus size: 59
34532665 CCGCACACAC
* *
34532675 AGTGCCATACCCTTCGAGC-TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
* * * *
34532733 AGTGCCATATATTTCCAGCAT-GCACACTCAGTGCCATATTTTTCCAGCATGCACACTT
1 AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
34532791 AGTGCCA
1 AGTGCCA
34532798 ATCTCGTCAC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
58 57 0.98
59 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.28
Consensus pattern (59 bp):
AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
Found at i:34532742 original size:29 final size:29
Alignment explanation
Indices: 34532696--34532797 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
34532686 CTTCGAGCTC
34532696 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
34532725 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
* *
34532754 GCACACTCAGTGCCATATTTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
34532783 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
34532798 ATCTCGTCAC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:34538207 original size:35 final size:35
Alignment explanation
Indices: 34538161--34538230 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
34538151 TAAAAAGAAA
34538161 ACCTTCGTACCTATAAAAATTTTCAAATGCACCAT
1 ACCTTCGTACCTATAAAAATTTTCAAATGCACCAT
34538196 ACCTTCGTACCTATAAAAATTTTCAAATGCACCAT
1 ACCTTCGTACCTATAAAAATTTTCAAATGCACCAT
34538231 TCTCACAGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (35 bp):
ACCTTCGTACCTATAAAAATTTTCAAATGCACCAT
Found at i:34540573 original size:31 final size:31
Alignment explanation
Indices: 34540530--34540615 Score: 156
Period size: 31 Copynumber: 2.8 Consensus size: 31
34540520 TCAATCTCAG
34540530 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
34540560 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
34540591 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
34540616 TGTACCAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
30 5 0.09
31 48 0.91
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:34540885 original size:26 final size:24
Alignment explanation
Indices: 34540820--34540904 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 24
34540810 CTGGAGGCCT
* *
34540820 AGCCTCTTTTAAT-AACCGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
34540844 AGCCCTCTTTGATAAACTGGGGCAAA
1 AGCCCT-TTTGATAAACTGGGGC-AA
* *
34540870 AGCCCTTTTCGGTAAACTAGGGCAA
1 AGCCCTTTT-GATAAACTGGGGCAA
34540895 AGCCCTTTTG
1 AGCCCTTTTG
34540905 CACTTCCTCC
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.04
24 10 0.19
25 22 0.42
26 19 0.36
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:34540902 original size:25 final size:24
Alignment explanation
Indices: 34540838--34540904 Score: 89
Period size: 26 Copynumber: 2.7 Consensus size: 24
34540828 TTAATAACCG
*
34540838 GGGCAAAGCCCTCTTTGATAAACTG
1 GGGCAAAGCCCT-TTTGATAAACTA
*
34540863 GGGCAAAAGCCCTTTTCGGTAAACTA
1 GGGC-AAAGCCCTTTT-GATAAACTA
34540889 GGGCAAAGCCCTTTTG
1 GGGCAAAGCCCTTTTG
34540905 CACTTCCTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
24 1 0.03
25 18 0.47
26 19 0.50
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (24 bp):
GGGCAAAGCCCTTTTGATAAACTA
Found at i:34540969 original size:18 final size:19
Alignment explanation
Indices: 34540946--34540983 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
34540936 GCATAAATGA
34540946 ATACAT-CATGTGCATATC
1 ATACATACATGTGCATATC
34540964 ATACATAACATGTGCATATC
1 ATACAT-ACATGTGCATATC
34540984 GTATCAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (19 bp):
ATACATACATGTGCATATC
Found at i:34541062 original size:25 final size:25
Alignment explanation
Indices: 34541034--34541081 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34541024 ATAATTAAAC
* **
34541034 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
34541059 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
34541082 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:34544993 original size:12 final size:12
Alignment explanation
Indices: 34544970--34545031 Score: 83
Period size: 11 Copynumber: 5.2 Consensus size: 12
34544960 AAAAAAAAAA
34544970 TTGAACTTTTTTT
1 TTGAA-TTTTTTT
34544983 TTGAATTTTTTT
1 TTGAATTTTTTT
34544995 TTGAA-TTTTTT
1 TTGAATTTTTTT
34545006 TTGAA-TTTTTT
1 TTGAATTTTTTT
*
34545017 TCGAACTTTTTTT
1 TTGAA-TTTTTTT
34545030 TT
1 TT
34545032 CGCAACATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
11 21 0.47
12 12 0.27
13 12 0.27
ACGTcount: A:0.16, C:0.05, G:0.08, T:0.71
Consensus pattern (12 bp):
TTGAATTTTTTT
Found at i:34545004 original size:23 final size:23
Alignment explanation
Indices: 34544972--34545030 Score: 84
Period size: 23 Copynumber: 2.5 Consensus size: 23
34544962 AAAAAAAATT
*
34544972 GAACTTTTTTTTTGAATTTTTTTTT
1 GAAC-TTTTTTTTGAA-TTTTTTTC
34544997 GAA-TTTTTTTTGAATTTTTTTC
1 GAACTTTTTTTTGAATTTTTTTC
34545019 GAACTTTTTTTT
1 GAACTTTTTTTT
34545031 TCGCAACATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 10 0.31
23 19 0.59
25 3 0.09
ACGTcount: A:0.17, C:0.05, G:0.08, T:0.69
Consensus pattern (23 bp):
GAACTTTTTTTTGAATTTTTTTC
Found at i:34545031 original size:15 final size:16
Alignment explanation
Indices: 34545011--34545046 Score: 58
Period size: 14 Copynumber: 2.4 Consensus size: 16
34545001 TTTTTTTGAA
34545011 TTTTTTTCG-AAC-TT
1 TTTTTTTCGCAACATT
34545025 TTTTTTTCGCAACATT
1 TTTTTTTCGCAACATT
34545041 TTTTTT
1 TTTTTT
34545047 AACTGACTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 9 0.45
15 3 0.15
16 8 0.40
ACGTcount: A:0.14, C:0.14, G:0.06, T:0.67
Consensus pattern (16 bp):
TTTTTTTCGCAACATT
Found at i:34551851 original size:18 final size:20
Alignment explanation
Indices: 34551815--34551861 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
34551805 AGTTGTAAGT
34551815 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
34551835 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
34551854 ATGATATA
1 AT-ATATA
34551862 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:34552332 original size:50 final size:50
Alignment explanation
Indices: 34552213--34552557 Score: 330
Period size: 50 Copynumber: 6.8 Consensus size: 50
34552203 GTTGTGAGAA
* * *** * *
34552213 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTGAGACAGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TG-GTTAGGT
* * *
34552265 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
** * * * * * * *
34552315 CGTATGTGTAGTACTAAGTGCAGGCTACTATGCGTGCAAGATAGTTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTTAGGT
* * *
34552366 CACGTATGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
