Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 228 of 311
Found at i:77448473 original size:3 final size:3
Alignment explanation
Indices: 77448456--77448577 Score: 67
Period size: 3 Copynumber: 38.7 Consensus size: 3
77448446 ACTAAATATA
77448456 AAT AAT AACT AAAT AAT AACT AAAT AGA- AAT AAT AAT -AT ATAT AAT
1 AAT AAT AA-T -AAT AAT AA-T -AAT A-AT AAT AAT AAT AAT A-AT AAT
* *
77448502 ACT AAT ATAT AAA AAT AAT ATAT AAAT AGAT AAT -AT AAT AAT AGAT
1 AAT AAT A-AT AAT AAT AAT A-AT -AAT A-AT AAT AAT AAT AAT A-AT
*
77448548 AAT -AT AAT AAT AGAT -AG AAT AAT AA- AAT AA
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AA
77448578 ATGATATAGA
Statistics
Matches: 95, Mismatches: 6, Indels: 36
0.69 0.04 0.26
Matches are distributed among these distances:
2 10 0.11
3 57 0.60
4 23 0.24
5 5 0.05
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:77448487 original size:43 final size:39
Alignment explanation
Indices: 77448422--77448579 Score: 101
Period size: 43 Copynumber: 3.9 Consensus size: 39
77448412 TAACTTAAAT
**
77448422 TAAATAATAATAAATTCTAAATATACTAAATATAAATAATAAC
1 TAAATAATAATAAATTAGAAATA-A-T-AATATAAATAAT-AC
*
77448465 TAAATAATAACTAAA-TAGAAATAATAATATATATAATAC
1 TAAATAATAA-TAAATTAGAAATAATAATATAAATAATAC
* * *
77448504 T-AATATATAAAAATAATATATAAATAGATAATAT-AATAATAGA
1 TAAATA-AT-AATA-AAT-TAGAAATA-ATAATATAAATAATA-C
* *
77448547 TAATATAATAATAGA-TAG-AATAATAAAATAAAT
1 TAA-ATAATAATAAATTAGAAATAATAATATAAAT
77448580 GATATAGAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
38 10 0.11
39 13 0.14
40 17 0.18
41 1 0.01
42 15 0.16
43 27 0.29
44 7 0.08
45 3 0.03
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (39 bp):
TAAATAATAATAAATTAGAAATAATAATATAAATAATAC
Found at i:77448491 original size:63 final size:63
Alignment explanation
Indices: 77448424--77448559 Score: 147
Period size: 63 Copynumber: 2.2 Consensus size: 63
77448414 ACTTAAATTA
* * * *
77448424 AATAATAATA-AATTCTAAATATACTAAATATAA-ATAATAACTAAATAATA-ACTAAATAGA-A
1 AATAATAATATAATACT-AATATA-TAAAAATAATAT-ATAAATAAATAATATAAT-AATAGATA
77448485 AT
62 AT
*
77448487 AATAATATATATAATACTAATATATAAAAATAATATATAAATAGATAATATAATAATAGATAAT
1 AATAATA-ATATAATACTAATATATAAAAATAATATATAAATAAATAATATAATAATAGATAAT
77448551 -ATAATAATA
1 AATAATAATA
77448560 GATAGAATAA
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
62 3 0.05
63 39 0.62
64 16 0.25
65 5 0.08
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (63 bp):
AATAATAATATAATACTAATATATAAAAATAATATATAAATAAATAATATAATAATAGATAAT
Found at i:77448520 original size:28 final size:27
Alignment explanation
Indices: 77448444--77448559 Score: 105
Period size: 28 Copynumber: 4.1 Consensus size: 27
77448434 AATTCTAAAT
77448444 ATACTAAATATAAATAATAACTA-AATA
1 ATACTAAATATAAATAATAA-TATAATA
*
77448471 ATAACTAAATAGAAATAATAATATATATA
1 AT-ACTAAATATAAATAATAATATA-ATA
77448500 ATACTAATATATAAA-AATAATAT-ATAA
1 ATACTAA-ATATAAATAATAATATAAT-A
*
77448527 ATA-GATAATATAATAATAGATAATATAATA
1 ATACTA-AATAT-A-AATA-ATAATATAATA
77448557 ATA
1 ATA
77448560 GATAGAATAA
Statistics
Matches: 75, Mismatches: 3, Indels: 19
0.77 0.03 0.20
Matches are distributed among these distances:
26 7 0.09
27 10 0.13
28 33 0.44
29 12 0.16
30 11 0.15
31 2 0.03
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (27 bp):
ATACTAAATATAAATAATAATATAATA
Found at i:77448541 original size:20 final size:20
Alignment explanation
