Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 14 of 284
Found at i:4531482 original size:54 final size:54
Alignment explanation
Indices: 4531256--4531482 Score: 303
Period size: 54 Copynumber: 4.2 Consensus size: 54
4531246 AGTATAACAC
* * * * * *
4531256 TCATTTTACCCTATGGGGGTATTTCGATCATTCTACGCTATGGGGGTATTTCGA
1 TCATTTTACCTTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCGA
* * * *
4531310 TTACTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTCTAGGGGTATTTC-A
1 TCATTTTACCTTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCGA
* * * *
4531363 GTCATTTTACCTTATGGGGGTATTTTGGTCATTTTACCTTATGGGGGTATTTTGG
1 -TCATTTTACCTTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCGA
*
4531418 TCATTTTACCTTATGGGGGTATTTTGGTTATTTTACCCTATAGGGGTATTTCGA
1 TCATTTTACCTTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCGA
4531472 TCATTTTACCT
1 TCATTTTACCT
4531483 ATTTTGGGGT
Statistics
Matches: 150, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
53 1 0.01
54 149 0.99
ACGTcount: A:0.17, C:0.16, G:0.22, T:0.44
Consensus pattern (54 bp):
TCATTTTACCTTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCGA
Found at i:4531482 original size:81 final size:81
Alignment explanation
Indices: 4531256--4531482 Score: 310
Period size: 81 Copynumber: 2.8 Consensus size: 81
4531246 AGTATAACAC
* * * * * *
4531256 TCATTTTACCCTATGGGGGTATTTCGATCATTCTACGCTATGGGGGTATTTCGATTACTTTACCC
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCT
4531321 TATGGGGGTATTTTGG
66 TATGGGGGTATTTTGG
* * * * * *
4531337 TCATTTTACCCTCTAGGGGTATTTCAGTCATTTTACCTTATGGGGGTATTTTGGTCATTTTACCT
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCT
4531402 TATGGGGGTATTTTGG
66 TATGGGGGTATTTTGG
* * * *
4531418 TCATTTTACCTTATGGGGGTATTTTGGTTATTTTACCCTATAGGGGTATTTCGATCATTTTACCT
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCT
4531483 ATTTTGGGGT
Statistics
Matches: 124, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 124 1.00
ACGTcount: A:0.17, C:0.16, G:0.22, T:0.44
Consensus pattern (81 bp):
TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCT
TATGGGGGTATTTTGG
Found at i:4533814 original size:13 final size:14
Alignment explanation
Indices: 4533796--4533826 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
4533786 GATTTTTTTG
4533796 TTTAAA-TTTGATT
1 TTTAAATTTTGATT
4533809 TTTAAATTTTGATT
1 TTTAAATTTTGATT
4533823 TTTA
1 TTTA
4533827 GTTGATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
TTTAAATTTTGATT
Found at i:4540099 original size:5 final size:5
Alignment explanation
Indices: 4540089--4540127 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
4540079 TGAAATATGT
* *
4540089 TTTTA TTTTA TTTTA TTATA TTTTA GTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
4540128 CTTTATCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:4549168 original size:20 final size:20
Alignment explanation
Indices: 4549143--4549181 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
4549133 TACTTTCTTC
4549143 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
4549163 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
4549182 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:4549500 original size:50 final size:48
Alignment explanation
Indices: 4549384--4549520 Score: 143
Period size: 49 Copynumber: 2.8 Consensus size: 48
4549374 GATAATAACA
* * *
4549384 TGCCAAAGCCATGTCCTAGACATGATCTTACATGGGATGTTTCCTATAC
1 TGCCAATGCCATGTCCCAGACATG-TCTTACATGGGATGTTTCATATAC
* *
4549433 TGCCAATGCCATATCCCAGATATAGTCTTACATGGGA-GTTCTCATAT-C
1 TGCCAATGCCATGTCCCAGACAT-GTCTTACATGGGATGTT-TCATATAC
* *
4549481 GGTGCCCATGCCATGTCCCAGACATGGTTTTACATGGGAT
1 --TGCCAATGCCATGTCCCAGACAT-GTCTTACATGGGAT
4549521 CTCATTCCCT
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
48 4 0.05
49 36 0.49
50 33 0.45
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGTCTTACATGGGATGTTTCATATAC
Found at i:4549611 original size:21 final size:21
Alignment explanation
Indices: 4549586--4549652 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
4549576 ATACGATCAA
4549586 ATAATTTTATGAAATAAGTAC
1 ATAATTTTATGAAATAAGTAC
* * *
4549607 ATAA-TTGAGTCAACAT---TAA
1 ATAATTTTA-TGAA-ATAAGTAC
4549626 ATAATTTTATGAAATAAGTAC
1 ATAATTTTATGAAATAAGTAC
4549647 ATAATT
1 ATAATT
4549653 GCTGAAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
18 2 0.06
19 9 0.26
20 6 0.18
21 15 0.44
22 2 0.06
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (21 bp):
ATAATTTTATGAAATAAGTAC
Found at i:4552450 original size:14 final size:16
Alignment explanation
Indices: 4552431--4552464 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
4552421 ACCTATATTT
4552431 ATTTATTTA-TTTT-A
1 ATTTATTTACTTTTGA
4552445 ATTTATTTACTTTTGA
1 ATTTATTTACTTTTGA
4552461 ATTT
1 ATTT
4552465 CAGTTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 4 0.22
16 5 0.28
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (16 bp):
ATTTATTTACTTTTGA
Found at i:4553937 original size:18 final size:18
Alignment explanation
Indices: 4553916--4553953 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4553906 ATCTGATAAA
* *
4553916 TAGTTTGAATTTGATTTT
1 TAGTTTAAATATGATTTT
4553934 TAGTTTAAATATGATTTT
1 TAGTTTAAATATGATTTT
4553952 TA
1 TA
4553954 AATTCTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (18 bp):
TAGTTTAAATATGATTTT
Found at i:4554980 original size:10 final size:10
Alignment explanation
Indices: 4554962--4555009 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
4554952 CTCAAATTTG
4554962 TTTTAATTATA
1 TTTT-ATTATA
*
4554973 TTATATTATA
1 TTTTATTATA
* *
4554983 GTTTATTTTA
1 TTTTATTATA
*
4554993 TTTTATTTTA
1 TTTTATTATA
4555003 TTTTATT
1 TTTTATT
4555010 TTCTCTATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
10 29 0.91
11 3 0.09
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTTATTATA
Found at i:4554992 original size:5 final size:5
Alignment explanation
Indices: 4554984--4555011 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
4554974 TATATTATAG
4554984 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
4555012 CTCTATCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:4554994 original size:15 final size:15
Alignment explanation
Indices: 4554971--4555009 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
4554961 GTTTTAATTA
*
4554971 TATTATATTATAGTT
1 TATTTTATTATAGTT
* *
4554986 TATTTTATTTTATTT
1 TATTTTATTATAGTT
4555001 TATTTTATT
1 TATTTTATT
4555010 TTCTCTATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (15 bp):
TATTTTATTATAGTT
Found at i:4560616 original size:36 final size:36
Alignment explanation
Indices: 4560548--4560634 Score: 131
Period size: 36 Copynumber: 2.4 Consensus size: 36
4560538 ACAGTGGCAT
* * *
4560548 GCTTAACATGCGAGT-CATCATCAGAATAATAGCAA
1 GCTTAACATGCGAATCCATAACCAGAATAATAGCAA
*
4560583 GCTTAACATGCGAATCCATAACCAGAATAATAGCAT
1 GCTTAACATGCGAATCCATAACCAGAATAATAGCAA
4560619 GCTTAACATGCGAATC
1 GCTTAACATGCGAATC
4560635 AAAATATCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
35 14 0.30
36 33 0.70
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (36 bp):
GCTTAACATGCGAATCCATAACCAGAATAATAGCAA
Found at i:4564584 original size:180 final size:180
Alignment explanation
Indices: 4564342--4564717 Score: 752
Period size: 180 Copynumber: 2.1 Consensus size: 180
4564332 GTTTCCTTTG
4564342 AAAATAGACTCATTAATAATTCTAGGAATATAAATTATAACTCATAATTATTTTTTTACAATTTT
1 AAAATAGACTCATTAATAATTCTAGGAATATAAATTATAACTCATAATTATTTTTTTACAATTTT
4564407 TAATTATTTTCCAAATTCAGAACTAGGGATTCCAAAATCAATCCAACTCTGCCCAACTAAAATTC
66 TAATTATTTTCCAAATTCAGAACTAGGGATTCCAAAATCAATCCAACTCTGCCCAACTAAAATTC
4564472 AAATATCTCAAAATGTATAACTCTTTTGCTTGCTTTGTTTCTTTTATGTA
131 AAATATCTCAAAATGTATAACTCTTTTGCTTGCTTTGTTTCTTTTATGTA
4564522 AAAATAGACTCATTAATAATTCTAGGAATATAAATTATAACTCATAATTATTTTTTTACAATTTT
1 AAAATAGACTCATTAATAATTCTAGGAATATAAATTATAACTCATAATTATTTTTTTACAATTTT
4564587 TAATTATTTTCCAAATTCAGAACTAGGGATTCCAAAATCAATCCAACTCTGCCCAACTAAAATTC
66 TAATTATTTTCCAAATTCAGAACTAGGGATTCCAAAATCAATCCAACTCTGCCCAACTAAAATTC
4564652 AAATATCTCAAAATGTATAACTCTTTTGCTTGCTTTGTTTCTTTTATGTA
131 AAATATCTCAAAATGTATAACTCTTTTGCTTGCTTTGTTTCTTTTATGTA
4564702 AAAATAGACTCATTAA
1 AAAATAGACTCATTAA
4564718 GATTTAATTC
Statistics
Matches: 196, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
180 196 1.00
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (180 bp):
AAAATAGACTCATTAATAATTCTAGGAATATAAATTATAACTCATAATTATTTTTTTACAATTTT
TAATTATTTTCCAAATTCAGAACTAGGGATTCCAAAATCAATCCAACTCTGCCCAACTAAAATTC
AAATATCTCAAAATGTATAACTCTTTTGCTTGCTTTGTTTCTTTTATGTA
Found at i:4565090 original size:50 final size:51
Alignment explanation
Indices: 4565030--4565162 Score: 171
Period size: 50 Copynumber: 2.6 Consensus size: 51
4565020 TATTATTCGA
* * *
4565030 TACACGTAGTAGCCTTCACATACTACTACACACGTGATC-AAACTTTCTGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCGAAACTATCCGG
* * *
4565080 TTCACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCGAAACTATCCGG
* *
4565131 TACGCATAGTAG-CTTGCACATAGTACTACACA
1 TACACGTAGTAGCCTT-CACATAGTACTACACA
4565163 TGCAACCTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
50 38 0.54
51 33 0.46
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (51 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCGAAACTATCCGG
Found at i:4565153 original size:51 final size:50
Alignment explanation
Indices: 4565030--4565162 Score: 160
Period size: 51 Copynumber: 2.6 Consensus size: 50
4565020 TATTATTCGA
* * * *
4565030 TACACGTAGTAGCCTT-CACATACTACTACACACGTGATCAAACTTTCTGG
1 TACACATAGTAG-CTTGCACATAGTACTACACACGTGATCAAACTATCCGG
* * * *
4565080 TTCACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGG
1 TACACATAGTAGCTTGCACATAGTACTACACACGTGATC-AAACTATCCGG
*
4565131 TACGCATAGTAGCTTGCACATAGTACTACACA
1 TACACATAGTAGCTTGCACATAGTACTACACA
4565163 TGCAACCTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
49 2 0.03
50 33 0.46
51 36 0.51
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
TACACATAGTAGCTTGCACATAGTACTACACACGTGATCAAACTATCCGG
Found at i:4578691 original size:46 final size:47
Alignment explanation
Indices: 4578635--4578747 Score: 174
Period size: 46 Copynumber: 2.4 Consensus size: 47
4578625 AAGGTGGAAG
*
4578635 TTATTGGCAGTTTATCTGCAATTTTGGTGGCTTGTCCACGATTTTGA
1 TTATTGGCAGTTTATCTGCAATTTTGGTGGCTTGTCCACAATTTTGA