* * * * ** * *
34552416 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAATTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTTAGGT
* * * * *
34552467 CACATCTGTAGTACTAAGTACAGGCTACTACGTGTATCAGATGGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
*
34552517 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
34552558 ACTAAGTGCA
Statistics
Matches: 229, Mismatches: 62, Indels: 6
0.77 0.21 0.02
Matches are distributed among these distances:
50 119 0.52
51 76 0.33
52 34 0.15
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
Found at i:34552407 original size:101 final size:101
Alignment explanation
Indices: 34552213--34552546 Score: 434
Period size: 101 Copynumber: 3.3 Consensus size: 101
34552203 GTTGTGAGAA
* * *** * * *
34552213 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTGAGACAGTTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACAAGATAGTTTT-GATCACGTATGTAGTA
* * *
34552278 CTAAGTGCAGGCTACTACGTATACCAGATTGTTAGGT
65 CTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
** *
34552315 CGTATGTGTAGTACTAAGTGCAGGCTACTATGCGTGCAAGATAGTTTTGATCACGTATGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACAAGATAGTTTTGATCACGTATGTAGTAC
34552380 TAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
66 TAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
** * * * * *
34552416 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAATTTCGATCACATCTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACAAGATAGTTTTGATCACGTATGTAGTAC
* * *
34552481 TAAGTACAGGCTACTACGTGTATCAGATGGATAAGT
66 TAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
*
34552517 CACGTGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
34552547 CGTGTACCAG
Statistics
Matches: 205, Mismatches: 27, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
101 165 0.80
102 40 0.20
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (101 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACAAGATAGTTTTGATCACGTATGTAGTAC
TAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
Found at i:34552520 original size:151 final size:152
Alignment explanation
Indices: 34552219--34552557 Score: 373
Period size: 151 Copynumber: 2.2 Consensus size: 152
34552209 AGAACACATG
* * * * * *
34552219 TGTAGTACTATGTGCAGGCTACTATGTGTTTGAGACAGTTTTAGGTCACGTGTGTAGTACTAAGT
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACAGTGTTAGGTCACATGTGTAGTACTAAGT
* * ** * *
34552284 GCAGGCTACTACGTATACCAGATTGTTAGGTCGTATGTGTAGTACTAAGTGCAGGCTACTATGCG
66 GCAGGCTACTACGCATACCAGATTGTTAGATCACATCTGTAGTACTAAGTACAGGCTACTA-GCG
* **
34552349 TGCAAGATAGTTTTGATCACGTA
130 TGCAAGATAGATAAGATCACGTA
*
34552372 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TG-GTTAGGTCACATGTGTAGTACTAAGT
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACAGTGTTAGGTCACATGTGTAGTACTAAGT
* * * * *
34552435 GCAGGCTACTATGCGTACCCG-TTAATTTCGATCACATCTGTAGTACTAAGTACAGGCTACTA-C
66 GCAGGCTACTACGCATACCAGATT--GTTAGATCACATCTGTAGTACTAAGTACAGGCTACTAGC
* * *
34552498 GTGTATCAGATGGATAAG-TCACGTG
129 GTGCA--AGATAGATAAGATCACGTA
*
34552523 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
1 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA
34552558 ACTAAGTGCA
Statistics
Matches: 157, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
150 7 0.04
151 81 0.52
152 38 0.24
153 31 0.20
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (152 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACAGTGTTAGGTCACATGTGTAGTACTAAGT
GCAGGCTACTACGCATACCAGATTGTTAGATCACATCTGTAGTACTAAGTACAGGCTACTAGCGT
GCAAGATAGATAAGATCACGTA
Found at i:34552583 original size:29 final size:29
Alignment explanation
Indices: 34552529--34552586 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
34552519 CGTGTGTAGT
**
34552529 ACTAAGTGCAGGCTACTACGTGTACCAGA
1 ACTAAGTGCAGGCTACTACGCATACCAGA
**
34552558 ACTAAGTGCAGGCTACTTTGCATACCAGA
1 ACTAAGTGCAGGCTACTACGCATACCAGA
34552587 GAGCTTCGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (29 bp):
ACTAAGTGCAGGCTACTACGCATACCAGA
Found at i:34563449 original size:47 final size:47
Alignment explanation
Indices: 34563352--34563476 Score: 164
Period size: 47 Copynumber: 2.7 Consensus size: 47
34563342 GGAATGGAAA
* * *
34563352 AACGTGGTGCTAAGTGGATATACCACGATTACCATGTTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACCATATTAATACATGT
* * *
34563399 AACGTGGTGCTAAGTGGATATGCCATGGTTA-CATATATCAATTCAT-T
1 AACGTGGTGCTAAGTGGATATACCACGGTTACCATAT-T-AATACATGT
34563446 AACGTGGTGCTAAGTGGATATACCACGGTTA
1 AACGTGGTGCTAAGTGGATATACCACGGTTA
34563477 AACATTTAAC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 4 0.06
47 59 0.87
48 5 0.07
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (47 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTACCATATTAATACATGT
Found at i:34563502 original size:38 final size:39
Alignment explanation
Indices: 34563444--34563524 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 39
34563434 TATCAATTCA
* * *
34563444 TTAACGTGGTGCTAAGTGGATATACCACGGTTAAACAT-
1 TTAACATGGTGCCAAATGGATATACCACGGTTAAACATG
* * *
34563482 TTAACATGGTGCCAAATGGATATGCCGCGGTTATACATG
1 TTAACATGGTGCCAAATGGATATACCACGGTTAAACATG
34563521 TTAA
1 TTAA
34563525 TTTGAAAAGT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
38 32 0.89
39 4 0.11
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (39 bp):
TTAACATGGTGCCAAATGGATATACCACGGTTAAACATG
Found at i:34568850 original size:17 final size:19
Alignment explanation
Indices: 34568808--34568851 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
34568798 ATGAAATTTT
*
34568808 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
34568827 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
34568845 AA-TATTA
1 AATTATTA
34568852 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:34570697 original size:28 final size:28
Alignment explanation
Indices: 34570664--34570732 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
34570654 GCGTAGATCA
34570664 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
34570692 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
34570720 CGATA-TACCCCTA
1 CGAAATTACCCCTA
34570733 GAGTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 8 0.21
28 30 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:34572362 original size:38 final size:38
Alignment explanation
Indices: 34572311--34572519 Score: 184
Period size: 38 Copynumber: 5.0 Consensus size: 38
34572301 GGAATGGAAG
34572311 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
*