Indices: 77448516--77448636 Score: 62
Period size: 20 Copynumber: 6.2 Consensus size: 20
77448506 ATATATAAAA
77448516 ATAATATATAAATAGAT-A-
1 ATAATATATAAATAGATAAT
77448534 AT-ATA-AT-AATAGATAAT
1 ATAATATATAAATAGATAAT
*
77448551 ATAATA-ATAGATAGAATAAT
1 ATAATATATAAATAG-ATAAT
* * *
77448571 AAAATAAATGATATAGA-AAT
1 ATAATATAT-AAATAGATAAT
*
77448591 ATAGATTTATAAATCA-A-AAT
1 ATA-ATATATAAAT-AGATAAT
* *
77448611 ATATTAATATAAATATAATAAT
1 ATAAT-ATATAAATA-GATAAT
77448633 ATAA
1 ATAA
77448637 ATCTTATTAA
Statistics
Matches: 80, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
15 7 0.09
16 3 0.04
17 5 0.06
18 7 0.09
19 6 0.08
20 32 0.40
21 9 0.11
22 11 0.14
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (20 bp):
ATAATATATAAATAGATAAT
Found at i:77448550 original size:30 final size:30
Alignment explanation
Indices: 77448484--77448585 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 30
77448474 ACTAAATAGA
*
77448484 AATAATAATATATATAATA-CTAATAT-AT
1 AATAATAATATATATAATAGATAATATAAT
*
77448512 AAAAATAATATATA-AATAGATAATATAAT
1 AATAATAATATATATAATAGATAATATAAT
77448541 AATAGATAATATA-ATAATAGATAGA-ATAAT
1 AATA-ATAATATATATAATAGATA-ATATAAT
77448571 AA-AATAA-ATGATATA
1 AATAATAATAT-ATATA
77448586 GAAATATAGA
Statistics
Matches: 64, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
27 6 0.09
28 24 0.38
29 10 0.16
30 23 0.36
31 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (30 bp):
AATAATAATATATATAATAGATAATATAAT
Found at i:77448558 original size:15 final size:15
Alignment explanation
Indices: 77448484--77448572 Score: 91
Period size: 15 Copynumber: 6.1 Consensus size: 15
77448474 ACTAAATAGA
77448484 AATA-ATAATATATAT
1 AATAGATAATATA-AT
*
77448499 AATA-CTAATAT-AT
1 AATAGATAATATAAT
*
77448512 AA-AAATAATAT-AT
1 AATAGATAATATAAT
77448525 AAATAGATAATATAAT
1 -AATAGATAATATAAT
77448541 AATAGATAATATAAT
1 AATAGATAATATAAT
77448556 AATAGATAGA-ATAAT
1 AATAGATA-ATATAAT
77448571 AA
1 AA
77448573 AATAAATGAT
Statistics
Matches: 66, Mismatches: 3, Indels: 10
0.84 0.04 0.13
Matches are distributed among these distances:
12 1 0.02
13 12 0.18
14 2 0.03
15 48 0.73
16 3 0.05
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (15 bp):
AATAGATAATATAAT
Found at i:77448577 original size:28 final size:27
Alignment explanation
Indices: 77448453--77448577 Score: 84
Period size: 30 Copynumber: 4.6 Consensus size: 27
77448443 TATACTAAAT
* *
77448453 ATAAATAAT-AACTAA-ATAATAACTAA
1 ATAAATAATAAAATAATATAATAA-TAG
* *
77448479 ATAGA-AATAATAATATATATAATACTA-
1 ATAAATAATAA-AATA-ATATAATAATAG
*
77448506 ATATAT-A-AAAATAATAT-ATAAATAG
1 ATAAATAATAAAATAATATAAT-AATAG
77448531 ATAATATAATAATAGATAATATAATAATAG
1 ATAA-ATAATAA-A-ATAATATAATAATAG
77448561 ATAGAATAATAAAATAA
1 ATA-AATAATAAAATAA
77448578 ATGATATAGA
Statistics
Matches: 79, Mismatches: 6, Indels: 26
0.71 0.05 0.23
Matches are distributed among these distances:
23 2 0.03
24 7 0.09
25 10 0.13
26 9 0.11
27 9 0.11
28 9 0.11
29 8 0.10
30 22 0.28
31 3 0.04
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (27 bp):
ATAAATAATAAAATAATATAATAATAG
Found at i:77448626 original size:14 final size:14
Alignment explanation
Indices: 77448607--77448638 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
77448597 TTATAAATCA
*
77448607 AAATATATTAATAT
1 AAATATAATAATAT
77448621 AAATATAATAATAT
1 AAATATAATAATAT
77448635 AAAT
1 AAAT
