Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 211 of 295
Found at i:72570296 original size:23 final size:23
Alignment explanation
Indices: 72570233--72570312 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 23
72570223 GCTGAAGGAT
*
72570233 AGTAAGCTCTATTGAGCTGAAAC
1 AGTAAGCTCTAATGAGCTGAAAC
* *
72570256 GGTAAGCTCTAACGAGCTGAAAC
1 AGTAAGCTCTAATGAGCTGAAAC
* * * *
72570279 AGTAAGCTCCAATAAGCTAAAAAT
1 AGTAAGCTCTAATGAGCT-GAAAC
72570303 AGTAAGCTCT
1 AGTAAGCTCT
72570313 TACAAGCTGA
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
23 34 0.74
24 12 0.26
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.23
Consensus pattern (23 bp):
AGTAAGCTCTAATGAGCTGAAAC
Found at i:72576747 original size:93 final size:93
Alignment explanation
Indices: 72576639--72576809 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
72576629 GCCGCTAAGT
* *
72576639 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
72576704 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
72576732 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
72576797 CGAGTTCGGATGC
66 CGAGTTCGGATGC
72576810 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:72576806 original size:46 final size:46
Alignment explanation
Indices: 72576634--72576806 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
72576624 AACCCGCCGC
* *
72576634 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
72576680 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
72576728 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
72576773 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
72576807 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:72578587 original size:17 final size:18
Alignment explanation
Indices: 72578565--72578606 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
72578555 AAACTGAAAT
72578565 TAAAATT-AAAAAATATA
1 TAAAATTAAAAAAATATA
*
72578582 TAAAATTCAAAAAAATTTA
1 TAAAATT-AAAAAAATATA
72578601 TAAAAT
1 TAAAAT
72578607 CTTTATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
19 15 0.68
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATTAAAAAAATATA
Found at i:72578758 original size:3 final size:3
Alignment explanation
Indices: 72578750--72578784 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
72578740 AACCAAACAG
72578750 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
72578785 GGGAATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:72579311 original size:20 final size:20
Alignment explanation
Indices: 72579254--72579319 Score: 78
Period size: 20 Copynumber: 3.0 Consensus size: 20
72579244 TTTTGGTAAA
72579254 TTTAATTTTTTTAATTTTATAT
1 TTTAATTTTTTTAATTTT-T-T
72579276 TTCTAATTTTAATTTTAATTTTTT
1 TT-TAA-TTT--TTTTAATTTTTT
72579300 TTTAATTTTTTTAATTTTTT
1 TTTAATTTTTTTAATTTTTT
72579320 ACAATTATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
20 12 0.30
22 5 0.12
23 6 0.15
24 6 0.15
25 1 0.03
26 10 0.25
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTAATTTTTTTAATTTTTT
Found at i:72579318 original size:7 final size:6
Alignment explanation
Indices: 72579262--72579308 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
72579252 AATTTAATTT
*
72579262 TTTTAA TTTTATA TTTCTAA TTTTAA TTTTAA TTTT-T TTTTAA TTTT
1 TTTTAA TTTTA-A TTT-TAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
72579309 TTTAATTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
5 4 0.11
6 22 0.61
7 8 0.22
8 2 0.06
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTAA
Found at i:72579325 original size:19 final size:20
Alignment explanation
Indices: 72579287--72579331 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
72579277 TCTAATTTTA
**
72579287 ATTTTAATTTTTTTTTAATT
1 ATTTTAATTTTTTTACAATT
*
72579307 TTTTTAA-TTTTTTACAATT
1 ATTTTAATTTTTTTACAATT
72579326 ATTTTA
1 ATTTTA
72579332 TACAAATAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTAATTTTTTTACAATT
Found at i:72583170 original size:25 final size:25
Alignment explanation
Indices: 72583142--72583192 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
72583132 AAATGTCGAG
72583142 TGACATAAATGTATCCTACAAGCTA
1 TGACATAAATGTATCCTACAAGCTA
72583167 TGACATAAATGTATCCTACAAGCTA
1 TGACATAAATGTATCCTACAAGCTA
72583192 T
1 T
72583193 CATACTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (25 bp):
TGACATAAATGTATCCTACAAGCTA
Found at i:72584482 original size:29 final size:30
Alignment explanation
Indices: 72584450--72584507 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
72584440 ATTTTTTCGA
*
72584450 CCTAATCCCATAAATTTTCA-AAAAATCAG
1 CCTAATCCAATAAATTTTCATAAAAATCAG
*
72584479 CCTAATCCAATAAATTTTTATAAAAATCA
1 CCTAATCCAATAAATTTTCATAAAAATCA
72584508 ACATTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.31
Consensus pattern (30 bp):
CCTAATCCAATAAATTTTCATAAAAATCAG
Found at i:72586110 original size:18 final size:18
Alignment explanation
Indices: 72586080--72586114 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
72586070 GTTCAAAAAA
72586080 ATAAAACTTATAGTAAATT
1 ATAAAACTTATAG-AAATT
72586099 ATAAAA-TTATAGAAAT
1 ATAAAACTTATAGAAAT
72586115 ATAGACAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 6 0.38
19 6 0.38
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (18 bp):
ATAAAACTTATAGAAATT
Found at i:72592425 original size:30 final size:31
Alignment explanation
Indices: 72592367--72592425 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
72592357 TCATGGTTTC
72592367 AATATTAATATAAAATTATTATAACTTAAAT
1 AATATTAATATAAAATTATTATAACTTAAAT
* *
72592398 AATATT-AT-TAATAATTTTTATAGCTTAA
1 AATATTAATATAA-AATTATTATAACTTAA
72592426 TTATTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 3 0.12
30 16 0.64
31 6 0.24
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (31 bp):
AATATTAATATAAAATTATTATAACTTAAAT
Found at i:72593734 original size:33 final size:33
Alignment explanation
Indices: 72593697--72593768 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
72593687 CTATATCAAT
*
72593697 ATCTTTTATCAAAGCTTAATTTAACTCAATATA
1 ATCTTTTATCAAAGCTTAATTTAACACAATATA
* *
72593730 ATCTTTTATCAAATCTTAATTTAACACAATGTA
1 ATCTTTTATCAAAGCTTAATTTAACACAATATA
72593763 ATCTTT
1 ATCTTT
72593769 GACTACTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (33 bp):
ATCTTTTATCAAAGCTTAATTTAACACAATATA
Found at i:72594850 original size:13 final size:13
Alignment explanation
Indices: 72594832--72594863 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
72594822 ATTTCAATCT
72594832 TATTCAAATATAA
1 TATTCAAATATAA
72594845 TATTCAAATATAA
1 TATTCAAATATAA
72594858 T-TTCAA
1 TATTCAA
72594864 GTGTTACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (13 bp):
TATTCAAATATAA
Found at i:72597783 original size:47 final size:45
Alignment explanation
Indices: 72597725--72597830 Score: 115
Period size: 47 Copynumber: 2.3 Consensus size: 45
72597715 AGTGTTTTAT
* * *
72597725 CCACATATGTGTTTCAACAGCTTGTTTACAATTTTGGTGGC-TTGA
1 CCACATATGTGTTT-AACAGCTAGTCTACAAATTTGGTGGCTTTGA
** *
72597770 CCACAATTATGTGTATTGGCAGCTAGTCTACAAATTTGGTGGCTTTGT
1 CCAC-A-TATGTGT-TTAACAGCTAGTCTACAAATTTGGTGGCTTTGA
72597818 CCACATATGTGTT
1 CCACATATGTGTT
72597831 GGTGTGTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
45 5 0.10
46 8 0.16
47 29 0.57
48 9 0.18
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.39
Consensus pattern (45 bp):
CCACATATGTGTTTAACAGCTAGTCTACAAATTTGGTGGCTTTGA
Found at i:72601864 original size:82 final size:81
Alignment explanation
Indices: 72601748--72601903 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
72601738 AAATTGTACA
* * * *
72601748 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
72601812 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
72601829 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
72601894 TGCGAGTTGA
65 TGCGAATTGA
72601904 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:72601871 original size:55 final size:52
Alignment explanation
Indices: 72601747--72601900 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
72601737 TAAATTGTAC
* *
72601747 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
72601800 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
72601855 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
72601901 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:72601905 original size:27 final size:27
Alignment explanation
Indices: 72601748--72601903 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
72601738 AAATTGTACA
*
72601748 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
72601775 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
72601802 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
72601829 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
72601857 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
72601884 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
72601904 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:72601914 original size:27 final size:27
Alignment explanation
Indices: 72601740--72601924 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
72601730 GCGGGATTAA
*
72601740 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
72601767 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