34572349 AACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACG---------GTT-ATACATGT
* * * *
34572397 AACATGGTGCTAAGTGGATATTCCACGATTACATATATCGATTAATT
1 AACGTGGTGCTAAGTGGATATACCACG-GT---TATA-C-A-T--GT
*
34572444 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
*
34572482 AACGTGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
34572520 TAATTTGAAA
Statistics
Matches: 140, Mismatches: 13, Indels: 36
0.74 0.07 0.19
Matches are distributed among these distances:
38 64 0.46
40 2 0.01
41 1 0.01
42 4 0.03
43 5 0.04
44 1 0.01
45 1 0.01
46 1 0.01
47 28 0.20
48 33 0.24
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:34572470 original size:47 final size:48
Alignment explanation
Indices: 34572341--34572479 Score: 201
Period size: 48 Copynumber: 2.9 Consensus size: 48
34572331 TACCACGGTT
*
34572341 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATCG
* * *
34572389 ATACATGTAACATGGTGCTAAGTGGATATTCCACGATTACATATATCG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATCG
* *
34572437 ATTA-AT-TAACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 A-TACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACAT
34572480 GTAACGTGGT
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
47 32 0.40
48 47 0.58
49 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATCG
Found at i:34580782 original size:35 final size:35
Alignment explanation
Indices: 34580736--34580805 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
34580726 TCGAGTCAGA
34580736 ATCTCTCCAACGATTTCTTCGCTTTAAGTTAAGCT
1 ATCTCTCCAACGATTTCTTCGCTTTAAGTTAAGCT
34580771 ATCTCTCCAACGATTTCTTCGCTTTAAGTTAAGCT
1 ATCTCTCCAACGATTTCTTCGCTTTAAGTTAAGCT
34580806 TCAAGAGGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (35 bp):
ATCTCTCCAACGATTTCTTCGCTTTAAGTTAAGCT
Found at i:34583039 original size:20 final size:18
Alignment explanation
Indices: 34582992--34583040 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
34582982 TAGAATGTAC
34582992 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
34583009 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
34583029 ATTAAATTAATA
1 ATTAAATTAATA
34583041 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:34590468 original size:51 final size:51
Alignment explanation
Indices: 34590408--34590506 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
34590398 TTAGGTTGAT
34590408 TTGTTTCTTGATATAAATAACAGTTTTAACCCAATTAACCATTTAAAACAA
1 TTGTTTCTTGATATAAATAACAGTTTTAACCCAATTAACCATTTAAAACAA
* * * *
34590459 TTGTTTCTTGATGTAAATAATATTTTTAACTCAATTAACCATTTAAAA
1 TTGTTTCTTGATATAAATAACAGTTTTAACCCAATTAACCATTTAAAA
34590507 AAACTTAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.41
Consensus pattern (51 bp):
TTGTTTCTTGATATAAATAACAGTTTTAACCCAATTAACCATTTAAAACAA
Found at i:34595747 original size:11 final size:11
Alignment explanation
Indices: 34595731--34595783 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
34595721 GTGGGATATA
34595731 ATATGCACATG
1 ATATGCACATG
34595742 ATATG--CATG
1 ATATGCACATG
34595751 ATATGCACATG
1 ATATGCACATG
*
34595762 ATATG--TATG
1 ATATGCACATG
*
34595771 AAATGCACATG
1 ATATGCACATG
34595782 AT
1 AT
34595784 GTAATCATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 16 0.47
11 18 0.53
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (11 bp):
ATATGCACATG
Found at i:34595756 original size:20 final size:20
Alignment explanation
Indices: 34595731--34595783 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
34595721 GTGGGATATA
34595731 ATATGCACATGATATGCATG
1 ATATGCACATGATATGCATG
*
34595751 ATATGCACATGATATGTATG
1 ATATGCACATGATATGCATG
*
34595771 AAATGCACATGAT
1 ATATGCACATGAT
34595784 GTAATCATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (20 bp):
ATATGCACATGATATGCATG
Found at i:34595861 original size:25 final size:25
Alignment explanation
Indices: 34595833--34595918 Score: 79
Period size: 26 Copynumber: 3.4 Consensus size: 25
34595823 GAGGAAGTGC
34595833 AAAAGGGCTATGCCCTAGTTTATTG
1 AAAAGGGCTATGCCCTAGTTTATTG
* * *
34595858 AAAAGGGCTTATGCCCCAATTTACTG
1 AAAAGGGC-TATGCCCTAGTTTATTG
*
34595884 AAAAAGGGCTTTG-CCTCAG-TTATT-
1 -AAAAGGGCTATGCCCT-AGTTTATTG
34595908 AAAAGAGGCTA
1 AAAAG-GGCTA
34595919 GGCCTCCAGA
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
23 5 0.10
24 4 0.08
25 14 0.29
26 18 0.37
27 8 0.16
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTATGCCCTAGTTTATTG
Found at i:34595880 original size:26 final size:27
Alignment explanation
Indices: 34595833--34595898 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 27
34595823 GAGGAAGTGC
* * *
34595833 AAAAGGGC-TATGCCCTAGTTTATTG-
1 AAAAGGGCTTATGCCCCAATTTACTGA
34595858 AAAAGGGCTTATGCCCCAATTTACTGA
1 AAAAGGGCTTATGCCCCAATTTACTGA
34595885 AAAAGGGCTT-TGCC
1 AAAAGGGCTTATGCC
34595899 TCAGTTATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.22
26 18 0.50
27 10 0.28
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (27 bp):
AAAAGGGCTTATGCCCCAATTTACTGA
Found at i:34596933 original size:47 final size:47
Alignment explanation
Indices: 34596852--34596985 Score: 180
Period size: 47 Copynumber: 2.9 Consensus size: 47
34596842 TGGGGTGTTA
*
34596852 CATATAAGACCATAGT-TGGGCTATGGCATTGGTGTGATATGAGCTTC
1 CATATAAGACCATA-TCTGGGATATGGCATTGGTGTGATATGAGCTTC
* * *
34596899 CATATAAGACCATATCTGGGATATGACATCGGTGTGATATGTGCTTC
1 CATATAAGACCATATCTGGGATATGGCATTGGTGTGATATGAGCTTC
** * *
34596946 TGTGTAAGACCATATCTGGGATATGGCATTAGTGTGATAT
1 CATATAAGACCATATCTGGGATATGGCATTGGTGTGATAT
34596986 ATAATCCGTG
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
46 1 0.01
47 75 0.99
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (47 bp):
CATATAAGACCATATCTGGGATATGGCATTGGTGTGATATGAGCTTC
Found at i:34603795 original size:40 final size:39
Alignment explanation
Indices: 34603668--34603797 Score: 154
Period size: 40 Copynumber: 3.3 Consensus size: 39
34603658 ATGCTGGAAA
* *
34603668 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * * *
34603708 CTACATCCGGGCTAAGACCCAAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
34603748 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
34603788 TTATATCCGG
1 TTATATCCGG
34603798 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.05
40 71 0.95
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:34611760 original size:40 final size:40
Alignment explanation
Indices: 34611701--34611908 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 40
34611691 CAATTGAATG
* * *
34611701 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
34611741 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
34611781 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
