Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 36 of 141
Found at i:12024983 original size:50 final size:50
Alignment explanation
Indices: 12024924--12025074 Score: 302
Period size: 50 Copynumber: 3.0 Consensus size: 50
12024914 AAGTTAGTAG
12024924 TATGTTTTGATTGATTTGTATTGATGTAATGGCTAGTATGCTAGCTTTCT
1 TATGTTTTGATTGATTTGTATTGATGTAATGGCTAGTATGCTAGCTTTCT
12024974 TATGTTTTGATTGATTTGTATTGATGTAATGGCTAGTATGCTAGCTTTCT
1 TATGTTTTGATTGATTTGTATTGATGTAATGGCTAGTATGCTAGCTTTCT
12025024 TATGTTTTGATTGATTTGTATTGATGTAATGGCTAGTATGCTAGCTTTCT
1 TATGTTTTGATTGATTTGTATTGATGTAATGGCTAGTATGCTAGCTTTCT
12025074 T
1 T
12025075 TTGTATACAA
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 101 1.00
ACGTcount: A:0.20, C:0.08, G:0.22, T:0.50
Consensus pattern (50 bp):
TATGTTTTGATTGATTTGTATTGATGTAATGGCTAGTATGCTAGCTTTCT
Found at i:12039396 original size:71 final size:71
Alignment explanation
Indices: 12039268--12039413 Score: 240
Period size: 71 Copynumber: 2.1 Consensus size: 71
12039258 ACCAATGCAA
* * *
12039268 AAAGGTTGTGGAATATTACAAGGTTTGACCTTTACTTACCCCAAGTAGCAGATATAATCACAATA
1 AAAGGTCGTGGAATATTACAAAGTTTGAACTTTACTTACCCCAAGTAGCAGATATAATCACAATA
12039333 ATAACAT
66 ATAAC-T
*
12039340 AAAGGTCGTGGAATATTACAAAGTTTGAAC-TTACTTACCCCAATTAGCAGATATAATCACAATA
1 AAAGGTCGTGGAATATTACAAAGTTTGAACTTTACTTACCCCAAGTAGCAGATATAATCACAATA
12039404 ATAACT
66 ATAACT
12039410 AAAG
1 AAAG
12039414 CAAAAAAGTG
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
70 5 0.07
71 38 0.54
72 27 0.39
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.28
Consensus pattern (71 bp):
AAAGGTCGTGGAATATTACAAAGTTTGAACTTTACTTACCCCAAGTAGCAGATATAATCACAATA
ATAACT
Found at i:12055866 original size:36 final size:36
Alignment explanation
Indices: 12055826--12055901 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
12055816 CATTAACCGG
*
12055826 AAACCTAGAATCTAGAAGTTTCCTCCCTTACACCTC
1 AAACCTAGAATCTAAAAGTTTCCTCCCTTACACCTC
* *
12055862 AAACCTAGAATCTAAAAGTTTCTTTCCTTACACCTC
1 AAACCTAGAATCTAAAAGTTTCCTCCCTTACACCTC
12055898 AAAC
1 AAAC
12055902 TGACCCTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.34, C:0.30, G:0.07, T:0.29
Consensus pattern (36 bp):
AAACCTAGAATCTAAAAGTTTCCTCCCTTACACCTC
Found at i:12068455 original size:62 final size:59
Alignment explanation
Indices: 12068389--12068505 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 59
12068379 AATGATTATC
* * *
12068389 TTAATATTTAAA-TTAATTTAATAGTTATCTTGTAAATAAATATTCTATTAATTTAATAAGAT
1 TTAAT-TTTAAATTTAATCTAACAGTTATCTTG---ATAAATATTATATTAATTTAATAAGAT
* *
12068451 TTAATTTTAAATTTAATCTAACATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAATTTTAAATTTAATCTAACAGTTATCTTGATAAATATTATATTAATTTAATA
12068506 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
59 21 0.43
61 6 0.12
62 22 0.45
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (59 bp):
TTAATTTTAAATTTAATCTAACAGTTATCTTGATAAATATTATATTAATTTAATAAGAT
Found at i:12074603 original size:27 final size:27
Alignment explanation
Indices: 12074571--12074625 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
12074561 TAAATAAGTA
12074571 AATATAAAA-TAATAATATAACAATAAT
1 AATATAAAACTAATAATATAAC-ATAAT
*
12074598 AATATAAAACTAATGATATAACATAAT
1 AATATAAAACTAATAATATAACATAAT
12074625 A
1 A
12074626 GCGGTAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (27 bp):
AATATAAAACTAATAATATAACATAAT
Found at i:12074611 original size:14 final size:13
Alignment explanation
Indices: 12074571--12074625 Score: 74
Period size: 14 Copynumber: 4.1 Consensus size: 13
12074561 TAAATAAGTA
12074571 AATATAAAATAAT
1 AATATAAAATAAT
12074584 AATATAACAATAAT
1 AATATAA-AATAAT
12074598 AATATAAAACTAAT
1 AATATAAAA-TAAT
* *
12074612 GATATAACATAAT
1 AATATAAAATAAT
12074625 A
1 A
12074626 GCGGTAACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
13 13 0.35
14 24 0.65
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (13 bp):
AATATAAAATAAT
Found at i:12076447 original size:129 final size:129
Alignment explanation
Indices: 12076297--12076538 Score: 396
Period size: 129 Copynumber: 1.9 Consensus size: 129
12076287 TAGACATCCT
* * * *
12076297 GGGAGGTAAGACCTGATACGATCTACTCTAGTGTAACTTCAGAGAGATAAGATCAC-TTATTTTA
1 GGGAGATAAGACCTGACACGATCTACTCTACTGTAACTTCAGAAAGATAAGATC-CTTTATTTTA
12076361 ATCCGCTCCACAGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA
65 ATCCGCTCCACAGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA
12076426 GGGAGATAAGACCTGACACGATCTACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAA
1 GGGAGATAAGACCTGACACGATCTACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAA
* ** *
12076491 TCCGCTCCACTGTAATCTCAGGGAGATAGGATTTTTGGCTTCAATCTG
66 TCCGCTCCACAGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
12076539 ATGCGATATA
Statistics
Matches: 104, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
128 1 0.01
129 103 0.99
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (129 bp):
GGGAGATAAGACCTGACACGATCTACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAA
TCCGCTCCACAGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA
Found at i:12076518 original size:44 final size:43
Alignment explanation
Indices: 12076335--12076518 Score: 133
Period size: 44 Copynumber: 4.3 Consensus size: 43
12076325 TAGTGTAACT
* * *
12076335 TCAGAGAGATAAGATCACTTATTTTAATCCGCTCCACAGTAATC
1 TCAGGGAGATAAGATC-CTTATTTCAATCCGCTCCACTGTAATC
* * * * *
12076379 TCAGGGAGATAGGATTAC-TAGCTTCAATCTGCTCCGCTGTAATC
1 TCAGGGAGATAAGA-TCCTTA-TTTCAATCCGCTCCACTGTAATC
* ** * ** *
12076423 TCAGGGAGATAAGA-CCTGA-CACGATCTACTCTACTGTAA-C
1 TCAGGGAGATAAGATCCTTATTTCAATCCGCTCCACTGTAATC
** *
12076463 TTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATC
1 -TCAGGGAGATAAGATCC-TTATTTCAATCCGCTCCACTGTAATC
12076508 TCAGGGAGATA
1 TCAGGGAGATA
12076519 GGATTTTTGG
Statistics
Matches: 103, Mismatches: 29, Indels: 16
0.70 0.20 0.11
Matches are distributed among these distances:
40 1 0.01
41 26 0.25
42 3 0.03
43 5 0.05
44 66 0.64
45 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (43 bp):
TCAGGGAGATAAGATCCTTATTTCAATCCGCTCCACTGTAATC
Found at i:12076738 original size:87 final size:87
Alignment explanation
Indices: 12076607--12078932 Score: 3789
Period size: 87 Copynumber: 26.8 Consensus size: 87
12076597 ACTGTAATCG
* * **
12076607 ATGGAGGCAAGACTTTGTTTTTGA-TCTGCTTTGCTGTTAATGCAGGAAGGCAAGAGCTGCTATC
1 ATGGAGGCAAGGCTTTG-TTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATC
12076671 TTCAACCAGCTCCATTGCAACCA
65 TTCAACCAGCTCCATTGCAACCA
* *
12076694 ATGGAGGCAAGGCTTTGTTTTCAATCTGCTCCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCT
1 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
** *
12076759 TCAACCAGCTCCCCTGCAACCG
66 TCAACCAGCTCCATTGCAACCA
* * * *
12076781 ATGGAGGCAAGGCTTTGTTTTTGA-TCTGCTTCGCTGTTAATGCAGGAAGACAAGATCTGCTATC
1 ATGGAGGCAAGGCTTTG-TTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATC
** * *
12076845 TTCAACCAGCTCCGCTACAACCG
65 TTCAACCAGCTCCATTGCAACCA
* * * *
12076868 A-GAGAGGCAAGG-TTTGTGTCTTCGA-TCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGCT
1 ATG-GAGGCAAGGCTTTGT-T-TTC-ACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCT
12076930 ATCTTCAACCAGCTCCATTGCAACCA
62 ATCTTCAACCAGCTCCATTGCAACCA
12076956 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
1 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
12077021 TCAACCAGCTCCATTGCAACCA
66 TCAACCAGCTCCATTGCAACCA
12077043 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
1 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
12077108 TCAACCAGCTCCATTGCAACCA
66 TCAACCAGCTCCATTGCAACCA
12077130 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
1 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
12077195 TCAACCAGCTCCATTGCAACCA
66 TCAACCAGCTCCATTGCAACCA
12077217 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
1 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
12077282 TCAACCAGCTCCATTGCAACCA
66 TCAACCAGCTCCATTGCAACCA
12077304 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
1 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
12077369 TCAACCAGCTCCATTGCAACCA
66 TCAACCAGCTCCATTGCAACCA
12077391 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
1 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
12077456 TCAACCAGCTCCATTGCAACCA
66 TCAACCAGCTCCATTGCAACCA
12077478 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
1 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
12077543 TCAACCAGCTCCATTGCAACCA
66 TCAACCAGCTCCATTGCAACCA
12077565 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
1 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
12077630 TCAACCAGCTCCATTGCAACCA
66 TCAACCAGCTCCATTGCAACCA
12077652 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
1 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
12077717 TCAACCAGCTCCATTGCAACCA
66 TCAACCAGCTCCATTGCAACCA
12077739 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
1 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
12077804 TCAACCAGCTCCATTGCAACCA
66 TCAACCAGCTCCATTGCAACCA
12077826 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
1 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
12077891 TCAACCAGCTCCATTGCAACCA
66 TCAACCAGCTCCATTGCAACCA
12077913 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
1 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
12077978 TCAACCAGCTCCATTGCAACCA
66 TCAACCAGCTCCATTGCAACCA
12078000 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
1 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
12078065 TCAACCAGCTCCATTGCAACCA
66 TCAACCAGCTCCATTGCAACCA
12078087 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
1 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
12078152 TCAACCAGCTCCATTGCAACCA
66 TCAACCAGCTCCATTGCAACCA
12078174 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
1 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
12078239 TCAACCAGCTCCATTGCAACCA
66 TCAACCAGCTCCATTGCAACCA
12078261 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
1 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
12078326 TCAACCAGCTCCATTGCAACCA
66 TCAACCAGCTCCATTGCAACCA
12078348 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
1 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
12078413 TCAACCAGCTCCATTGCAACCA
66 TCAACCAGCTCCATTGCAACCA
* *
12078435 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGTAAGATCTGCT-TCT
1 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
* * * * *
12078499 TTAACCAGCTACGTTGCCACCG
66 TCAACCAGCTCCATTGCAACCA
* * * * ** *
12078521 ATGGAGGCAAGGTTTTGTTTTCGA-TCTGCTTCACTTTTAAAACAGGAAGGCAAGATCTGCT-TC
1 ATGGAGGCAAGGCTTTGTTTTC-ACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATC
* * *
12078584 TTTAACCAGCTCCACTGCAACCG
65 TTCAACCAGCTCCATTGCAACCA
* * ** *
12078607 ATGGAGGCAAGGCTTTGTTTTCGA-TCTGCTTCTCTGTTAACACAGGAAGGCAAGATCTGCT-TC