72601794 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
72601821 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
72601849 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
72601876 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
72601903 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
72601925 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:72601915 original size:82 final size:81
Alignment explanation
Indices: 72601740--72601924 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
72601730 GCGGGATTAA
* * * *
72601740 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
72601805 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
72601821 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
72601885 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
72601903 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
72601925 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:72612332 original size:46 final size:46
Alignment explanation
Indices: 72612282--72612457 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
72612272 TGATTGAGCA
72612282 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
72612328 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
72612373 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
72612421 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
72612458 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:72612438 original size:93 final size:93
Alignment explanation
Indices: 72612279--72612450 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
72612269 GGATGATTGA
*
72612279 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
72612344 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
72612372 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
72612436 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
72612451 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:72620184 original size:43 final size:45
Alignment explanation
Indices: 72620116--72620245 Score: 144
Period size: 44 Copynumber: 3.0 Consensus size: 45
72620106 GTTTGAACTC
* * *
72620116 ATTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCA-T
1 ATTCACCAGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCATT
*
72620159 -TTCACCAGCATTATAGCCTGCTAGGCCCGAAGCCCGATAAT-ATT
1 ATTCACCAGCATTATAGCCTGCTAGGCTCGAAGCCCGAT-ATCATT
* * *
72620203 ATTCACCAGC-TTAAAGCTTGCTAGGCTCAAAGCCCGAATATCA
1 ATTCACCAGCATTATAGCCTGCTAGGCTCGAAGCCCG-ATATCA
72620246 CCATTATAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
42 11 0.15
43 23 0.32
44 27 0.37
45 12 0.16
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (45 bp):
ATTCACCAGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCATT
Found at i:72620396 original size:28 final size:28
Alignment explanation
Indices: 72620364--72620435 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
72620354 TTGATCTTTT
*
72620364 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
72620392 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
72620420 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
72620436 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:72624057 original size:139 final size:139
Alignment explanation
Indices: 72623807--72624093 Score: 524
Period size: 139 Copynumber: 2.1 Consensus size: 139
72623797 CTCGGCCAAA
72623807 ACTAGACCATCATCAAGAAATGTCAAACGAGTATCCATGGCTCTCATAGTATACAGGGATTTTCT
1 ACTAGACCATCATCAAGAAATGTCAAACGAGTATCCATGGCTCTCATAGTATACAGGGATTTTCT
72623872 ACTCAATGCATCGGCGACCACATTCGCCTTTCCCGGGTGATAGTCGATACTCAGATCATAATCCT
66 ACTCAATGCATCGGCGACCACATTCGCCTTTCCCGGGTGATAGTCGATACTCAGATCATAATCCT
72623937 TAATTAATT
131 TAATTAATT
*
72623946 ACTAGACCATCATCAAGCAATGTCAAACGAGTATCCATGGCTCTCATAGTATACAGGGATTTTCT
1 ACTAGACCATCATCAAGAAATGTCAAACGAGTATCCATGGCTCTCATAGTATACAGGGATTTTCT
* * *
72624011 ATTCAATGCATCGGTGACCACATTCGCCTTTCCCGGGTGATAGTCGATACTCAGATCGTAATCCT
66 ACTCAATGCATCGGCGACCACATTCGCCTTTCCCGGGTGATAGTCGATACTCAGATCATAATCCT
72624076 TAATTAATT
131 TAATTAATT
72624085 -CTAG-CCATC
1 ACTAGACCATC
72624094 TCCTTTGTCT
Statistics
Matches: 144, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
137 5 0.03
138 4 0.03
139 135 0.94
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (139 bp):
ACTAGACCATCATCAAGAAATGTCAAACGAGTATCCATGGCTCTCATAGTATACAGGGATTTTCT
ACTCAATGCATCGGCGACCACATTCGCCTTTCCCGGGTGATAGTCGATACTCAGATCATAATCCT
TAATTAATT
Found at i:72639517 original size:37 final size:37
Alignment explanation
Indices: 72639467--72639545 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
72639457 TTATTACGAA
* * *
72639467 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
72639504 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
72639541 GTCTT
1 GTCTT
72639546 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:72639814 original size:47 final size:47
Alignment explanation
Indices: 72639664--72640088 Score: 683
Period size: 47 Copynumber: 9.1 Consensus size: 47
72639654 CCCTTCGGGA
* * * * * * *
72639664 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
72639711 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72639757 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
72639804 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72639851 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72639898 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72639945 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
72639992 CTTATCACACATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
72640038 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
72640085 CTTA
1 CTTA
72640089 CTATCATTTC
Statistics
Matches: 359, Mismatches: 17, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
46 86 0.24
47 273 0.76
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:72644753 original size:18 final size:18
Alignment explanation
Indices: 72644717--72644751 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
72644707 CTTAGGCCTA
*
72644717 AATGGGCCTTGTGGGCCC
1 AATGGGCCTTATGGGCCC
72644735 AATGGG-CTTATGGGCCC
1 AATGGGCCTTATGGGCCC
72644752 CACACATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.14, C:0.26, G:0.37, T:0.23
Consensus pattern (18 bp):
AATGGGCCTTATGGGCCC
Found at i:72645013 original size:27 final size:27
Alignment explanation
Indices: 72644979--72645069 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
72644969 AACCCCAAAA
*
72644979 TAGG-TAAAATAACCGTAATACCCTTG
1 TAGGATAAAATAACCGTAATACCCCTG
* * *
72645005 TAGGATAAAATGACTGTAATGCCCCTG
1 TAGGATAAAATAACCGTAATACCCCTG
*
72645032 TAGGGTAAAATAACCGTAATACCCCTG
1 TAGGATAAAATAACCGTAATACCCCTG
*
72645059 TACGATAAAAT
1 TAGGATAAAAT
72645070 GACGATTATG
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 4 0.07
27 50 0.93
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (27 bp):
TAGGATAAAATAACCGTAATACCCCTG
Found at i:72645458 original size:28 final size:28
Alignment explanation
Indices: 72645422--72645476 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
72645412 GTTACACTGT
* *
72645422 ACTGATATTGTATTAGGCTTAGGCTCAC
1 ACTGATATTGTATAAGGCTAAGGCTCAC
*
72645450 ACTGTTATTGTATAAGGCTAAGGCTCA
1 ACTGATATTGTATAAGGCTAAGGCTCA
72645477 GATTGTACTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (28 bp):
ACTGATATTGTATAAGGCTAAGGCTCAC
Found at i:72649201 original size:27 final size:27
Alignment explanation
Indices: 72649167--72649257 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
72649157 AACCCCAAAA
*
72649167 TAGG-TAAAATAACCGTAATACCCTTG
1 TAGGATAAAATAACCGTAATACCCCTG
* * *
72649193 TAGGATAAAATGACTGTAATGCCCCTG
1 TAGGATAAAATAACCGTAATACCCCTG
*
72649220 TAGGGTAAAATAACCGTAATACCCCTG
1 TAGGATAAAATAACCGTAATACCCCTG
*
72649247 TACGATAAAAT
1 TAGGATAAAAT
72649258 GACGATTATG
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 4 0.07
27 50 0.93
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (27 bp):
TAGGATAAAATAACCGTAATACCCCTG
Found at i:72649587 original size:22 final size:21
Alignment explanation
Indices: 72649542--72649606 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
72649532 TATCCTCACA
* *
72649542 TGGTGTGTTGGTTGGTATGGG
1 TGGTGTGCTGGCTGGTATGGG
*
72649563 TGGTGTGCTGGCTGGATTTGGG
1 TGGTGTGCTGGCTGG-TATGGG
* * *
72649585 TGGTGTGTTGGTTGGTACGGG
1 TGGTGTGCTGGCTGGTATGGG
72649606 T
1 T
72649607 TTTTTTTCCA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 18 0.50
22 18 0.50
ACGTcount: A:0.05, C:0.05, G:0.51, T:0.40
Consensus pattern (21 bp):
TGGTGTGCTGGCTGGTATGGG
Found at i:72654022 original size:24 final size:24
Alignment explanation
Indices: 72653994--72654054 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
72653984 AACCATATTT
* * *
72653994 GCACACATAGTGCTA-ATTACACTC
1 GCACACATAGTGCCATAGTAAAC-C
72654018 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTGCCATAGTAAACC
72654042 GCACACATAGTGC
1 GCACACATAGTGC
72654055 ATTGGATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAACC
Found at i:72672114 original size:36 final size:36
Alignment explanation
Indices: 72672062--72672134 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
72672052 TTATCTGAGG
*
72672062 TAGAATTAGTCTTTTTCATTTGTTCATTTGCATCAT
1 TAGAATTAGTCCTTTTCATTTGTTCATTTGCATCAT
*