34611821 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
34611861 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
34611901 ATATCCGG
1 ATATCCGG
34611909 TTGTAATCCG
Statistics
Matches: 145, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 145 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:34611839 original size:80 final size:80
Alignment explanation
Indices: 34611703--34611908 Score: 261
Period size: 80 Copynumber: 2.6 Consensus size: 80
34611693 ATTGAATGAT
* * * * * *
34611703 ATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
*
34611768 TGTGCTAGT-GACTAC
66 TGTGCAAGTCG-CTAC
* * * *
34611783 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
* *
34611848 TGTGCAAGTCGTTAT
66 TGTGCAAGTCGCTAC
* *
34611863 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
34611909 TTGTAATCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
80 108 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTCGCTAC
Found at i:34616191 original size:20 final size:19
Alignment explanation
Indices: 34616153--34616191 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
34616143 TCTTTCTTGG
**
34616153 TTAACTCAGGGTTTCTCGA
1 TTAACTCAGGGAATCTCGA
34616172 TTAACTCAGGGCAATCTCGA
1 TTAACTCAGGG-AATCTCGA
34616192 ATAAAGTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (19 bp):
TTAACTCAGGGAATCTCGA
Found at i:34621021 original size:2 final size:2
Alignment explanation
Indices: 34621014--34621051 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
34621004 CCATATGCAC
34621014 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34621052 CACCAAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34622801 original size:24 final size:24
Alignment explanation
Indices: 34622774--34622851 Score: 102
Period size: 24 Copynumber: 3.2 Consensus size: 24
34622764 AAGGCTGTCA
34622774 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
34622798 GGAGAGGATTTAGAAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * * *
34622822 GGAGAGGATTTAGGAGTTGGTTAG
1 GGAGAAGATTTAGGAGCTGATAAG
34622846 GGAGAA
1 GGAGAA
34622852 CGGTGTTGGT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.35, C:0.03, G:0.41, T:0.22
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:34623858 original size:16 final size:15
Alignment explanation
Indices: 34623833--34623862 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
34623823 CTAGATCGGC
34623833 GAAAGCCGAAAAGTT
1 GAAAGCCGAAAAGTT
34623848 GAAATGCCGAAAAGT
1 GAAA-GCCGAAAAGT
34623863 CGGTATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.13, G:0.27, T:0.13
Consensus pattern (15 bp):
GAAAGCCGAAAAGTT
Found at i:34623984 original size:160 final size:160
Alignment explanation
Indices: 34623720--34624039 Score: 604
Period size: 160 Copynumber: 2.0 Consensus size: 160
34623710 AGTTCATTTC
*
34623720 GGTAGTTAGATTAACGTGGTAGTAATATGATTGTAGGTAGTTCGTGCGTGGATCTCGTCAATGAA
1 GGTAGTTAGATTAACGTGGTAGTAATATGATTGTAGGCAGTTCGTGCGTGGATCTCGTCAATGAA
**
34623785 TCATTGCAAATAGGTGTGTAACTGACACCTCTCATAGACTAGATCGGCGAAAGCCGAAAAGTTGA
66 TCATTGCAAATAGGTGTGTAACTGACACCTCTCATAGACTAGATCGGCGAAAGCCGAAAAGCCGA
34623850 AATGCCGAAAAGTCGGTATTTTGGGAACTT
131 AATGCCGAAAAGTCGGTATTTTGGGAACTT
34623880 GGTAGTTAGATTAACGTGGTAGTAATATGATTGTAGGCAGTTCGTGCGTGGATCTCGTCAATGAA
1 GGTAGTTAGATTAACGTGGTAGTAATATGATTGTAGGCAGTTCGTGCGTGGATCTCGTCAATGAA
*
34623945 TCGTTGCAAATAGGTGTGTAACTGACACCTCTCATAGACTAGATCGGCGAAAGCCGAAAAGCCGA
66 TCATTGCAAATAGGTGTGTAACTGACACCTCTCATAGACTAGATCGGCGAAAGCCGAAAAGCCGA
34624010 AATGCCGAAAAGTCGGTATTTTGGGAACTT
131 AATGCCGAAAAGTCGGTATTTTGGGAACTT
34624040 ACGAGTGTGC
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
160 156 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (160 bp):
GGTAGTTAGATTAACGTGGTAGTAATATGATTGTAGGCAGTTCGTGCGTGGATCTCGTCAATGAA
TCATTGCAAATAGGTGTGTAACTGACACCTCTCATAGACTAGATCGGCGAAAGCCGAAAAGCCGA
AATGCCGAAAAGTCGGTATTTTGGGAACTT
Found at i:34624018 original size:16 final size:15
Alignment explanation
Indices: 34623992--34624021 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
34623982 ACTAGATCGG
34623992 CGAAAGCCGAAAAGC
1 CGAAAGCCGAAAAGC
34624007 CGAAATGCCGAAAAG
1 CGAAA-GCCGAAAAG
34624022 TCGGTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.23, G:0.27, T:0.03
Consensus pattern (15 bp):
CGAAAGCCGAAAAGC
Found at i:34624479 original size:27 final size:26
Alignment explanation
Indices: 34624439--34624549 Score: 132
Period size: 27 Copynumber: 4.2 Consensus size: 26
34624429 AGGAAACGTC
* *
34624439 CTGGTGGCTATGCCAAAATTATCTGAT
1 CTGGTGGCTCTGCC-AAATTATCTGTT
*
34624466 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCAAAT-TATCTGTT
* *
34624493 CTGGTAGCTCTGCCACAAATATCTGTT
1 CTGGTGGCTCTGCCA-AATTATCTGTT
* *
34624520 CTGGTGGCTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCAAATTATCTGTT
34624546 CTGG
1 CTGG
34624550 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 16 0.22
27 55 0.76
28 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCAAATTATCTGTT
Found at i:34624523 original size:54 final size:53
Alignment explanation
Indices: 34624439--34624558 Score: 161
Period size: 54 Copynumber: 2.2 Consensus size: 53
34624429 AGGAAACGTC
*
34624439 CTGGTGGCTATGCCAAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTAGCTATGCCAAAATTATCTGATCTGGTGGCTCTGCCACAT-TATCTGTT
* * *
34624493 CTGGTAGCTCTGCCACAAA-TATCTGTTCTGGTGGCTCTGTCACATTATCTGTT
1 CTGGTAGCTATGCCA-AAATTATCTGATCTGGTGGCTCTGCCACATTATCTGTT
* *
34624546 CTGGCAGCCATGC
1 CTGGTAGCTATGC
34624559 TGCATATTTC
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
53 18 0.31
54 37 0.64
55 3 0.05
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (53 bp):
CTGGTAGCTATGCCAAAATTATCTGATCTGGTGGCTCTGCCACATTATCTGTT
Found at i:34630390 original size:29 final size:30
Alignment explanation
Indices: 34630357--34630414 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
34630347 AAATCGATTT
*
34630357 TCAA-GCCTAAGGTTAAAATGGTCATTTTG
1 TCAAGGCCTAAGGGTAAAATGGTCATTTTG
* *
34630386 TCAAGGTCTAGGGGTAAAATGGTCATTTT
1 TCAAGGCCTAAGGGTAAAATGGTCATTTT
34630415 ACCAAAGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.34
Consensus pattern (30 bp):
TCAAGGCCTAAGGGTAAAATGGTCATTTTG
Found at i:34632143 original size:21 final size:21
Alignment explanation
Indices: 34632104--34632144 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
34632094 TTGAAATGAT
34632104 CACACGGGCATGTTGCCCCTCC
1 CACACGGG-ATGTTGCCCCTCC
34632126 CACACGGG-TGTGTGCCCCT
1 CACACGGGATGT-TGCCCCT
34632145 GTGTCAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 7 0.39
22 8 0.44