* *
4578682 TT-TTGGCAGTTTATATGCAATTTTGGTGGTTTGTCCACAATTTTGA
1 TTATTGGCAGTTTATCTGCAATTTTGGTGGCTTGTCCACAATTTTGA
* *
4578728 TTATTGGAAGTTAATCTGCA
1 TTATTGGCAGTTTATCTGCA
4578748 TTACTGTGAC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 43 0.73
47 16 0.27
ACGTcount: A:0.20, C:0.12, G:0.22, T:0.45
Consensus pattern (47 bp):
TTATTGGCAGTTTATCTGCAATTTTGGTGGCTTGTCCACAATTTTGA
Found at i:4585924 original size:50 final size:50
Alignment explanation
Indices: 4585862--4585994 Score: 167
Period size: 50 Copynumber: 2.7 Consensus size: 50
4585852 AAATGTCATA
* ** * * * *
4585862 TCCCAAATATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATGCCATG
1 TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTACCAACGCCATG
** *
4585912 TCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGGTACCAACGCCATG
1 TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTACCAACGCCATG
*
4585962 TCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TCCCAAACATGGTCTTACATGGGACCTCTCATA
4585995 ACCTCAATAG
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTACCAACGCCATG
Found at i:4596287 original size:49 final size:47
Alignment explanation
Indices: 4596229--4596323 Score: 147
Period size: 49 Copynumber: 2.0 Consensus size: 47
4596219 TTTAATATGT
*
4596229 TTAGTTTAATTAATTTAGTTGTTTT-AATTTTCTTTAGTTGCTTAAATAC
1 TTAGTTTAATTAATTAAGTTGTTTTGAA--TT-TTTAGTTGCTTAAATAC
4596278 TTAGTTTAATTAATTAAGTTGTTTTGAATTTTTAGTTGCTTAAATA
1 TTAGTTTAATTAATTAAGTTGTTTTGAATTTTTAGTTGCTTAAATA
4596324 ATTTCGACAT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
47 16 0.36
48 2 0.05
49 24 0.55
50 2 0.05
ACGTcount: A:0.28, C:0.04, G:0.12, T:0.56
Consensus pattern (47 bp):
TTAGTTTAATTAATTAAGTTGTTTTGAATTTTTAGTTGCTTAAATAC
Found at i:4599473 original size:11 final size:11
Alignment explanation
Indices: 4599457--4599506 Score: 55
Period size: 12 Copynumber: 4.3 Consensus size: 11
4599447 GAGACTATAG
4599457 AAAAAGAAAAA
1 AAAAAGAAAAA
4599468 AAAAAGAAGAAA
1 AAAAAGAA-AAA
* *
4599480 AAAAATAGAGAA
1 AAAAAGA-AAAA
4599492 AAAAAGAAAAGA
1 AAAAAGAAAA-A
4599504 AAA
1 AAA
4599507 TCTTAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
11 10 0.31
12 21 0.66
13 1 0.03
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:4599477 original size:14 final size:14
Alignment explanation
Indices: 4599460--4599506 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 14
4599450 ACTATAGAAA
4599460 AAGAAAAAAAAAAG
1 AAGAAAAAAAAAAG
*
4599474 AAGAAAAAAAATAG
1 AAGAAAAAAAAAAG
*
4599488 -AGAAAAAAAGAA-
1 AAGAAAAAAAAAAG
4599500 AAGAAAA
1 AAGAAAA
4599507 TCTTAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 16 0.55
14 13 0.45
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (14 bp):
AAGAAAAAAAAAAG
Found at i:4603743 original size:40 final size:39
Alignment explanation
Indices: 4603712--4603921 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
4603702 GGACTAAGAT
* *
4603712 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
4603752 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
4603792 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
4603832 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
4603872 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
4603911 CCGAAGGCATT
1 CCGAAGGCATT
4603922 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:4603875 original size:120 final size:120
Alignment explanation
Indices: 4603659--4603921 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
4603649 TTGAATGCTG
* *
4603659 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
4603723 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
4603779 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
4603842 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
4603898 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
4603922 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:4603941 original size:79 final size:80
Alignment explanation
Indices: 4603712--4603956 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
4603702 GGACTAAGAT
* * * * * * * ** *
4603712 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
4603775 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
4603792 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
4603857 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
4603872 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
4603936 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
4603950 CCGAAGG
1 CCGAAGG
4603957 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:4611763 original size:39 final size:39
Alignment explanation
Indices: 4611599--4611781 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
4611589 TTGAATGCTG
* * * * * * *
4611599 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
4611639 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
4611679 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
4611719 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
4611758 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
4611782 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.31
40 74 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:4611801 original size:79 final size:80
Alignment explanation
Indices: 4611635--4611816 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
4611625 GCTAAGTGAA
* * * *
4611635 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
4611699 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * * *
4611715 TAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
4611779 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
4611794 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
4611817 TACGTGATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.17
79 50 0.60
80 19 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:4617555 original size:21 final size:22
Alignment explanation
Indices: 4617517--4617567 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
4617507 TTAGTTTTAA
* *
4617517 ATGTTATTTAGTCTTTAAAAC-C
1 ATGTT-TTTAGCCATTAAAACAC
*
4617539 ATGTTTTTAGCCATTAAATCAC
1 ATGTTTTTAGCCATTAAAACAC
4617561 ATGTTTT
1 ATGTTTT
4617568 GAGTAAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (22 bp):
ATGTTTTTAGCCATTAAAACAC
Found at i:4623021 original size:27 final size:27
Alignment explanation
Indices: 4622991--4623203 Score: 201
Period size: 27 Copynumber: 7.9 Consensus size: 27
4622981 TGGTTGGATT
* * *
4622991 GGGTATTTCGATAATTTTAGCCTTTAA
1 GGGTATTTCGGTAATTTTACCCTTCAA
** *
4623018 GGGTATTTCAATAATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCAA
** * *
4623045 GGGTATTTCGGTCGTTTTACGCTTCAG
1 GGGTATTTCGGTAATTTTACCCTTCAA
* * *
4623072 GGGTATTTTGGTCATTTTACCCTTTAA
1 GGGTATTTCGGTAATTTTACCCTTCAA
* * * *
4623099 GGATATTTTGGTAATTTTACCCTTTAG
1 GGGTATTTCGGTAATTTTACCCTTCAA
* * *
4623126 GGGTATTTCGGTCATTTTAACCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCAA
* * *
4623153 GGGTATTTCGATAATTTTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCAA
*
4623180 GGGTATTTCAGTAAATTTTACCCT
1 GGGTATTTCGGT-AATTTTACCCT
4623204 CGAGGTTAAA
Statistics
Matches: 152, Mismatches: 33, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
27 142 0.93
28 10 0.07
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.43
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCCTTCAA
Found at i:4623130 original size:81 final size:81
Alignment explanation
Indices: 4622991--4623203 Score: 234
Period size: 81 Copynumber: 2.6 Consensus size: 81
4622981 TGGTTGGATT
* * *
4622991 GGGTATTTCGATAATTTTAGCCTTTAAGGGTATTTCAATAATTTTACCCTTCGAGGGTATTTCGG
1 GGGTATTTCGATAATTTTACCCTTTAAGGATATTTCAATAATTTTACCCTTAGAGGGTATTTCGG
*
4623056 TCGTTTT-ACGCTTC-A
66 TCATTTTAAC-CTTCGA
* * * ***
4623071 GGGGTATTTTGGTCATTTTACCCTTTAAGGATATTTTGGTAATTTTACCCTTTAG-GGGTATTTC
1 -GGGTATTTCGATAATTTTACCCTTTAAGGATATTTCAATAATTTTACCC-TTAGAGGGTATTTC
4623135 GGTCATTTTAACCTTCGA
64 GGTCATTTTAACCTTCGA
* ** * *
4623153 GGGTATTTCGATAATTTTACCCATCGAGGGTATTTCAGTAAATTTTACCCT
1 GGGTATTTCGATAATTTTACCCTTTAAGGATATTTCAAT-AATTTTACCCT
4623204 CGAGGTTAAA
Statistics
Matches: 109, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
81 93 0.85
82 16 0.15
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.43
Consensus pattern (81 bp):
GGGTATTTCGATAATTTTACCCTTTAAGGATATTTCAATAATTTTACCCTTAGAGGGTATTTCGG
TCATTTTAACCTTCGA
Found at i:4623262 original size:24 final size:24
Alignment explanation
Indices: 4623209--4623264 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
4623199 ACCCTCGAGG
*
4623209 TTAAATGATTGATTTTTTCGTGAT
1 TTAAATGATTGATTTTCTCGTGAT
**
4623233 GAAAATGATTGATTTGTCT-GTGAT
1 TTAAATGATTGATTT-TCTCGTGAT
4623257 TTAAATGA
1 TTAAATGA
4623265 CTATTTTGTC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (24 bp):
TTAAATGATTGATTTTCTCGTGAT
Found at i:4633625 original size:32 final size:32
Alignment explanation
Indices: 4633589--4633652 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
4633579 AGGATAAAGT
4633589 TTGATTATCCTTGTTATGGATTGGGCTTTATA
1 TTGATTATCCTTGTTATGGATTGGGCTTTATA
4633621 TTGATTATCCTTGTTATGGATTGGGCTTTATA
1 TTGATTATCCTTGTTATGGATTGGGCTTTATA
4633653 GCTCACACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.19, C:0.09, G:0.22, T:0.50
Consensus pattern (32 bp):
TTGATTATCCTTGTTATGGATTGGGCTTTATA
Found at i:4633642 original size:16 final size:16
Alignment explanation
Indices: 4633591--4633642 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
4633581 GATAAAGTTT
4633591 GATTATCCTTGTTATG
1 GATTATCCTTGTTATG
*** *
4633607 GATTGGGCTT-TATATT
1 GATTATCCTTGT-TATG
4633623 GATTATCCTTGTTATG
1 GATTATCCTTGTTATG
4633639 GATT
1 GATT
4633643 GGGCTTTATA
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.19, C:0.10, G:0.21, T:0.50
Consensus pattern (16 bp):
GATTATCCTTGTTATG
Found at i:4643615 original size:52 final size:50
Alignment explanation
Indices: 4643487--4643640 Score: 254
Period size: 50 Copynumber: 3.0 Consensus size: 50
4643477 ATATGAATAA
* *
4643487 TTGTCTTTCATTTTGTAAAAGCAGATTCTCTCTTATCTGCTCGTTTAGCT
1 TTGTCTTTCACTTTGTAAAAGCAGATTCCCTCTTATCTGCTCGTTTAGCT
4643537 TTGTCTTTCACTTTGTAAAAGCAGATTCCCTCTTATCTGCTCGTTTAGCT
1 TTGTCTTTCACTTTGTAAAAGCAGATTCCCTCTTATCTGCTCGTTTAGCT
* *
4643587 TGATGTCTTTCACTTTGTAAAAGTAGATTCCCTCTTATTTGCTCGTTTAGCT