1 ATGGAGGCAAGGCTTTGTTTTC-ACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATC
* * * *
12078670 TTTAACCAGCTCCACTGCAATCG
65 TTCAACCAGCTCCATTGCAACCA
* * * * * * **
12078693 ATGGAGGCAAGACTTTATTTTTGA-TCTGTTTCGCTGTTAACGCAGGAAGGCAAGATATGCT-TC
1 ATGGAGGCAAGGCTTT-GTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATC
* * *
12078756 TTTAACCAGCTCCACTGCAACCG
65 TTCAACCAGCTCCATTGCAACCA
* * * * * *
12078779 ATGGAGGCAAGGCTTTATGTTTGA-TCTGCTTCGCTGTTAACGCAGGAAAGCAAGATCTGCT-TC
1 ATGGAGGCAAGGCTTTGT-TTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATC
* * *
12078842 TTTAACCAGCTCCATTGCCACCG
65 TTCAACCAGCTCCATTGCAACCA
* * * * * * **
12078865 ATGGAGGCAATGTTTTGTTTTCAATCTGCTTCACTGTTAATGCAGGAAGGCAATATATGCTATCT
1 ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
12078930 TCA
66 TCA
12078933 CTAATCTGTT
Statistics
Matches: 2152, Mismatches: 73, Indels: 28
0.96 0.03 0.01
Matches are distributed among these distances:
85 6 0.00
86 383 0.18
87 1684 0.78
88 73 0.03
89 6 0.00
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (87 bp):
ATGGAGGCAAGGCTTTGTTTTCACTCTGCTCCGCTGTTAATGCAGGAAGGCAAGAGCTGCTATCT
TCAACCAGCTCCATTGCAACCA
Found at i:12078615 original size:43 final size:43
Alignment explanation
Indices: 12078568--12078789 Score: 136
Period size: 43 Copynumber: 5.2 Consensus size: 43
12078558 TAAAACAGGA
12078568 AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
1 AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
* * ** * * * * *
12078611 AGGCAAGGCTTTG-TT-TTCGATCTGCTTCTCTGTTAACAC-A-GG
1 AGGCAA-GATCTGCTTCTTTAACCAGCTCCACTG-CAAC-CGATGG
*
12078653 AAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAATCGATGG
1 -AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
* * * * * * * * *
12078697 AGGCAAGA-CT-TTATTTTTGATCTGTTTCGCTGTTAA-CGCA-GG
1 AGGCAAGATCTGCT-TCTTTAACCAGCTCCACTG-CAACCG-ATGG
*
12078739 AAGGCAAGATATGCTTCTTTAACCAGCTCCACTGCAACCGATGG
1 -AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
12078783 AGGCAAG
1 AGGCAAG
12078790 GCTTTATGTT
Statistics
Matches: 125, Mismatches: 38, Indels: 32
0.64 0.19 0.16
Matches are distributed among these distances:
41 1 0.01
42 36 0.29
43 52 0.42
44 35 0.28
45 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (43 bp):
AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
Found at i:12080181 original size:21 final size:21
Alignment explanation
Indices: 12080157--12080196 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
12080147 TTAGCCTATC
12080157 CATTTT-ACTTTTCATTTTTTT
1 CATTTTCA-TTTTCATTTTTTT
12080178 CATTTTCATTTTCATTTTT
1 CATTTTCATTTTCATTTTT
12080197 CATCCTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (21 bp):
CATTTTCATTTTCATTTTTTT
Found at i:12080634 original size:52 final size:52
Alignment explanation
Indices: 12080557--12080678 Score: 149
Period size: 52 Copynumber: 2.3 Consensus size: 52
12080547 TGGCCTCTTC
* *
12080557 TTTTCTTTT-CTTTGCTTTTC-ATATTTTTATTTTGACTTTGATTGATTTCTCT
1 TTTTCTTTTCCTTT--TTTTCTTTATTTTGATTTTGACTTTGATTGATTTCTCT
** * **
12080609 TTTTCTTTTTGTTTTTTTCTTTATTTTGATTTTGATTTTGATTTTTTTCTCT
1 TTTTCTTTTCCTTTTTTTCTTTATTTTGATTTTGACTTTGATTGATTTCTCT
12080661 TTTTCTTTTCCTTTTTTT
1 TTTTCTTTTCCTTTTTTT
12080679 TTCGAATCGA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
51 5 0.08
52 52 0.87
53 3 0.05
ACGTcount: A:0.08, C:0.11, G:0.07, T:0.74
Consensus pattern (52 bp):
TTTTCTTTTCCTTTTTTTCTTTATTTTGATTTTGACTTTGATTGATTTCTCT
Found at i:12080662 original size:46 final size:46
Alignment explanation
Indices: 12080582--12080669 Score: 117
Period size: 46 Copynumber: 1.9 Consensus size: 46
12080572 TTTTCATATT
* *
12080582 TTTATTTTGACTTTGATTGATTTCTCTTTTTCTTTTTGTTTTTTTC
1 TTTATTTTGACTTTGATTGATTTCTCTTTCTCTTTTTCTTTTTTTC
*
12080628 TTTATTTTGATTTTGATTTTGATTT-T-TTTCTCTTTTTCTTTT
1 TTTATTTTGACTTTGA--TTGATTTCTCTTTCTCTTTTTCTTTT
12080670 CCTTTTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
46 29 0.78
47 1 0.03
48 7 0.19
ACGTcount: A:0.09, C:0.09, G:0.08, T:0.74
Consensus pattern (46 bp):
TTTATTTTGACTTTGATTGATTTCTCTTTCTCTTTTTCTTTTTTTC
Found at i:12085553 original size:28 final size:28
Alignment explanation
Indices: 12085522--12085597 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 28
12085512 AACGTTTATA
* *
12085522 AAGATATATATATATATATATATAAAAT
1 AAGATACATAGATATATATATATAAAAT
*
12085550 AAGATACATAGATATATATATATATAAT
1 AAGATACATAGATATATATATATAAAAT
*
12085578 AAGATACAAAGATATATATA
1 AAGATACATAGATATATATA
12085598 AATAGCTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.34
Consensus pattern (28 bp):
AAGATACATAGATATATATATATAAAAT
Found at i:12085594 original size:2 final size:2
Alignment explanation
Indices: 12085525--12085575 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
12085515 GTTTATAAAG
* * * *
12085525 AT AT AT AT AT AT AT AT AT AT A- AA AT A- AG AT AC AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12085565 AT AT AT AT AT A
1 AT AT AT AT AT A
12085576 ATAAGATACA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (2 bp):
AT
Found at i:12085684 original size:27 final size:27
Alignment explanation
Indices: 12085652--12085706 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
12085642 TAAATAAGTA
12085652 AATATAAAA-TAATAATATAACAATAAT
1 AATATAAAACTAATAATATAAC-ATAAT
*
12085679 AATATAAAACTAATGATATAACATAAT
1 AATATAAAACTAATAATATAACATAAT
12085706 A
1 A
12085707 GCGGTAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (27 bp):
AATATAAAACTAATAATATAACATAAT
Found at i:12085692 original size:14 final size:13
Alignment explanation
Indices: 12085652--12085706 Score: 74
Period size: 14 Copynumber: 4.1 Consensus size: 13
12085642 TAAATAAGTA
12085652 AATATAAAATAAT
1 AATATAAAATAAT
12085665 AATATAACAATAAT
1 AATATAA-AATAAT
12085679 AATATAAAACTAAT
1 AATATAAAA-TAAT
* *
12085693 GATATAACATAAT
1 AATATAAAATAAT
12085706 A
1 A
12085707 GCGGTAACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
13 13 0.35
14 24 0.65
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (13 bp):
AATATAAAATAAT
Found at i:12087449 original size:32 final size:30
Alignment explanation
Indices: 12087372--12087451 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 30
12087362 TGTTTAAGAG
* * *
12087372 TTAATAGAGGTATTTTAAGTAGTATAAATAA
1 TTAATAG-GGTATTTTAAATAATATAAAAAA
12087403 TTAATAAGGGTATTTTAAATAATATAAAAAAA
1 TTAAT-AGGGTATTTTAAATAATAT-AAAAAA
12087435 TTAATAGGGATATTTTA
1 TTAATAGGG-TATTTTA
12087452 GGTTAGTTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
31 24 0.56
32 19 0.44
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.39
Consensus pattern (30 bp):
TTAATAGGGTATTTTAAATAATATAAAAAA
Found at i:12088133 original size:28 final size:28
Alignment explanation
Indices: 12088102--12088171 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
12088092 ACTTTTGCCC
*
12088102 AAAATTTTCAAAAAAATGTCTTTTTTTA
1 AAAATTTTCAAAAAAAGGTCTTTTTTTA
* * *
12088130 AAAATATT-ACAAAAAGGTCTTTTTTTT
1 AAAATTTTCAAAAAAAGGTCTTTTTTTA
*
12088157 AAAATATTACAAAAA
1 AAAAT-TTTCAAAAA
12088172 TAGATCAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
27 21 0.64
28 8 0.24
29 4 0.12
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (28 bp):
AAAATTTTCAAAAAAAGGTCTTTTTTTA
Found at i:12088143 original size:27 final size:27
Alignment explanation
Indices: 12088113--12088172 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
12088103 AAATTTTCAA
12088113 AAAAATGTCTTTTTTTAAAAATATTAC
1 AAAAATGTCTTTTTTTAAAAATATTAC
* *
12088140 AAAAAGGTCTTTTTTTTAAAATATTAC
1 AAAAATGTCTTTTTTTAAAAATATTAC
12088167 AAAAAT
1 AAAAAT
12088173 AGATCAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.42
Consensus pattern (27 bp):
AAAAATGTCTTTTTTTAAAAATATTAC
Found at i:12091412 original size:16 final size:17
Alignment explanation
Indices: 12091381--12091414 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
12091371 AAATTAAAGT
12091381 ACAATGGGTATATAATA
1 ACAATGGGTATATAATA
*
12091398 ACAAT-GGTATTTAATA
1 ACAATGGGTATATAATA
12091414 A
1 A
12091415 TAACAACAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (17 bp):
ACAATGGGTATATAATA
Found at i:12092254 original size:14 final size:14
Alignment explanation
Indices: 12092232--12092261 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12092222 TTCGCGTATA
12092232 AAAAATAAAAAAAT
1 AAAAATAAAAAAAT
*
12092246 AAAAGTAAAAAAAT
1 AAAAATAAAAAAAT
12092260 AA
1 AA
12092262 TGAAACGAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:12094252 original size:6 final size:6
Alignment explanation
Indices: 12094241--12094286 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
12094231 TTTTATGCCC
12094241 ATGATA ATGATA ATGATA ATGATA ATGATA ATGATA ATGATA ATGA
1 ATGATA ATGATA ATGATA ATGATA ATGATA ATGATA ATGATA ATGA
12094287 ATTTCATGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (6 bp):
ATGATA
Found at i:12096032 original size:14 final size:15
Alignment explanation
Indices: 12096013--12096042 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12096003 AAAATAAAGT
12096013 AAAGTCC-AAAGTCC
1 AAAGTCCAAAAGTCC
12096027 AAAGTCCAAAAGTCC
1 AAAGTCCAAAAGTCC
12096042 A
1 A
12096043 CAAAAACACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.47, C:0.27, G:0.13, T:0.13
Consensus pattern (15 bp):
AAAGTCCAAAAGTCC
Found at i:12096040 original size:8 final size:7
Alignment explanation
Indices: 12096013--12096042 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
12096003 AAAATAAAGT
12096013 AAAGTCC
1 AAAGTCC
12096020 AAAGTCC
1 AAAGTCC
12096027 AAAGTCC
1 AAAGTCC
12096034 AAAAGTCC
1 -AAAGTCC
12096042 A
1 A
12096043 CAAAAACACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.47, C:0.27, G:0.13, T:0.13
Consensus pattern (7 bp):
AAAGTCC
Found at i:12097591 original size:12 final size:13
Alignment explanation
Indices: 12097559--12097598 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
12097549 TCGCTAGATT
12097559 AAAGAAG-GAGAA
1 AAAGAAGAGAGAA
12097571 AGAAGAAGAGAGAA
1 A-AAGAAGAGAGAA
12097585 AAA-AAGAGAGAA
1 AAAGAAGAGAGAA
12097597 AA
1 AA
12097599 GGGTGATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 12 0.46
13 8 0.31
14 6 0.23
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (13 bp):
AAAGAAGAGAGAA
Found at i:12104732 original size:16 final size:16
Alignment explanation
Indices: 12104711--12104741 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12104701 TGACCATATT
*
12104711 TGCTGCTTCTTTGTTC
1 TGCTGCTTATTTGTTC
12104727 TGCTGCTTATTTGTT
1 TGCTGCTTATTTGTT
12104742 TTGCAATTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.19, G:0.19, T:0.58
Consensus pattern (16 bp):
TGCTGCTTATTTGTTC
Found at i:12105674 original size:13 final size:13
Alignment explanation
Indices: 12105656--12105683 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
12105646 CAAGGCTAGA
12105656 CATAACTAATTAT