77448639 CTTATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATATAATAATAT
Found at i:77455692 original size:15 final size:13
Alignment explanation
Indices: 77455659--77455694 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
77455649 CCAACCAATC
77455659 TTTCTCTCTTAGT
1 TTTCTCTCTTAGT
77455672 TTTCTCTCTTAGT
1 TTTCTCTCTTAGT
77455685 TTTCTCTCTT
1 TTTCTCTCTT
77455695 CTCCCATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.06, C:0.25, G:0.06, T:0.64
Consensus pattern (13 bp):
TTTCTCTCTTAGT
Found at i:77456436 original size:39 final size:39
Alignment explanation
Indices: 77456382--77456599 Score: 339
Period size: 39 Copynumber: 5.5 Consensus size: 39
77456372 TAATGGAGAA
*
77456382 TTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
77456421 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
77456460 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
77456499 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGTTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * * * *
77456538 TTATGTCCGGGCTAAAATCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
77456577 TTATATCCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
77456600 CATGCTTTGT
Statistics
Matches: 167, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
39 147 0.88
40 20 0.12
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:77460935 original size:20 final size:20
Alignment explanation
Indices: 77460910--77460950 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
77460900 ATATGAGAAA
77460910 ACCATAAGGCTCATAGCTTT
1 ACCATAAGGCTCATAGCTTT
77460930 ACCATAAGGCTCATAGCTTT
1 ACCATAAGGCTCATAGCTTT
77460950 A
1 A
77460951 TTTTTTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (20 bp):
ACCATAAGGCTCATAGCTTT
Found at i:77461218 original size:45 final size:46
Alignment explanation
Indices: 77461130--77461222 Score: 161
Period size: 45 Copynumber: 2.0 Consensus size: 46
77461120 GAAATCTTTG
77461130 ATCTTCCCAATTTAAAAGATGGGAAATAGAGCTTAGAGAAGTCTCA
1 ATCTTCCCAATTTAAAAGATGGGAAATAGAGCTTAGAGAAGTCTCA
* *
77461176 ATCTTCCCAATTTAAAAGAT-GGAAATAGAGCTTGGAGGAGTCTCA
1 ATCTTCCCAATTTAAAAGATGGGAAATAGAGCTTAGAGAAGTCTCA
77461221 AT
1 AT
77461223 GCTTGCCTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 25 0.56
46 20 0.44
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (46 bp):
ATCTTCCCAATTTAAAAGATGGGAAATAGAGCTTAGAGAAGTCTCA
Found at i:77468722 original size:18 final size:18
Alignment explanation
Indices: 77468689--77468724 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
77468679 TATTTGATTT
* *
77468689 TTTTAAAATTAGTTTTTA
1 TTTTAAAATAAATTTTTA
77468707 TTTTAAAATAAATTTTTA
1 TTTTAAAATAAATTTTTA
77468725 GAAAAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TTTTAAAATAAATTTTTA
Found at i:77473165 original size:47 final size:48
Alignment explanation
Indices: 77473106--77473199 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 48
77473096 GATAATTTTA
* *
77473106 AATTTTTAATACTATTCGAT-TTTTTTTAATTTATGCAAATT-TAATTG
1 AATTTATAATACTATTCGATATTTTATTAATTTATGC-AATTATAATTG
* *
77473153 AATTTATAATACTATTTGATATTTTATTCATTTATGCAATTATAATT
1 AATTTATAATACTATTCGATATTTTATTAATTTATGCAATTATAATT
77473200 ACAATGTCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
47 22 0.54
48 19 0.46
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.54
Consensus pattern (48 bp):
AATTTATAATACTATTCGATATTTTATTAATTTATGCAATTATAATTG