1 T--TGTCTTTCACTTTGTAAAAGCAGATTCCCTCTTATCTGCTCGTTTAGCT
4643639 TT
1 TT
4643641 TATCCCCTAT
Statistics
Matches: 98, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
50 50 0.51
52 48 0.49
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.47
Consensus pattern (50 bp):
TTGTCTTTCACTTTGTAAAAGCAGATTCCCTCTTATCTGCTCGTTTAGCT
Found at i:4647871 original size:6 final size:6
Alignment explanation
Indices: 4647857--4647894 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
4647847 ACTTGTTAGG
*
4647857 ATATAT ATATGT ATATGT ATATGT ATATGT ATATGT AT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT AT
4647895 GAAAGCTTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:4648917 original size:29 final size:30
Alignment explanation
Indices: 4648852--4648917 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
4648842 AAACATTTAC
*
4648852 AAAGGAAAGCCTTTATGGCGAACCCTTTGT
1 AAAGGAAAGCCTTGATGGCGAACCCTTTGT
*
4648882 AAA-GAAAGCCTTGGTGGC-AA-CCTTTGAT
1 AAAGGAAAGCCTTGATGGCGAACCCTTTG-T
4648910 AAAGGAAA
1 AAAGGAAA
4648918 CCTCATGGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 6 0.19
28 6 0.19
29 17 0.53
30 3 0.09
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (30 bp):
AAAGGAAAGCCTTGATGGCGAACCCTTTGT
Found at i:4652718 original size:45 final size:44
Alignment explanation
Indices: 4652649--4652846 Score: 168
Period size: 45 Copynumber: 4.4 Consensus size: 44
4652639 TGCATGGTGG
* *
4652649 ATCAGCACACAGC-ACCACCCTTATAGTCAATAGTACTCGGTGAA
1 ATCAGCACATAGCAACCACCTTTATA-TCAATAGTACTCGGTGAA
*
4652693 ATCAGCACATAGCAACCACCTTTATACTCAATGGTAC-CGGGTGAA
1 ATCAGCACATAGCAACCACCTTTATA-TCAATAGTACTC-GGTGAA
* ** * * * *
4652738 ATCACCACATAGCAATGACCTATATAACAATTGGTA-TCCAGTGAA
1 ATCAGCACATAGCAACCACCTTTATATCAA-TAGTACT-CGGTGAA
* * * * * *
4652783 ATCAGCACATAGCAACCACCTTTATTTTCATTAATATTAGGTGGA
1 ATCAGCACATAGCAACCACCTTTA-TATCAATAGTACTCGGTGAA
*
4652828 ATCAGCACATAGCATCCAC
1 ATCAGCACATAGCAACCAC
4652847 TTTTTTTTAA
Statistics
Matches: 124, Mismatches: 23, Indels: 13
0.77 0.14 0.08
Matches are distributed among these distances:
44 16 0.13
45 103 0.83
46 5 0.04
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (44 bp):
ATCAGCACATAGCAACCACCTTTATATCAATAGTACTCGGTGAA
Found at i:4659889 original size:45 final size:44
Alignment explanation
Indices: 4659833--4659971 Score: 154
Period size: 45 Copynumber: 3.1 Consensus size: 44
4659823 AGCATACAAC
* * *
4659833 ACCACCCTTATAGCCAATAGTACTCGGTGAAATCAACACACAGCA
1 ACCACCTTTATA-CCAATGGTACTCGGTGAAATCAACACATAGCA
* **
4659878 ACCACCTTTATACTCAATGGTACTGGGTGAAATCAGTACATAGCA
1 ACCACCTTTATAC-CAATGGTACTCGGTGAAATCAACACATAGCA
* * *
4659923 ACGACCTATATAACCATTGGTA-TCTGGTGAAATCAACACATAGCA
1 ACCACCTTTAT-ACCAATGGTACTC-GGTGAAATCAACACATAGCA
4659968 ACCA
1 ACCA
4659972 TATTTATTTT
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
44 2 0.03
45 74 0.95
46 2 0.03
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (44 bp):
ACCACCTTTATACCAATGGTACTCGGTGAAATCAACACATAGCA
Found at i:4662661 original size:40 final size:40
Alignment explanation
Indices: 4662577--4662761 Score: 205
Period size: 40 Copynumber: 4.7 Consensus size: 40
4662567 TTGAATGCTG
* * * *
4662577 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAA
* *
4662617 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAA
* *
4662657 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAA
* * * *
4662697 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAA
* *
4662736 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
4662762 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 35 0.28
40 82 0.66
41 8 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAA
Found at i:4670621 original size:40 final size:40
Alignment explanation
Indices: 4670590--4670680 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
4670580 GGACTAAGAT
* *
4670590 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
4670630 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
4670670 CCGAAGGCATT
1 CCGAAGGCATT
4670681 GTATGAGTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 2 0.04
40 46 0.96
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
Found at i:4672811 original size:15 final size:15
Alignment explanation
Indices: 4672791--4672822 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4672781 GGGTGGGGCC
4672791 GTGGTAGAGGTGATG
1 GTGGTAGAGGTGATG
*
4672806 GTGGTAGAGGTGTTG
1 GTGGTAGAGGTGATG
4672821 GT
1 GT
4672823 CAGTGTGGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.53, T:0.31
Consensus pattern (15 bp):
GTGGTAGAGGTGATG
Found at i:4678786 original size:18 final size:17
Alignment explanation
Indices: 4678738--4678786 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
4678728 GATCAACGAG
4678738 ACAGGCTGTGTGGGCCAC
1 ACAGGC-GTGTGGGCCAC
* *
4678756 ACAGGCATATGGGCCCAC
1 ACAGGCGTGTGGG-CCAC
*
4678774 ACGGGCGTGTGGG
1 ACAGGCGTGTGGG
4678787 ATTTTTGGGT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.18, C:0.27, G:0.41, T:0.14
Consensus pattern (17 bp):
ACAGGCGTGTGGGCCAC
Found at i:4691739 original size:17 final size:18
Alignment explanation
Indices: 4691717--4691757 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
4691707 CAATTTTACT
4691717 TTCACAT-TC-AATATTAA
1 TTCACATATCAAATA-TAA
4691734 TTCACATATCAAATATAA
1 TTCACATATCAAATATAA
4691752 TTCACA
1 TTCACA
4691758 ATTTATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.32
18 11 0.50
19 4 0.18
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.37
Consensus pattern (18 bp):
TTCACATATCAAATATAA
Found at i:4698750 original size:40 final size:40
Alignment explanation
Indices: 4698695--4699162 Score: 918
Period size: 40 Copynumber: 11.7 Consensus size: 40
4698685 GAGCATTGGA
4698695 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
4698735 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
4698775 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
4698815 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
4698855 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
4698895 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
4698935 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
4698975 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
4699015 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
4699055 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
4699095 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
4699135 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
4699163 ATGTGTTTGC
Statistics
Matches: 426, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 426 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:4706929 original size:40 final size:39
Alignment explanation
Indices: 4706898--4707107 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
4706888 GGACTAAGAT
* *
4706898 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
4706938 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
4706978 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
4707018 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
4707058 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
4707097 CCGAAGGCATT
1 CCGAAGGCATT
4707108 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:4707061 original size:120 final size:120
Alignment explanation
Indices: 4706845--4707107 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
4706835 TTGAATGCTG
* *
4706845 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
4706909 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
4706965 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
4707028 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
4707084 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
4707108 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:4707127 original size:79 final size:80
Alignment explanation
Indices: 4706898--4707142 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
4706888 GGACTAAGAT
* * * * * * * ** *
4706898 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
4706961 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
4706978 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
4707043 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
4707058 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
4707122 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
4707136 CCGAAGG
1 CCGAAGG
4707143 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:4709754 original size:198 final size:196
Alignment explanation
Indices: 4709351--4709776 Score: 654
Period size: 196 Copynumber: 2.2 Consensus size: 196
4709341 AAAAAATGTG
** * * * * * *
4709351 GAGAATTTTGGTAAGGCCATTGGCGGTGGTGTGATGGTGACGGAGTAGAGGTAGTGGTATGGTGG
1 GAGAATTTTGGTGTGGCCATTGGCAGCGGTGCGACGGTGACGGAGTAGAGGTAGTGGTATGATAG
* * * *
4709416 AGGTGCGACAGCCTTGCGTGGTTATGGAGTGGAAGAGAAATGAGGAAAAATGGACTTCTAAGGTG
66 AGGTGCGACAGCCTTACGTGGTTATGGAGTGAAAGAGAAATGAGGAAAAATGGACTTATAAGGTC
*
4709481 GTAACAAGGATAAAATGAGAGAATAATGGAATAGCAAAGTGGTGGTGCAACTAAATGGGAGGAGG
131 GTAACAAGGATAAAATGAGAGAATAATGGAATAGCAAAGTGGTGGTGCAACTAAATGGAAGGAGG
4709546 A
196 A
*
4709547 GAGAATTTTGGTGTGGCCATTGGCAGCGGTGCGACGGTGACGGAGTAGAGGTGGTGGTATGATAG
1 GAGAATTTTGGTGTGGCCATTGGCAGCGGTGCGACGGTGACGGAGTAGAGGTAGTGGTATGATAG
* * * *
4709612 AGGTGTGATAGCCTTACGTGGTTGTGGAGTTAAAGAGAAATGAGGAAAGAATGGACTTATAAGGT
66 AGGTGCGACAGCCTTACGTGGTTATGGAGTGAAAGAGAAATGAGGAAA-AATGGACTTATAAGGT
4709677 CGTAACAAGGAATAAAATGAGAGAATAATGGAATAGCAAAGTGGTGGTGCAACTAAATGGAAGGA
130 CGTAACAAGG-ATAAAATGAGAGAATAATGGAATAGCAAAGTGGTGGTGCAACTAAATGGAAGGA
4709742 GGA
194 GGA
*
4709745 GAGAATTTTGGTGTGGCCATTGACAGGCGGTG
1 GAGAATTTTGGTGTGGCCATTGGCA-GCGGTG
4709777 TCTAGGTTCA
Statistics
Matches: 208, Mismatches: 19, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
196 98 0.47
197 24 0.12
198 80 0.38
199 6 0.03
ACGTcount: A:0.31, C:0.08, G:0.38, T:0.23
Consensus pattern (196 bp):
GAGAATTTTGGTGTGGCCATTGGCAGCGGTGCGACGGTGACGGAGTAGAGGTAGTGGTATGATAG
AGGTGCGACAGCCTTACGTGGTTATGGAGTGAAAGAGAAATGAGGAAAAATGGACTTATAAGGTC
GTAACAAGGATAAAATGAGAGAATAATGGAATAGCAAAGTGGTGGTGCAACTAAATGGAAGGAGG
A
Found at i:4714147 original size:20 final size:20
Alignment explanation
Indices: 4714119--4714218 Score: 62
Period size: 20 Copynumber: 5.0 Consensus size: 20
4714109 TTATACTTCG
4714119 GTACCCCTGATTGCACATAC