1 CATAACTAATTAT
12105669 CATAACTAATTAT
1 CATAACTAATTAT
12105682 CA
1 CA
12105684 CTAATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (13 bp):
CATAACTAATTAT
Found at i:12106674 original size:43 final size:42
Alignment explanation
Indices: 12106605--12106763 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 42
12106595 AGCTCGTACA
* * *
12106605 ACGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATAATG
1 ACGCCAATGTCCCAGACATGGTCTTACACGTAATCAAAT-ACG
* * * *
12106648 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCATATACG
1 ACGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATACG
12106690 ACGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-CG
1 ACGCCAATGTCCCAGACATGGTCTTACACGT-AA--TCAAATACG
* * * *
12106734 AGGCCAACGTCCCAGACGTTGTCTTACACG
1 ACGCCAATGTCCCAGACATGGTCTTACACG
12106764 ATGTCACATT
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
42 30 0.31
43 35 0.36
44 28 0.29
45 5 0.05
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (42 bp):
ACGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATACG
Found at i:12110620 original size:28 final size:29
Alignment explanation
Indices: 12110589--12110662 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 29
12110579 AGAATTTTTT
*
12110589 TATTATATTTAATGTAATTTAATTTAA-A
1 TATTATATTTAATATAATTTAATTTAATA
* * *
12110617 TATTTTA-TTGATATATTTTAATTTAATA
1 TATTATATTTAATATAATTTAATTTAATA
*
12110645 TATCATATTATATATATA
1 TATTATATT-TA-ATATA
12110663 GGCGGATAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
27 16 0.46
28 12 0.34
29 1 0.03
30 1 0.03
31 5 0.14
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (29 bp):
TATTATATTTAATATAATTTAATTTAATA
Found at i:12110647 original size:15 final size:15
Alignment explanation
Indices: 12110595--12110647 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
12110585 TTTTTATTAT
* *
12110595 ATTTAATGTAATTTA
1 ATTTAATATATTTTA
12110610 ATTTAA-ATATTTT-
1 ATTTAATATATTTTA
*
12110623 A-TTGATATATTTTA
1 ATTTAATATATTTTA
12110637 ATTTAATATAT
1 ATTTAATATAT
12110648 CATATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
12 3 0.10
13 8 0.26
14 6 0.19
15 14 0.45
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (15 bp):
ATTTAATATATTTTA
Found at i:12110657 original size:27 final size:27
Alignment explanation
Indices: 12110606--12110659 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
12110596 TTTAATGTAA
**
12110606 TTTAATTTAAATATTTTATTGATATAT
1 TTTAATTTAAATATCATATTGATATAT
12110633 TTTAATTTAATATATCATATT-ATATAT
1 TTTAATTTAA-ATATCATATTGATATAT
12110660 ATAGGCGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (27 bp):
TTTAATTTAAATATCATATTGATATAT
Found at i:12112373 original size:17 final size:17
Alignment explanation
Indices: 12112351--12112385 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
12112341 GTGTGTCACA
12112351 CACGGCTAAGACACACG
1 CACGGCTAAGACACACG
12112368 CACGGCTAAGACACACG
1 CACGGCTAAGACACACG
12112385 C
1 C
12112386 CTGTGTCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.37, G:0.23, T:0.06
Consensus pattern (17 bp):
CACGGCTAAGACACACG
Found at i:12120571 original size:36 final size:33
Alignment explanation
Indices: 12120520--12120624 Score: 92
Period size: 31 Copynumber: 3.1 Consensus size: 33
12120510 CATTTTGAAA
12120520 TTATAAGAAGTTTTTATAAATTTTATAA-AAATATTGTT
1 TTATAA-AA-TTTTTAT-AATTTT-TAATAAAT-TT-TT
12120558 TTATAAAATTTTTATAATTTTTAATAAATTTTT
1 TTATAAAATTTTTATAATTTTTAATAAATTTTT
* * **
12120591 TTAGAAAA--TATATAAAATTTAAT-AATTTTT
1 TTATAAAATTTTTATAATTTTTAATAAATTTTT
12120621 TTAT
1 TTAT
12120625 TAATAATTCT
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
30 10 0.16
31 12 0.20
33 9 0.15
34 5 0.08
35 10 0.16
36 7 0.11
37 2 0.03
38 6 0.10
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (33 bp):
TTATAAAATTTTTATAATTTTTAATAAATTTTT
Found at i:12120579 original size:10 final size:11
Alignment explanation
Indices: 12120530--12120591 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
12120520 TTATAAGAAG
12120530 TTTTTATAAAT
1 TTTTTATAAAT
* *
12120541 TTTATAAAAATAT
1 TTT-TTATAA-AT
*
12120554 TGTTTTATAAAA
1 T-TTTTATAAAT
12120566 TTTTTAT-AAT
1 TTTTTATAAAT
*
12120576 TTTTAATAAAT
1 TTTTTATAAAT
12120587 TTTTT
1 TTTTT
12120592 TAGAAAATAT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
10 8 0.21
11 16 0.41
12 6 0.15
13 7 0.18
14 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (11 bp):
TTTTTATAAAT
Found at i:12127243 original size:2 final size:2
Alignment explanation
Indices: 12127236--12127270 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
12127226 TTGTATGAGA
12127236 AT AT AT AT AT 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 AT AT AT AT AT A
12127271 CAGCAGGCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12130806 original size:30 final size:29
Alignment explanation
Indices: 12130772--12130849 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 29
12130762 TCAATATTCA
12130772 TATTTTCACTATCATACC-TGTAATCACTCT
1 TATTTTCACTATCATACCTTGTAATCA-T-T
* * *
12130802 TATTTGCATTTTCATACCTTGTAATCATT
1 TATTTTCACTATCATACCTTGTAATCATT
12130831 TACATTTTC-CTATCATACC
1 T--ATTTTCACTATCATACC
12130850 CTGTGTTCGT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
29 2 0.05
30 24 0.62
31 13 0.33
ACGTcount: A:0.26, C:0.24, G:0.04, T:0.46
Consensus pattern (29 bp):
TATTTTCACTATCATACCTTGTAATCATT
Found at i:12142739 original size:14 final size:14
Alignment explanation
Indices: 12142704--12142747 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
12142694 GGTGTTGTAT
*
12142704 TAATAAAATAAATAA
1 TAATAAAACAAAT-A
*
12142719 AAATAAAACAAATA
1 TAATAAAACAAATA
*
12142733 TAATAAAACATATA
1 TAATAAAACAAATA
12142747 T
1 T
12142748 TAAGTTAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (14 bp):
TAATAAAACAAATA
Found at i:12164322 original size:41 final size:41
Alignment explanation
Indices: 12164263--12164419 Score: 215
Period size: 41 Copynumber: 3.8 Consensus size: 41
12164253 TTTTGTAAGT
12164263 TCAGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAATTATA
*
12164304 TTAGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAATTATA
* * * * * *
12164345 TCAGACTTTATGTCTAGCAGGCTTTGCGCCGGTGAAATGTA
1 TCAGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAATTATA
* * * *
12164386 TCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TCAGGCTTTATGCCTAGCAGGCTCTGTGCCGGTG
12164420 TTTTATACAA
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 102 1.00
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAATTATA
Found at i:12165272 original size:24 final size:24
Alignment explanation
Indices: 12165240--12165362 Score: 67
Period size: 24 Copynumber: 5.3 Consensus size: 24
12165230 ATGCTTCCCA
*
12165240 TTTGTTGTATATATGCTGTTAAAT
1 TTTGGTGTATATATGCTGTTAAAT
* * * * * *
12165264 TTTGCTGTAAAAATACTGCTCAA-
1 TTTGGTGTATATATGCTGTTAAAT
* * ***
12165287 TTTGGTATGTATATGCTG-CCCA-
1 TTTGGTGTATATATGCTGTTAAAT
* *
12165309 TTTGTTGTATATATGATGTTAAAT
1 TTTGGTGTATATATGCTGTTAAAT
*
12165333 TTTGGTGTA-AAAGTGCTGTTAAA-
1 TTTGGTGTATATA-TGCTGTTAAAT
12165356 TTTGGTG
1 TTTGGTG
12165363 CTGCCCATTT
Statistics
Matches: 72, Mismatches: 24, Indels: 7
0.70 0.23 0.07
Matches are distributed among these distances:
22 16 0.22
23 22 0.31
24 34 0.47
ACGTcount: A:0.26, C:0.08, G:0.20, T:0.46
Consensus pattern (24 bp):
TTTGGTGTATATATGCTGTTAAAT
Found at i:12165321 original size:22 final size:22
Alignment explanation
Indices: 12165227--12165323 Score: 59
Period size: 22 Copynumber: 4.3 Consensus size: 22
12165217 ATGTATTATG
* *
12165227 TATATGCTTCCCATTTGTTGTA
1 TATATGCTGCCAATTTGTTGTA
** *
12165249 TATATGCTGTTAAATTTTGCTGTA
1 TATATGCTG-CCAA-TTTGTTGTA
* * * * * *
12165273 AAAATACTGCTCAATTTGGTATG
1 TATATGCTGC-CAATTTGTTGTA
*
12165296 TATATGCTGCCCATTTGTTGTA
1 TATATGCTGCCAATTTGTTGTA
12165318 TATATG
1 TATATG
12165324 ATGTTAAATT
Statistics
Matches: 52, Mismatches: 20, Indels: 6
0.67 0.26 0.08
Matches are distributed among these distances:
22 22 0.42
23 14 0.27
24 16 0.31
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.45
Consensus pattern (22 bp):
TATATGCTGCCAATTTGTTGTA
Found at i:12165358 original size:69 final size:69
Alignment explanation
Indices: 12165223--12165361 Score: 215
Period size: 69 Copynumber: 2.0 Consensus size: 69
12165213 TATGATGTAT
* * *
12165223 TATGTATATGCTTCCCATTTGTTGTATATATGCTGTTAAATTTTGCTGTAAAAATACTGCTCAAT
1 TATGTATATGCTGCCCATTTGTTGTATATATGATGTTAAATTTTGCTGTAAAAATACTGCTAAAT
12165288 TTGG
66 TTGG
* * * *
12165292 TATGTATATGCTGCCCATTTGTTGTATATATGATGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
1 TATGTATATGCTGCCCATTTGTTGTATATATGATGTTAAATTTTGCTGTAAAAATACTGCTAAAT
12165357 TTGG
66 TTGG
12165361 T
1 T
12165362 GCTGCCCATT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (69 bp):
TATGTATATGCTGCCCATTTGTTGTATATATGATGTTAAATTTTGCTGTAAAAATACTGCTAAAT
TTGG
Found at i:12165420 original size:62 final size:61
Alignment explanation
Indices: 12165300--12165424 Score: 180
Period size: 62 Copynumber: 2.0 Consensus size: 61
12165290 GGTATGTATA
* *
12165300 TGCTGCCCATTTGTTGTATATATGATGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGG
1 TGCTGCCCATTTGTTGTATATAAGATGTCAAATTTTGGTGTAAAAGTGCTGTTAAATTTGG
* * *
12165361 TGCTGCCCATTTGTTGTATATAAGCTGTCCAAATTTTGGTGTTTAAA-TGCTGTTTAATTTGG
1 TGCTGCCCATTTGTTGTATATAAGATGT-CAAATTTTGGTG-TAAAAGTGCTGTTAAATTTGG
12165423 TG
1 TG
12165425 TATAAATGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
61 26 0.46
62 27 0.47
63 4 0.07
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.45
Consensus pattern (61 bp):
TGCTGCCCATTTGTTGTATATAAGATGTCAAATTTTGGTGTAAAAGTGCTGTTAAATTTGG
Found at i:12168407 original size:32 final size:32
Alignment explanation
Indices: 12168362--12168454 Score: 168
Period size: 32 Copynumber: 2.9 Consensus size: 32
12168352 TGTTAATCAT
*
12168362 TTCAATATTCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
12168394 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
*
12168426 TTCAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
12168455 CAATATCTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 59 1.00
ACGTcount: A:0.52, C:0.17, G:0.03, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:12168478 original size:27 final size:27
Alignment explanation
Indices: 12168395--12168481 Score: 77
Period size: 27 Copynumber: 3.0 Consensus size: 27
12168385 CATAATAAAT
* *
12168395 TCAATATCCAACAAGCTTAAAACATAATAAA
1 TCAATATCTAACAAGATTAAAAC---AT-AA
*
12168426 TTCAATATCTAACAAGCTTAAAACATAA
1 -TCAATATCTAACAAGATTAAAACATAA
*
12168454 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATT-AAAACATAA
12168481 T
1 T
12168482 AATTTCAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
26 2 0.04
27 23 0.45
28 2 0.04
29 2 0.04
32 22 0.43
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCTAACAAGATTAAAACATAA
Found at i:12168489 original size:59 final size:62
Alignment explanation
Indices: 12168355--12168499 Score: 165
Period size: 59 Copynumber: 2.4 Consensus size: 62
12168345 TTTTCATTGT
* *
12168355 TAATCATTTCAATAT-TCAACAAGCTTAAAACATAATAAATTCAATATCCAACAAGCTTAAAACA
1 TAATAATTTCAATATCT-AACAAGCTTAAAAC--AATAAATTCAATATCCAACAAGATTAAAACA
* * *
12168419 TAATAAATTCAATATCTAACAAGCTTAAAAC-AT-AA-TCAATATCTAACAA-ATTCAAGACA
1 TAATAATTTCAATATCTAACAAGCTTAAAACAATAAATTCAATATCCAACAAGATT-AAAACA
*
12168478 TAATAATTTCAAAATCTAACAA
1 TAATAATTTCAATATCTAACAA
12168500 ACTAAAATTT
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
58 2 0.03
59 38 0.53
60 2 0.03
61 2 0.03
64 27 0.38
65 1 0.01
ACGTcount: A:0.52, C:0.17, G:0.03, T:0.28
Consensus pattern (62 bp):
TAATAATTTCAATATCTAACAAGCTTAAAACAATAAATTCAATATCCAACAAGATTAAAACA
Found at i:12175679 original size:24 final size:24
Alignment explanation
Indices: 12175635--12175686 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
12175625 ATTCTAGAAG
**
12175635 ATTTAGTATTTATTATTATAATAT
1 ATTTAGTATTTATTAGCATAATAT
*
12175659 ATTTAGTATTTATTAGCATAATTT
1 ATTTAGTATTTATTAGCATAATAT
12175683 ATTT
1 ATTT
12175687 GATCTATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.58
Consensus pattern (24 bp):
ATTTAGTATTTATTAGCATAATAT
Found at i:12190579 original size:28 final size:28
Alignment explanation
Indices: 12190539--12190597 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
12190529 GATCGTTTGG
12190539 GCAAATTCTCACCTTAAAGTGATCCTTA
1 GCAAATTCTCACCTTAAAGTGATCCTTA
12190567 GCAAATTCTCACCTTAAAGTGATCCTTA
1 GCAAATTCTCACCTTAAAGTGATCCTTA
12190595 GCA
1 GCA
12190598 GACTTACTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (28 bp):
GCAAATTCTCACCTTAAAGTGATCCTTA
Found at i:12191006 original size:67 final size:66
Alignment explanation
Indices: 12190917--12191137 Score: 246
Period size: 66 Copynumber: 3.3 Consensus size: 66
12190907 TTATTGATCT
* * * * *
12190917 GTGGACTCTACATGCTGCCATAGTTGAGCTATGGTCTTACATACAT-AACCCCATGTTTAATGTC
1 GTGGACTCCACACGTTGCCATAGTTGAGCTAAGGTCTTAC--ACATGTACCCCATGTTTAATGTC
*
12190981 TTA
64 CTA
* * * *
12190984 GTAGACTCCACACATTGCCATAGTCGAGCTAAGGTCTTACACATGTACCTCATGTTTAATGTCCT
1 GTGGACTCCACACGTTGCCATAGTTGAGCTAAGGTCTTACACATGTACCCCATGTTTAATGTCCT
12191049 A
66 A
* * * * * * *
12191050 GGGGACTCTATACGTTGCCATAGCTGAGCTAAGGGCATACACATGTACCCCATATTTAATGTCCT
1 GTGGACTCCACACGTTGCCATAGTTGAGCTAAGGTCTTACACATGTACCCCATGTTTAATGTCCT
12191115 A
66 A
* *
12191116 ATGGACTCCACATGTTGCCATA
1 GTGGACTCCACACGTTGCCATA
12191138 ACTGAGTTCA
Statistics
Matches: 127, Mismatches: 26, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
65 4 0.03
66 90 0.71
67 33 0.26
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (66 bp):
GTGGACTCCACACGTTGCCATAGTTGAGCTAAGGTCTTACACATGTACCCCATGTTTAATGTCCT
A
Found at i:12196724 original size:19 final size:19
Alignment explanation
Indices: 12196688--12196743 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 19
12196678 GTAAATTATC
* *
12196688 TTAATTAA-CTAAATTAAA
1 TTAATTAAGTTAAACTAAA
12196706 TTAATTAAGTTAAACTAAA
1 TTAATTAAGTTAAACTAAA
* *
12196725 TTAATAAAGTTAATCTAAA
1 TTAATTAAGTTAAACTAAA
12196744 GTATAAAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
18 8 0.24
19 25 0.76
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.38
Consensus pattern (19 bp):
TTAATTAAGTTAAACTAAA
Found at i:12198500 original size:13 final size:16
Alignment explanation
Indices: 12198470--12198505 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
12198460 GTTTTCGTCA
12198470 AGGTTGAAAGTGAACT
1 AGGTTGAAAGTGAACT
12198486 A-GTTGAAA-T-AACT
1 AGGTTGAAAGTGAACT
12198499 AGGTTGA
1 AGGTTGA
12198506 TGAATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.26
14 6 0.32
15 7 0.37
16 1 0.05
ACGTcount: A:0.39, C:0.06, G:0.28, T:0.28
Consensus pattern (16 bp):
AGGTTGAAAGTGAACT
Found at i:12209045 original size:38 final size:39
Alignment explanation
Indices: 12208944--12209045 Score: 109
Period size: 38 Copynumber: 2.6 Consensus size: 39
12208934 ACCTCGAGTC
* *
12208944 GATGAGACACTGGGTGTCACTATTTTACTTCGGATAGATTA
1 GATGAGACACTGGGTGTCA--ACTTTACTTCGGATAGACTA
* * * * *
12208985 GATGAGATACTAGGTATC-ACTTTACTTCGGCTAGGCT-
1 GATGAGACACTGGGTGTCAACTTTACTTCGGATAGACTA
12209022 GATGAGACACTGGGTGTCAACTTT
1 GATGAGACACTGGGTGTCAACTTT
12209046 GCTTTGAACT
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
37 15 0.30
38 20 0.40
41 15 0.30
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (39 bp):
GATGAGACACTGGGTGTCAACTTTACTTCGGATAGACTA
Found at i:12210669 original size:21 final size:21
Alignment explanation
Indices: 12210643--12210683 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12210633 TCCCTCTTGG
12210643 AAGGTGGATATCGCGATACCC
1 AAGGTGGATATCGCGATACCC
* *
12210664 AAGGTGGGTCTCGCGATACC
1 AAGGTGGATATCGCGATACC
12210684 ACTGTAGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (21 bp):
AAGGTGGATATCGCGATACCC
Found at i:12211478 original size:17 final size:17
Alignment explanation
Indices: 12211456--12211489 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12211446 AAATGGTTTC
12211456 AAGCACAAGAAATTGTT
1 AAGCACAAGAAATTGTT
*
12211473 AAGCACATGAAATTGTT
1 AAGCACAAGAAATTGTT
12211490 TCTCATACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (17 bp):
AAGCACAAGAAATTGTT
Found at i:12212375 original size:15 final size:15
Alignment explanation
Indices: 12212355--12212385 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12212345 ATATGTACAA
12212355 CCAATGGCTTATTGT
1 CCAATGGCTTATTGT
12212370 CCAATGGCTTATTGT
1 CCAATGGCTTATTGT
12212385 C
1 C
12212386 AAAAATGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (15 bp):
CCAATGGCTTATTGT
Found at i:12215606 original size:37 final size:37
Alignment explanation
Indices: 12215556--12215629 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
12215546 CAAAGCTTTA
12215556 AATATTTTGAGGAATTTTAAAAACTCTTAATTTTCTT
1 AATATTTTGAGGAATTTTAAAAACTCTTAATTTTCTT
12215593 AATATTTTGAGGAATTTTAAAAACTCTTAATTTTCTT
1 AATATTTTGAGGAATTTTAAAAACTCTTAATTTTCTT
12215630 TCTTTTTTCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.49
Consensus pattern (37 bp):
AATATTTTGAGGAATTTTAAAAACTCTTAATTTTCTT
Found at i:12216980 original size:31 final size:31
Alignment explanation
Indices: 12216945--12217008 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
12216935 CCAAGTCCAA
12216945 CTGCAATATAACAAATGCTAATTAAAATTCC
1 CTGCAATATAACAAATGCTAATTAAAATTCC
12216976 CTGCAATATAACAAATGCTAATTAAAATTCC
1 CTGCAATATAACAAATGCTAATTAAAATTCC
12217007 CT
1 CT
12217009 AAAATGCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.30
Consensus pattern (31 bp):
CTGCAATATAACAAATGCTAATTAAAATTCC
Found at i:12220128 original size:21 final size:21
Alignment explanation
Indices: 12220102--12220142 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12220092 TCCCTCTTGG
*
12220102 AAGGTGGATATCGCGATACCC
1 AAGGTGGATATCACGATACCC
*
12220123 AAGGTGGATATTACGATACC
1 AAGGTGGATATCACGATACC
12220143 ACTGTAGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
AAGGTGGATATCACGATACCC
Found at i:12220715 original size:18 final size:19
Alignment explanation
Indices: 12220692--12220728 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
12220682 TACATTGATC
*
12220692 AAACATAGCAAC-AACAAA
1 AAACATACCAACAAACAAA
12220710 AAACATACCAACAAACAAA
1 AAACATACCAACAAACAAA
12220729 GCAAGTTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.68, C:0.24, G:0.03, T:0.05
Consensus pattern (19 bp):
AAACATACCAACAAACAAA
Found at i:12226534 original size:44 final size:45
Alignment explanation
Indices: 12226479--12226570 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 45
12226469 TTACAACATT
* *
12226479 ATTCTATTCAACCAAACACA-AGAA-TACTATTACAG-TTCTATTCC
1 ATTCCATTCAACCAAACA-ATAGAATTACTATTAC-GCCTCTATTCC
*
12226523 ATTCCATTCAACCAAACAATTGAATTACTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAATAGAATTACTATTACGCCTCTATTCC
12226568 ATT
1 ATT
12226571 ACAGCTCTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
43 1 0.02
44 21 0.50
45 20 0.48
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (45 bp):
ATTCCATTCAACCAAACAATAGAATTACTATTACGCCTCTATTCC
Found at i:12226578 original size:16 final size:16
Alignment explanation
Indices: 12226559--12226623 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
12226549 ACTATTACGC
12226559 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
* *
12226575 CTCTATTCTATTACAC
1 CTCTATTCCATTACAG
12226591 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
*
12226607 CTTTATTCCATTACAG
1 CTCTATTCCATTACAG
12226623 C
1 C
12226624 GAACCAAATG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.25, C:0.31, G:0.05, T:0.40
Consensus pattern (16 bp):
CTCTATTCCATTACAG
Found at i:12226586 original size:32 final size:32
Alignment explanation
Indices: 12226550--12226621 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
12226540 AATTGAATTA
*
12226550 CTATTACGCCTCTATTCCATTACAGCTCTATT
1 CTATTACACCTCTATTCCATTACAGCTCTATT
*
12226582 CTATTACACCTCTATTCCATTACAGCTTTATT
1 CTATTACACCTCTATTCCATTACAGCTCTATT
*
12226614 CCATTACA
1 CTATTACA
12226622 GCGAACCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.25, C:0.31, G:0.04, T:0.40
Consensus pattern (32 bp):
CTATTACACCTCTATTCCATTACAGCTCTATT
Found at i:12229426 original size:10 final size:10
Alignment explanation
Indices: 12229413--12229451 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
12229403 ATTAGAATTT
12229413 TTTTTATAAG
1 TTTTTATAAG
12229423 TTTTTATGAA-
1 TTTTTAT-AAG
12229433 TTTTTATAAG
1 TTTTTATAAG
*
12229443 TTTATATAA
1 TTTTTATAA
12229452 ATTTGTAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 22 0.85
11 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (10 bp):
TTTTTATAAG
Found at i:12229438 original size:20 final size:20
Alignment explanation
Indices: 12229413--12229455 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
12229403 ATTAGAATTT
* *
12229413 TTTTTATAAGTTTTTATGAA
1 TTTTTATAAGTTTATATAAA
12229433 TTTTTATAAGTTTATATAAA
1 TTTTTATAAGTTTATATAAA
12229453 TTT
1 TTT
12229456 GTAATGTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTTTATAAGTTTATATAAA
Found at i:12230693 original size:29 final size:29
Alignment explanation
Indices: 12230650--12230708 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
12230640 AAAATATATT
12230650 AAAGTTAATCAAAATTGCATGGTAGACTA
1 AAAGTTAATCAAAATTGCATGGTAGACTA
*
12230679 AAAGTTAATCGAAATTGCATGGTAGACTA
1 AAAGTTAATCAAAATTGCATGGTAGACTA
12230708 A
1 A
12230709 GCTATGAACC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (29 bp):
AAAGTTAATCAAAATTGCATGGTAGACTA
Found at i:12242749 original size:40 final size:41
Alignment explanation
Indices: 12242694--12242775 Score: 157
Period size: 40 Copynumber: 2.0 Consensus size: 41
12242684 CACTGGGTGG