ACGTcount: A:0.12, C:0.41, G:0.27, T:0.20
Consensus pattern (21 bp):
CACACGGGATGTTGCCCCTCC
Found at i:34645836 original size:42 final size:41
Alignment explanation
Indices: 34645777--34645900 Score: 135
Period size: 43 Copynumber: 3.0 Consensus size: 41
34645767 GTAATTTAAT
* * *
34645777 ATCGATGCCTCTGTCCCAGGCAGGGTCTTACACAAA-ATCA
1 ATCGATGCCTATGTCCCAGACACGGTCTTACACAAATATCA
* * *
34645817 GATACGATGCCGATGTCCCAGACATGGTCTTATACGTAAATATCA
1 -AT-CGATGCCTATGTCCCAGACACGGTCTTACAC--AAATATCA
*
34645862 ATCGAAGCCTATGTCCCAGACACGGTCTTACAC-AATATC
1 ATCGATGCCTATGTCCCAGACACGGTCTTACACAAATATC
34645901 TCAAATAGAT
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
40 6 0.09
41 2 0.03
42 26 0.37
43 27 0.39
44 5 0.07
45 4 0.06
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (41 bp):
ATCGATGCCTATGTCCCAGACACGGTCTTACACAAATATCA
Found at i:34649540 original size:46 final size:46
Alignment explanation
Indices: 34649433--34649549 Score: 121
Period size: 46 Copynumber: 2.5 Consensus size: 46
34649423 TGAGAGCTAG
* * * *
34649433 TGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGAGTGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGAGTGCCAA
* * *
34649481 TGTAAAACGTGTCTGGGACATGCATCGGCCTCGAGAC-A-TAAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGT--GCCAA
34649527 TGTAAGACATGTCTGGGACATGC
1 TGTAAGACATGTCTGGGACATGC
34649550 GTTGGCTACG
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
44 1 0.02
45 1 0.02
46 37 0.64
47 13 0.22
48 6 0.10
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGTGCCAA
Found at i:34651180 original size:28 final size:28
Alignment explanation
Indices: 34651125--34651180 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
34651115 TTATTTCCCA
* *
34651125 AAATAAACATCTCAATACATTTCCAATT
1 AAATAAACATCTCAATACAATTCAAATT
* * *
34651153 AAATAATCTTCTCAATCCAATTCAAATT
1 AAATAAACATCTCAATACAATTCAAATT
34651181 CTGTTAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (28 bp):
AAATAAACATCTCAATACAATTCAAATT
Found at i:34651341 original size:7 final size:6
Alignment explanation
Indices: 34651326--34651368 Score: 68
Period size: 6 Copynumber: 6.8 Consensus size: 6
34651316 CATTTTTAAG
34651326 TCATTT TCATTTT TCATTTT TCATTT TCATTT TCATTT TCATT
1 TCATTT TCA-TTT TCA-TTT TCATTT TCATTT TCATTT TCATT
34651369 GTAGAGAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 23 0.64
7 13 0.36
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (6 bp):
TCATTT
Found at i:34653518 original size:199 final size:200
Alignment explanation
Indices: 34653280--34653682 Score: 684
Period size: 200 Copynumber: 2.0 Consensus size: 200
34653270 TAAATACTTA
* * * *
34653280 ATAATTATCAAAAATTCAGAATAAAAAATAATAAAATAATAATAGCTAATAAATACAATATTGGG
1 ATAATTATCAAAAACTCAAAATAAAAAATAATAAAATAATAAGAGCTAATAAATACAACATTGGG
* * *
34653345 CTTATATATAAT-AAAAATTAAACCTAAAACACGAACCCAGTATGATTTAAACTCGAACTAAAAG
66 CTCATATATAATAAAAAATTAAACCTAAAACACGAACCCAATATAATTTAAACTCGAACTAAAAG
*
34653409 CTCAAAACTCATAATTT-TCGTAATAATCCCGTCCAAAAATTGTACTCGTGCGTTCATCACTAAA
131 CTCAAAACTCATAATTTCT-GTAATAATCCCGTCCAAAAATTATACTCGTGCGTTCATCACTAAA
*
34653473 TTGGTC
195 ATGGTC
34653479 ATAATTATCAAAAACTCAAAATAAAAAATAATAAAATAATAAGAGCTAATAAATACAACATTGGG
1 ATAATTATCAAAAACTCAAAATAAAAAATAATAAAATAATAAGAGCTAATAAATACAACATTGGG
*
34653544 CTCATATATAATAAAAAATTAAACCTAAAACACGAACCCAATATAATTTAAACTTGAACTAAAAG
66 CTCATATATAATAAAAAATTAAACCTAAAACACGAACCCAATATAATTTAAACTCGAACTAAAAG
*
34653609 CTCAAAACTCATAATTTCTGTGATAATCCCGTCCAAAAATTATACTCGTGCGTTCATCACTAAAA
131 CTCAAAACTCATAATTTCTGTAATAATCCCGTCCAAAAATTATACTCGTGCGTTCATCACTAAAA
34653674 TGGTC
196 TGGTC
34653679 ATAA
1 ATAA
34653683 CTTGAGTTCT
Statistics
Matches: 191, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
199 72 0.38
200 118 0.62
201 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (200 bp):
ATAATTATCAAAAACTCAAAATAAAAAATAATAAAATAATAAGAGCTAATAAATACAACATTGGG
CTCATATATAATAAAAAATTAAACCTAAAACACGAACCCAATATAATTTAAACTCGAACTAAAAG
CTCAAAACTCATAATTTCTGTAATAATCCCGTCCAAAAATTATACTCGTGCGTTCATCACTAAAA
TGGTC
Found at i:34657994 original size:40 final size:40
Alignment explanation
Indices: 34657932--34658187 Score: 385
Period size: 40 Copynumber: 6.4 Consensus size: 40
34657922 AAACCAAGTA
* * *
34657932 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
34657971 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
34658011 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34658051 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
34658091 CCTTCGGGACTTAGCTCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
34658131 CCTTTGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
34658171 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
34658188 CGTTATCATC
Statistics
Matches: 201, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.07
40 187 0.93
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34662253 original size:344 final size:344
Alignment explanation
Indices: 34661626--34662313 Score: 1225
Period size: 344 Copynumber: 2.0 Consensus size: 344
34661616 TTGAAAGAAG
* * *
34661626 GGCAATATTTTCAGCTCACTAGAAGCACTATTAGTTTTAATTTATTGGATCGAGTGCAGGAATCA
1 GGCAATATTTTCAGCTCACTAGAAGCACTATTAGTTTCAATTTATTGGATCAAGTGCAAGAATCA
*
34661691 TAATTGGTGGACCCTAAAGCTCAGAGGTTATGTTCAGAGGTACAACAGTAAGGTTCTAAACATCC
66 TAATTGGTGGACCCTAAAGCTCAGAGGTTATGTTCAGAGGTACAACAGTAAGGTTCCAAACATCC
* *
34661756 AAAATACTCCTGGGATGGTAGGTTCCTCAGAAGAAAAGGGAAGATTATGGTGGGAAATGTTGCTG
131 AAAATACTCCTGGGATGGAAGGTTCCTCAGAAAAAAAGGGAAGATTATGGTGGGAAATGTTGCTG
* * *
34661821 GTCTCAAGAAGGAATTGTTTCAGCTCTTCTGTGATAGCACTCTAGGGGGACATTCAGGGGTAAAT
196 GTCTCAAGAAGGAATTGTTTCAGCTCTTCTGTAATAGCACTCTAGAGGGACATTCAAGGGTAAAT
34661886 GCAACTAAAAAGAGACTAACAAGCCTTGTATACTAGAAAAGCCTTACCACTGATGTCAAAAGATA
261 GCAACTAAAAAGAGACTAACAAGCCTTGTATACTAGAAAAGCCTTACCACTGATGTCAAAAGATA
34661951 GGTAAGAGAATGTCAGATA
326 GGTAAGAGAATGTCAGATA
*
34661970 GGCAATATTTTCAGCTCACTAGAAGCACTATTAGTTTCAATTTATTGGCTCAAGTGCAAGAATCA
1 GGCAATATTTTCAGCTCACTAGAAGCACTATTAGTTTCAATTTATTGGATCAAGTGCAAGAATCA
* *
34662035 TATTTGGTGTACCCTAAAGCTCAGAGGTTATGTTCAGAGGTACAACAGTAAGGTTCCAAACATCC
66 TAATTGGTGGACCCTAAAGCTCAGAGGTTATGTTCAGAGGTACAACAGTAAGGTTCCAAACATCC
34662100 AAAATACTCCT-GGATGGAAGGTTCCTCAGAAAAAAAAGGGAAGATTATGGTGGGAAATGTTGCT
131 AAAATACTCCTGGGATGGAAGGTTCCTCAG-AAAAAAAGGGAAGATTATGGTGGGAAATGTTGCT
*
34662164 GGTCTCAAGAAGGAATTGTTTTAGCTCTTCTGTAATAGCACTCTAGAGGGACATTCAAGGGTAAA
195 GGTCTCAAGAAGGAATTGTTTCAGCTCTTCTGTAATAGCACTCTAGAGGGACATTCAAGGGTAAA
* *
34662229 TGCAACTAAGAAGAGACTAACAAGCCTTGTATACTAGAAAAGCCTTACCACTGATGTCAAGAGAT