1 GTACCCCTGATTGCACATAC
* * * **
4714139 GTGCCCCTG-TTCGTACTTTG
1 GTACCCCTGATT-GCACATAC
*
4714159 GTACCCCTGATTGCACATAT
1 GTACCCCTGATTGCACATAC
* * * *
4714179 GTGCCTCTG-TTCGTAC-TTC
1 GTACCCCTGATT-GCACATAC
4714198 GGTACCCCTGATTGCACATAC
1 -GTACCCCTGATTGCACATAC
4714219 CTGTTCATAC
Statistics
Matches: 55, Mismatches: 19, Indels: 11
0.65 0.22 0.13
Matches are distributed among these distances:
19 5 0.09
20 44 0.80
21 6 0.11
ACGTcount: A:0.17, C:0.32, G:0.19, T:0.32
Consensus pattern (20 bp):
GTACCCCTGATTGCACATAC
Found at i:4714167 original size:40 final size:40
Alignment explanation
Indices: 4714112--4714288 Score: 213
Period size: 40 Copynumber: 4.6 Consensus size: 40
4714102 AAAATTATTA
4714112 TACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTCG
1 TACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTCG
* * *
4714152 TACTTTGGTACCCCTGATTGCACATATGTGCCTCTGTTCG
1 TACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTCG
*
4714192 TACTTCGGTACCCCTGATTGCACATA------CCTGTTCA
1 TACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTCG
* * * * *
4714226 TACTTTGGTACTCCTAATTGCACATACGTGCCCCTATTTG
1 TACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTCG
* *
4714266 TACTTCAGTACCCCTAATTGCAC
1 TACTTCGGTACCCCTGATTGCAC
4714289 TTTAGTGCCG
Statistics
Matches: 116, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
34 29 0.25
40 87 0.75
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (40 bp):
TACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTCG
Found at i:4714250 original size:74 final size:75
Alignment explanation
Indices: 4714112--4714288 Score: 221
Period size: 74 Copynumber: 2.3 Consensus size: 75
4714102 AAAATTATTA
* *
4714112 TACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTTCGTACTTTGGTACCCCTGATTGCACAT
1 TACTTCGGTACCCCTGATTGCACATA-----CCCTGTTCATACTTTGGTACCCCTAATTGCACAT
* * *
4714177 ATGTGCCTCTGTTCG
61 ACGTGCCCCTATTCG
*
4714192 TACTTCGGTACCCCTGATTGCACATA-CCTGTTCATACTTTGGTACTCCTAATTGCACATACGTG
1 TACTTCGGTACCCCTGATTGCACATACCCTGTTCATACTTTGGTACCCCTAATTGCACATACGTG
*
4714256 CCCCTATTTG
66 CCCCTATTCG
* *
4714266 TACTTCAGTACCCCTAATTGCAC
1 TACTTCGGTACCCCTGATTGCAC
4714289 TTTAGTGCCG
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
74 62 0.70
80 26 0.30
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (75 bp):
TACTTCGGTACCCCTGATTGCACATACCCTGTTCATACTTTGGTACCCCTAATTGCACATACGTG
CCCCTATTCG
Found at i:4714290 original size:20 final size:20
Alignment explanation
Indices: 4714233--4714290 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
4714223 TCATACTTTG
* *
4714233 GTACTCCTAATTGCACATAC
1 GTACCCCTAATTGCACTTAC
* * *
4714253 GTGCCCCTATTTGTACTT-C
1 GTACCCCTAATTGCACTTAC
4714272 AGTACCCCTAATTGCACTT
1 -GTACCCCTAATTGCACTT
4714291 TAGTGCCGAT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.34
Consensus pattern (20 bp):
GTACCCCTAATTGCACTTAC
Found at i:4715447 original size:23 final size:24
Alignment explanation
Indices: 4715403--4715447 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
4715393 AAAATCCTAC
*
4715403 CCATCCAGCCTCTACACACCATCT
1 CCATCCAACCTCTACACACCATCT
*
4715427 CCATCCAACCT-TACACTCCAT
1 CCATCCAACCTCTACACACCAT
4715448 GTGGGGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.27, C:0.49, G:0.02, T:0.22
Consensus pattern (24 bp):
CCATCCAACCTCTACACACCATCT
Found at i:4718091 original size:26 final size:26
Alignment explanation
Indices: 4718060--4718110 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
4718050 AGACCAACTC
*
4718060 AGGACCCAGAACACGTGGCTCACCAT
1 AGGACCCAGAACACGTCGCTCACCAT
4718086 AGGACCCAGAACACGTCGCTCACCA
1 AGGACCCAGAACACGTCGCTCACCA
4718111 AACTCAATCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.37, G:0.22, T:0.10
Consensus pattern (26 bp):
AGGACCCAGAACACGTCGCTCACCAT
Found at i:4729032 original size:21 final size:21
Alignment explanation
Indices: 4729008--4729049 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4728998 ATTAAACATA
* *
4729008 ATAATCTAACATCAAACTCTT
1 ATAATCCAACATAAAACTCTT
*
4729029 ATAATCCATCATAAAACTCTT
1 ATAATCCAACATAAAACTCTT
4729050 GTATAGGGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAATCCAACATAAAACTCTT
Found at i:4731947 original size:14 final size:15
Alignment explanation
Indices: 4731928--4731960 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4731918 ATCTAAGTAC
*
4731928 TTAAA-TGATGGGTG
1 TTAAATTGATGGGTA
4731942 TTAAATTGATGGGTA
1 TTAAATTGATGGGTA
4731957 TTAA
1 TTAA
4731961 GGTATCCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.39
Consensus pattern (15 bp):
TTAAATTGATGGGTA
Found at i:4744884 original size:20 final size:18
Alignment explanation
Indices: 4744859--4744901 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
4744849 TTGTCGAATT
4744859 CTCTCTTCTCATCTCTTCTC
1 CTCTCTTCTCA--TCTTCTC
*
4744879 CTCTCTTTTCATCTTCTC
1 CTCTCTTCTCATCTTCTC
4744897 CTCTC
1 CTCTC
4744902 CATTCTAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.55
20 10 0.45
ACGTcount: A:0.05, C:0.44, G:0.00, T:0.51
Consensus pattern (18 bp):
CTCTCTTCTCATCTTCTC
Found at i:4745668 original size:27 final size:27
Alignment explanation
Indices: 4745632--4745851 Score: 264
Period size: 27 Copynumber: 8.1 Consensus size: 27
4745622 AATGGGCCAC
**
4745632 AAATGACCAAAATACCCTTGAAGGG-A
1 AAATGACCAAAATACCCTCAAAGGGTA
* *
4745658 CAAATGACCAAAATACCCTCGAAGAGTA
1 -AAATGACCAAAATACCCTCAAAGGGTA
* * *
4745686 AAATGATCGAAATACCCTCAAAAGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
* *
4745713 AAATGATCAAAATACCCTCGAAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
4745740 AAATGACCAAAATACCCTCAAAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
** *
4745767 AAATGATTAAAATACCGC-CAATGGGTA
1 AAATGACCAAAATACC-CTCAAAGGGTA
*
4745794 AAATGACCAAAATACCCCCAAAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
* * *
4745821 AAATGATCAAAATACCCTTATAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
4745848 AAAT
1 AAAT
4745852 AAATGTTGTA
Statistics
Matches: 168, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 165 0.98
28 2 0.01
ACGTcount: A:0.47, C:0.20, G:0.16, T:0.18
Consensus pattern (27 bp):
AAATGACCAAAATACCCTCAAAGGGTA
Found at i:4745768 original size:81 final size:81
Alignment explanation
Indices: 4745632--4745851 Score: 291
Period size: 81 Copynumber: 2.7 Consensus size: 81
4745622 AATGGGCCAC
* * * *
4745632 AAATGACCAAAATACCCTTGAAGGG-ACAAATGACCAAAATACCCTCGAAGAGTAAAATGATCGA
1 AAATGACCAAAATACCCTCGAAGGGTA-AAATGACCAAAATACCCTCAAAGGGTAAAATGATCAA
4745696 AATACC-CTCAAAAGGTA
65 AATACCGC-CAAAAGGTA
* *
4745713 AAATGATCAAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCAAAGGGTAAAATGATTAAA
1 AAATGACCAAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCAAAGGGTAAAATGATCAAA
**
4745778 ATACCGCCAATGGGTA
66 ATACCGCCAAAAGGTA
* * * * *
4745794 AAATGACCAAAATACCCCCAAAGGGTAAAATGATCAAAATACCCTTATAGGGTAAAAT
1 AAATGACCAAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCAAAGGGTAAAAT
4745852 AAATGTTGTA
Statistics
Matches: 123, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
81 121 0.98
82 2 0.02
ACGTcount: A:0.47, C:0.20, G:0.16, T:0.18
Consensus pattern (81 bp):
AAATGACCAAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCAAAGGGTAAAATGATCAAA
ATACCGCCAAAAGGTA
Found at i:4746062 original size:26 final size:27
Alignment explanation
Indices: 4746005--4746082 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 27
4745995 ATAAGTGTAG
** **
4746005 TATACTG-TACTAGTGGCTTTGCCACA
1 TATACTGTTACTAGCAGCTTTGCTGCA
4746031 TATACTGTTACTAGCAGCTTTGCTGCA
1 TATACTGTTACTAGCAGCTTTGCTGCA
*
4746058 T-TACTGTTACTGGCAGCTTTGCTGC
1 TATACTGTTACTAGCAGCTTTGCTGC
4746083 GTTATTATTG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 30 0.65
27 16 0.35
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (27 bp):
TATACTGTTACTAGCAGCTTTGCTGCA
Found at i:4746096 original size:26 final size:26
Alignment explanation
Indices: 4746033--4746103 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
4746023 TTGCCACATA
* *
4746033 TACTGTTACTAGCAGCTTTGCTGCAT
1 TACTATTACTGGCAGCTTTGCTGCAT
* *
4746059 TACTGTTACTGGCAGCTTTGCTGCGT
1 TACTATTACTGGCAGCTTTGCTGCAT
* *
4746085 TATTATTGCTGGCAGCTTT
1 TACTATTACTGGCAGCTTT
4746104 ATTGCGATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.41
Consensus pattern (26 bp):
TACTATTACTGGCAGCTTTGCTGCAT
Found at i:4746259 original size:28 final size:28
Alignment explanation
Indices: 4746218--4746275 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
4746208 CATTGTACTG
* * *
4746218 ATTACTTTATTGGGCTAGGGCCCACACT
1 ATTACTGTAATGGGCTAAGGCCCACACT
4746246 ATTACTGTAATGGGCTAAGGCCCACACT
1 ATTACTGTAATGGGCTAAGGCCCACACT
4746274 AT
1 AT
4746276 ACTAATACTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (28 bp):
ATTACTGTAATGGGCTAAGGCCCACACT
Found at i:4752457 original size:24 final size:25
Alignment explanation
Indices: 4752424--4752509 Score: 88
Period size: 25 Copynumber: 3.5 Consensus size: 25
4752414 AGGGATTATT
4752424 GATTCTTAGCTCGTATGAGCTTAAC
1 GATTCTTAGCTCGTATGAGCTTAAC
*
4752449 GATT-TTAGCTCGTGA-GAGCTTACC
1 GATTCTTAGCTCGT-ATGAGCTTAAC
* * *
4752473 GATTCTCAGCTCATATAAGCTT-AC
1 GATTCTTAGCTCGTATGAGCTTAAC
*
4752497 TGATTCATAGCTC
1 -GATTCTTAGCTC
4752510 ATAAGAGCAT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
24 23 0.46
25 27 0.54
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (25 bp):
GATTCTTAGCTCGTATGAGCTTAAC
Found at i:4773647 original size:123 final size:123
Alignment explanation
Indices: 4773428--4773671 Score: 479
Period size: 123 Copynumber: 2.0 Consensus size: 123
4773418 TAACTTCTTG
4773428 GCATTCATTAAGCCACTGAAGGTGATACGGCTGAGGGTGCTCGATACAAGGTAACTTTAAGGAAT
1 GCATTCATTAAGCCACTGAAGGTGATACGGCTGAGGGTGCTCGATACAAGGTAACTTTAAGGAAT
4773493 CCACCAAATAGCTGCTAACTACATTCGAACAACTCCCACTATCAATAATAAGTGAAGA
66 CCACCAAATAGCTGCTAACTACATTCGAACAACTCCCACTATCAATAATAAGTGAAGA
*
4773551 GCATTCATTAAGCCACTGAAGGTGATACGGCTTAGGGTGCTCGATACAAGGTAACTTTAAGGAAT
1 GCATTCATTAAGCCACTGAAGGTGATACGGCTGAGGGTGCTCGATACAAGGTAACTTTAAGGAAT
4773616 CCACCAAATAGCTGCTAACTACATTCGAACAACTCCCACTATCAATAATAAGTGAA
66 CCACCAAATAGCTGCTAACTACATTCGAACAACTCCCACTATCAATAATAAGTGAA
4773672 CATAAGTTAC
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 120 1.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (123 bp):