12242694 CAAACTGGTGTGTTGGTTAGATCCGTGTAT-CGTCTGAATC
1 CAAACTGGTGTGTTGGTTAGATCCGTGTATCCGTCTGAATC
12242734 CAAACTGGTGTGTTGGTTAGATCCGTGTATCCGTCTGAATC
1 CAAACTGGTGTGTTGGTTAGATCCGTGTATCCGTCTGAATC
12242775 C
1 C
12242776 GAGTCGTGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 30 0.73
41 11 0.27
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (41 bp):
CAAACTGGTGTGTTGGTTAGATCCGTGTATCCGTCTGAATC
Found at i:12248512 original size:20 final size:20
Alignment explanation
Indices: 12248471--12248515 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
12248461 TTTTTTAAAA
* **
12248471 AATA-TATAATTATTCATTT
1 AATATTATAACTATTCAAAT
12248490 AATATTATAACTATTCAAAT
1 AATATTATAACTATTCAAAT
12248510 AATATT
1 AATATT
12248516 GTTTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATTATAACTATTCAAAT
Found at i:12252018 original size:6 final size:6
Alignment explanation
Indices: 12252007--12252034 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
12251997 GATTTGTTGG
12252007 ATGGTC ATGGTC ATGGTC ATGGTC ATGG
1 ATGGTC ATGGTC ATGGTC ATGGTC ATGG
12252035 GGTTTCTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.36, T:0.32
Consensus pattern (6 bp):
ATGGTC
Found at i:12255455 original size:26 final size:27
Alignment explanation
Indices: 12255395--12255456 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
12255385 ACTTTAATTT
**
12255395 TTTCAAATAAGAAATGGAGAGACTAAA
1 TTTCAAATAAGAAATAAAGAGACTAAA
***
12255422 TCAGAAATAA-AAATAAAGAGACTAAA
1 TTTCAAATAAGAAATAAAGAGACTAAA
12255448 TTTCAAATA
1 TTTCAAATA
12255457 TTTCAAAAAG
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.56, C:0.08, G:0.13, T:0.23
Consensus pattern (27 bp):
TTTCAAATAAGAAATAAAGAGACTAAA
Found at i:12260228 original size:23 final size:23
Alignment explanation
Indices: 12260159--12260229 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 23
12260149 CGGCCGAAAC
*
12260159 CAGTGGGCAACCTTCCAATCCCT
1 CAGTGAGCAACCTTCCAATCCCT
* * * *
12260182 CATCTGAACAAGCTT-TAAT-CCT
1 CA-GTGAGCAACCTTCCAATCCCT
12260204 CAGTGAGCAACCTTCCAATCCCT
1 CAGTGAGCAACCTTCCAATCCCT
12260227 CAG
1 CAG
12260230 CTGATCGAGG
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
21 9 0.25
22 8 0.22
23 11 0.31
24 8 0.22
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.24
Consensus pattern (23 bp):
CAGTGAGCAACCTTCCAATCCCT
Found at i:12261641 original size:22 final size:25
Alignment explanation
Indices: 12261598--12261642 Score: 60
Period size: 22 Copynumber: 1.9 Consensus size: 25
12261588 AATCTATATA
*
12261598 TTTTATCATAATTATATTTAAATTT
1 TTTTATCATAATTATATATAAATTT
12261623 TTTTAT-AT-ATT-TATATAAAT
1 TTTTATCATAATTATATATAAAT
12261643 ATTCAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 8 0.42
23 3 0.16
24 2 0.11
25 6 0.32
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTTATCATAATTATATATAAATTT
Found at i:12263900 original size:10 final size:9
Alignment explanation
Indices: 12263869--12263915 Score: 62
Period size: 8 Copynumber: 5.3 Consensus size: 9
12263859 ATATATTTTA
12263869 TTAAAAT-T
1 TTAAAATGT
12263877 TTAAAATGT
1 TTAAAATGT
*
12263886 TTAAATATTT
1 TTAAA-ATGT
12263896 TTAAAATGT
1 TTAAAATGT
12263905 TT-AAATGT
1 TTAAAATGT
12263913 TTA
1 TTA
12263916 TTTTTTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
8 15 0.44
9 11 0.32
10 8 0.24
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (9 bp):
TTAAAATGT
Found at i:12285245 original size:15 final size:15
Alignment explanation
Indices: 12285227--12285257 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12285217 TTTTATCTCA
12285227 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAG
*
12285242 AAAAAAGAAAAAAAG
1 AAAAAAAAAAAAAAG
12285257 A
1 A
12285258 GAGGGATAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:12285875 original size:18 final size:18
Alignment explanation
Indices: 12285853--12285915 Score: 90
Period size: 18 Copynumber: 3.4 Consensus size: 18
12285843 TAGAATTTTT
12285853 TTATAAAAATCGTAAAAA
1 TTATAAAAATCGTAAAAA
* * *
12285871 ATATAAAAAATTGTAAAAT
1 TTAT-AAAAATCGTAAAAA
12285890 TTATAAAAATCGTAAAAA
1 TTATAAAAATCGTAAAAA
12285908 TTATAAAA
1 TTATAAAA
12285916 TAATAGAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 23 0.61
19 15 0.39
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (18 bp):
TTATAAAAATCGTAAAAA
Found at i:12285897 original size:27 final size:26
Alignment explanation
Indices: 12285867--12285933 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
12285857 AAAAATCGTA
* *
12285867 AAAAATATAAAAAATTGTAAAATTTAT
1 AAAAATATAAAAAATTATAAAA-TAAT
*
12285894 AAAAATCGT-AAAAATTATAAAATAAT
1 AAAAAT-ATAAAAAATTATAAAATAAT
*
12285920 AGAAATATAAAAAA
1 AAAAATATAAAAAA
12285934 AACTATAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
25 1 0.03
26 13 0.39
27 18 0.55
28 1 0.03
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.27
Consensus pattern (26 bp):
AAAAATATAAAAAATTATAAAATAAT
Found at i:12285979 original size:38 final size:39
Alignment explanation
Indices: 12285932--12286007 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 39
12285922 AAATATAAAA
***
12285932 AAAACTATAAAATTTTATAAA-GTTGTAAGAAAATTATAC
1 AAAACTATAAAAAAATATAAATGTTGTAA-AAAATTATAC
*
12285971 AAAA-TATAAAAAAATATAAATTTTGTAAAAAATTATA
1 AAAACTATAAAAAAATATAAATGTTGTAAAAAATTATA
12286008 AAATTATCGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 22 0.69
39 10 0.31
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (39 bp):
AAAACTATAAAAAAATATAAATGTTGTAAAAAATTATAC
Found at i:12286010 original size:9 final size:9
Alignment explanation
Indices: 12285853--12285932 Score: 56
Period size: 9 Copynumber: 9.0 Consensus size: 9
12285843 TAGAATTTTT
12285853 TTATAAAAA
1 TTATAAAAA
**
12285862 TCGTAAAAA
1 TTATAAAAA
*
12285871 ATATAAAAAA
1 TTAT-AAAAA
* *
12285881 TTGTAAAAT
1 TTATAAAAA
12285890 TTATAAAAA
1 TTATAAAAA
**
12285899 TCGTAAAAA
1 TTATAAAAA
12285908 TTAT-AAAA
1 TTATAAAAA
* *
12285916 TAATAGAAA
1 TTATAAAAA
12285925 -TATAAAAA
1 TTATAAAAA
12285933 AAACTATAAA
Statistics
Matches: 51, Mismatches: 18, Indels: 5
0.69 0.24 0.07
Matches are distributed among these distances:
8 13 0.25
9 31 0.61
10 7 0.14
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.29
Consensus pattern (9 bp):
TTATAAAAA
Found at i:12286216 original size:21 final size:20
Alignment explanation
Indices: 12286191--12286236 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
12286181 TTAAAAGGAT
*
12286191 TTTTTGATGCATTTTTATAAA
1 TTTTTGATG-ATTTTTACAAA
*
12286212 TTTTTTATGATTTTTACAAAA
1 TTTTTGATGATTTTTAC-AAA
12286233 TTTT
1 TTTT
12286237 ACAATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (20 bp):
TTTTTGATGATTTTTACAAA
Found at i:12286317 original size:27 final size:26
Alignment explanation
Indices: 12286268--12286559 Score: 151
Period size: 27 Copynumber: 11.8 Consensus size: 26
12286258 AATTTTTATA
* *
12286268 AAAAATTCTA-ATTTTTAATAAATTT
1 AAAAATTTTATATTTTTATTAAATTT
**
12286293 GGAAATTTTATATTTTTATTAAAATTT
1 AAAAATTTTATATTTTTATT-AAATTT
* *
12286320 AAAAATTTATTTATTTTTATT-TATTT
1 AAAAATTT-TATATTTTTATTAAATTT
* *
12286346 -----TTCTA-ATTTTTAATAAATTT
1 AAAAATTTTATATTTTTATTAAATTT
**
12286366 GGAAATTTTATATTTTTATTAAAATTT
1 AAAAATTTTATATTTTTATT-AAATTT
* *
12286393 AAAAATTTATTTATTTTTATT-TATTT
1 AAAAATTT-TATATTTTTATTAAATTT
* *
12286419 -----TTCTA-ATTTTTAATAAATTT
1 AAAAATTTTATATTTTTATTAAATTT
**
12286439 GGAAATTTTATATTTTTATTAAAATTT
1 AAAAATTTTATATTTTTATT-AAATTT
* *
12286466 AAAAATTTATTTATTTTTATT-TATTT
1 AAAAATTT-TATATTTTTATTAAATTT
* *
12286492 -----TTCTA-ATTTTTAATAAATTT
1 AAAAATTTTATATTTTTATTAAATTT
**
12286512 GGAAATTTTATATTTTTATTAAAATTT
1 AAAAATTTTATATTTTTATT-AAATTT
*
12286539 AAAAATTTATTTATTTTTATT
1 AAAAATTT-TATATTTTTATT
12286560 TATTTTTCTA
Statistics
Matches: 200, Mismatches: 37, Indels: 57
0.68 0.13 0.19
Matches are distributed among these distances:
19 24 0.12
20 15 0.08
21 6 0.03
25 19 0.09
26 44 0.22
27 48 0.24
28 44 0.22
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (26 bp):
AAAAATTTTATATTTTTATTAAATTT
Found at i:12286338 original size:73 final size:73
Alignment explanation
Indices: 12286273--12286580 Score: 616
Period size: 73 Copynumber: 4.2 Consensus size: 73
12286263 TTATAAAAAA
12286273 TTCTAATTTTTAATAAATTTGGAAATTTTATATTTTTATTAAAATTTAAAAATTTATTTATTTTT
1 TTCTAATTTTTAATAAATTTGGAAATTTTATATTTTTATTAAAATTTAAAAATTTATTTATTTTT
12286338 ATTTATTT
66 ATTTATTT
12286346 TTCTAATTTTTAATAAATTTGGAAATTTTATATTTTTATTAAAATTTAAAAATTTATTTATTTTT
1 TTCTAATTTTTAATAAATTTGGAAATTTTATATTTTTATTAAAATTTAAAAATTTATTTATTTTT
12286411 ATTTATTT
66 ATTTATTT
12286419 TTCTAATTTTTAATAAATTTGGAAATTTTATATTTTTATTAAAATTTAAAAATTTATTTATTTTT
1 TTCTAATTTTTAATAAATTTGGAAATTTTATATTTTTATTAAAATTTAAAAATTTATTTATTTTT
12286484 ATTTATTT
66 ATTTATTT
12286492 TTCTAATTTTTAATAAATTTGGAAATTTTATATTTTTATTAAAATTTAAAAATTTATTTATTTTT
1 TTCTAATTTTTAATAAATTTGGAAATTTTATATTTTTATTAAAATTTAAAAATTTATTTATTTTT
12286557 ATTTATTT
66 ATTTATTT
12286565 TTCTAATTTTTAATAA
1 TTCTAATTTTTAATAA
12286581 GAGCAGCGCC
Statistics
Matches: 235, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 235 1.00
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.60
Consensus pattern (73 bp):
TTCTAATTTTTAATAAATTTGGAAATTTTATATTTTTATTAAAATTTAAAAATTTATTTATTTTT
ATTTATTT
Found at i:12289016 original size:31 final size:32
Alignment explanation
Indices: 12288953--12289017 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 32
12288943 AAGATATCAT
* * * *
12288953 TTCAACTCTTTTTTTAAACGTTGATGGTCAAA
1 TTCAACTCTTTTTTAAAACATTGAGGGCCAAA
*
12288985 TTCAACTC-TTTTTAAAATATTGAGGGCCAAA
1 TTCAACTCTTTTTTAAAACATTGAGGGCCAAA
12289016 TT
1 TT
12289018 TAGTTTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (32 bp):
TTCAACTCTTTTTTAAAACATTGAGGGCCAAA
Found at i:12290145 original size:15 final size:15
Alignment explanation
Indices: 12290112--12290166 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
12290102 ATAATAGGAC
* * *
12290112 AATAATAACAATGAA
1 AATAATAATACTGAT
**
12290127 AATAATAATTGTGAT
1 AATAATAATACTGAT
*
12290142 AATAATAATACTTAT
1 AATAATAATACTGAT
12290157 AATAATAATA
1 AATAATAATA
12290167 TCTAAATTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (15 bp):
AATAATAATACTGAT
Found at i:12290148 original size:18 final size:18
Alignment explanation
Indices: 12290127--12290166 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12290117 TAACAATGAA
* *
12290127 AATAATAATTGTGATAAT
1 AATAATAATTATAATAAT
*
12290145 AATAATACTTATAATAAT
1 AATAATAATTATAATAAT
12290163 AATA
1 AATA
12290167 TCTAAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (18 bp):
AATAATAATTATAATAAT
Found at i:12292648 original size:51 final size:51
Alignment explanation
Indices: 12292593--12292755 Score: 194
Period size: 51 Copynumber: 3.3 Consensus size: 51
12292583 CTTCAAAGGT
*
12292593 ATAAGATTTGCTATCTATAGCTTTAATCTGTTCCACTGCAACTTTAGGGAA