72672098 TAGAATTTGTCCTTTTCATTTGTTCATTTGCATCAT
1 TAGAATTAGTCCTTTTCATTTGTTCATTTGCATCAT
72672134 T
1 T
72672135 CTCTTTACTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.21, C:0.15, G:0.11, T:0.53
Consensus pattern (36 bp):
TAGAATTAGTCCTTTTCATTTGTTCATTTGCATCAT
Found at i:72684263 original size:26 final size:26
Alignment explanation
Indices: 72684233--72684284 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
72684223 CACCGCTGAA
*
72684233 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
72684259 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
72684285 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:72684432 original size:105 final size:103
Alignment explanation
Indices: 72684201--72684467 Score: 437
Period size: 105 Copynumber: 2.6 Consensus size: 103
72684191 TAACCGTTAT
* **
72684201 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
72684266 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
72684304 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGG
72684368 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
64 GAATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
* **
72684409 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
72684468 TTATATACAA
Statistics
Matches: 152, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
103 55 0.36
104 25 0.16
105 71 0.47
106 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.19
Consensus pattern (103 bp):
TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:72691397 original size:104 final size:105
Alignment explanation
Indices: 72691217--72691484 Score: 450
Period size: 104 Copynumber: 2.6 Consensus size: 105
72691207 TAACCGTTAT
* **
72691217 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
72691282 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
72691321 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
72691386 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* **
72691426 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
72691485 TTATATACAA
Statistics
Matches: 154, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
104 82 0.53
105 71 0.46
106 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.19
Consensus pattern (105 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:72696146 original size:20 final size:20
Alignment explanation
Indices: 72696121--72696167 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
72696111 GGTTGTTATA
72696121 TCATGTTGTGGTGTAAATAT
1 TCATGTTGTGGTGTAAATAT
72696141 TCATGTTGTGGTGTAAATAT
1 TCATGTTGTGGTGTAAATAT
72696161 TCATGTT
1 TCATGTT
72696168 ATAAACTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.47
Consensus pattern (20 bp):
TCATGTTGTGGTGTAAATAT
Found at i:72699488 original size:20 final size:20
Alignment explanation
Indices: 72699463--72699505 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
72699453 ATAAATATAC
*
72699463 ATTGTCATTGCATTTTCTTT
1 ATTGTCATTACATTTTCTTT
72699483 ATTGTCATTACATTTTCTTT
1 ATTGTCATTACATTTTCTTT
72699503 ATT
1 ATT
72699506 AGTGCGTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.14, G:0.07, T:0.60
Consensus pattern (20 bp):
ATTGTCATTACATTTTCTTT
Found at i:72703283 original size:68 final size:66
Alignment explanation
Indices: 72703211--72703377 Score: 169
Period size: 67 Copynumber: 2.5 Consensus size: 66
72703201 CATCATGTGT
* * * *
72703211 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
72703274 TGTAG
62 TGTAG
** * *
72703279 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
72703344 AG
65 AG
* * *
72703346 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTC
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTC
72703378 ACATAGGTGG
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
64 24 0.28
65 3 0.04
66 13 0.15
67 32 0.38
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:72703316 original size:64 final size:64
Alignment explanation
Indices: 72703235--72703420 Score: 189
Period size: 67 Copynumber: 2.9 Consensus size: 64
72703225 AGACATTATG
* * *
72703235 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
72703299 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
72703364 AA
63 AA
* * * * *
72703366 AT-TGGCTAGGTCACATAGGTGGTACTGA-GTGTTCACCATGT-GTACAACAGAGCTA
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTA
72703421 AGCTATATGA
Statistics
Matches: 99, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 20 0.20
64 25 0.25
66 20 0.20
67 33 0.33
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:72714008 original size:23 final size:23
Alignment explanation
Indices: 72713978--72714025 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
72713968 TGTAATTAAA
72713978 AAAAAGTATGAAATTAGGCCATT
1 AAAAAGTATGAAATTAGGCCATT
72714001 AAAAAGTATGAAATTAGGCCATT
1 AAAAAGTATGAAATTAGGCCATT
72714024 AA
1 AA
72714026 CATCTCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.50, C:0.08, G:0.17, T:0.25
Consensus pattern (23 bp):
AAAAAGTATGAAATTAGGCCATT
Found at i:72720224 original size:13 final size:13
Alignment explanation
Indices: 72720206--72720233 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
72720196 TTTTGCAAAT
72720206 GGTTGAAGGTATA
1 GGTTGAAGGTATA
72720219 GGTTGAAGGTATA
1 GGTTGAAGGTATA
72720232 GG
1 GG
72720234 GTATTTCCGT
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:0.29, C:0.00, G:0.43, T:0.29
Consensus pattern (13 bp):
GGTTGAAGGTATA
Found at i:72724701 original size:19 final size:19
Alignment explanation
Indices: 72724677--72724720 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
72724667 TCAAACGCTA
72724677 AATCAAATCATT-AATTCAC
1 AATCAAAT-ATTCAATTCAC
*
72724696 AATCAAAATATTCACTTCAC
1 AATC-AAATATTCAATTCAC
72724716 AATCA
1 AATCA
72724721 TAGACTAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.30
Consensus pattern (19 bp):
AATCAAATATTCAATTCAC
Found at i:72729437 original size:55 final size:55
Alignment explanation
Indices: 72729372--72729479 Score: 171
Period size: 55 Copynumber: 2.0 Consensus size: 55
72729362 AACAATATGG
* * *
72729372 GCGTGCGACACGCCTGTGCCTAGAAACCGTGGTCGAACCTGTCAAATTAACACTA
1 GCGTGCGACACACCCGTGCCAAGAAACCGTGGTCGAACCTGTCAAATTAACACTA
* *
72729427 GCGTGCGACACACCCGTGCCAAGAAACTGTGGTCGAACCTGTCAGATTAACAC
1 GCGTGCGACACACCCGTGCCAAGAAACCGTGGTCGAACCTGTCAAATTAACAC
72729480 GGGCATGGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.28, C:0.30, G:0.24, T:0.19
Consensus pattern (55 bp):
GCGTGCGACACACCCGTGCCAAGAAACCGTGGTCGAACCTGTCAAATTAACACTA
Found at i:72733048 original size:28 final size:28
Alignment explanation
Indices: 72733016--72733143 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
72733006 ATAGTAAGTC
*
72733016 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
72733044 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
72733073 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
72733101 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
72733130 CGCACACTTAGTGC
1 CGCACACTTAGTGC
72733144 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:72733106 original size:57 final size:57
Alignment explanation
Indices: 72733015--72733143 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
72733005 TATAGTAAGT
*
72733015 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
72733072 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
72733129 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
72733144 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:72740513 original size:25 final size:25
Alignment explanation
Indices: 72740485--72740545 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
72740475 TAATAATTGT
**
72740485 GGCAAAGCCCGTTTCGGTAAACTAG
1 GGCAAAGCCCGTTTCAATAAACTAG
* *
72740510 GGCAAAGCCCTTTTCAATAAACTGG
1 GGCAAAGCCCGTTTCAATAAACTAG
72740535 GGCATAAGCCC
1 GGCA-AAGCCC
72740546 TTTTGCACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 25 0.81
26 6 0.19
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.20
Consensus pattern (25 bp):
GGCAAAGCCCGTTTCAATAAACTAG
Found at i:72740624 original size:20 final size:20
Alignment explanation
Indices: 72740599--72740653 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
72740589 TTATGAATAC
*
72740599 ATCATGTGCATTTCATA-CA
1 ATCATGTGCATATCATAGCA
72740618 TATCATGTGCATATCATAGCA
1 -ATCATGTGCATATCATAGCA
72740639 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
72740654 TCCCACGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 8 0.24
20 23 0.70
21 2 0.06
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATAGCA
Found at i:72748841 original size:53 final size:51
Alignment explanation
Indices: 72748694--72748907 Score: 178
Period size: 52 Copynumber: 4.3 Consensus size: 51
72748684 TGACGGAAAA
* * *
72748694 GATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTTTGCCATC-AGT
1 GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGAGT
* * *
72748744 GCAATGTGATACGT-ATTTCCATATAAGAACATAGCTGGGCTATGGCATCGATGT
1 G--ATGTGATATGTGA-TTCCGTATAAGACCATAGCTGGGCTATGGCATCGA-GT
* * *
72748798 GATGTGATAATGTGATTCCGTATAATACCATATCTGGGATATGGCATCG-GT
1 GATGTGAT-ATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGAGT
* * * **
72748849 -A--TGATATGTGA-TCCATGTAAGACCAT-GGTAGGGCTATGGTTTCG-GT