GCATTCATTAAGCCACTGAAGGTGATACGGCTGAGGGTGCTCGATACAAGGTAACTTTAAGGAAT
CCACCAAATAGCTGCTAACTACATTCGAACAACTCCCACTATCAATAATAAGTGAAGA
Found at i:4778965 original size:439 final size:439
Alignment explanation
Indices: 4778147--4778970 Score: 1648
Period size: 439 Copynumber: 1.9 Consensus size: 439
4778137 ACTCATAAAT
4778147 AAATGAAACAATCACAAAAAATATGAATAAATTAAAATCAAACAGAAAATAAACCAAAATGCAAA
1 AAATGAAACAATCACAAAAAATATGAATAAATTAAAATCAAACAGAAAATAAACCAAAATGCAAA
4778212 ATTAACAATTTCACAAATAGTGCCTTTTAAAATAGTCCCCGGTAACGGCGCCAAAAACTTGGAAT
66 ATTAACAATTTCACAAATAGTGCCTTTTAAAATAGTCCCCGGTAACGGCGCCAAAAACTTGGAAT
4778277 GACAGAAATGTGCAAGTGTACACAATCATTATCAAGTAATAAAGTGACAAGTAAGTGTTGAGTTA
131 GACAGAAATGTGCAAGTGTACACAATCATTATCAAGTAATAAAGTGACAAGTAAGTGTTGAGTTA
4778342 CTGTACCCACAGGGACTATGAAAGAAAACTCTTTATGAAATGTAGATCAATCACTTTGGTGATTG
196 CTGTACCCACAGGGACTATGAAAGAAAACTCTTTATGAAATGTAGATCAATCACTTTGGTGATTG
4778407 GAAAAATATGTTGTTTTGAAGAATTGATTAAAAACTAAAAATTAAGTGATAAAAAAATAAAAAGT
261 GAAAAATATGTTGTTTTGAAGAATTGATTAAAAACTAAAAATTAAGTGATAAAAAAATAAAAAGT
4778472 AAAAATTCCAATGCATGATTTCAAAAAGATAAGTTTTAATAAATATGACATAATTGTATTGTCTT
326 AAAAATTCCAATGCATGATTTCAAAAAGATAAGTTTTAATAAATATGACATAATTGTATTGTCTT
4778537 CCGGAAACACGTCCTCAAATTCCTGCAAAAGAGAAACAATCGAAGAGGA
391 CCGGAAACACGTCCTCAAATTCCTGCAAAAGAGAAACAATCGAAGAGGA
4778586 AAATGAAACAATCACAAAAAATATGAATAAATTAAAATCAAACAGAAAATAAACCAAAATGCAAA
1 AAATGAAACAATCACAAAAAATATGAATAAATTAAAATCAAACAGAAAATAAACCAAAATGCAAA
4778651 ATTAACAATTTCACAAATAGTGCCTTTTAAAATAGTCCCCGGTAACGGCGCCAAAAACTTGGAAT
66 ATTAACAATTTCACAAATAGTGCCTTTTAAAATAGTCCCCGGTAACGGCGCCAAAAACTTGGAAT
4778716 GACAGAAATGTGCAAGTGTACACAATCATTATCAAGTAATAAAGTGACAAGTAAGTGTTGAGTTA
131 GACAGAAATGTGCAAGTGTACACAATCATTATCAAGTAATAAAGTGACAAGTAAGTGTTGAGTTA
4778781 CTGTACCCACAGGGACTATGAAAGAAAACTCTTTATGAAATGTAGATCAATCACTTTGGTGATTG
196 CTGTACCCACAGGGACTATGAAAGAAAACTCTTTATGAAATGTAGATCAATCACTTTGGTGATTG
4778846 GAAAAATATGTTGTTTTGAAGAATTGATTAAAAACTAAAAATTAAGTGATAAAAAAATAAAAAGT
261 GAAAAATATGTTGTTTTGAAGAATTGATTAAAAACTAAAAATTAAGTGATAAAAAAATAAAAAGT
4778911 AAAAATTCCAATGCATGATTTCAAAAAGATAAGTTTTAATAAATATGACATAATTGTATT
326 AAAAATTCCAATGCATGATTTCAAAAAGATAAGTTTTAATAAATATGACATAATTGTATT
4778971 AGATCAATTA
Statistics
Matches: 385, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
439 385 1.00
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (439 bp):
AAATGAAACAATCACAAAAAATATGAATAAATTAAAATCAAACAGAAAATAAACCAAAATGCAAA
ATTAACAATTTCACAAATAGTGCCTTTTAAAATAGTCCCCGGTAACGGCGCCAAAAACTTGGAAT
GACAGAAATGTGCAAGTGTACACAATCATTATCAAGTAATAAAGTGACAAGTAAGTGTTGAGTTA
CTGTACCCACAGGGACTATGAAAGAAAACTCTTTATGAAATGTAGATCAATCACTTTGGTGATTG
GAAAAATATGTTGTTTTGAAGAATTGATTAAAAACTAAAAATTAAGTGATAAAAAAATAAAAAGT
AAAAATTCCAATGCATGATTTCAAAAAGATAAGTTTTAATAAATATGACATAATTGTATTGTCTT
CCGGAAACACGTCCTCAAATTCCTGCAAAAGAGAAACAATCGAAGAGGA
Found at i:4779424 original size:180 final size:180
Alignment explanation
Indices: 4779122--4779481 Score: 720
Period size: 180 Copynumber: 2.0 Consensus size: 180
4779112 TCAATGTAAA
4779122 CAATTAATCAATCTTCATAAGCACATATAAGATTAAGTGAGGTAACAATATATTTTTATATTGAA
1 CAATTAATCAATCTTCATAAGCACATATAAGATTAAGTGAGGTAACAATATATTTTTATATTGAA
4779187 ACAATTTAATCACAATAATCTTGCAAGTTATGCGAGGCTAATGTACCGTTTAATACCGTCACTAA
66 ACAATTTAATCACAATAATCTTGCAAGTTATGCGAGGCTAATGTACCGTTTAATACCGTCACTAA
4779252 TTTAAGCTTTAGCTACCTTAGAAGATTAAAAATGCAACAATTACATATTG
131 TTTAAGCTTTAGCTACCTTAGAAGATTAAAAATGCAACAATTACATATTG
4779302 CAATTAATCAATCTTCATAAGCACATATAAGATTAAGTGAGGTAACAATATATTTTTATATTGAA
1 CAATTAATCAATCTTCATAAGCACATATAAGATTAAGTGAGGTAACAATATATTTTTATATTGAA
4779367 ACAATTTAATCACAATAATCTTGCAAGTTATGCGAGGCTAATGTACCGTTTAATACCGTCACTAA
66 ACAATTTAATCACAATAATCTTGCAAGTTATGCGAGGCTAATGTACCGTTTAATACCGTCACTAA
4779432 TTTAAGCTTTAGCTACCTTAGAAGATTAAAAATGCAACAATTACATATTG
131 TTTAAGCTTTAGCTACCTTAGAAGATTAAAAATGCAACAATTACATATTG
4779482 TGTCAATTAA
Statistics
Matches: 180, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
180 180 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (180 bp):
CAATTAATCAATCTTCATAAGCACATATAAGATTAAGTGAGGTAACAATATATTTTTATATTGAA
ACAATTTAATCACAATAATCTTGCAAGTTATGCGAGGCTAATGTACCGTTTAATACCGTCACTAA
TTTAAGCTTTAGCTACCTTAGAAGATTAAAAATGCAACAATTACATATTG
Found at i:4784646 original size:45 final size:45
Alignment explanation
Indices: 4784597--4784829 Score: 403
Period size: 45 Copynumber: 5.2 Consensus size: 45
4784587 TCGGCCATGG
* * * *
4784597 TGCTTCCTCAATTTGTTCCATAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
* *
4784642 TGCTTCCTTAAATTCTTCCATGAATTATGTATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
4784687 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
4784732 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
4784777 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
4784822 TGCTTCCT
1 TGCTTCCT
4784830 TAATTTCATG
Statistics
Matches: 179, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 179 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:4791759 original size:17 final size:17
Alignment explanation
Indices: 4791737--4791787 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
4791727 TTCAATCACT
4791737 TTTTTTTTAATTCTGAA
1 TTTTTTTTAATTCTGAA
*
4791754 TTTTTTTTAATTTCT--C
1 TTTTTTTTAA-TTCTGAA
*
4791770 TTTTTTTTAATACTGAA
1 TTTTTTTTAATTCTGAA
4791787 T
1 T
4791788 ACAAAAGAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 3 0.11
16 10 0.36
17 11 0.39
18 4 0.14
ACGTcount: A:0.22, C:0.08, G:0.04, T:0.67
Consensus pattern (17 bp):
TTTTTTTTAATTCTGAA
Found at i:4792609 original size:45 final size:45
Alignment explanation
Indices: 4792560--4792702 Score: 232
Period size: 45 Copynumber: 3.2 Consensus size: 45
4792550 TCGGCCATGG
* * * *
4792560 TGCTTCCTCAATTTGTTCCATAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
4792605 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
4792650 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
4792695 TGCTTCCT
1 TGCTTCCT
4792703 TAATTTCATG
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 91 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:4793559 original size:40 final size:40
Alignment explanation
Indices: 4793499--4793659 Score: 196
Period size: 40 Copynumber: 4.0 Consensus size: 40
4793489 TAGTTGAATT
* * *
4793499 ATTGCACATACGCGCCCCTGTTTGTACTTCGGTACCCCTA
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTG
* * *
4793539 ATTGAACATACGTGCCCCTGTTTGTACTTTGGTACCCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTG
** * * * *
4793579 ATTGCACATATATACCCCTGTTAGTATTTCAATACCCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTG
* *
4793619 ATTGCACGTATGTGCCCCTGTTTGTACTTCGATACCCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTG
4793659 A
1 A
4793660 AAGTATTTAG
Statistics
Matches: 102, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.34
Consensus pattern (40 bp):
ATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTG
Found at i:4793576 original size:20 final size:20
Alignment explanation
Indices: 4793513--4793658 Score: 69
Period size: 20 Copynumber: 7.3 Consensus size: 20
4793503 CACATACGCG
*
4793513 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTAGGTA
** * * * *
4793533 CCCCTAATTGAACATACGTG
1 CCCCTGTTTGTACTTAGGTA
*
4793553 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTAGGTA
* * * **
4793573 CCCCTGATTGCACATATATA
1 CCCCTGTTTGTACTTAGGTA
* * *
4793593 CCCCTGTTAGTATTTCA-ATA
1 CCCCTGTTTGTACTT-AGGTA
* * * * *
4793613 CCCCTGATTGCACGTATGTG
1 CCCCTGTTTGTACTTAGGTA
* *
4793633 CCCCTGTTTGTACTTCGATA
1 CCCCTGTTTGTACTTAGGTA
4793653 CCCCTG
1 CCCCTG
4793659 AAAGTATTTA
Statistics
Matches: 85, Mismatches: 39, Indels: 4
0.66 0.30 0.03
Matches are distributed among these distances:
19 1 0.01
20 83 0.98
21 1 0.01
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.35
Consensus pattern (20 bp):
CCCCTGTTTGTACTTAGGTA
Found at i:4797267 original size:43 final size:42
Alignment explanation
Indices: 4797124--4797267 Score: 130
Period size: 43 Copynumber: 3.4 Consensus size: 42
4797114 GGTGTGATTT
* *
4797124 CATGTAAGACCATGTCTGGGAC-GTTGGCATCGATATGAGATTA
1 CATGTAAGACCATATCTGGGACAG-TGGCATCGATATGTGA-TA
* * * * * * * *
4797167 CGTGTAAGACCATGTCTGCGATAGTCGCACCG-TATATGATT
1 CATGTAAGACCATATCTGGGACAGTGGCATCGATATGTGATA
* * *
4797208 CGTGTAAGACCCTATCTGGGACAGGGGCATCGATATGTGATAA
1 CATGTAAGACCATATCTGGGACAGTGGCATCGATATGTGAT-A
4797251 CATGTAAGACCATATCT
1 CATGTAAGACCATATCT
4797268 AAGATATGGC
Statistics
Matches: 79, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
41 26 0.33
42 12 0.15
43 40 0.51
44 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (42 bp):
CATGTAAGACCATATCTGGGACAGTGGCATCGATATGTGATA
Found at i:4802822 original size:25 final size:25
Alignment explanation
Indices: 4802675--4802811 Score: 140
Period size: 25 Copynumber: 5.5 Consensus size: 25
4802665 TAACACACCA
*
4802675 CAGCTCGT-ATGAGCTTACTGATTTG
1 CAGCTCGTGA-GAGCTTACCGATTTG
*
4802700 CAGCTTGTGAGAGCTTACCGATTCT-
1 CAGCTCGTGAGAGCTTACCGATT-TG
*
4802725 CAACTCGT-ATGAGCTTACCGATTTG
1 CAGCTCGTGA-GAGCTTACCGATTTG
* * *
4802750 TAGCTCATGAGAGCTTACTGATTCT-
1 CAGCTCGTGAGAGCTTACCGATT-TG
4802775 CAGCTCGT-ATGAGCTTACCGATTTG
1 CAGCTCGTGA-GAGCTTACCGATTTG
4802800 CAGCTCGTGAGA
1 CAGCTCGTGAGA
4802812 ACATACTGAT
Statistics
Matches: 92, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
24 4 0.04
25 83 0.90
26 5 0.05
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (25 bp):
CAGCTCGTGAGAGCTTACCGATTTG
Found at i:4802838 original size:50 final size:50
Alignment explanation
Indices: 4802675--4802823 Score: 226
Period size: 50 Copynumber: 3.0 Consensus size: 50
4802665 TAACACACCA
* * *
4802675 CAGCTCGTATGAGCTTACTGATTTGCAGCTTGTGAGAGCTTACCGATTCT
1 CAGCTCGTATGAGCTTACCGATTTGCAGCTCGTGAGAGCTTACTGATTCT
* * *
4802725 CAACTCGTATGAGCTTACCGATTTGTAGCTCATGAGAGCTTACTGATTCT
1 CAGCTCGTATGAGCTTACCGATTTGCAGCTCGTGAGAGCTTACTGATTCT
* *
4802775 CAGCTCGTATGAGCTTACCGATTTGCAGCTCGTGAGAACATACTGATTC
1 CAGCTCGTATGAGCTTACCGATTTGCAGCTCGTGAGAGCTTACTGATTC
4802824 ATGGCTTATA
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 88 1.00
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTACCGATTTGCAGCTCGTGAGAGCTTACTGATTCT
Found at i:4811888 original size:62 final size:63
Alignment explanation
Indices: 4811790--4811914 Score: 189
Period size: 62 Copynumber: 2.0 Consensus size: 63