260 TGCAACTAAAAAGAGACTAACAAGCCTTGTATACTAGAAAAGCCTTACCACTGATGTCAAAAGAT
34662294 AGGTAAGAGAATGTCAGATA
325 AGGTAAGAGAATGTCAGATA
34662314 TCTCAAAAAT
Statistics
Matches: 328, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
343 17 0.05
344 311 0.95
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.26
Consensus pattern (344 bp):
GGCAATATTTTCAGCTCACTAGAAGCACTATTAGTTTCAATTTATTGGATCAAGTGCAAGAATCA
TAATTGGTGGACCCTAAAGCTCAGAGGTTATGTTCAGAGGTACAACAGTAAGGTTCCAAACATCC
AAAATACTCCTGGGATGGAAGGTTCCTCAGAAAAAAAGGGAAGATTATGGTGGGAAATGTTGCTG
GTCTCAAGAAGGAATTGTTTCAGCTCTTCTGTAATAGCACTCTAGAGGGACATTCAAGGGTAAAT
GCAACTAAAAAGAGACTAACAAGCCTTGTATACTAGAAAAGCCTTACCACTGATGTCAAAAGATA
GGTAAGAGAATGTCAGATA
Found at i:34666782 original size:14 final size:14
Alignment explanation
Indices: 34666763--34666800 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
34666753 AACAATTTAA
34666763 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
*
34666777 TTTTTTTATTTTTC
1 TTTTTTTCTTTTTC
*
34666791 TTTTCTTCTT
1 TTTTTTTCTT
34666801 CCCATTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTTTCTTTTTC
Found at i:34669378 original size:23 final size:22
Alignment explanation
Indices: 34669325--34669379 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
34669315 TTGTGAGTAA
*
34669325 AATAAAATTAAAATATATAAAT
1 AATACAATTAAAATATATAAAT
*
34669347 ACATCCAATTAAGAATAT-TAAAT
1 A-ATACAATTAA-AATATATAAAT
34669370 GAATACAATT
1 -AATACAATT
34669380 GTTTATCGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
22 1 0.04
23 20 0.74
24 6 0.22
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.31
Consensus pattern (22 bp):
AATACAATTAAAATATATAAAT
Found at i:34679957 original size:20 final size:20
Alignment explanation
Indices: 34679928--34679970 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
34679918 GTTGAAATGG
34679928 TTGTGGAT-AATTGGCATGAT
1 TTGTGGATAAATT-GCATGAT
* *
34679948 TTGTGTATAAATTGCATGTT
1 TTGTGGATAAATTGCATGAT
34679968 TTG
1 TTG
34679971 GCTGCCCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.23, C:0.05, G:0.26, T:0.47
Consensus pattern (20 bp):
TTGTGGATAAATTGCATGAT
Found at i:34683333 original size:53 final size:54
Alignment explanation
Indices: 34683248--34683454 Score: 200
Period size: 53 Copynumber: 3.8 Consensus size: 54
34683238 TTCTTTTTTA
* *
34683248 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * * ** *
34683301 AACTCACCATTGCCATGGCTTGGCATGGTCTTACATGGGATCTTTGTGTTATCG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** ** * * * * *
34683355 TAGTTTATGAATGCCATGTCTTGACATGGTCTTACATGATTTCTTTGCCTTGTAA
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
34683410 AACTTACCAATGCCATGTCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
34683455 AAACCCTAAT
Statistics
Matches: 119, Mismatches: 33, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 44 0.37
54 37 0.31
55 38 0.32
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:34687423 original size:40 final size:40
Alignment explanation
Indices: 34687344--34687501 Score: 160
Period size: 40 Copynumber: 4.0 Consensus size: 40
34687334 TTCGAATGAT
* * * *
34687344 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
34687384 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
34687424 ATCCGAACTAAGATCCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
**
34687464 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
34687502 GTAACCGGGC
Statistics
Matches: 97, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 1 0.01
40 90 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:34687510 original size:40 final size:40
Alignment explanation
Indices: 34687344--34687528 Score: 146
Period size: 40 Copynumber: 4.6 Consensus size: 40
34687334 TTCGAATGAT
* * *
34687344 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGAGC-GAGCT-ACTAA
* * * * *
34687384 ATCCGGACTAAGAT-CCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGAGCGAGCTACTAA
** *
34687424 ATCCGAACTAAGAT-CCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGAGCGAGCTACTAA
* * * *
34687464 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTGTA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGCTACT-AA
*
34687505 A-CCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATT
34687529 TGAATGTGTA
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 1 0.01
40 110 0.92
41 9 0.08
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGCTACTAA
Found at i:34687522 original size:80 final size:80
Alignment explanation
Indices: 34687344--34687531 Score: 197
Period size: 80 Copynumber: 2.3 Consensus size: 80
34687334 TTCGAATGAT
* *
34687344 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
34687409 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
** * **
34687424 ATCCGAACTAAGAT-CCGAAGGCTTTCGAGC-GAGCT-ACTAAATCCGGGTTAAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
34687485 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
34687505 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
34687532 ATGTGTAGCC
Statistics
Matches: 89, Mismatches: 12, Indels: 14
0.77 0.10 0.12
Matches are distributed among these distances:
79 2 0.02
80 77 0.87
81 10 0.11
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:34701889 original size:45 final size:45
Alignment explanation
Indices: 34701825--34701997 Score: 206
Period size: 45 Copynumber: 3.8 Consensus size: 45
34701815 TGTAACCCGC
*
34701825 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
*
34701870 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** * * *
34701916 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
*
34701962 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
34701998 ATGCCCAAAC
Statistics
Matches: 107, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 63 0.59
46 10 0.09
47 26 0.24
48 3 0.03
49 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:34701944 original size:92 final size:92
Alignment explanation
Indices: 34701833--34702002 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
34701823 GCCCATAAGT
* *
34701833 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
34701898 GAGCTCGGATGCCTAGTTACATCTCTC
66 GAGCTCGGATGCCTAGTTACATCTCTC
* *
34701925 GAACTCGGACTCAACTCAACGAGTTCGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
34701990 GAGTTCGGATGCC
66 GAGCTCGGATGCC
34702003 CAAACATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTC
Found at i:34704425 original size:30 final size:30
Alignment explanation
Indices: 34704381--34704469 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
34704371 CAAAGATAAC