1 GATGTGATATGTGATTCCGTATAAGACCATAGCT-GGGCTATGGCATCGAGT
72748895 G-TGTGATATGTGA
1 GATGTGATATGTGA
72748908 CTATGTGCAA
Statistics
Matches: 133, Mismatches: 20, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
45 1 0.01
46 25 0.19
47 6 0.05
48 14 0.11
50 2 0.02
51 2 0.02
52 46 0.35
53 33 0.25
54 4 0.03
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (51 bp):
GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGAGT
Found at i:72752692 original size:46 final size:46
Alignment explanation
Indices: 72752632--72752859 Score: 305
Period size: 46 Copynumber: 5.0 Consensus size: 46
72752622 TTTGACATGA
* * * * * *
72752632 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TCTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *** *
72752678 TGCCATGCTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
72752724 TGCCTTGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
72752770 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
72752816 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
72752860 AGAGCACACA
Statistics
Matches: 162, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 4 0.02
46 158 0.98
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:72757171 original size:43 final size:43
Alignment explanation
Indices: 72757114--72757270 Score: 172
Period size: 43 Copynumber: 3.7 Consensus size: 43
72757104 CATTAGGATT
* * *
72757114 ATCGAGATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
1 ATCGATATATGATTACATATAAGACCATGTCTGGGACATTGGC
* * *
72757157 ATTG-TACTATGATTACATGTAAGACCATGTCTGGGATATTGGC
1 ATCGATA-TATGATTACATATAAGACCATGTCTGGGACATTGGC
* * * * * *
72757200 ATCGTTATATGATTTCGTATAAGACCCTGTCTGAGACAGTGGC
1 ATCGATATATGATTACATATAAGACCATGTCTGGGACATTGGC
* *
72757243 ATCGATATGTGATAACATATAAGACCAT
1 ATCGATATATGATTACATATAAGACCAT
72757271 ATTCGGGATA
Statistics
Matches: 94, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 1 0.01
43 91 0.97
44 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (43 bp):
ATCGATATATGATTACATATAAGACCATGTCTGGGACATTGGC
Found at i:72758864 original size:44 final size:44
Alignment explanation
Indices: 72758814--72758902 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
72758804 AACTAATTGT
* *
72758814 TGAATTAATTTAATTTTATAGTTAAACATTGAACACATTATATG
1 TGAATTAATTTAATTTGATAGTTAAACATTAAACACATTATATG
72758858 TGAATTAATTTAATTTGATAGTTAAACATTAAACACATTATATG
1 TGAATTAATTTAATTTGATAGTTAAACATTAAACACATTATATG
72758902 T
1 T
72758903 ACAAACTTCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.43
Consensus pattern (44 bp):
TGAATTAATTTAATTTGATAGTTAAACATTAAACACATTATATG
Found at i:72759130 original size:75 final size:75
Alignment explanation
Indices: 72759003--72759149 Score: 213
Period size: 75 Copynumber: 2.0 Consensus size: 75
72758993 ATGAAAATTA
* ** * *
72759003 ATATTTTTTTGGAAAGAATATAATTCCTTTTTCTAGCTTTCCATTTACCTTCTCTATTAATATGG
1 ATATTCTTTTGGAAAGAATATAATTAATTTTTCTAACTTTCCATTTACCTTCTCTATTAATAAGG
*
72759068 GAATAATCCT
66 AAATAATCCT
* **
72759078 ATATTCTTTTGGAATGAATATAATTAATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGG
1 ATATTCTTTTGGAAAGAATATAATTAATTTTTCTAACTTTCCATTTACCTTCTCTATTAATAAGG
72759143 AAATAAT
66 AAATAAT
72759150 TCTGGTTTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 63 1.00
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.47
Consensus pattern (75 bp):
ATATTCTTTTGGAAAGAATATAATTAATTTTTCTAACTTTCCATTTACCTTCTCTATTAATAAGG
AAATAATCCT
Found at i:72759364 original size:40 final size:40
Alignment explanation
Indices: 72759320--72759400 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
72759310 CTCAATTTGG
72759320 TCAAAAGGACTAAATTGTAAAAAGTGCAAAAGTTGAGTTT
1 TCAAAAGGACTAAATTGTAAAAAGTGCAAAAGTTGAGTTT
72759360 TCAAAAGGACTAAATTGTAAAAAGTGCAAAAGTTGAGTTT
1 TCAAAAGGACTAAATTGTAAAAAGTGCAAAAGTTGAGTTT
72759400 T
1 T
72759401 ACATGTTAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.44, C:0.07, G:0.20, T:0.28
Consensus pattern (40 bp):
TCAAAAGGACTAAATTGTAAAAAGTGCAAAAGTTGAGTTT
Found at i:72760051 original size:30 final size:30
Alignment explanation
Indices: 72760015--72760074 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
72760005 TTCCCGAGCC
72760015 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
72760045 TAGGGGCAAAATGGTAATTTTGCTAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
72760075 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:72760798 original size:49 final size:50
Alignment explanation
Indices: 72760718--72760963 Score: 307
Period size: 49 Copynumber: 4.9 Consensus size: 50
72760708 AGCTATTGTG
* *
72760718 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
72760768 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * * **
72760818 CGATCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
72760868 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
72760918 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
72760964 GCTTCGGCTA
Statistics
Matches: 166, Mismatches: 28, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
49 82 0.49
50 47 0.28
51 37 0.22
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:72764568 original size:26 final size:25
Alignment explanation
Indices: 72764508--72764568 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
72764498 ATGCCCAAAT
72764508 GAGCTGTG-AATCAGTATGCTCACA
1 GAGCTGTGAAATCAGTATGCTCACA
* * *
72764532 GAGATGT-AAATCGGTATGCTCTCA
1 GAGCTGTGAAATCAGTATGCTCACA
72764556 CGAGCTGTGAAAT
1 -GAGCTGTGAAAT
72764569 TAGGCCTGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 20 0.67
25 6 0.20
26 4 0.13
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (25 bp):
GAGCTGTGAAATCAGTATGCTCACA
Found at i:72767100 original size:10 final size:10
Alignment explanation
Indices: 72767085--72767110 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
72767075 CATTGCCTCT
72767085 ACATTTATTG
1 ACATTTATTG
72767095 ACATTTATTG
1 ACATTTATTG
72767105 ACATTT
1 ACATTT
72767111 GAACTTAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.50
Consensus pattern (10 bp):
ACATTTATTG
Found at i:72772543 original size:13 final size:13
Alignment explanation
Indices: 72772525--72772549 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72772515 TTTTACGATC
72772525 TCAAGTTCAATTT
1 TCAAGTTCAATTT
72772538 TCAAGTTCAATT
1 TCAAGTTCAATT
72772550 ACCCATTGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (13 bp):
TCAAGTTCAATTT
Found at i:72774779 original size:13 final size:13
Alignment explanation
Indices: 72774763--72774795 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
72774753 TTTAATTAAA
*
72774763 TTAGTTAATTAGT
1 TTAGATAATTAGT
72774776 TTAGATAATTAGT
1 TTAGATAATTAGT
72774789 TTA-ATAA
1 TTAGATAA
72774796 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:72776330 original size:46 final size:46
Alignment explanation
Indices: 72776263--72776351 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
72776253 AGGCAATGCT
72776263 CCCTACCCGTATGGAATTAATTGAATTTATTTTCTATTTCGATGTC
1 CCCTACCCGTATGGAATTAATTGAATTTATTTTCTATTTCGATGTC
*
72776309 CCCTACCTGTATGGAATTAATTGAATTTATTTTCTATTTCGAT
1 CCCTACCCGTATGGAATTAATTGAATTTATTTTCTATTTCGAT
72776352 CCTACAGGGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (46 bp):
CCCTACCCGTATGGAATTAATTGAATTTATTTTCTATTTCGATGTC
Found at i:72784057 original size:31 final size:31
Alignment explanation
Indices: 72783974--72784059 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
72783964 TCAATCTCAG
* *
72783974 CATAT-ACTGGGCCGAAGCCTTCACCTTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
72784004 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
72784035 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
72784060 TGTAACAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:72784292 original size:25 final size:26
Alignment explanation
Indices: 72784264--72784349 Score: 81
Period size: 26 Copynumber: 3.4 Consensus size: 26
72784254 CTAGAGGCCT
*
72784264 AGCCTCTTTT-AAT-AACTGGGGCAAA
1 AGCC-CTTTTGAATAAACTAGGGCAAA
*
72784289 AGCCCTTTTGGATAAACTAGGGCAAA
1 AGCCCTTTTGAATAAACTAGGGCAAA
* * *
72784315 AGCCCTTTTCG-GTAAACTGGGGC-AT
1 AGCCCTTTT-GAATAAACTAGGGCAAA
72784340 AGCCCTTTTG
1 AGCCCTTTTG
72784350 CACTTCCTCC
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
24 6 0.11
25 16 0.30
26 30 0.57
27 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTGAATAAACTAGGGCAAA
Found at i:72784311 original size:26 final size:25
Alignment explanation
Indices: 72784277--72784349 Score: 103
Period size: 26 Copynumber: 2.9 Consensus size: 25
72784267 CTCTTTTAAT
72784277 AACTGGGGCAAAAGCCCTTTTGGATA
1 AACTGGGGCAAAAGCCCTTTTGG-TA
*
72784303 AACTAGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTT-GGTA
*
72784329 AACTGGGGC-ATAGCCCTTTTG
1 AACTGGGGCAAAAGCCCTTTTG
72784350 CACTTCCTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 1 0.02
25 10 0.23
26 30 0.70
27 2 0.05
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAAGCCCTTTTGGTA
Found at i:72784507 original size:25 final size:25
Alignment explanation
Indices: 72784479--72784526 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
72784469 ATAATTAAAC
* *
72784479 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
72784504 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