4811780 CTAGGATTTG
* *
4811790 ACGTCTTAGGAAAGCTCGGTAATTAATTATTTTGAATCTCCACATGCATCTCATATATACTCA
1 ACGTCTTAGGAAAGCTCGGTAATCAATGATTTTGAATCTCCACATGCATCTCATATATACTCA
* ** *
4811853 ACGTCTTAGG-CAGCTCGGTAATCAATGATTTTGAATCTCCACATGTGTCTCATATATGCTCA
1 ACGTCTTAGGAAAGCTCGGTAATCAATGATTTTGAATCTCCACATGCATCTCATATATACTCA
4811915 GCAGAGATAT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
62 46 0.82
63 10 0.18
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (63 bp):
ACGTCTTAGGAAAGCTCGGTAATCAATGATTTTGAATCTCCACATGCATCTCATATATACTCA
Found at i:4832013 original size:39 final size:40
Alignment explanation
Indices: 4831942--4832086 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
4831932 GCTCCTCGTT
* *
4831942 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
4831982 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
4832021 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
4832062 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
4832087 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
38 3 0.03
39 31 0.34
40 44 0.49
41 12 0.13
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:4839563 original size:18 final size:16
Alignment explanation
Indices: 4839531--4839564 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
4839521 TTCATCTCCT
4839531 GAATAAAATAAAGAAA
1 GAATAAAATAAAGAAA
4839547 GAATAAGAATCAAAGAAA
1 GAATAA-AAT-AAAGAAA
4839565 AGGCAGCGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 3 0.19
18 7 0.44
ACGTcount: A:0.71, C:0.03, G:0.15, T:0.12
Consensus pattern (16 bp):
GAATAAAATAAAGAAA
Found at i:4840618 original size:22 final size:22
Alignment explanation
Indices: 4840593--4840635 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4840583 GATCATCACA
4840593 AATAT-AATCGCATACATATCAG
1 AATATCAATCGCA-ACATATCAG
*
4840615 AATATCAATCTCAACATATCA
1 AATATCAATCGCAACATATCA
4840636 ATCATCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.47, C:0.21, G:0.05, T:0.28
Consensus pattern (22 bp):
AATATCAATCGCAACATATCAG
Found at i:4844834 original size:23 final size:23
Alignment explanation
Indices: 4844762--4844837 Score: 62
Period size: 25 Copynumber: 3.1 Consensus size: 23
4844752 CTATGAATTG
* *
4844762 GTATGCTCACTCGAGCTGTGGATCG
1 GTATGCTCA--CGAGCTGTGGGTCA
* * **
4844787 GTATGCTCTCACGATCTATAAGTCA
1 GTATG--CTCACGAGCTGTGGGTCA
4844812 GTATGCTCACGAGCTGTGGGTCA
1 GTATGCTCACGAGCTGTGGGTCA
4844835 GTA
1 GTA
4844838 CGTAGCTACA
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
23 17 0.44
25 18 0.46
27 4 0.10
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (23 bp):
GTATGCTCACGAGCTGTGGGTCA
Found at i:4857437 original size:40 final size:40
Alignment explanation
Indices: 4857343--4857525 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
4857333 AATGATGTCT
* * * *
4857343 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
* *
4857383 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCT
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
4857423 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
4857463 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
* *
4857503 GGGCTATGTCGCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
4857526 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 116 0.91
41 10 0.08
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:4857532 original size:80 final size:79
Alignment explanation
Indices: 4857393--4857558 Score: 210
Period size: 80 Copynumber: 2.1 Consensus size: 79
4857383 GGACTAAGAT
* * **
4857393 CCGAAGGCATTTGTGCGAGTTACTAAATCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
4857457 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* *
4857473 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCGCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
4857537 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
4857552 CCGAAGG
1 CCGAAGG
4857559 TACGTGATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
79 16 0.21
80 57 0.76
81 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:4871968 original size:14 final size:14
Alignment explanation
Indices: 4871951--4871977 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4871941 TGTGTTCTTA
4871951 ATTCTTGTTTTAAT
1 ATTCTTGTTTTAAT
4871965 ATTCTTGTTTTAA
1 ATTCTTGTTTTAA
4871978 GAGTAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (14 bp):
ATTCTTGTTTTAAT
Found at i:4876612 original size:40 final size:40
Alignment explanation
Indices: 4876514--4876683 Score: 198
Period size: 40 Copynumber: 4.3 Consensus size: 40
4876504 TCCTCGTTCA
* * * * *
4876514 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
4876553 CATGCCTTCGAGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
4876593 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
4876633 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
4876673 AAGGCCTTCGG
1 AATGCCTTCGG
4876684 ATCTTAGTCC
Statistics
Matches: 110, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 31 0.28
40 79 0.72
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:4890450 original size:43 final size:46
Alignment explanation
Indices: 4890397--4890525 Score: 129
Period size: 51 Copynumber: 2.8 Consensus size: 46
4890387 GAGATATGTG
* *
4890397 GCATCCGAGCTCGTTGAGGGGTCCGAGTTCATTATA-GA-CACG-A
1 GCATCTGAGCTCGTTGAGAGGTCCGAGTTCATTATATGATCACGTA
* * *
4890440 GCATCTGAGCTCATTGAGAGGTTCGAGTTCATAATGGATATGATTCATGTA
1 GCATCTGAGCTCGTTGAGAGGTCCGAGTTCAT--T--ATATGA-TCACGTA
* *
4890491 ACATCTGAGCTCGTTGAGAGGTCTGAGTTCATTAT
1 GCATCTGAGCTCGTTGAGAGGTCCGAGTTCATTAT
4890526 GGATGTGTTA
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
43 28 0.41
45 1 0.01
47 5 0.07
48 2 0.03
49 1 0.01
50 3 0.04
51 29 0.42
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (46 bp):
GCATCTGAGCTCGTTGAGAGGTCCGAGTTCATTATATGATCACGTA
Found at i:4893957 original size:188 final size:187
Alignment explanation
Indices: 4893641--4894015 Score: 651
Period size: 188 Copynumber: 2.0 Consensus size: 187
4893631 TCCTGAAATT
* * *
4893641 GCCATGGCATTAATGTTGGTAATCCATCCACCCTTTTGCAATGAAAAACTTCACTCCTTCATTTG
1 GCCATGGAATTAATGTTGGAAATCCATCCACCATTTTGCAATGAAAAACTTCACTCCTTCATTTG
4893706 TTCTCCTCATTCTACACCTATCATCCAAACAAATCTTTTCCATCTAAAAGTAAAAGTAACATAAG
66 TTCTCCTCATTCTACACCTATCATCCAAACAAATCTTTTCCATCTAAAAGTAAAAGTAACATAAG
* *
4893771 AACATTTAAGCACAATCAAAGCTTCATGATGTAATGCCCTAAAATACTAATATAATA
131 AACATTTAAGCACAATCAAAGCTTCATCATGCAATGCCCTAAAATACTAATATAATA
4893828 GCCATGGAATTAATGTTGGAAATCCATCCACCATTTTGCAATGAAAAAACTTCACTCCTTCATTT
1 GCCATGGAATTAATGTTGGAAATCCATCCACCATTTTGCAATG-AAAAACTTCACTCCTTCATTT
* *
4893893 GTTCTCCTCATTCTACACCTGTCATCCAAACAAATCTTTTCCATCTACAAGTAAAAGTAACATAA
65 GTTCTCCTCATTCTACACCTATCATCCAAACAAATCTTTTCCATCTAAAAGTAAAAGTAACATAA
* * *
4893958 TAACATTTAAGCACAATCCAAGCTTCATCATGCAATGTCCTAAAATACTAATATAATA
130 GAACATTTAAGCACAATCAAAGCTTCATCATGCAATGCCCTAAAATACTAATATAATA
4894016 TCCTGAGTTA
Statistics
Matches: 177, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
187 40 0.23
188 137 0.77
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.31
Consensus pattern (187 bp):
GCCATGGAATTAATGTTGGAAATCCATCCACCATTTTGCAATGAAAAACTTCACTCCTTCATTTG
TTCTCCTCATTCTACACCTATCATCCAAACAAATCTTTTCCATCTAAAAGTAAAAGTAACATAAG
AACATTTAAGCACAATCAAAGCTTCATCATGCAATGCCCTAAAATACTAATATAATA
Found at i:4897292 original size:12 final size:12
Alignment explanation
Indices: 4897275--4897299 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4897265 TGAATAGGGA
4897275 TAATAACATAAC
1 TAATAACATAAC
4897287 TAATAACATAAC
1 TAATAACATAAC
4897299 T
1 T
4897300 TAGGGATCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (12 bp):
TAATAACATAAC
Found at i:4903571 original size:40 final size:40
Alignment explanation
Indices: 4903488--4903830 Score: 485
Period size: 40 Copynumber: 8.6 Consensus size: 40
4903478 TTGAATGCTG
* * * * * *
4903488 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
4903528 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
4903568 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4903608 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4903648 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
4903688 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
4903728 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
4903768 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
4903807 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
4903831 TGAACGAGGA
Statistics
Matches: 281, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.12
40 238 0.85
41 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:4905932 original size:12 final size:12
Alignment explanation
Indices: 4905915--4905944 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4905905 TTATAGATGG
*
4905915 ATGCATTTTTAT
1 ATGCATTTTCAT
4905927 ATGCATTTTCAT
1 ATGCATTTTCAT
4905939 ATGCAT
1 ATGCAT
4905945 ACTTTAAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.50
Consensus pattern (12 bp):
ATGCATTTTCAT
Found at i:4908895 original size:40 final size:40
Alignment explanation
Indices: 4908807--4908944 Score: 183
Period size: 40 Copynumber: 3.5 Consensus size: 40
4908797 CAACCAAGTA
* * * *
4908807 CCTTCGGGATTTAG-CCGGACATAGCT-ACCCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
4908846 CCTTCGGGACTTAGCTC-GATTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCACAAATG
*
4908886 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
4908926 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
4908945 TTATCATCCG
Statistics
Matches: 87, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
39 16 0.18
40 69 0.79
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:4912105 original size:43 final size:42
Alignment explanation
Indices: 4912058--4912152 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 42
4912048 TCCTAGGCGT
* * *
4912058 GGTCTTACATGTAATCAAATATCGATGCC-ATTATCCCAGACAG
1 GGTCTTACACGAAATCAAATA-CGATGCCGA-TATCCCAAACAG
* * *
4912101 GGTCTTACACGAAATCAAATACGATTCCGATCTCCCAAACAT
1 GGTCTTACACGAAATCAAATACGATGCCGATATCCCAAACAG
4912143 GGTCTTACAC
1 GGTCTTACAC
4912153 ATAAATCATA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 25 0.56
43 20 0.44
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATACGATGCCGATATCCCAAACAG
Found at i:4912150 original size:42 final size:43