34704381 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
34704410 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
34704440 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
34704470 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:34704429 original size:15 final size:15
Alignment explanation
Indices: 34704381--34704460 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
34704371 CAAAGATAAC
*
34704381 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
34704395 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
34704410 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
34704425 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
34704440 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
34704455 AAGAAA
1 AAGAAA
34704461 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:34704469 original size:15 final size:15
Alignment explanation
Indices: 34704392--34704469 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
34704382 AGAAAACCGA
34704392 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
34704407 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
34704421 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
34704436 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
34704452 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
34704467 ATA
1 ATA
34704470 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:34707441 original size:46 final size:44
Alignment explanation
Indices: 34707374--34707546 Score: 197
Period size: 46 Copynumber: 3.8 Consensus size: 44
34707364 TGTAACCCGC
*
34707374 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TT-GCAT
* *
34707420 CCATAAGTGAACTCGGACTCAACTCAACGAG-TCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-CTTGCAT
* *** *
34707465 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGGC-TTGCAT
34707511 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
34707547 ATGCCAAATC
Statistics
Matches: 107, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
44 1 0.01
45 39 0.36
46 60 0.56
47 6 0.06
48 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTGCAT
Found at i:34707538 original size:91 final size:93
Alignment explanation
Indices: 34707382--34707551 Score: 299
Period size: 92 Copynumber: 1.8 Consensus size: 93
34707372 GCCCATAAGT
* *
34707382 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
34707447 CGAG-TCGGATGCCTAGTTACATCTCTC
66 CGAGTTCGGATGCCTAGTTACATCTCTC
*
34707474 GAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
34707538 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
34707552 AAATCCTAGT
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 35 0.47
92 39 0.53
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:34710206 original size:40 final size:39
Alignment explanation
Indices: 34710161--34710367 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 39
34710151 CGGATTACAA
*
34710161 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
34710201 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
34710241 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
34710281 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * *
34710321 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAG-
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
34710360 CCGGATAT
1 CCGGATAT
34710368 CATTCAATTG
Statistics
Matches: 144, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 9 0.06
40 135 0.94
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:34710301 original size:80 final size:80
Alignment explanation
Indices: 34710161--34710367 Score: 256
Period size: 80 Copynumber: 2.6 Consensus size: 80
34710151 CGGATTACAA
* * *
34710161 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
34710226 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
34710241 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
34710305 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * * * *
34710321 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAG-CCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
34710368 CATTCAATTG
Statistics
Matches: 109, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
79 7 0.06
80 101 0.93
81 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:34718320 original size:40 final size:39
Alignment explanation
Indices: 34718275--34718482 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 39
34718265 CGGATTACAA
*
34718275 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
34718315 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
34718355 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
34718395 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * *
34718435 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
34718475 CCGGATAT
1 CCGGATAT
34718483 CATTCAATTG
Statistics
Matches: 145, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
39 1 0.01
40 144 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:34718415 original size:80 final size:80
Alignment explanation
Indices: 34718275--34718482 Score: 265
Period size: 80 Copynumber: 2.6 Consensus size: 80
34718265 CGGATTACAA
* * *
34718275 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
34718340 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
34718355 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
34718419 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * * * *
34718435 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
34718483 CATTCAATTG
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 109 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:34721205 original size:40 final size:40
Alignment explanation
Indices: 34721156--34721363 Score: 213
Period size: 40 Copynumber: 5.2 Consensus size: 40
34721146 TCTTCGGAAT
* *
34721156 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* **** *
34721195 TTAACCCGGAT-TTGGTATCTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCA-CTAGCACAAATGCCTTCGGGTC
* * * *
34721235 TTAGCCCGGATATGACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
34721275 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* ** * *
34721315 TTAGCCCGAATATATTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
34721355 TTAGCCCGG
1 TTAGCCCGG
34721364 GTATCATTCA
Statistics
Matches: 141, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 5 0.04
40 134 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:34722124 original size:2 final size:2
Alignment explanation
Indices: 34722117--34722141 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34722107 ATGTGCAAAC