72784527 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:72805081 original size:31 final size:31
Alignment explanation
Indices: 72805043--72805121 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
72805033 TTTAACGGTT
72805043 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
72805074 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
72805105 ACTAGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
72805122 ATTGTAAACG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:72805205 original size:42 final size:42
Alignment explanation
Indices: 72805145--72805236 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
72805135 TGGCCCATAG
72805145 GCCCATTTCAATAACACATGAAATATC-AATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATA-CAAATGAATGTATGCAA
*
72805187 GCCCATTTCAATATCACATGAAATACAAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACAAATGAATGTATGCAA
72805229 GCCCATTT
1 GCCCATTT
72805237 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
41 1 0.02
42 47 0.98
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACAAATGAATGTATGCAA
Found at i:72805453 original size:26 final size:26
Alignment explanation
Indices: 72805374--72805504 Score: 189
Period size: 26 Copynumber: 5.2 Consensus size: 26
72805364 GGCCTAACCT
*
72805374 CTTTT-AAT-AACTAGGGCA-AAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
*
72805397 CTTTTCGATAAACTGGGGCA-AAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
*
72805422 CTTTTCAATAAACTAGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
**
72805448 CTTTTCGGTAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
72805474 CTTTTCAATAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
72805500 CTTTT
1 CTTTT
72805505 GCACTTCCTC
Statistics
Matches: 96, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
23 5 0.05
24 2 0.02
25 32 0.33
26 57 0.59
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (26 bp):
CTTTTCAATAAACTGGGGCATAAGCC
Found at i:72805493 original size:52 final size:51
Alignment explanation
Indices: 72805374--72805504 Score: 214
Period size: 52 Copynumber: 2.6 Consensus size: 51
72805364 GGCCTAACCT
72805374 CTTTT-AAT-AACTAGGGCA-AAGCCCTTTTCGATAAACTGGGGCAAAGCC
1 CTTTTCAATAAACTAGGGCATAAGCCCTTTTCGATAAACTGGGGCAAAGCC
*
72805422 CTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTAGGGCATAAGCCCTTTTCGATAAACTGGGGCA-AAGCC
*
72805474 CTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 CTTTTCAATAAACTAGGGCATAAGCCCTTTT
72805505 GCACTTCCTC
Statistics
Matches: 77, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
48 5 0.06
49 3 0.04
50 10 0.13
51 24 0.31
52 35 0.45
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (51 bp):
CTTTTCAATAAACTAGGGCATAAGCCCTTTTCGATAAACTGGGGCAAAGCC
Found at i:72805579 original size:20 final size:20
Alignment explanation
Indices: 72805554--72805621 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
72805544 TTATGAATAC
*
72805554 ATCATGTCCATTTCATACAT
1 ATCATGTACATTTCATACAT
* *
72805574 ATCATGTGCATTTTATACAT
1 ATCATGTACATTTCATACAT
*
72805594 ATCATGTACATATCATATCA-
1 ATCATGTACATTTCATA-CAT
72805614 ATCATGTA
1 ATCATGTA
72805622 TATCATATCC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
20 40 0.95
21 2 0.05
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (20 bp):
ATCATGTACATTTCATACAT
Found at i:72805684 original size:25 final size:25
Alignment explanation
Indices: 72805656--72805703 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
72805646 ATAATTAAAC
* * *
72805656 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
72805681 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
72805704 CATACTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:72806474 original size:27 final size:27
Alignment explanation
Indices: 72806422--72806744 Score: 240
Period size: 27 Copynumber: 11.9 Consensus size: 27
72806412 TTCATCCTAC
* * * *
72806422 AAGGGTGTTTTGGTAAATCTACAAACT
1 AAGGGTATTTTGGTAATTTTATAAACT
** *
72806449 AAGGGTATTTCAGTAATTTTGTAAACT
1 AAGGGTATTTTGGTAATTTTATAAACT
* * * *
72806476 AATGGTATTTCT-ATAATTTTTAGAAAGT
1 AAGGGTATTT-TGGTAA-TTTTATAAACT
* * *
72806504 CAAGGGTATTTTTGTAATTTTGTAAATT
1 -AAGGGTATTTTGGTAATTTTATAAACT
* *
72806532 AAGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTATAAACT
* * * *
72806559 GAGGGTATTTCGGTAATTTCACAAAC-
1 AAGGGTATTTTGGTAATTTTATAAACT
* * *
72806585 CAGTGGTATTTTGGTAACTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTATAAACT
* *
72806613 AGGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTATAAACT
* * * * *
72806640 AGGGGTATTTTAGCAATTTTACAGAC-
1 AAGGGTATTTTGGTAATTTTATAAACT
* *
72806666 CAGGGTATTTTGGTAATTTTACTAATC-
1 AAGGGTATTTTGGTAATTTTA-TAAACT
* * *
72806693 GAGGGTATTTTGGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTATAAACT
* *
72806720 AAGGGTATTTTAGTAATTTTGTAAA
1 AAGGGTATTTTGGTAATTTTATAAA
72806745 TCGAGGGTAA
Statistics
Matches: 241, Mismatches: 47, Indels: 16
0.79 0.15 0.05
Matches are distributed among these distances:
26 23 0.10
27 188 0.78
28 18 0.07
29 12 0.05
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTATAAACT
Found at i:72806760 original size:27 final size:27
Alignment explanation
Indices: 72806732--72806940 Score: 265
Period size: 27 Copynumber: 7.7 Consensus size: 27
72806722 GGGTATTTTA
* * *
72806732 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAATG
* **
72806759 GTAATTCTACAAATTAAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
72806786 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
72806813 GTAATTCTATAAATCGAGGGAAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* **
72806840 GTAATTCTATAAATTGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
72806867 GTAATTCTGTAAATCGAGGGTGAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
72806894 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
72806921 GTAATTCTACAAATTGAGGG
1 GTAATTCTATAAATCGAGGG
72806941 CATTTCAGTA
Statistics
Matches: 155, Mismatches: 27, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 155 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:72806763 original size:54 final size:54
Alignment explanation
Indices: 72806605--72806933 Score: 162
Period size: 54 Copynumber: 6.1 Consensus size: 54
72806595 TTGGTAACTT
* * ** * *** * *
72806605 TACAAACTAGGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTAGCAATTT
1 TACAAACCAAGGGTATTTTGGTAATTTTGTAAATCGA-GGGTAAAATAGTAATTC
* * *** * *
72806659 TACAGACC-AGGGTATTTTGGTAATTTTACT-AATCGAGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTTGGTAATTTT-GTAAATCGAGGGTAAAATAGTAATTC
** *
72806712 TGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTC
1 TACAAACCAAGGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTC
** *** * **
72806766 TACAAATTAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTC
1 TACAAACCAAGGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTC
* * * * *** * * * *
72806820 TATAAATCGAGGGAAAAATGGTAATTCTATAAATTGAGGGTAAAACAGTAATTC
1 TACAAACCAAGGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTC
** * * *** * * *
72806874 TGTAAATCGAGGGTGA-AACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTC
1 TACAAACCAAGGGT-ATTTTGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTC
72806928 TACAAA
1 TACAAA
72806934 TTGAGGGCAT
Statistics
Matches: 226, Mismatches: 44, Indels: 10
0.81 0.16 0.04
Matches are distributed among these distances:
53 41 0.18
54 184 0.81
55 1 0.00
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.33
Consensus pattern (54 bp):
TACAAACCAAGGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTC
Found at i:72806780 original size:134 final size:134
Alignment explanation
Indices: 72806533--72806780 Score: 302
Period size: 134 Copynumber: 1.9 Consensus size: 134
72806523 TTGTAAATTA
* *
72806533 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTG
1 AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTA
* *** * * *
72806598 GTAACTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGCAATTTTACA
66 GTAACTTTACAAACGAGGGGTAAAATAGTAATTCTACAAACTAAGGGTATTTTAGCAATTTTACA
72806663 GACC
131 GACC
* * ***
72806667 AGGGTATTTTGGTAATTTTACTAATCGAGGGTATTTTGGTAATTTTGTAAACCAAG-GGTATTTT
1 AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTTT
* ** *
72806731 AGTAATTTTGTAAATCGA-GGGTAAAATAGTAATTCTACAAATTAAGGGTA
65 AGTAACTTTACAAA-CGAGGGGTAAAATAGTAATTCTACAAACTAAGGGTA
72806781 AAATGGTAAT
Statistics
Matches: 94, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
134 90 0.96
135 4 0.04
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (134 bp):
AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTA
GTAACTTTACAAACGAGGGGTAAAATAGTAATTCTACAAACTAAGGGTATTTTAGCAATTTTACA
GACC
Found at i:72806797 original size:81 final size:80
Alignment explanation
Indices: 72806732--72806940 Score: 328
Period size: 81 Copynumber: 2.6 Consensus size: 80
72806722 GGGTATTTTA
* * * *
72806732 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTACAAATTAAGGGTAAAATGGTAATTCTGTA
1 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATTGAGGGTAAAATGGTAATTCTGTA
72806797 AATCGAGGGTAAAACG
66 AATCGAGGGT-AAACG
* * **
72806813 GTAATTCTATAAATCGAGGGAAAAATGGTAATTCTATAAATTGAGGGTAAAACAGTAATTCTGTA