Alignment explanation
Indices: 4912057--4912209 Score: 123
Period size: 43 Copynumber: 3.6 Consensus size: 43
4912047 GTCCTAGGCG
* * *
4912057 TGGTCTTACATGTAATCAAATATCGATGCCATTATCCCAGACA
1 TGGTCTTACACGAAATCAAATATCGATGCCATTATCCCAAACA
* * *
4912100 GGGTCTTACACGAAATCAAATA-CGATTCCGA-TCTCCCAAACA
1 TGGTCTTACACGAAATCAAATATCGATGCC-ATTATCCCAAACA
* * * * * * * *
4912142 TGGTCTTACACATAAATCATAA-GTCAATGACAATGTCCCTAACG
1 TGGTCTTACAC-GAAATCA-AATATCGATGCCATTATCCCAAACA
*
4912186 TGGTCTTACACGAAATCACATATC
1 TGGTCTTACACGAAATCAAATATC
4912210 AGAAATCCTA
Statistics
Matches: 86, Mismatches: 18, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
42 26 0.30
43 35 0.41
44 25 0.29
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.27
Consensus pattern (43 bp):
TGGTCTTACACGAAATCAAATATCGATGCCATTATCCCAAACA
Found at i:4915745 original size:21 final size:22
Alignment explanation
Indices: 4915693--4915745 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
4915683 AGCATATTAA
4915693 GTCATCAAAACACATAGGAAAC
1 GTCATCAAAACACATAGGAAAC
4915715 GTCATCAAAACACATAGGAAAC
1 GTCATCAAAACACATAGGAAAC
*
4915737 TTC-TCAAAA
1 GTCATCAAAA
4915746 TATATGAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.49, C:0.23, G:0.11, T:0.17
Consensus pattern (22 bp):
GTCATCAAAACACATAGGAAAC
Found at i:4926833 original size:18 final size:19
Alignment explanation
Indices: 4926790--4926825 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4926780 ATTTTTAATA
4926790 TATATTC-T-AATTATTTT
1 TATATTCTTAAATTATTTT
4926807 TATATTCTTAAATTATTTT
1 TATATTCTTAAATTATTTT
4926826 ATTATCTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 1 0.06
19 9 0.53
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (19 bp):
TATATTCTTAAATTATTTT
Found at i:4932537 original size:2 final size:2
Alignment explanation
Indices: 4932530--4932554 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4932520 ATCTTTATTA
4932530 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
4932555 AACATAATTT
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:4932711 original size:11 final size:11
Alignment explanation
Indices: 4932682--4932711 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
4932672 TTATTATTAT
4932682 AAACTAAAAAA
1 AAACTAAAAAA
4932693 AAAC-AAAAAA
1 AAACTAAAAAA
4932703 AAACTAAAA
1 AAACTAAAA
4932712 CTATCGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (11 bp):
AAACTAAAAAA
Found at i:4932970 original size:153 final size:154
Alignment explanation
Indices: 4932778--4933369 Score: 866
Period size: 153 Copynumber: 3.8 Consensus size: 154
4932768 AAAAATTAAA
* * *
4932778 AATAATTTAAAATATAAATATATATATAATATACAAATTATTATTACAAACAATAAAAACATACC
1 AATAAATTAAAATAT-AA-ACATATATAATATACAAATTATTATAACAAACAATAAAAACATACC
* * * *
4932843 TTAAAACTATCACACTTTCT-CTTTAAACTCTAACACAAACAAACTTTTCCTTCAAAAATTCCAA
64 TTAAAACTATCACACTTTCTCCCTAAAACTCCAACACAAACAAACTTTTCCTTCCAAAATTCCAA
* * *
4932907 CAGCCAACTACAATAAAAAAGATAAC
129 CAGCCAACTACGATAAAAAAAATAGC
* * *
4932933 AATAAATTAAAATATAAATATATATAATATACAAATTATTATAACAAACAATAAAAATATATCTT
1 AATAAATTAAAATATAAACATATATAATATACAAATTATTATAACAAACAATAAAAACATACCTT
* ** * *
4932998 AAAACTATTACACTTTCTCCCTAAAACTCCAACACATTCAAACTTTTCCTTCCAAAATTTCAATA
66 AAAACTATCACACTTTCTCCCTAAAACTCCAACACAAACAAACTTTTCCTTCCAAAATTCCAACA
*
4933063 GCCAACTATGATAAAAAAAATAGC
131 GCCAACTACGATAAAAAAAATAGC
* * *
4933087 AATAAATTAAAATATAAACATATATAATATAAAAATTATTATAACAAACAATAAAAATATATCTT
1 AATAAATTAAAATATAAACATATATAATATACAAATTATTATAACAAACAATAAAAACATACCTT
* * *
4933152 AAAACTATTACACTTTCTCCTTAAAACTCCAACAC--ACAAACTTTTCCTTCCAAAATTCCAAAA
66 AAAACTATCACACTTTCTCCCTAAAACTCCAACACAAACAAACTTTTCCTTCCAAAATTCCAACA
4933215 GCCAACTACGATAAAAAAAATTAGC
131 GCCAACTACGATAAAAAAAA-TAGC
*
4933240 AATAAATTAAAATATAAACATATATAATATACAAATTATTATAACAAACAACAAAAACATACCTT
1 AATAAATTAAAATATAAACATATATAATATACAAATTATTATAACAAACAATAAAAACATACCTT
* * * *
4933305 AAAATTATCACACTTCCTCCCTAAAACTCCGACACAAACAAACCTTTCCTTCCAAAATTCCAACA
66 AAAACTATCACACTTTCTCCCTAAAACTCCAACACAAACAAACTTTTCCTTCCAAAATTCCAACA
4933370 CATAAATAAT
Statistics
Matches: 398, Mismatches: 35, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
152 44 0.11
153 157 0.39
154 157 0.39
155 40 0.10
ACGTcount: A:0.51, C:0.19, G:0.02, T:0.28
Consensus pattern (154 bp):
AATAAATTAAAATATAAACATATATAATATACAAATTATTATAACAAACAATAAAAACATACCTT
AAAACTATCACACTTTCTCCCTAAAACTCCAACACAAACAAACTTTTCCTTCCAAAATTCCAACA
GCCAACTACGATAAAAAAAATAGC
Found at i:4933245 original size:307 final size:308
Alignment explanation
Indices: 4932778--4933363 Score: 899
Period size: 307 Copynumber: 1.9 Consensus size: 308
4932768 AAAAATTAAA
* * * *
4932778 AATAATTTAAAATATAAATATATATATAATATACAAATTATTATTACAAACAATAAAAACATACC
1 AATAAATTAAAATATAAATACATATATAATATAAAAATTATTATAACAAACAATAAAAACATACC
* * *
4932843 TTAAAACTATCACACTTTCTCTTTAAACTCTAACACAAACAAACTTTTCCTTCAAAAATTCCAAC
66 TTAAAACTATCACACTTTCTCTTAAAACTCCAACAC-AACAAACTTTTCCTTCAAAAATTCCAAA
* *
4932908 AGCCAACTACAATAAAAAAGATAACAATAAATTAAAATATAAATATATATAATATACAAATTATT
130 AGCCAACTACAATAAAAAAAATAACAATAAATTAAAATATAAACATATATAATATACAAATTATT
* * * * * **
4932973 ATAACAAACAATAAAAATATATCTTAAAACTATTACACTTTCTCCCTAAAACTCCAACACATTCA
195 ATAACAAACAACAAAAACATACCTTAAAACTATCACACTTCCTCCCTAAAACTCCAACACAAACA
*
4933038 AACTTTTCCTTCCAAAATTTCAATAGCCAACTATGATAAAAAAAATAGC
260 AACCTTTCCTTCCAAAATTTCAATAGCCAACTATGATAAAAAAAATAGC
* *
4933087 AATAAATTAAAATAT-AA-ACATATATAATATAAAAATTATTATAACAAACAATAAAAATATATC
1 AATAAATTAAAATATAAATACATATATAATATAAAAATTATTATAACAAACAATAAAAACATACC
* *
4933150 TTAAAACTATTACACTTTCTCCTTAAAACTCCAACAC-ACAAACTTTTCCTTCCAAAATTCCAAA
66 TTAAAACTATCACACTTTCT-CTTAAAACTCCAACACAACAAACTTTTCCTTCAAAAATTCCAAA
* *
4933214 AGCCAACTACGATAAAAAAAATTAGCAATAAATTAAAATATAAACATATATAATATACAAATTAT
130 AGCCAACTACAATAAAAAAAA-TAACAATAAATTAAAATATAAACATATATAATATACAAATTAT
* *
4933279 TATAACAAACAACAAAAACATACCTTAAAATTATCACACTTCCTCCCTAAAACTCCGACACAAAC
194 TATAACAAACAACAAAAACATACCTTAAAACTATCACACTTCCTCCCTAAAACTCCAACACAAAC
4933344 AAACCTTTCCTTCCAAAATT
259 AAACCTTTCCTTCCAAAATT
4933364 CCAACACATA
Statistics
Matches: 250, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
306 44 0.18
307 176 0.70
308 16 0.06
309 14 0.06
ACGTcount: A:0.51, C:0.19, G:0.02, T:0.29
Consensus pattern (308 bp):
AATAAATTAAAATATAAATACATATATAATATAAAAATTATTATAACAAACAATAAAAACATACC
TTAAAACTATCACACTTTCTCTTAAAACTCCAACACAACAAACTTTTCCTTCAAAAATTCCAAAA
GCCAACTACAATAAAAAAAATAACAATAAATTAAAATATAAACATATATAATATACAAATTATTA
TAACAAACAACAAAAACATACCTTAAAACTATCACACTTCCTCCCTAAAACTCCAACACAAACAA
ACCTTTCCTTCCAAAATTTCAATAGCCAACTATGATAAAAAAAATAGC
Found at i:4940816 original size:3 final size:3
Alignment explanation
Indices: 4940808--4940833 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4940798 ATCACCAAAA
4940808 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
4940834 AAACACATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:4941844 original size:13 final size:13
Alignment explanation
Indices: 4941826--4941851 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4941816 TCATACGACT
4941826 AAGACACACGGCC
1 AAGACACACGGCC
4941839 AAGACACACGGCC
1 AAGACACACGGCC
4941852 GTGTCTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.38, G:0.23, T:0.00
Consensus pattern (13 bp):
AAGACACACGGCC
Found at i:4942618 original size:6 final size:6
Alignment explanation
Indices: 4942607--4942645 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
4942597 AGAATACACC
* *
4942607 GTAACA GTAACA GTAACA ATAACA GTAACA ATAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
4942646 GTAGTATCGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.54, C:0.15, G:0.13, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:4942624 original size:12 final size:12
Alignment explanation
Indices: 4942607--4942645 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
4942597 AGAATACACC
*
4942607 GTAACAGTAACA
1 GTAACAATAACA
4942619 GTAACAATAACA
1 GTAACAATAACA
4942631 GTAACAATAACA
1 GTAACAATAACA
4942643 GTA
1 GTA
4942646 GTAGTATCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.54, C:0.15, G:0.13, T:0.18
Consensus pattern (12 bp):
GTAACAATAACA
Found at i:4943512 original size:26 final size:26
Alignment explanation
Indices: 4943476--4943530 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
4943466 ACCAATTAAG
4943476 CTTCAAACCTTAAAACCCTATTTTTC
1 CTTCAAACCTTAAAACCCTATTTTTC
4943502 CTTCAAACCTTAAAACCCTATTTTTC
1 CTTCAAACCTTAAAACCCTATTTTTC
4943528 CTT
1 CTT
4943531 TCTTTTTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (26 bp):
CTTCAAACCTTAAAACCCTATTTTTC
Found at i:4943540 original size:6 final size:6
Alignment explanation
Indices: 4943529--4943553 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4943519 CTATTTTTCC
4943529 TTTCTT TTTCTT TTTCTT TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT T
4943554 CCTTTCTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:4943557 original size:27 final size:27
Alignment explanation
Indices: 4943524--4943606 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
4943514 AAACCCTATT
4943524 TTTCCTTTCTTTTTCTTTTTCTTTTTC
1 TTTCCTTTCTTTTTCTTTTTCTTTTTC
* * * *
4943551 TTTCCTTTCTATTTCGTTTTCATTCTC
1 TTTCCTTTCTTTTTCTTTTTCTTTTTC
* *
4943578 TGTT-CTTTCTTTTTCTATTT-TGTTTC
1 T-TTCCTTTCTTTTTCTTTTTCTTTTTC
4943604 TTT
1 TTT
4943607 TATTTATTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
25 2 0.04
26 4 0.09
27 37 0.82
28 2 0.04
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.72
Consensus pattern (27 bp):
TTTCCTTTCTTTTTCTTTTTCTTTTTC
Found at i:4943558 original size:11 final size:10
Alignment explanation
Indices: 4943522--4943606 Score: 55
Period size: 11 Copynumber: 7.9 Consensus size: 10
4943512 TAAAACCCTA
4943522 TTTTTCCTTTC
1 TTTTT-CTTTC
4943533 TTTTTCTTTTTC
1 TTTTTC--TTTC
4943545 TTTTTCTTTCC
1 TTTTTCTTT-C
* *
4943556 TTTCTATTTC
1 TTTTTCTTTC
* *
4943566 GTTTTCATTC
1 TTTTTCTTTC
*
4943576 TCTGTTCTTTC
1 T-TTTTCTTTC
4943587 TTTTTCTATT-
1 TTTTTCT-TTC
4943597 TTGTTTCTTT
1 TT-TTTCTTT
4943607 TATTTATTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
10 20 0.34
11 28 0.48
12 10 0.17
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.73
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:4943565 original size:21 final size:21
Alignment explanation