1 ATAAGATTTGCTATCTATAGCTTTAATCTGTTCCACTACAACTTTAGGGAA
* * *
12292644 ATAAGA-TT-C--GCTAT--CTTTAGTCTGTTCCACTACAACTTTAGGGAG
1 ATAAGATTTGCTATCTATAGCTTTAATCTGTTCCACTACAACTTTAGGGAA
** * * * *
12292689 ATAAGACCTGCAATTTATAGTTTTAATCTGTTCCACTACAACTTCAGGGAA
1 ATAAGATTTGCTATCTATAGCTTTAATCTGTTCCACTACAACTTTAGGGAA
12292740 ATAAGATTTGCTATCT
1 ATAAGATTTGCTATCT
12292756 TCAGGCTGTT
Statistics
Matches: 91, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
45 34 0.37
46 1 0.01
47 5 0.05
49 4 0.04
50 2 0.02
51 45 0.49
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (51 bp):
ATAAGATTTGCTATCTATAGCTTTAATCTGTTCCACTACAACTTTAGGGAA
Found at i:12292680 original size:45 final size:45
Alignment explanation
Indices: 12292613--12293158 Score: 224
Period size: 45 Copynumber: 11.9 Consensus size: 45
12292603 CTATCTATAG
* *
12292613 CTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTCGCTAT
1 CTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTAT
* * * *
12292658 CTTTAGTCTGTTCCACTACAACTTTAGGGAGATAAGA-CCTGCAATTTAT
1 CTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTC-GC----TAT
* *
12292707 AGTTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTAT
1 --CTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTAT
* ** * * *
12292754 CTTCAGGCTGTTCCACTACACCTTCAGGGAGATGAGACTT-G-TAAT
1 CTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGA-TTCGCT-AT
* * * * * *
12292799 -TTCAATCTGCTCCACTGCAACTTCAGGGAGATAATATTTGCTATGAT
1 CTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGC--T-AT
* ** * * ** ** * *
12292846 CTTCAATCCATCCCACTGCAACTTCAGGGGTATGGGATTTG-TAA
1 CTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTAT
* ** * * * *
12292890 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTTAT
1 CTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTAT
* * * * * * * * **
12292935 TTTTAACCTATTCCACTGCAATTTCAGGGAGATAAGGTTTG-TGG
1 CTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTAT
* ** * * * *
12292979 CTTCAATCTACTCCACTGCAAATTCAGGGAGATAAGATTCACTAT
1 CTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTAT
* * * * * * * ***
12293024 CTTCAGTCTGCTCTACTGCAACTTCAGAGAGATAAGATGTATAATTTAT
1 CTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGA--T-T-CGCTAT
*
12293073 AGCTTTAATCTGTTCCACTATAACTTCAGGGAAATAAGATTCGCTAT
1 --CTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTAT
* * * * * *
12293120 CTTCAGTTTGCTCCACTGCAACTTCA-AGAAGATAAGATT
1 CTTTAATCTGTTCCACTACAACTTCAGGGAA-ATAAGATT
12293159 TGCCATGATG
Statistics
Matches: 390, Mismatches: 87, Indels: 48
0.74 0.17 0.09
Matches are distributed among these distances:
43 2 0.01
44 104 0.27
45 168 0.43
46 2 0.01
47 10 0.03
48 33 0.08
49 7 0.02
51 64 0.16
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (45 bp):
CTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTAT
Found at i:12292725 original size:96 final size:96
Alignment explanation
Indices: 12292608--12293156 Score: 339
Period size: 96 Copynumber: 5.9 Consensus size: 96
12292598 ATTTGCTATC
* * * *
12292608 TATAGCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTTTAGTCTGTTCCA
1 TATAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGGCTGTTCCA
*
12292673 CTACAACTTTAGGGAGATAAGACCTGCAATT
66 CTACAACTTCAGGGAGATAAGACCTGCAATT
* *
12292704 TATAGTTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAGGCTGTTCCA
1 TATAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGGCTGTTCCA
* * * *
12292769 CTACACCTTCAGGGAGATGAGACTTGTAA-T
66 CTACAACTTCAGGGAGATAAGACCTGCAATT
* * * * * ** ** *
12292799 T-T--C---AATCTGCTCCACTGCAACTTCAGGGAGATAATATTTGCTATGATCTTCAATCCATC
1 TATAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGC--T-ATCTTCAGGCTGTT
* **
12292858 CCACTGCAACTTCAGGG-G-T---A--TGGGATT
63 CCACTACAACTTCAGGGAGATAAGACCTGCAATT
* * * ** * * * * * * ** *
12292885 TGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTTATTTTTAACCTATTCCA
1 TATAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGGCTGTTCCA
* *
12292950 CTGCAATTTCAGGGAGATAAG----G---TT
66 CTACAACTTCAGGGAGATAAGACCTGCAATT
* * * ** * * * * * * *
12292974 TGTGGCTTCAATCTACTCCACTGCAAATTCAGGGAGATAAGATTCACTATCTTCAGTCTGCTCTA
1 TATAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGGCTGTTCCA
* * ** **
12293039 CTGCAACTTCAGAGAGATAAGATGTATAATT
66 CTACAACTTCAGGGAGATAAGACCTGCAATT
* ** *
12293070 TATAGCTTTAATCTGTTCCACTATAACTTCAGGGAAATAAGATTCGCTATCTTCAGTTTGCTCCA
1 TATAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGGCTGTTCCA
* * *
12293135 CTGCAACTTCAAGAAGATAAGA
66 CTACAACTTCAGGGAGATAAGA
12293157 TTTGCCATGA
Statistics
Matches: 366, Mismatches: 65, Indels: 44
0.77 0.14 0.09
Matches are distributed among these distances:
85 3 0.01
86 2 0.01
87 2 0.01
89 133 0.36
90 3 0.01
91 3 0.01
92 60 0.16
94 1 0.00
95 2 0.01
96 157 0.43
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (96 bp):
TATAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGGCTGTTCCA
CTACAACTTCAGGGAGATAAGACCTGCAATT
Found at i:12292990 original size:89 final size:89
Alignment explanation
Indices: 12292720--12293059 Score: 326
Period size: 89 Copynumber: 3.8 Consensus size: 89
12292710 TTTAATCTGT
* * * ** * * *
12292720 TCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAGGCTGTTCCACTACACCTTCAGGGAG
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTCAACCTATTCCACTGCAACTTCAGGGAG
* ** * *
12292785 ATGAGACTTGTAATTTCAATCTGC
66 ATAAGGTTTGTAACTTCAATCTAC
* *
12292809 TCCACTGCAACTTCAGGGAGATAATATTTGCTATGATCTTCAATCC-ATCCCACTGCAACTTCAG
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-T-T-ATCTTCAA-CCTATTCCACTGCAACTTCAG
*
12292873 GG-G-TATGGGATTTGTAACTTCAATCTAC
62 GGAGATA-AGG-TTTGTAACTTCAATCTAC
* * *
12292901 TCCACTGCAACTTCAGGGAGATAAGATTTGTTATTTTTAACCTATTCCACTGCAATTTCAGGGAG
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTCAACCTATTCCACTGCAACTTCAGGGAG
**
12292966 ATAAGGTTTGTGGCTTCAATCTAC
66 ATAAGGTTTGTAACTTCAATCTAC
* *** ** ** * *
12292990 TCCACTGCAAATTCAGGGAGATAAGATTCACTATCTTCAGTCTGCTCTACTGCAACTTCAGAGAG
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTCAACCTATTCCACTGCAACTTCAGGGAG
12293055 ATAAG
66 ATAAG
12293060 ATGTATAATT
Statistics
Matches: 205, Mismatches: 37, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
88 2 0.01
89 124 0.60
90 5 0.02
91 6 0.03
92 67 0.33
93 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (89 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTCAACCTATTCCACTGCAACTTCAGGGAG
ATAAGGTTTGTAACTTCAATCTAC
Found at i:12294098 original size:18 final size:18
Alignment explanation
Indices: 12294041--12294100 Score: 59
Period size: 17 Copynumber: 3.3 Consensus size: 18
12294031 TGGCCTCTCA
*
12294041 TTTTTCTTTTTTTCTTTCCT
1 TTTTTCTTTTTCTCTTT--T
* * *
12294061 TTTTCCTTTTTGT-TTCT
1 TTTTTCTTTTTCTCTTTT
12294078 TTTTTCTTTTTCTCTTTT
1 TTTTTCTTTTTCTCTTTT
12294096 TTTTT
1 TTTTT
12294101 TAAAAAAAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 12 0.36
18 8 0.24
19 2 0.06
20 11 0.33
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.82
Consensus pattern (18 bp):
TTTTTCTTTTTCTCTTTT
Found at i:12298645 original size:18 final size:18
Alignment explanation
Indices: 12298592--12298645 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
12298582 GCAGTAAGAA
12298592 AATGTTTT-GAAATTGAAT
1 AATGTTTTGGAAA-TGAAT
* *
12298610 AATGATTTGTAAATGAAT
1 AATGTTTTGGAAATGAAT
*
12298628 AATGTTTTGGAAACGAAT
1 AATGTTTTGGAAATGAAT
12298646 GGCACGATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 27 0.90
19 3 0.10
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.39
Consensus pattern (18 bp):
AATGTTTTGGAAATGAAT
Found at i:12301873 original size:18 final size:18
Alignment explanation
Indices: 12301832--12301878 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
12301822 CCAATATGTA
*
12301832 TAATAAAAATAATAATTG
1 TAATAATAATAATAATTG
* * *
12301850 TGATAATAATAATACTTT
1 TAATAATAATAATAATTG
12301868 TAATAATAATA
1 TAATAATAATA
12301879 TCTAAATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (18 bp):
TAATAATAATAATAATTG
Found at i:12301924 original size:12 final size:12
Alignment explanation
Indices: 12301907--12301955 Score: 55
Period size: 12 Copynumber: 3.9 Consensus size: 12
12301897 GAAAGTAGCA
12301907 AATAAATAAAAG
1 AATAAATAAAAG
12301919 AATAAATAAAAG
1 AATAAATAAAAG
*
12301931 ACA-CAATAAAAG
1 A-ATAAATAAAAG
12301943 AAAATAAATAAAA
1 --AATAAATAAAA
12301956 AGAAGCCGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 21 0.68
13 2 0.06
14 8 0.26
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (12 bp):
AATAAATAAAAG
Found at i:12302282 original size:50 final size:51
Alignment explanation
Indices: 12302175--12302270 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 51
12302165 AAAACGAAAT
* * * *
12302175 AGATAAAATGTATACATAATGTTAATTTTAAATATTTTAAGAGTAAAAAAA
1 AGATAAAATGAATACATAATATTAAATTTAAATATTTTAAAAGTAAAAAAA
*
12302226 AGATAAAAT-AATACCTAATATTAAATTTAAATATTTTAAAAGTAA
1 AGATAAAATGAATACATAATATTAAATTTAAATATTTTAAAAGTAA
12302271 GAGAATGATA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
50 31 0.77
51 9 0.22
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.35
Consensus pattern (51 bp):
AGATAAAATGAATACATAATATTAAATTTAAATATTTTAAAAGTAAAAAAA
Found at i:12305938 original size:11 final size:11
Alignment explanation
Indices: 12305924--12305964 Score: 82
Period size: 11 Copynumber: 3.7 Consensus size: 11
12305914 TAAAATAAAT
12305924 AAAAAATTTTA
1 AAAAAATTTTA
12305935 AAAAAATTTTA
1 AAAAAATTTTA
12305946 AAAAAATTTTA
1 AAAAAATTTTA
12305957 AAAAAATT
1 AAAAAATT
12305965 AGCATGGAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAAAATTTTA
Found at i:12310157 original size:27 final size:27
Alignment explanation
Indices: 12310101--12310157 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
12310091 CTAGTAGAAC
**
12310101 TCTGAGCTACTCCGACGATCATCAGTT
1 TCTGAGCTACTCCGACGATCATCAAAT
* *
12310128 TCTGAGCTACAT-CGATGGTCATCAAAT
1 TCTGAGCTAC-TCCGACGATCATCAAAT
12310155 TCT
1 TCT
12310158 ACCAAAGAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (27 bp):
TCTGAGCTACTCCGACGATCATCAAAT
Found at i:12312140 original size:42 final size:43
Alignment explanation
Indices: 12312008--12312149 Score: 148
Period size: 42 Copynumber: 3.3 Consensus size: 43
12311998 GTTTCTAGAA
*
12312008 ACAAACGCCGCTAAAGAC-CAGGACCTTTAGC-AGCGCTTTTCT
1 ACAAACGCCGCTAAAGACTCAAGACCTTTAGCGA-CGCTTTTCT
* ** *
12312050 CACAAACGCCGCTAAAGACTC-AGACCTATAGCGACTTTTTTCC
1 -ACAAACGCCGCTAAAGACTCAAGACCTTTAGCGACGCTTTTCT
* * **
12312093 GCAAACGCCGCTATAG-CTCAAGACCTTTAGCGACGCTTTGAT
1 ACAAACGCCGCTAAAGACTCAAGACCTTTAGCGACGCTTTTCT
*
12312135 ACAAACGCCGTTAAA
1 ACAAACGCCGCTAAA
12312150 AATACCATTA
Statistics
Matches: 80, Mismatches: 16, Indels: 7
0.78 0.16 0.07
Matches are distributed among these distances:
41 3 0.04
42 42 0.52
43 33 0.41
44 2 0.03
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACTCAAGACCTTTAGCGACGCTTTTCT