34722117 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
34722142 CATGCAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34725446 original size:31 final size:31
Alignment explanation
Indices: 34725408--34725547 Score: 253
Period size: 31 Copynumber: 4.5 Consensus size: 31
34725398 TTTAACAGTT
* *
34725408 ACTGGGCCGAAGCCTTTTCATAAATCACATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
34725439 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
34725470 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
34725501 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
*
34725532 TCTGGGCCGAAGCCTT
1 ACTGGGCCGAAGCCTT
34725548 TACTGTAAAA
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTATCATAAATCATATC
Found at i:34725807 original size:25 final size:25
Alignment explanation
Indices: 34725766--34725859 Score: 129
Period size: 25 Copynumber: 3.8 Consensus size: 25
34725756 CTCTTTTAAT
* *
34725766 AACT-GGGCTAAAG-CCTTTTTGATA
1 AACTGGGGC-AAAGCCCTTTTCGGTA
34725790 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
34725815 AATTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
34725840 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
34725860 AGCACTTCCT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
24 8 0.13
25 55 0.87
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:34726694 original size:26 final size:26
Alignment explanation
Indices: 34726665--34726729 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
34726655 GGGCATATTC
34726665 GTCATTTTACCATACAGGGG-TTTACG
1 GTCATTTTACC-TACAGGGGCTTTACG
*
34726691 GTCACTTTACCTACAGGGGCTTTACG
1 GTCATTTTACCTACAGGGGCTTTACG
*
34726717 GTCTTTTTACCTA
1 GTCATTTTACCTA
34726730 ATAGGGGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 8 0.23
26 27 0.77
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGCTTTACG
Found at i:34726849 original size:28 final size:27
Alignment explanation
Indices: 34726785--34726876 Score: 82
Period size: 27 Copynumber: 3.4 Consensus size: 27
34726775 ATCTACAAAC
* *
34726785 CAAGGGTA-TT-TAGTAATTTTGTAAAC
1 CAAGGGTATTTCTA-TAAATTTGTAAAT
* *
34726811 CAATGGTATTTCTATAATTTTAG-AAAGT
1 CAAGGGTATTTCTATAAATTT-GTAAA-T
*
34726839 CAAGGGTATTTCTGTAAATTTGTAAAT
1 CAAGGGTATTTCTATAAATTTGTAAAT
*
34726866 CAGGGGTATTT
1 CAAGGGTATTT
34726877 TGGTAATTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
26 7 0.13
27 24 0.44
28 24 0.44
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCTATAAATTTGTAAAT
Found at i:34726882 original size:27 final size:26
Alignment explanation
Indices: 34726842--34727087 Score: 107
Period size: 27 Copynumber: 9.2 Consensus size: 26
34726832 AGAAAGTCAA
34726842 GGGTATTTCT-GTAAATTTGTAAATCAG
1 GGGTATTT-TGGTAAATTT-TAAATCAG
*
34726869 GGGTATTTTGGT-AATTTTACAAAT-TG
1 GGGTATTTTGGTAAATTTT--AAATCAG
* * *
34726895 AGGGTATTTCGGT-AATTTCACAACCAG
1 -GGGTATTTTGGTAAATTTTA-AATCAG
* *
34726922 TGGTATTTTGGT-AATTTTACAAACTAG
1 GGGTATTTTGGTAAATTTTA-AATC-AG
*
34726949 GGGTATTTTGGT-AATTTTATAAACTAG
1 GGGTATTTTGGTAAATTTTA-AATC-AG
* * *
34726976 GGGTATTTTAG-CAATTTTACAGACCA-
1 GGGTATTTTGGTAAATTTTA-A-ATCAG
*
34727002 GGGTATTTTGGT-AATTTTACTGATC-G
1 GGGTATTTTGGTAAATTTTA--AATCAG
* * *
34727028 AGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTTGGTAAATTT-TAAATCAG
* * * *
34727056 TGGTATTTTAGTAATTTTGTAAATCAA
1 GGGTATTTTGGTAAATTT-TAAATCAG
34727083 GGGTA
1 GGGTA
34727088 AAACAGTAAT
Statistics
Matches: 177, Mismatches: 26, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
25 2 0.01
26 48 0.27
27 119 0.67
28 6 0.03
29 2 0.01
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGGTAAATTTTAAATCAG
Found at i:34727052 original size:80 final size:80
Alignment explanation
Indices: 34726867--34727073 Score: 249
Period size: 80 Copynumber: 2.6 Consensus size: 80
34726857 TTTGTAAATC
* * ** *
34726867 AGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTATAAACTAG-GGGTATTTTAGTAATTTTACAACCAGTGGTATTTT
*
34726931 GGTAATTTTACAAACT
65 GGTAATTTTACAAACG
*
34726947 AGGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTAGCAATTTTACAGACCAG-GGTATTTT
1 AGGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTAGTAATTTTACA-ACCAGTGGTATTTT
* *
34727011 GGTAATTTTACTGATCG
65 GGTAATTTTAC-AAACG
* * **
34727028 A-GGGTATTTTGGTAATTTTGTAAACCAATGGTATTTTAGTAATTTT
1 AGGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTAGTAATTTT
34727074 GTAAATCAAG
Statistics
Matches: 110, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
80 100 0.91
81 10 0.09
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (80 bp):
AGGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTAGTAATTTTACAACCAGTGGTATTTTG
GTAATTTTACAAACG
Found at i:34727073 original size:54 final size:54
Alignment explanation
Indices: 34726761--34727078 Score: 236
Period size: 53 Copynumber: 5.9 Consensus size: 54
34726751 CACCCTACAA
* * * * * * *
34726761 GGGTGTTTTGGTAAATCTACAAACCAAGGGTA-TTTAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACGAG
* * * * * *
34726814 TGGTATTTCT-ATAATTTTAGAAAGTCAAGGGTATTTCT-GTAAATTTGTAAATC-AG
1 GGGTATTT-TGGTAATTTTACAAA-CCAAGGGTATTT-TGGTAATTTTATAAA-CGAG
*** * * * *
34726869 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCA-CAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACGAG
* * * *
34726922 TGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACGAG
* * * * *
34726976 GGGTATTTTAGCAATTTTACAGACC-AGGGTATTTTGGTAATTTTACTGATCGA-
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTA-TAAACGAG
** * * *
34727029 GGGTATTTTGGTAATTTTGTAAACCAATGGTATTTTAGTAATTTTGTAAA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAA
34727079 TCAAGGGTAA
Statistics
Matches: 208, Mismatches: 46, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
52 1 0.00
53 100 0.48
54 72 0.35
55 33 0.16
56 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACGAG
Found at i:34727095 original size:27 final size:27
Alignment explanation
Indices: 34727065--34727196 Score: 158
Period size: 27 Copynumber: 4.9 Consensus size: 27
34727055 ATGGTATTTT
* *
34727065 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
34727092 AGTAATTCTGCAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
34727119 AGTAATTCTATAAATCGAGGTTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
34727146 -GATAATTCTGTAAATTGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
34727173 GGTAATTATGTAAATCGAGGGTAA
1 AGTAATTCTGTAAATCGAGGGTAA
34727197 TTTGGTAATT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 88 0.98
28 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Done.