Indices: 4943522--4943607 Score: 68
Period size: 21 Copynumber: 4.0 Consensus size: 21
4943512 TAAAACCCTA
*
4943522 TTTTTCCTTTCTTTTTCTTTTTC
1 TTTTT-CTTTCTCTTTC-TTTTC
4943545 TTTTTCTTTC-CTTTCTATTTC
1 TTTTTCTTTCTCTTTCT-TTTC
* *
4943566 GTTTTCATTCTCTGTTC-TTTC
1 TTTTTCTTTCTCT-TTCTTTTC
* *
4943587 TTTTTCTATTTTGTTTCTTTT
1 TTTTTCT-TTCTCTTTCTTTT
4943608 ATTTATTTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
20 1 0.02
21 28 0.55
22 14 0.27
23 8 0.16
ACGTcount: A:0.03, C:0.20, G:0.03, T:0.73
Consensus pattern (21 bp):
TTTTTCTTTCTCTTTCTTTTC
Found at i:4943603 original size:17 final size:17
Alignment explanation
Indices: 4943535--4943607 Score: 55
Period size: 17 Copynumber: 4.5 Consensus size: 17
4943525 TTCCTTTCTT
4943535 TTTCTTTTTCT-TTTTC
1 TTTCTTTTTCTATTTTC
*
4943551 TTTC-CTTTCTA-TTTC
1 TTTCTTTTTCTATTTTC
** * *
4943566 GTTT-TCATTCTCTGTTC
1 -TTTCTTTTTCTATTTTC
*
4943583 TTTCTTTTTCTATTTTG
1 TTTCTTTTTCTATTTTC
4943600 TTTCTTTT
1 TTTCTTTT
4943608 ATTTATTTTA
Statistics
Matches: 43, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
15 9 0.21
16 15 0.35
17 19 0.44
ACGTcount: A:0.04, C:0.19, G:0.04, T:0.73
Consensus pattern (17 bp):
TTTCTTTTTCTATTTTC
Found at i:4943616 original size:18 final size:17
Alignment explanation
Indices: 4943535--4943607 Score: 53
Period size: 16 Copynumber: 4.5 Consensus size: 17
4943525 TTCCTTTCTT
*
4943535 TTTCTTTTTCT-TTTTC
1 TTTCTTTTTCTATTTTG
* *
4943551 TTTC-CTTTCTATTTCG
1 TTTCTTTTTCTATTTTG
** * * *
4943567 TTT-TCATTCTCTGTTC
1 TTTCTTTTTCTATTTTG
4943583 TTTCTTTTTCTATTTTG
1 TTTCTTTTTCTATTTTG
4943600 TTTCTTTT
1 TTTCTTTT
4943608 ATTTATTTTA
Statistics
Matches: 41, Mismatches: 13, Indels: 5
0.69 0.22 0.08
Matches are distributed among these distances:
15 5 0.12
16 20 0.49
17 16 0.39
ACGTcount: A:0.04, C:0.19, G:0.04, T:0.73
Consensus pattern (17 bp):
TTTCTTTTTCTATTTTG
Found at i:4943647 original size:21 final size:21
Alignment explanation
Indices: 4943606--4943663 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
4943596 TTTGTTTCTT
* *
4943606 TTAT-TTATTTTAACTATTATA
1 TTATATTATTATAA-TAATATA
4943627 TTATATTATTATAATAATATA
1 TTATATTATTATAATAATATA
4943648 TTATATATATTA-AATA
1 TTATAT-TATTATAATA
4943664 TCTTATACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 20 0.61
22 13 0.39
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATATTATTATAATAATATA
Found at i:4947349 original size:14 final size:14
Alignment explanation
Indices: 4947330--4947408 Score: 65
Period size: 14 Copynumber: 5.7 Consensus size: 14
4947320 TAAAATATTT
4947330 ATTATTTTTATTAA
1 ATTATTTTTATTAA
*
4947344 ATTATTTTTAAT-A
1 ATTATTTTTATTAA
* *
4947357 A-TAATCTTATTAAA
1 ATTATTTTTATT-AA
* * *
4947371 ATTTAATATTATT-T
1 A-TTATTTTTATTAA
4947385 ATTATTTTTATTAA
1 ATTATTTTTATTAA
4947399 ATTATTTTTA
1 ATTATTTTTA
4947409 ATAATAACCT
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
12 7 0.14
13 11 0.22
14 24 0.47
16 9 0.18
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTATTTTTATTAA
Found at i:4947389 original size:55 final size:55
Alignment explanation
Indices: 4947277--4947434 Score: 221
Period size: 55 Copynumber: 2.8 Consensus size: 55
4947267 TATATAAGAA
* *
4947277 TTTTATTAAATTATATTTAATAATAAT-TATGTTAAAATATGGTTAA-AATATTTATTAT
1 TTTTATTAAATTATTTTTAATAATAATCT-TATT-AAA-AT--TTAATAATATTTATTAT
*
4947335 TTTTATTAAATTATTTTTAATAATAATCTTATTAAAATTTAATATTATTTATTAT
1 TTTTATTAAATTATTTTTAATAATAATCTTATTAAAATTTAATAATATTTATTAT
*
4947390 TTTTATTAAATTATTTTTAATAATAACCTTATTAAAATTTAATAA
1 TTTTATTAAATTATTTTTAATAATAATCTTATTAAAATTTAATAA
4947435 CAATAACAAT
Statistics
Matches: 93, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
54 4 0.04
55 54 0.58
56 2 0.02
57 3 0.03
58 29 0.31
59 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (55 bp):
TTTTATTAAATTATTTTTAATAATAATCTTATTAAAATTTAATAATATTTATTAT
Found at i:4947627 original size:16 final size:16
Alignment explanation
Indices: 4947601--4947654 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
4947591 TGAATTACTG
*
4947601 ATTACACCTCTATTCC
1 ATTACAGCTCTATTCC
* *
4947617 ATTACGGCTCTATTCA
1 ATTACAGCTCTATTCC
*
4947633 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
4947649 ATTACA
1 ATTACA
4947655 ACCAACCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:4948911 original size:26 final size:25
Alignment explanation
Indices: 4948854--4948923 Score: 61
Period size: 26 Copynumber: 2.7 Consensus size: 25
4948844 TTTTATAGGT
* *
4948854 TAAAAATAATTGTAAAAAATGAATATA
1 TAAAAATAA-TAT-AAATATGAATATA
* *
4948881 AAAAAATAATAATAAATATGAATATG
1 TAAAAATAAT-ATAAATATGAATATA
*
4948907 TAAAAGT-ATATAAATAT
1 TAAAAATAATATAAATAT
4948924 TTTTAATATT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
24 8 0.22
25 2 0.06
26 17 0.47
27 9 0.25
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (25 bp):
TAAAAATAATATAAATATGAATATA
Found at i:4950332 original size:23 final size:23
Alignment explanation
Indices: 4950306--4950351 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
4950296 CCAAAAAAGA
4950306 ATATTAAAGTAACATATTGACTT
1 ATATTAAAGTAACATATTGACTT
4950329 ATATTAAAGTAACATATTGACTT
1 ATATTAAAGTAACATATTGACTT
4950352 TCAAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (23 bp):
ATATTAAAGTAACATATTGACTT
Found at i:4954321 original size:48 final size:49
Alignment explanation
Indices: 4954269--4954405 Score: 179
Period size: 48 Copynumber: 2.8 Consensus size: 49
4954259 GCCACATTAT
* * *
4954269 GAGAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCATT-GATAC
1 GAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTCGACAC
* * * *
4954317 GAGAGCTAGTGTAAGACCATGTCTAGGACATGGTATCAGC-TTCGACAT
1 GAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTCGACAC
* *
4954365 GTGAGCCAGCGTAAGACCATGTCTAGGACATGGCATCGGCA
1 GAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
4954406 ATTTACCCTC
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
47 2 0.03
48 73 0.97
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.21
Consensus pattern (49 bp):
GAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTCGACAC
Found at i:4954379 original size:96 final size:96
Alignment explanation
Indices: 4954225--4954405 Score: 247
Period size: 96 Copynumber: 1.9 Consensus size: 96
4954215 TGATAGGTGT
* * * *
4954225 GCTAGTGCAAGACCATGTCTGGGACGTGGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGCAAGACCATGTCTAGGACATGGCATCAGCCACATCATGAGAGCCAGCGTAAGACCATG
*
4954290 TCTGGGACATGACATCGGCATTGATACGAGA
66 TCTAGGACATGACATCGGCATTGATACGAGA
* * ** *
4954321 GCTAGTGTAAGACCATGTCTAGGACATGGTATCAGCTTCGA-CATGTGAGCCAGCGTAAGACCAT
1 GCTAGTGCAAGACCATGTCTAGGACATGGCATCAGCCAC-ATCATGAGAGCCAGCGTAAGACCAT
*
4954385 GTCTAGGACATGGCATCGGCA
65 GTCTAGGACATGACATCGGCA
4954406 ATTTACCCTC
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
96 72 0.99
97 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (96 bp):
GCTAGTGCAAGACCATGTCTAGGACATGGCATCAGCCACATCATGAGAGCCAGCGTAAGACCATG
TCTAGGACATGACATCGGCATTGATACGAGA
Found at i:4963345 original size:25 final size:24
Alignment explanation
Indices: 4963258--4963321 Score: 101
Period size: 24 Copynumber: 2.7 Consensus size: 24
4963248 AAGGCTATGC
** *
4963258 GGCACTATGTGTGCGAGATTACAT
1 GGCACTATGTGTGCGAGAAAACGT
4963282 GGCACTATGTGTGCGAGAAAACGT
1 GGCACTATGTGTGCGAGAAAACGT
4963306 GGCACTATGTGTGCGA
1 GGCACTATGTGTGCGA
4963322 ATAAGTAAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGAAAACGT
Found at i:4965669 original size:48 final size:47
Alignment explanation
Indices: 4965595--4965774 Score: 193
Period size: 48 Copynumber: 3.8 Consensus size: 47
4965585 TGTTAGGTGT
* *
4965595 GCTAGTGTAAGACTATGTCTGGGACATGGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACA-CATGAGA
* * * * *
4965643 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGG-CATTAAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA--CACATGAGA
* * *
4965691 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCGACATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ACATG-AGA
* *
4965739 GCTAATGTAAGACCATGTCTGGGATATGGCATCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
4965775 AATTTACCCT
Statistics
Matches: 109, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
47 2 0.02
48 104 0.95
49 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACACATGAGA
Found at i:4965768 original size:96 final size:96
Alignment explanation
Indices: 4965595--4965775 Score: 249
Period size: 96 Copynumber: 1.9 Consensus size: 96
4965585 TGTTAGGTGT
* * * *
4965595 GCTAGTGTAAGACTATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATCATGAGAGCCAATGTAAGACCATG
4965660 TCTAGGACATGGCATCGGCATTAAGACGAGA
66 TCTAGGACATGGCATCGGCATTAAGACGAGA
* * *
4965691 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCGA-CATGTA-AGCTAATGTAAGACCA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCAC-ATCATG-AGAGCCAATGTAAGACCA
* *
4965754 TGTCTGGGATATGGCATCGGCA
64 TGTCTAGGACATGGCATCGGCA
4965776 ATTTACCCTC
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
96 72 0.97
97 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATCATGAGAGCCAATGTAAGACCATG
TCTAGGACATGGCATCGGCATTAAGACGAGA
Found at i:4971872 original size:49 final size:49
Alignment explanation
Indices: 4971756--4971875 Score: 150
Period size: 49 Copynumber: 2.4 Consensus size: 49
4971746 CGCTATACTG
* * ** *
4971756 GTTAGCAACTAACATGCCCTATCAATAACCCAACACATATGCCAATCTG
1 GTTAGCAACTAACATGCCTTACCAATAACCCAACACATACACCAATCTA
* * **
4971805 GTTAGCAATTAACATGCCTTACCAGTAGTCCAACACATACACCAATCTA
1 GTTAGCAACTAACATGCCTTACCAATAACCCAACACATACACCAATCTA
*
4971854 GTTAGCAACTACCATGCCTTAC
1 GTTAGCAACTAACATGCCTTAC
4971876 AAGTGGCCCA
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 60 1.00
ACGTcount: A:0.35, C:0.30, G:0.11, T:0.24
Consensus pattern (49 bp):
GTTAGCAACTAACATGCCTTACCAATAACCCAACACATACACCAATCTA
Found at i:4976475 original size:22 final size:24
Alignment explanation
Indices: 4976447--4976490 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
4976437 ATGAATAAAA
*
4976447 TAAAATTTAA-AAAAAT-ATTTAT
1 TAAAATTCAATAAAAATGATTTAT
4976469 TAAAATTCAATAAAAATGATTT
1 TAAAATTCAATAAAAATGATTT
4976491 TAAAGTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 6 0.32
24 4 0.21
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
TAAAATTCAATAAAAATGATTTAT
Done.