Found at i:12313179 original size:20 final size:20
Alignment explanation
Indices: 12313154--12313192 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
12313144 ACAATTTACA
12313154 ATCACCATTTATGATTAACG
1 ATCACCATTTATGATTAACG
12313174 ATCACCATTTATGATTAAC
1 ATCACCATTTATGATTAAC
12313193 ATATTAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (20 bp):
ATCACCATTTATGATTAACG
Found at i:12315895 original size:7 final size:7
Alignment explanation
Indices: 12315880--12315990 Score: 59
Period size: 7 Copynumber: 16.0 Consensus size: 7
12315870 ACCAATTAAT
12315880 CTAAACC
1 CTAAACC
*
12315887 CTAACCC
1 CTAAACC
*
12315894 CT-ATCTC
1 CTAAAC-C
12315901 CTAAACC
1 CTAAACC
*
12315908 CTAAATC
1 CTAAACC
* *
12315915 ATAAAAC
1 CTAAACC
*
12315922 ATAAACC
1 CTAAACC
*
12315929 CTAACCC
1 CTAAACC
12315936 CT-AACC
1 CTAAACC
12315942 TCT-AACC
1 -CTAAACC
*
12315949 CTTAACCC
1 C-TAAACC
12315957 CTAAACC
1 CTAAACC
*
12315964 TTAAACC
1 CTAAACC
*
12315971 C-CAACC
1 CTAAACC
*
12315977 CTTAACC
1 CTAAACC
*
12315984 ATAAACC
1 CTAAACC
12315991 ATAATCTATA
Statistics
Matches: 80, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
6 11 0.14
7 63 0.79
8 6 0.08
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:12315960 original size:14 final size:14
Alignment explanation
Indices: 12315927--12315983 Score: 71
Period size: 14 Copynumber: 4.1 Consensus size: 14
12315917 AAAACATAAA
*
12315927 CCCTAACCCCTAAC
1 CCCTAACCCTTAAC
*
12315941 CTCTAACCCTTAAC
1 CCCTAACCCTTAAC
*
12315955 CCCTAAACCTTAAAC
1 CCCTAACCCTT-AAC
12315970 CCC-AACCCTTAAC
1 CCCTAACCCTTAAC
12315983 C
1 C
12315984 ATAAACCATA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
13 4 0.11
14 27 0.73
15 6 0.16
ACGTcount: A:0.32, C:0.49, G:0.00, T:0.19
Consensus pattern (14 bp):
CCCTAACCCTTAAC
Found at i:12317074 original size:41 final size:41
Alignment explanation
Indices: 12317028--12317125 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 41
12317018 CGGCACTAAT
*
12317028 TCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGCTTTAC
1 TCAAAAACGCCGCTAAAGCCCCAAGCATTAGCGGCGCTTT-C
* * * * *
12317070 -CAAAAGCGCCACTAAATCCCTAAGCATTAGTGGCGCTTTC
1 TCAAAAACGCCGCTAAAGCCCCAAGCATTAGCGGCGCTTTC
*
12317110 TAAAAAACGCCGCTAA
1 TCAAAAACGCCGCTAA
12317126 TTATCGATCT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
40 1 0.02
41 45 0.98
ACGTcount: A:0.33, C:0.31, G:0.18, T:0.18
Consensus pattern (41 bp):
TCAAAAACGCCGCTAAAGCCCCAAGCATTAGCGGCGCTTTC
Found at i:12321042 original size:5 final size:5
Alignment explanation
Indices: 12321032--12321057 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
12321022 TGAGCATTCG
12321032 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
12321058 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:12321528 original size:16 final size:17
Alignment explanation
Indices: 12321491--12321537 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
12321481 GGGTGAGAAG
12321491 TAAAAGTTTAGGGGAAA
1 TAAAAGTTTAGGGGAAA
* *
12321508 AAAAAGTTTTGGGG-AA
1 TAAAAGTTTAGGGGAAA
12321524 TAAAAGTTTGAGGG
1 TAAAAGTTT-AGGG
12321538 AAAGTAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.26
Consensus pattern (17 bp):
TAAAAGTTTAGGGGAAA
Found at i:12321682 original size:31 final size:31
Alignment explanation
Indices: 12321625--12321684 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
12321615 AGAGGTGGGA
*
12321625 TGGGAAGAGAATAAAAGTTTTAGGGAAAAAG
1 TGGGAAGAGAATAAAAATTTTAGGGAAAAAG
* * *
12321656 TGGGAAG-GAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGAGAATAAAAATTTTAGGGAAAAA
12321685 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.45, C:0.00, G:0.35, T:0.20
Consensus pattern (31 bp):
TGGGAAGAGAATAAAAATTTTAGGGAAAAAG
Found at i:12321914 original size:9 final size:9
Alignment explanation
Indices: 12321897--12321933 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
12321887 TATAGTTTGA
*
12321897 TATTTGAAT
1 TATTCGAAT
12321906 TATTCGAAT
1 TATTCGAAT
*
12321915 TATTCGAGT
1 TATTCGAAT
12321924 TATTCGAAT
1 TATTCGAAT
12321933 T
1 T
12321934 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:12322797 original size:15 final size:15
Alignment explanation
Indices: 12322772--12322806 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
12322762 NACTCTATTT
*
12322772 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
12322786 TAATTAATATTAAGA
1 TAATTAATATTAAGA
12322801 TAATTA
1 TAATTA
12322807 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:12326372 original size:12 final size:12
Alignment explanation
Indices: 12326355--12326379 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12326345 ATTAGATATT
12326355 TTATATATCAAA
1 TTATATATCAAA
12326367 TTATATATCAAA
1 TTATATATCAAA
12326379 T
1 T
12326380 ATGATGAATT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TTATATATCAAA
Found at i:12330789 original size:46 final size:46
Alignment explanation
Indices: 12330712--12331144 Score: 253
Period size: 44 Copynumber: 9.8 Consensus size: 46
12330702 ACTAGCTTTA
*
12330712 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
* * * * * *
12330758 GTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTG-----GTACG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
* * * **** *
12330799 ATCTACTCCACTATAA-CTTCAGAGAGATAAGATCTCTGGTT-TT-A
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAATTCTTCG
* **
12330843 ATCTGCTCCACTGTAATCTCAGGGAGATATGAT-T-ACAA-TCTTTA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGA-AATTCTTCG
** * *
12330887 ATCTGCTCTGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTTG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
* * * * * *
12330933 GTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTG-----GTGCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
* * * * * *** * *
12330974 ATCTACTCTACTGTAA-CTTCAGAGAAATCAGATCCCTAGTT-TT-A
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAATTCTTCG
* * *
12331018 ATCTGCTCCACTGTAATCTCAGGGAGATAGGAT-T--ACTATCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTCG
* *
12331062 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATCCTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
* * * *
12331108 GTCTGTTCCACTGTAATCTTAGGGAGATAAGACCTGA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGA
12331145 TGCGATCTAC
Statistics
Matches: 294, Mismatches: 67, Indels: 52
0.71 0.16 0.13
Matches are distributed among these distances:
40 2 0.01
41 58 0.20
42 2 0.01
43 5 0.02
44 115 0.39
45 8 0.03
46 102 0.35
47 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (46 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
Found at i:12330863 original size:85 final size:85
Alignment explanation
Indices: 12330603--12331217 Score: 305
Period size: 87 Copynumber: 7.1 Consensus size: 85
12330593 ACTACTGCTT
* * * * * *
12330603 AGGGAGATAAGATCTGATACGATCTATTCTACTGTAACTTCAGAGAGATAAGATCCTTTA-TTTT
1 AGGGAAATAAGACCTGGTACGATCTACTCCACTGTAACTTCAGAGAGATAAGAT-CTCTAGTTTT
12330667 AAT-TCGCTCCACTGTAATCTC
65 AATCT-GCTCCACTGTAATCTC
** * * * * * *** * * * ** *
12330688 AAAGAGAGAGGATTACTAGCTTTAATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTGAAAT
1 AGGGAAATAAGA--CCT-GGTACGATCTACTCCACTGTAACT-TCAGAGAGATAAGATCTCTAGT
** *
12330752 TCTTCGGTCTGTTCCACTGTAATCTC
62 T-TT-AATCTGCTCCACTGTAATCTC
* *
12330778 AGGGAAATAAGACCTGGTACGATCTACTCCACTATAACTTCAGAGAGATAAGATCTCTGGTTTTA
1 AGGGAAATAAGACCTGGTACGATCTACTCCACTGTAACTTCAGAGAGATAAGATCTCTAGTTTTA
12330843 ATCTGCTCCACTGTAATCTC
66 ATCTGCTCCACTGTAATCTC
* * * * *
12330863 AGGGAGATATGA--T--TACAATCTTTAATCTGCTCTGCTGTAA-TCTCAGGGAGATAAGATCTA
1 AGGGAAATAAGACCTGGTACGATC--T-A-CT-C-C-ACTGTAACT-TCAGAGAGATAAGATCT-
** * ** *
12330923 AAATTCTTTGGTCTGTTCCACTGTAATCTC
57 CTAGT-TTTAATCTGCTCCACTGTAATCTC
* * * * *
12330953 AGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAAATCAGATCCCTAGTTTTA
1 AGGGAAATAAGACCTGGTACGATCTACTCCACTGTAACTTCAGAGAGATAAGATCTCTAGTTTTA
12331018 ATCTGCTCCACTGTAATCTC
66 ATCTGCTCCACTGTAATCTC
* * * ** * * * * * ** *
12331038 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTGAAAT
1 AGGGAAATAAGA--CCT-GGTACGATCTACTCCACTGTAACT-TCAGAGAGATAAGATCTCTAGT
*** * *
12331102 CCTTCGGTCTGTTCCACTGTAATCTT
62 --TTTAATCTGCTCCACTGTAATCTC
* * * * *
12331128 AGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA-TTTT
1 AGGGAAATAAGACCTGGTACGATCTACTCCACTGTAACTTCAGAGAGATAAGAT-CTCTAGTTTT
** * *
12331192 AATCCACTCCACTATAATCTT
65 AATCTGCTCCACTGTAATCTC
12331213 AGGGA
1 AGGGA
12331218 GATAGGATTA
Statistics
Matches: 388, Mismatches: 110, Indels: 64
0.69 0.20 0.11
Matches are distributed among these distances:
81 6 0.02
83 2 0.01
84 1 0.00
85 91 0.23
86 5 0.01
87 93 0.24
88 91 0.23
89 4 0.01
90 86 0.22
91 2 0.01
92 2 0.01
94 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (85 bp):
AGGGAAATAAGACCTGGTACGATCTACTCCACTGTAACTTCAGAGAGATAAGATCTCTAGTTTTA
ATCTGCTCCACTGTAATCTC
Found at i:12330887 original size:44 final size:44
Alignment explanation
Indices: 12330664--12331139 Score: 232
Period size: 44 Copynumber: 10.8 Consensus size: 44
12330654 GATCCTTTAT
** * * * *
12330664 TTTAAT-TCGCTCCACTGTAATCTCAAAGAGAGAGGATTACTAGC
1 TTTAATCT-GCTCCACTGTAATCTCAGGGAGATAAGATTACAATC
*
12330708 TTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATTC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACAA-TC
*** * *
12330754 TTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAG---AC---C
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACAATC
* * * * **
12330792 TGGTACGATCTACTCCACTATAA-CTTCAGAGAGATAAGATCT-CTGGT-
1 T-TTA--ATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-TAC-AATC
*
12330839 TTTAATCTGCTCCACTGTAATCTCAGGGAGATATGATTACAATC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACAATC
** *
12330883 TTTAATCTGCTCTGCTGTAATCTCAGGGAGATAAGATCTAAAATTC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-TACAA-TC
** * * * *
12330929 TTTGGTCTGTTCCACTGTAATCTCAGGGAAATAAG---AC-CTGG
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACAAT-C
*** * * * * * ** *
12330970 TGCGATCTACTCTACTGTAA-CTTCAGAGAAATCAGATCCCTAGT-
1 TTTAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTAC-AATC
* *
12331014 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTATC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACAATC
* *
12331058 TTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATCC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACAAT-C
*** * *
12331104 TTCGGTCTGTTCCACTGTAATCTTAGGGAGATAAGA
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGA
12331140 CCTGATGCGA
Statistics
Matches: 324, Mismatches: 74, Indels: 66
0.70 0.16 0.14
Matches are distributed among these distances:
38 2 0.01
40 3 0.01
41 49 0.15
42 1 0.00
43 3 0.01
44 155 0.48
45 12 0.04
46 98 0.30
47 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACAATC
Found at i:12330911 original size:175 final size:175
Alignment explanation
Indices: 12330603--12331230 Score: 929
Period size: 175 Copynumber: 3.6 Consensus size: 175
12330593 ACTACTGCTT
* * *
12330603 AGGGAGATAAGATCTGATACGATCTATTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 AGGGAAATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
** * *
12330668 AT-TCGCTCCACTGTAATCTCAAAGAGAGAGGATTACTAGCTTTAATCTGCTCCGCTGTAATCTC
66 ATCT-GCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTTAATCTGCTCCGCTGTAATCTC
12330732 AGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTC
130 AGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTC
* * * **
12330778 AGGGAAATAAGACCTGGTACGATCTACTCCACTATAACTTCAGAGAGATAAGAT-CTCTGGTTTT
1 AGGGAAATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTT
* * *
12330842 AATCTGCTCCACTGTAATCTCAGGGAGATATGATTACAATCTTTAATCTGCTCTGCTGTAATCTC
65 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTTAATCTGCTCCGCTGTAATCTC
* *
12330907 AGGGAGATAAGATCTAAAATTCTTTGGTCTGTTCCACTGTAATCTC
130 AGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTC
* * * * *
12330953 AGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAAATCAGATCC-CTAGTTTT
1 AGGGAAATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA-TTTT
*
12331017 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTC
65 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTTAATCTGCTCCGCTGTAATCTC
* *
12331082 AGGGAGATAAGATCTGAAATCCTTCGGTCTGTTCCACTGTAATCTT
130 AGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTC
* *
12331128 AGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 AGGGAAATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
** * *
12331193 ATCCACTCCACTATAATCTTAGGGAGATAGGATTACTA
66 ATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTA
12331231 GCTCGTAACC
Statistics
Matches: 406, Mismatches: 42, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
174 2 0.00
175 400 0.99
176 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (175 bp):
AGGGAAATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
ATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTTAATCTGCTCCGCTGTAATCTCA
GGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTC
Found at i:12331396 original size:50 final size:50
Alignment explanation
Indices: 12331247--12331399 Score: 146
Period size: 50 Copynumber: 3.1 Consensus size: 50
12331237 AACCTTTTGA
* * *
12331247 AAGTAAGATTCGCC-ATTGTGGCTTTATTCTTTTTAACTGCAATACCGGGG
1 AAGTAAGATTCGCCGA-TGTGGCTTTAATCTTTTTAACTGCAATGCCAGGG
** ** * * ** **
12331297 AAACAAGATTTACCGATATGGCTTTAATCTGTTCCACTGCACCGCCAGGG
1 AAGTAAGATTCGCCGATGTGGCTTTAATCTTTTTAACTGCAATGCCAGGG
* * *
12331347 AAGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGG
1 AAGTAAGATTCGCCGATGTGGCTTTAATCTTTTTAACTGCAATGCCAGGG
12331397 AAG
1 AAG
12331400 CAATATGCAG
Statistics
Matches: 76, Mismatches: 26, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
50 75 0.99
51 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (50 bp):
AAGTAAGATTCGCCGATGTGGCTTTAATCTTTTTAACTGCAATGCCAGGG
Found at i:12339349 original size:306 final size:306
Alignment explanation
Indices: 12338796--12339359 Score: 1103
Period size: 306 Copynumber: 1.8 Consensus size: 306
12338786 TAGTACTAAT
*
12338796 AATAATAATATTGCTAAAAAGGGACTAAATTAAAATAAAAACAAATATACTAGGCAAATTCGAAA
1 AATAATAAGATTGCTAAAAAGGGACTAAATTAAAATAAAAACAAATATACTAGGCAAATTCGAAA
12338861 TAAAAAAGACAAAAAGACTATAATGTAAAGACGCGCCGAAAGAGGGGGGACCGAAATGTAAATAG
66 TAAAAAAGACAAAAAGACTATAATGTAAAGACGCGCCGAAAGAGGGGGGACCGAAATGTAAATAG
12338926 ACCAAAGCCTCAAAACGCAGTGCTGCAGTGGACCAAAGTGAAACAAAAGTAAAATTTTCAGGCTA
131 ACCAAAGCCTCAAAACGCAGTGCTGCAGTGGACCAAAGTGAAACAAAAGTAAAATTTTCAGGCTA
12338991 AATTAAAATAAAGGAAAAGAAAGCAAAAGGGGCAAATTGCAACGCGTCGTAAAAGCGGAGGGATA
196 AATTAAAATAAAGGAAAAGAAAGCAAAAGGGGCAAATTGCAACGCGTCGTAAAAGCGGAGGGATA
12339056 AACAAAATGATAAGAATGAATGATAATACATTAAAAAAATTAACAA
261 AACAAAATGATAAGAATGAATGATAATACATTAAAAAAATTAACAA
12339102 AATAATAAGATTGCTAAAAAGGGACTAAATTAAAATAAAAACAAATATACTAGGCAAATTCGAAA
1 AATAATAAGATTGCTAAAAAGGGACTAAATTAAAATAAAAACAAATATACTAGGCAAATTCGAAA
12339167 TAAAAAAGACAAAAAGGACTATAATGT-AAGACGCGCCGAAAGAGGGGGGACCGAAATGTAAATA
66 TAAAAAAGACAAAAA-GACTATAATGTAAAGACGCGCCGAAAGAGGGGGGACCGAAATGTAAATA
12339231 GACCAAAGCCTCAAAACGCAGTGCTGCAGTGGACCAAAGTGAAACAAAAGTAAAATTTTCAGGCT
130 GACCAAAGCCTCAAAACGCAGTGCTGCAGTGGACCAAAGTGAAACAAAAGTAAAATTTTCAGGCT
12339296 AAATTAAAATAAAGGAAAAGAAAGCAAAAGGGGCAAATTGCAACGCGTCGTAAAAGCGGAGGGA
195 AAATTAAAATAAAGGAAAAGAAAGCAAAAGGGGCAAATTGCAACGCGTCGTAAAAGCGGAGGGA
12339360 CTGATCGCGC
Statistics
Matches: 256, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
306 245 0.96
307 11 0.04
ACGTcount: A:0.50, C:0.13, G:0.21, T:0.16
Consensus pattern (306 bp):
AATAATAAGATTGCTAAAAAGGGACTAAATTAAAATAAAAACAAATATACTAGGCAAATTCGAAA
TAAAAAAGACAAAAAGACTATAATGTAAAGACGCGCCGAAAGAGGGGGGACCGAAATGTAAATAG
ACCAAAGCCTCAAAACGCAGTGCTGCAGTGGACCAAAGTGAAACAAAAGTAAAATTTTCAGGCTA
AATTAAAATAAAGGAAAAGAAAGCAAAAGGGGCAAATTGCAACGCGTCGTAAAAGCGGAGGGATA
AACAAAATGATAAGAATGAATGATAATACATTAAAAAAATTAACAA
Found at i:12340703 original size:108 final size:108
Alignment explanation
Indices: 12340510--12340707 Score: 290
Period size: 108 Copynumber: 1.8 Consensus size: 108
12340500 AATTTCTCTT
* * *
12340510 CTTCTTTTTCTACTTCTGGTTGGATTCCTGGAGGTGAACAATGGAAAGTAGTATGTACCAAGTGT
1 CTTCTTTTTCTACTTCTGCTTGGATTCCTAGAGGTGAACAATGGAAAGTAGAATGTACCAAGTGT
*
12340575 AGAAGATTCCCGATGATAGTATTTTTGGGAAAGCAGCATGCTA
66 AGAAGATGCCCGATGATAGTATTTTTGGGAAAGCAGCATGCTA
* * ** *
12340618 CTTCTTTTTCTACTTCTGCTTGGGTTCCTAGATGTGAAGGATGGAAAGTAGAATGTACCAATTGT
1 CTTCTTTTTCTACTTCTGCTTGGATTCCTAGAGGTGAACAATGGAAAGTAGAATGTACCAAGTGT
*
12340683 AGAAGATGCCTGAT-ACTAGTATTTT
66 AGAAGATGCCCGATGA-TAGTATTTT
12340708 CGGGTAAATA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
107 1 0.01
108 78 0.99
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (108 bp):
CTTCTTTTTCTACTTCTGCTTGGATTCCTAGAGGTGAACAATGGAAAGTAGAATGTACCAAGTGT
AGAAGATGCCCGATGATAGTATTTTTGGGAAAGCAGCATGCTA
Found at i:12341352 original size:18 final size:18
Alignment explanation
Indices: 12341329--12341366 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
12341319 AGGTGGATTA
12341329 TCCATCAAAAGTTCTACT
1 TCCATCAAAAGTTCTACT
*
12341347 TCCATCAAAAGTTGTACT
1 TCCATCAAAAGTTCTACT
12341365 TC
1 TC
12341367 ATTTGTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (18 bp):
TCCATCAAAAGTTCTACT
Found at i:12342302 original size:25 final size:26
Alignment explanation
Indices: 12342264--12342330 Score: 100
Period size: 25 Copynumber: 2.6 Consensus size: 26
12342254 ATATAAAACC
**
12342264 TATTTTTTAAAAAATTAAATAAAAA-
1 TATTTTTTTTAAAATTAAATAAAAAT
12342289 TATTTTTTTTAAAATTAAATAAAAAT
1 TATTTTTTTTAAAATTAAATAAAAAT
12342315 TATTTTTTTATAAAAT
1 TATTTTTTT-TAAAAT
12342331 GCAACTCCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 23 0.61
26 9 0.24
27 6 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TATTTTTTTTAAAATTAAATAAAAAT
Found at i:12346508 original size:3 final size:3
Alignment explanation
Indices: 12346500--12346599 Score: 55
Period size: 3 Copynumber: 33.0 Consensus size: 3
12346490 TAGTGAATAC
* * * *
12346500 AAT AAT AAT AAC AAT AAT AAT AAAT ATT CAATT AAT AAT ACT ATAT GAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AA-T AAT AAT AAT A-AT AAT
* * * *
12346549 AAT AAT GAT AAT AAT AGT GA- AAT AAT -AT AA- AAT ATAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
12346592 AAT -AT AAT
1 AAT AAT AAT
12346600 CACATAAAAT
Statistics
Matches: 72, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
2 7 0.10
3 55 0.76
4 9 0.12
5 1 0.01
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:12346592 original size:20 final size:21
Alignment explanation
Indices: 12346534--12346599 Score: 84
Period size: 20 Copynumber: 3.2 Consensus size: 21
12346524 TATTCAATTA
*
12346534 ATAATACTATATGATAATAAT
1 ATAATAATATATGATAATAAT
*
12346555 GATAATAATA-GTGA-AATAAT
1 -ATAATAATATATGATAATAAT
12346575 ATAA-AATATATGATAATAAT
1 ATAATAATATATGATAATAAT
12346595 ATAAT
1 ATAAT
12346600 CACATAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.11
19 7 0.18
20 16 0.42
21 3 0.08
22 8 0.21
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.35
Consensus pattern (21 bp):
ATAATAATATATGATAATAAT
Found at i:12346606 original size:28 final size:30
Alignment explanation
Indices: 12346549--12346616 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 30
12346539 ACTATATGAT
*
12346549 AATA-ATGATAATAATAGTGAAATAATATAA
1 AATATATGATAATAATAGT-AAATAACATAA
*
12346579 AATATATGATAATAATA-T-AATCACATAA
1 AATATATGATAATAATAGTAAATAACATAA
12346607 AATAT-TGATA
1 AATATATGATA
12346617 TTTGAGCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 5 0.14
28 13 0.37
30 5 0.14
31 12 0.34
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.32
Consensus pattern (30 bp):
AATATATGATAATAATAGTAAATAACATAA
Found at i:12349653 original size:3 final size:3
Alignment explanation
Indices: 12349645--12349744 Score: 55
Period size: 3 Copynumber: 33.0 Consensus size: 3
12349635 TAGTGAATAC
* * * *
12349645 AAT AAT AAT AAC AAT AAT AAT AAAT ATT CAATT AAT AAT ACT ATAT GAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AA-T AAT AAT AAT A-AT AAT
* * * *
12349694 AAT AAT GAT AAT AAT AGT GA- AAT AAT -AT AA- AAT ATAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
12349737 AAT -AT AAT
1 AAT AAT AAT
12349745 CACATAAAAT
Statistics
Matches: 72, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
2 7 0.10
3 55 0.76
4 9 0.12
5 1 0.01
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:12349737 original size:20 final size:21
Alignment explanation
Indices: 12349679--12349744 Score: 84
Period size: 20 Copynumber: 3.2 Consensus size: 21
12349669 TATTCAATTA
*
12349679 ATAATACTATATGATAATAAT
1 ATAATAATATATGATAATAAT
*
12349700 GATAATAATA-GTGA-AATAAT
1 -ATAATAATATATGATAATAAT
12349720 ATAA-AATATATGATAATAAT
1 ATAATAATATATGATAATAAT
12349740 ATAAT
1 ATAAT
12349745 CACATAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.11
19 7 0.18
20 16 0.42
21 3 0.08
22 8 0.21
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.35
Consensus pattern (21 bp):
ATAATAATATATGATAATAAT
Found at i:12349751 original size:28 final size:30
Alignment explanation
Indices: 12349694--12349761 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 30
12349684 ACTATATGAT
*
12349694 AATA-ATGATAATAATAGTGAAATAATATAA
1 AATATATGATAATAATAGT-AAATAACATAA
*
12349724 AATATATGATAATAATA-T-AATCACATAA
1 AATATATGATAATAATAGTAAATAACATAA
12349752 AATAT-TGATA
1 AATATATGATA
12349762 TTTGAGCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 5 0.14
28 13 0.37
30 5 0.14
31 12 0.34
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.32
Consensus pattern (30 bp):
AATATATGATAATAATAGTAAATAACATAA
Done.