1 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATTGAGGGTAAAATGGTAATTCTGTA
72806878 AATCGAGGGTGAAACG
66 AATCGAGGGT-AAACG
72806894 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATTGAGGG
1 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATTGAGGG
72806941 CATTTCAGTA
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 117 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (80 bp):
GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATTGAGGGTAAAATGGTAATTCTGTA
AATCGAGGGTAAACG
Found at i:72809335 original size:18 final size:20
Alignment explanation
Indices: 72809299--72809345 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
72809289 AGTTTTAAGT
72809299 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
72809319 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
72809338 ATGATATA
1 AT-ATATA
72809346 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:72809818 original size:50 final size:50
Alignment explanation
Indices: 72809743--72809931 Score: 218
Period size: 50 Copynumber: 3.8 Consensus size: 50
72809733 TAAGACAGTT
72809743 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG
* * * * * * *
72809793 TTAGGTCGCATGTGTAGTACGAAGTGCTGGCTACTATGCGTACC-CATTAAC
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATT--G
* * * * *
72809844 TTTGATCACGTGTGTGGTACTAAGTGCAGGCTACTATGTGTATCAGATGG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG
* * *
72809894 ATAAGTCACGTGTGTAGTACTAAGTGCAGACTACTATG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATG
72809932 CCTACTAGAG
Statistics
Matches: 111, Mismatches: 25, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
49 3 0.03
50 71 0.64
51 35 0.32
52 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG
Found at i:72809871 original size:101 final size:101
Alignment explanation
Indices: 72809748--72809932 Score: 280
Period size: 101 Copynumber: 1.8 Consensus size: 101
72809738 CAGTTTTAGG
* * * *
72809748 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGATAAGTCACATGTGTAGTAC
* *
72809813 GAAGTGCTGGCTACTATGCGTACCCATTAACTTTGA
66 GAAGTGCAGACTACTATGCGTACCCATTAACTTTGA
* * *
72809849 TCACGTGTGTGGTACTAAGTGCAGGCTACTATGTGTATCAGATGGATAAGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGATAAGTCACATGTGTAGTAC
*
72809914 TAAGTGCAGACTACTATGC
66 GAAGTGCAGACTACTATGC
72809933 CTACTAGAGA
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGATAAGTCACATGTGTAGTAC
GAAGTGCAGACTACTATGCGTACCCATTAACTTTGA
Found at i:72814698 original size:56 final size:56
Alignment explanation
Indices: 72814628--72814738 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 56
72814618 TCTTACATGT
* * *
72814628 AATCACATATCGATGCCACTATCCCTAACA-G-GGTCTTACTCACACACATATATTGG
1 AATCACATACCGATGCCAATAT-ACTAA-ATGTGGTCTTACTCACACACATATATTGG
* *
72814684 AATCACATACCGATGCCAATGTATTAAATGTGGTCTTACTCACACACATATATTG
1 AATCACATACCGATGCCAATATACTAAATGTGGTCTTACTCACACACATATATTG
72814739 ATGCCATGGT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
54 1 0.02
55 4 0.08
56 43 0.90
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (56 bp):
AATCACATACCGATGCCAATATACTAAATGTGGTCTTACTCACACACATATATTGG
Found at i:72815919 original size:14 final size:16
Alignment explanation
Indices: 72815896--72815928 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
72815886 TAAAGCACAA
72815896 AAATTCCACACAT-AT
1 AAATTCCACACATAAT
72815911 AAATT-CACACATAAT
1 AAATTCCACACATAAT
72815926 AAA
1 AAA
72815929 CACAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATTCCACACATAAT
Found at i:72817827 original size:46 final size:44
Alignment explanation
Indices: 72817777--72817891 Score: 142
Period size: 46 Copynumber: 2.6 Consensus size: 44
72817767 AGAGCTAGTG
*
72817777 TAAGACATGTTTGGGATATGCATCGACCT-CGAGATGTAAGCCAGTC
1 TAAGACATGTCTGGGATATGCATCG-CCTACGAGATGT--GCCAGTC
* * * * *
72817823 TAAGATATGTCTGGGACATGCATCGGCTACGAGATGTGCTAGTG
1 TAAGACATGTCTGGGATATGCATCGCCTACGAGATGTGCCAGTC
72817867 TAAGACATGTCTGGGATATGCATCG
1 TAAGACATGTCTGGGATATGCATCG
72817892 GCACGGATAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 28 0.47
45 2 0.03
46 30 0.50
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (44 bp):
TAAGACATGTCTGGGATATGCATCGCCTACGAGATGTGCCAGTC
Found at i:72817932 original size:139 final size:140
Alignment explanation
Indices: 72817671--72817940 Score: 305
Period size: 139 Copynumber: 1.9 Consensus size: 140
72817661 CACTGCTGTT
* * **
72817671 ATGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAAATGCTAGTGTAAGA
1 ATGTAAGCCAGTCTAAGACATGTCTGGGACATGCATCGGCCATACGATGAAATGCTAGTGTAAGA
* ** * * **
72817736 CATGTCTAGGACATGCATTGAAATTGAGACGAGAGCTAGTGTAAGACATGTTTGGGATAT-GCAT
66 CATGTCTAGGACATGCATCGAAACGGAGACGAGAGCCAGTGTAAGACATATCGGGGATATGGCAT
72817800 CGACCTCGAG
131 CGACCTCGAG
* **
72817810 ATGTAAGCCAGTCTAAGATATGTCTGGGACATGCATCGG-C-TACGA-GATGTGCTAGTGTAAGA
1 ATGTAAGCCAGTCTAAGACATGTCTGGGACATGCATCGGCCATACGATGAAATGCTAGTGTAAGA
* * ** * *
72817872 CATGTCTGGGATATGCATCGGCACGGATATATGAGAGCCAGTGTAAGACCATATCGGGGATATGG
66 CATGTCTAGGACATGCATCGAAACGG--AGACGAGAGCCAGTGTAAGA-CATATCGGGGATATGG
72817937 CATC
128 CATC
72817941 AGCATCGATA
Statistics
Matches: 107, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
136 34 0.32
137 3 0.03
138 18 0.17
139 47 0.44
140 5 0.05
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (140 bp):
ATGTAAGCCAGTCTAAGACATGTCTGGGACATGCATCGGCCATACGATGAAATGCTAGTGTAAGA
CATGTCTAGGACATGCATCGAAACGGAGACGAGAGCCAGTGTAAGACATATCGGGGATATGGCAT
CGACCTCGAG
Found at i:72828495 original size:18 final size:18
Alignment explanation
Indices: 72828474--72828510 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
72828464 ATATATACTC
72828474 ATGTTGAAATAACAAACT
1 ATGTTGAAATAACAAACT
72828492 ATGTTGAAATAACAAACT
1 ATGTTGAAATAACAAACT
72828510 A
1 A
72828511 GTAATCCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (18 bp):
ATGTTGAAATAACAAACT
Found at i:72831292 original size:48 final size:48
Alignment explanation
Indices: 72831240--72831467 Score: 269
Period size: 48 Copynumber: 4.8 Consensus size: 48
72831230 AAGTCTCATG
* * * *
72831240 TCAATGCCGATGCCATGTCCGAGAGATGGTCTTACATTCGCACACATA
1 TCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTCGCACACATA
* *
72831288 TCAATGCCGATGTCATGTCCCAGACATGGTCTTACACTCGCACACATA
1 TCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTCGCACACATA
* * * * * * *
72831336 TCAGTGCCGTTGCTATGTCCTAAACATGGTCTTACATTGGCTCACATA
1 TCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTCGCACACATA
* * * *
72831384 TCAACG-CGATGCCCTGTCCCAAACATGGTCTTACACTGGCTCACATA
1 TCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTCGCACACATA
** *
72831431 TCAACACCGATGCCATGTCCCAAACATGGTCGTACAC
1 TCAATGCCGATGCCATGTCCCAAACATGGTCTTACAC
72831468 AGGATCTCAT
Statistics
Matches: 156, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
47 41 0.26
48 115 0.74
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (48 bp):
TCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTCGCACACATA
Found at i:72831354 original size:96 final size:95
Alignment explanation
Indices: 72831244--72831466 Score: 275
Period size: 95 Copynumber: 2.3 Consensus size: 95
72831234 CTCATGTCAA
* * * *
72831244 TGCCGATGCCATGTCCGAGAGATGGTCTTACATTCGCACACATATCAATGCCGATGTCATGTCCC
1 TGCCGATGCCATGTCCGAAACATGGTCTTACATTCGCACACATATCAACG-CGATGCCATGTCCC
*
72831309 AGACATGGTCTTACACTCGCACACATATCAG
65 AAACATGGTCTTACACTCGCACACATATCAG
* * * * * *
72831340 TGCCGTTGCTATGTCCTAAACATGGTCTTACATTGGCTCACATATCAACGCGATGCCCTGTCCCA
1 TGCCGATGCCATGTCCGAAACATGGTCTTACATTCGCACACATATCAACGCGATGCCATGTCCCA
* * *
72831405 AACATGGTCTTACACTGGCTCACATATCAA
66 AACATGGTCTTACACTCGCACACATATCAG
** * *
72831435 CACCGATGCCATGTCCCAAACATGGTCGTACA
1 TGCCGATGCCATGTCCGAAACATGGTCTTACA
72831467 CAGGATCTCA
Statistics
Matches: 107, Mismatches: 20, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
95 65 0.61
96 42 0.39
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (95 bp):
TGCCGATGCCATGTCCGAAACATGGTCTTACATTCGCACACATATCAACGCGATGCCATGTCCCA
AACATGGTCTTACACTCGCACACATATCAG
Found at i:72833479 original size:17 final size:19
Alignment explanation
Indices: 72833459--72833493 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
72833449 TTACTACTCA
72833459 AAATC-TTT-CACTATCTC
1 AAATCATTTCCACTATCTC
72833476 AAATCATTTCCACTATCT
1 AAATCATTTCCACTATCT
72833494 GAAACTCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATCATTTCCACTATCTC
Found at i:72836486 original size:26 final size:26
Alignment explanation
Indices: 72836456--72836512 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
72836446 TATGATGAAC
* *
72836456 TGACTGTTATACCCCTATGAGGTAAA
1 TGACTGATATACCCCTATGAGATAAA
* *
72836482 TGACTGATATGCCCCTATGTGATAAA
1 TGACTGATATACCCCTATGAGATAAA
72836508 TGACT
1 TGACT
72836513 AGTTGAGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (26 bp):
TGACTGATATACCCCTATGAGATAAA
Found at i:72848250 original size:24 final size:24
Alignment explanation
Indices: 72848218--72848277 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
72848208 AAAATCCAAT
* * *
72848218 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAAT-TA
72848242 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
72848266 GCACTATGTGTG
1 GCACTATGTGTG
72848278 TAAATACAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 27 0.84
25 5 0.16
ACGTcount: A:0.20, C:0.15, G:0.30, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATTA
Found at i:72859202 original size:24 final size:24
Alignment explanation
Indices: 72859170--72859230 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
72859160 AAAATCCAAT
* * *
72859170 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAAT-TA
72859194 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
72859218 GCACTATGTGTGC
1 GCACTATGTGTGC
72859231 AAATACGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATTA
Found at i:72862805 original size:54 final size:54
Alignment explanation
Indices: 72862745--72862860 Score: 162
Period size: 54 Copynumber: 2.1 Consensus size: 54
72862735 TAATTTGATC
* *
72862745 AAATGACTATTTTGCACTTATGTA-GAAAAATGACTGTTTTGCCCCTATGTGGTA
1 AAATGACTATTTTGCACTTATG-AGGAAAAATAACTGTTTTGCCCCTATATGGTA
* * * *
72862799 AAATGACTATTTTGCCCTTTTGAGGAAAAATAATTGTTTTGCCCTTATATGGTA
1 AAATGACTATTTTGCACTTATGAGGAAAAATAACTGTTTTGCCCCTATATGGTA
72862853 AAATGACT
1 AAATGACT
72862861 TAAATGCCCC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.02
54 54 0.98
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (54 bp):
AAATGACTATTTTGCACTTATGAGGAAAAATAACTGTTTTGCCCCTATATGGTA
Found at i:72862814 original size:27 final size:27
Alignment explanation
Indices: 72862745--72862902 Score: 113
Period size: 27 Copynumber: 5.9 Consensus size: 27
72862735 TAATTTGATC
* * * *
72862745 AAATGACTATTTTGCACTTATGTAGAA
1 AAATGACTATTTTGCCCCTATGTGGTA
*
72862772 AAATGACTGTTTTGCCCCTATGTGGTA
1 AAATGACTATTTTGCCCCTATGTGGTA
* * * *
72862799 AAATGACTATTTTGCCCTTTTGAGGAA
1 AAATGACTATTTTGCCCCTATGTGGTA
* * * * *
72862826 AAATAATTGTTTTGCCCTTATATGGTA
1 AAATGACTATTTTGCCCCTATGTGGTA
** **
72862853 AAATGACT-TAAATGCCCCTACATGGTA
1 AAATGACTAT-TTTGCCCCTATGTGGTA
* *
72862880 AATTGACTATTTT-TCCCTATGTG
1 AAATGACTATTTTGCCCCTATGTG
72862903 AGGTATTTAT
Statistics
Matches: 100, Mismatches: 29, Indels: 5
0.75 0.22 0.04
Matches are distributed among these distances:
26 8 0.08
27 91 0.91
28 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (27 bp):
AAATGACTATTTTGCCCCTATGTGGTA
Found at i:72863285 original size:19 final size:18
Alignment explanation
Indices: 72863251--72863314 Score: 83
Period size: 18 Copynumber: 3.5 Consensus size: 18
72863241 TACTGTTTAA
*
72863251 ACTGTTACTACACTGATT
1 ACTGTTACTGCACTGATT
72863269 ACTGTTAACTGCACTGATT
1 ACTGTT-ACTGCACTGATT
* * *
72863288 ACTGTTACAGCTCTGTTT
1 ACTGTTACTGCACTGATT
72863306 ACTGTTACT
1 ACTGTTACT
72863315 ACAATGGGCC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
18 23 0.57
19 17 0.43
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (18 bp):
ACTGTTACTGCACTGATT
Found at i:72865292 original size:34 final size:34
Alignment explanation
Indices: 72865249--72865325 Score: 145
Period size: 34 Copynumber: 2.3 Consensus size: 34
72865239 CTTGATTATT
72865249 GGGGATTTGGGGAGTGTTTTGGGGAGAAAAATAA
1 GGGGATTTGGGGAGTGTTTTGGGGAGAAAAATAA
72865283 GGGGATTTGGGGAGTGTTTTGGGGAGAAAAATAA
1 GGGGATTTGGGGAGTGTTTTGGGGAGAAAAATAA
*
72865317 GGGAATTTG
1 GGGGATTTG
72865326 AGGATATGGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.29, C:0.00, G:0.44, T:0.27
Consensus pattern (34 bp):
GGGGATTTGGGGAGTGTTTTGGGGAGAAAAATAA
Found at i:72867472 original size:27 final size:26
Alignment explanation
Indices: 72867429--72867516 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 26
72867419 TGGAGGAAGC
*
72867429 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
*
72867456 GTTATGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
72867482 GTATCTGGTGACTCTGTCACAATATTT
1 GT-TCTGGTGGCTCTGCCACAATATCT
72867509 GTTCTGGT
1 GTTCTGGT
72867517 AGCCATGCTG
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
26 15 0.28
27 39 0.72
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:72871517 original size:40 final size:40
Alignment explanation
Indices: 72871462--72871541 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
72871452 TGGTTGCTTA
72871462 TGCATCGCGATAGCTTAAGCCTTACGAAGTAAACTATCTT
1 TGCATCGCGATAGCTTAAGCCTTACGAAGTAAACTATCTT
72871502 TGCATCGCGATAGCTTAAGCCTTACGAAGTAAACTATCTT
1 TGCATCGCGATAGCTTAAGCCTTACGAAGTAAACTATCTT
72871542 ACTCACGATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (40 bp):
TGCATCGCGATAGCTTAAGCCTTACGAAGTAAACTATCTT
Found at i:72878376 original size:40 final size:40
Alignment explanation
Indices: 72878290--72878489 Score: 303
Period size: 40 Copynumber: 5.0 Consensus size: 40
72878280 AGAATTGAGA
*
72878290 GTTATATCTGGGCTAAGTCCCGAAGAGCATT-GTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
72878329 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
72878369 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* ** *
72878409 GTTATATCCAGGCTAAGTCCTAAAGAGCATTTGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* ** * *
72878449 GTTACATCCGGGCTAAGTCTTGAAGGGCATTCGTGCCGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
72878489 G
1 G
72878490 ATGTGTAATC
Statistics
Matches: 148, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 30 0.20
40 118 0.80
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (40 bp):
GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
Found at i:72878548 original size:43 final size:43
Alignment explanation
Indices: 72878478--72878608 Score: 154
Period size: 43 Copynumber: 3.0 Consensus size: 43
72878468 TTGAAGGGCA
* * *
72878478 TTCGTGCCGGTGATGTGTAATCAGGCCTTCATGCCTAGCAGGC
1 TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
* * * *
72878521 TTTGTGCTGGTGATGTGTATTCGGGCCTTTGTTCCTAGCAGGC
1 TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
* * * * *
72878564 TTCATGCCGGTAATGTGTATTTGGGTCTTCGTGCCTAGTAGGC
1 TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
72878607 TT
1 TT
72878609 AATGCCAGTG
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 72 1.00
ACGTcount: A:0.13, C:0.21, G:0.31, T:0.36
Consensus pattern (43 bp):
TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
Found at i:72878778 original size:25 final size:25
Alignment explanation
Indices: 72878739--72878793 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
72878729 TGTGTAATAA
72878739 CGAATGAATATAGGCACTATGGGTG
1 CGAATGAATATAGGCACTATGGGTG
* *
72878764 CGAATGAAT-TGAGGCACTGTGTGTG
1 CGAATGAATAT-AGGCACTATGGGTG
72878789 CGAAT
1 CGAAT
72878794 TCTTTAACCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (25 bp):
CGAATGAATATAGGCACTATGGGTG
Found at i:72878848 original size:45 final size:45
Alignment explanation
Indices: 72878784--72878876 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
72878774 GAGGCACTGT
*
72878784 GTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCA
1 GTGTGCGAATTCTTTAACCGAGCAATATGTGTGCGAGATCGGTCA
72878829 GTGTGCGAATTCTTTAACCGAGCAATATGTGTGCGAGATCGGTCA
1 GTGTGCGAATTCTTTAACCGAGCAATATGTGTGCGAGATCGGTCA
72878874 GTG
1 GTG
72878877 GGCATTGTGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (45 bp):
GTGTGCGAATTCTTTAACCGAGCAATATGTGTGCGAGATCGGTCA
Found at i:72886093 original size:27 final size:26
Alignment explanation
Indices: 72886055--72886141 Score: 102
Period size: 27 Copynumber: 3.3 Consensus size: 26
72886045 TGGAGGAAGC
* *
72886055 GTTCTGATGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
72886082 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * **
72886108 ATATCTGGTGACTCTATCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
72886135 GTTCTGG
1 GTTCTGG
72886142 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 13 0.25
27 39 0.75
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:72887738 original size:27 final size:27
Alignment explanation
Indices: 72887708--72887797 Score: 137
Period size: 27 Copynumber: 3.3 Consensus size: 27
72887698 TAATTTGATC
72887708 AAATGACTATTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
* *
72887735 AAATGACTATATTGCCCTTATGAGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
*
72887762 AAATGACTATTTTGCCCTT-TCATGGTA
1 AAATGACTATTTTGCCCTTAT-GTGGTA
72887789 AAATGACTA
1 AAATGACTA
72887798 AAATGCCCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 1 0.02
27 56 0.98
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.37
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTTATGTGGTA
Found at i:72887804 original size:27 final size:27
Alignment explanation
Indices: 72887708--72887823 Score: 119
Period size: 27 Copynumber: 4.3 Consensus size: 27
72887698 TAATTTGATC
* *
72887708 AAATGACTATTTTGCCCTTAT-GTGGTA
1 AAATGACTATATTGCCCTT-TCATGGTA
*
72887735 AAATGACTATATTGCCCTTATGA-GGTA
1 AAATGACTATATTGCCCTT-TCATGGTA
*
72887762 AAATGACTATTTTGCCCTTTCATGGTA
1 AAATGACTATATTGCCCTTTCATGGTA
* * * *
72887789 AAATGACTAAAATGCCCCTACATGGTA
1 AAATGACTATATTGCCCTTTCATGGTA
*
72887816 AATTGACT
1 AAATGACT
72887824 GTTTTGCCTC
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 2 0.03
27 75 0.97
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Consensus pattern (27 bp):
AAATGACTATATTGCCCTTTCATGGTA
Found at i:72887805 original size:54 final size:54
Alignment explanation
Indices: 72887708--72887831 Score: 153
Period size: 54 Copynumber: 2.3 Consensus size: 54
72887698 TAATTTGATC
* * * * *
72887708 AAATGACTATTTTGCCCTTATGTGGTAAAATGACTATATTGCCCTTATGA-GGTA
1 AAATGACTATTTTGCCCTTATATGGTAAAATGACTAAAATGCCCCTA-CATGGTA
72887762 AAATGACTATTTTGCCCTT-TCATGGTAAAATGACTAAAATGCCCCTACATGGTA
1 AAATGACTATTTTGCCCTTAT-ATGGTAAAATGACTAAAATGCCCCTACATGGTA
* *
72887816 AATTGACTGTTTTGCC
1 AAATGACTATTTTGCC
72887832 TCTATGTGAG
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
53 2 0.03
54 59 0.97
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (54 bp):
AAATGACTATTTTGCCCTTATATGGTAAAATGACTAAAATGCCCCTACATGGTA
Found at i:72888206 original size:18 final size:18
Alignment explanation
Indices: 72888183--72888223 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
72888173 ATTTAAATTG
72888183 TTACTGCACTGATTACTA
1 TTACTGCACTGATTACTA
* * *
72888201 TTACTGCTCTGTTTACTG
1 TTACTGCACTGATTACTA
72888219 TTACT
1 TTACT
72888224 TCAATGGGCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.46
Consensus pattern (18 bp):
TTACTGCACTGATTACTA
Found at i:72890825 original size:42 final size:43
Alignment explanation
Indices: 72890721--72890826 Score: 119
Period size: 44 Copynumber: 2.5 Consensus size: 43
72890711 ATATGTGTTA
* * *
72890721 TCGTGTAAGACCATGTCTGGGATGTTGGCATCAACTTATGATT
1 TCGTGTAAGACCCTGTATGGAATGTTGGCATCAACTTATGATT
**
72890764 TACGTGTAAGACCAC-GTATGGAATGTTGGCATTGTAC-T-TGATT
1 T-CGTGTAAGACC-CTGTATGGAATGTTGGCA-TCAACTTATGATT
72890807 TCGTGTAAGACCCTGTATGG
1 TCGTGTAAGACCCTGTATGG
72890827 GACAATGGCA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
41 1 0.02
42 17 0.31
43 7 0.13
44 26 0.48
45 3 0.06
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
TCGTGTAAGACCCTGTATGGAATGTTGGCATCAACTTATGATT
Found at i:72890879 original size:43 final size:43
Alignment explanation
Indices: 72890708--72890880 Score: 140
Period size: 43 Copynumber: 4.0 Consensus size: 43
72890698 GACATAGGAT
* * * *
72890708 TCGATATGTG-TTATCGTGTAAGACCATGTCTGGGATGTTGGCA
1 TCGATATTTGATTA-CGTGTAAGACCACGTATGGGACGTTGGCA
* *
72890751 TC-A-ACTTATGATTTACGTGTAAGACCACGTATGGAATGTTGGCA
1 TCGATA-TT-TGA-TTACGTGTAAGACCACGTATGGGACGTTGGCA
* * * **
72890795 TTG-TACTTGATTTCGTGTAAGACC-CTGTATGGGACAATGGCA
1 TCGATATTTGATTACGTGTAAGACCAC-GTATGGGACGTTGGCA
* * *
72890837 TCGATATTTGATTACATGTAAGACCACGTCTAGGACGTTGGCA
1 TCGATATTTGATTACGTGTAAGACCACGTATGGGACGTTGGCA
72890880 T
1 T
72890881 TGTATGAGCT
Statistics
Matches: 102, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
41 2 0.02
42 29 0.28
43 38 0.37
44 29 0.28
45 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
TCGATATTTGATTACGTGTAAGACCACGTATGGGACGTTGGCA
Found at i:72891724 original size:22 final size:21
Alignment explanation
Indices: 72891698--72891739 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
72891688 GATTTGGTTG
72891698 TAAAATGGCTGAGAATTTGATA
1 TAAAAT-GCTGAGAATTTGATA
* *
72891720 TAAAATGTTGTGAATTTGAT
1 TAAAATGCTGAGAATTTGAT
72891740 GCTTGTAGCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.38
Consensus pattern (21 bp):
TAAAATGCTGAGAATTTGATA
Found at i:72898384 original size:42 final size:43
Alignment explanation
Indices: 72898270--72898397 Score: 129
Period size: 44 Copynumber: 3.0 Consensus size: 43
72898260 TATGTGTTAT
*
72898270 CGTGTAAGACCATGTCTGGGATGTTGGCATCG-ACTTATGATTTA
1 CGTGTAAGACCCTGTCTGGGATGTTGGCATCGAAC-T-TGATTTA
* * *
72898314 CGTGTAAAACCAC-GTTTGGGACGTTGGCATCGAACTTGATTT-
1 CGTGTAAGACC-CTGTCTGGGATGTTGGCATCGAACTTGATTTA
* *
72898356 TGTGTAAGACCCTGTCTGGGATAG-TGGCATCGATATTTGATT
1 CGTGTAAGACCCTGTCTGGGAT-GTTGGCATCGA-ACTTGATT
72898398 ACATGCAAGA
Statistics
Matches: 70, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
41 1 0.01
42 25 0.36
43 14 0.20
44 28 0.40
45 2 0.03
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (43 bp):
CGTGTAAGACCCTGTCTGGGATGTTGGCATCGAACTTGATTTA
Found at i:72901466 original size:31 final size:31
Alignment explanation
Indices: 72901430--72901491 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
72901420 AATGTAAATG
*
72901430 TTCTTACAATGCCACTTATCATCAGTTTGAA
1 TTCTTACAATGCCACTTATCATCAATTTGAA
72901461 TTCTTACAATGCCACTTATCATCAATTTGAA
1 TTCTTACAATGCCACTTATCATCAATTTGAA
72901492 CTTAGATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (31 bp):
TTCTTACAATGCCACTTATCATCAATTTGAA
Found at i:72910480 original size:22 final size:22
Alignment explanation
Indices: 72910435--72910481 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
72910425 ATAATTCATA
**
72910435 ATTATAATAAAGCATTTATCAC
1 ATTATAATAAAGCATTTAAAAC
*
72910457 ATTATATTAAAGCATTTAAAAC
1 ATTATAATAAAGCATTTAAAAC
72910479 ATT
1 ATT
72910482 CTACCATACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (22 bp):
ATTATAATAAAGCATTTAAAAC
Found at i:72912541 original size:43 final size:45
Alignment explanation
Indices: 72912475--72912561 Score: 124
Period size: 43 Copynumber: 2.0 Consensus size: 45
72912465 TATGTCATTG
* *
72912475 ATATTGAAATGGAAAAGATGAGAAACGA-ATATGAGATG-TGAAA
1 ATATAGAAATGGAAAAGATGAGAAACGAGATATGAAATGATGAAA
* *
72912518 ATATAGAAATGGAAAATATGAGAAATGAGATATGAAATGATGAA
1 ATATAGAAATGGAAAAGATGAGAAACGAGATATGAAATGATGAA
72912562 TTGAAATGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 25 0.66
44 9 0.24
45 4 0.11
ACGTcount: A:0.53, C:0.01, G:0.24, T:0.22
Consensus pattern (45 bp):
ATATAGAAATGGAAAAGATGAGAAACGAGATATGAAATGATGAAA
Found at i:72912543 original size:16 final size:16
Alignment explanation
Indices: 72912480--72912544 Score: 61
Period size: 15 Copynumber: 4.4 Consensus size: 16
72912470 CATTGATATT
*
72912480 GAAATGGAAAAGATGA
1 GAAATGGAAAATATGA
*
72912496 GAAA-CG--AATATGA
1 GAAATGGAAAATATGA
72912509 G--ATGTGAAAATAT-A
1 GAAATG-GAAAATATGA
72912523 GAAATGGAAAATATGA
1 GAAATGGAAAATATGA
72912539 GAAATG
1 GAAATG
72912545 AGATATGAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
11 1 0.03
13 8 0.21
14 2 0.05
15 14 0.36
16 14 0.36
ACGTcount: A:0.54, C:0.02, G:0.26, T:0.18
Consensus pattern (16 bp):
GAAATGGAAAATATGA
Found at i:72920760 original size:23 final size:24
Alignment explanation
Indices: 72920718--72920762 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
72920708 TTTGCTCTTC
*
72920718 TAGCATGAACTTGTCCTACCTTTT
1 TAGCATGAACTCGTCCTACCTTTT
*
72920742 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCCTACCTT
72920763 ACCTTACCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.40
Consensus pattern (24 bp):
TAGCATGAACTCGTCCTACCTTTT
Found at i:72921018 original size:55 final size:55
Alignment explanation
Indices: 72920873--72921082 Score: 227
Period size: 55 Copynumber: 3.9 Consensus size: 55
72920863 GTATCCTTTT
* *
72920873 GTAACTTACC-ATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAT-
1 GTAACTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATA
* * *
72920927 G-AACTCACCAATT-CCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
1 GTAACTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATA
* * * *
72920981 GTAACTTATCAATT-CCATGTCTTGACATGGTCTTACATGATTTCCTTGCC-T-TA
1 GTAACTTACCAATTGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATA
* *
72921034 GAAACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 GTAA-CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
72921083 AAACCCTAAT
Statistics
Matches: 130, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
52 2 0.02
53 45 0.35
54 16 0.12
55 65 0.50
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.36
Consensus pattern (55 bp):
GTAACTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATA
Found at i:72930158 original size:15 final size:15
Alignment explanation
Indices: 72930138--72930180 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
72930128 CTATACAAAT
72930138 TTCAAATTAATCTCA
1 TTCAAATTAATCTCA
* *
72930153 TTCAAATACAATTTCA
1 TTCAAAT-TAATCTCA
*
72930169 TTCAATTTAATC
1 TTCAAATTAATC
72930181 CAATAACACA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (15 bp):
TTCAAATTAATCTCA
Found at i:72936347 original size:3 final size:3
Alignment explanation
Indices: 72936332--72936383 Score: 50
Period size: 3 Copynumber: 16.3 Consensus size: 3
72936322 CATGTTTTAC
* * *
72936332 TAT TAT TAA TAT TAT TAT TGT TAT TAT TAT TGTT TATT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TA-T TAT TA-T TAT
72936380 TAT T
1 TAT T
72936384 GTCATTTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
3 32 0.80
4 8 0.20
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:72936363 original size:12 final size:13
Alignment explanation
Indices: 72936341--72936376 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
72936331 CTATTATTAA
72936341 TATTATTATTG-T
1 TATTATTATTGTT
72936353 TATTATTATTGTT
1 TATTATTATTGTT
72936366 TATTTATTATT
1 TA-TTATTATT
72936377 TATTATTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.50
13 3 0.14
14 8 0.36
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (13 bp):
TATTATTATTGTT
Found at i:72936379 original size:21 final size:21
Alignment explanation
Indices: 72936355--72936405 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
72936345 ATTATTGTTA
*
72936355 TTATTATTGTTTATTTATT-AT
1 TTATTATTG-TCATTTATTCAT
72936376 TTATTATTGTCATTTATTCAT
1 TTATTATTGTCATTTATTCAT
72936397 TTATTATTG
1 TTATTATTG
72936406 CCGTTGTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.67
Consensus pattern (21 bp):
TTATTATTGTCATTTATTCAT
Done.