Found at i:77473199 original size:48 final size:47
Alignment explanation
Indices: 77473109--77473236 Score: 143
Period size: 48 Copynumber: 2.7 Consensus size: 47
77473099 AATTTTAAAT
* * *
77473109 TTTTAATACTATTCGATTTTTTTTAATTTATGCAAATTTAATT-GAA
1 TTTTAATACTATTTGATTTTTTTTCATTTATGCAAATTTAATTACAA
*
77473155 TTTATAATACTATTTGATATTTTATTCATTTATGC-AATTATAATTACAA
1 TTT-TAATACTATTTGAT-TTTTTTTCATTTATGCAAATT-TAATTACAA
* * *
77473204 TGTCAATACTACTTGATTTTTTTTTCATTTATG
1 TTTTAATACTATTTGA-TTTTTTTTCATTTATG
77473237 ATGTTTGCAT
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
46 3 0.04
47 17 0.25
48 44 0.64
49 5 0.07
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (47 bp):
TTTTAATACTATTTGATTTTTTTTCATTTATGCAAATTTAATTACAA
Found at i:77474244 original size:7 final size:7
Alignment explanation
Indices: 77474232--77474264 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
77474222 TAGCCGTTTC
77474232 GTATTTA
1 GTATTTA
77474239 GTATTTA
1 GTATTTA
77474246 GTATTTA
1 GTATTTA
77474253 GTATTTA
1 GTATTTA
77474260 GTATT
1 GTATT
77474265 ATGTATTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:77474683 original size:24 final size:24
Alignment explanation
Indices: 77474651--77474697 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
77474641 GAATACATGC
77474651 CATGGTTTA-AGATCCATGACAAGT
1 CATGGTTTATA-ATCCATGACAAGT
*
77474675 CATGGTTTATAATCCATGGCAAG
1 CATGGTTTATAATCCATGACAAG
77474698 CCATATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (24 bp):
CATGGTTTATAATCCATGACAAGT
Found at i:77474906 original size:18 final size:18
Alignment explanation
Indices: 77474883--77474925 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
77474873 TGCCAAGTGC
*
77474883 GTATCCTAGCCCTTAGAT
1 GTATCCTAACCCTTAGAT
*
77474901 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTAGAT
*
77474919 GTTTCCT
1 GTATCCT
77474926 TTTCCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.28, G:0.12, T:0.40
Consensus pattern (18 bp):
GTATCCTAACCCTTAGAT
Found at i:77478567 original size:126 final size:126
Alignment explanation
Indices: 77478342--77478723 Score: 595
Period size: 126 Copynumber: 3.0 Consensus size: 126
77478332 TTATAGCCTC
*
77478342 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* *
77478407 ACACTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* *
77478468 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCTACGTGGGAGCTTTTTTCAGAAATTTTACTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* * *
77478533 ACAGTGCATCCTGCTTGAAGCGTTTTTAACACTATTTGTTCTGAAACGTCTACTCATAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* *
77478594 GTTTTTCTATGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGC-TTTTTCTAGAAATTTTGCT
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTC-AGAAATTTTGCT
* * * * * *
77478658 AACAGTGCATCCTGCTTGAAGCTTTTTTCGACACTATTTGTCCAAAAACGTTTGCTCAGAATT
65 GACAGTGCATCCTGCTTGAAGCGTTTTT-GACACTATTTGTTCAGAAACGTCTACTCAGAATT
77478721 ATT
1 ATT
77478724 CTTGCAGAAA
Statistics
Matches: 232, Mismatches: 22, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
125 6 0.03
126 197 0.85
127 29 0.12
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:77479413 original size:38 final size:38
Alignment explanation
Indices: 77479351--77479467 Score: 139
Period size: 38 Copynumber: 3.0 Consensus size: 38
77479341 TTTTTTTCCT
* *
77479351 AAAACCCTTAAACCATAAAACCTAAAAACCCTTTAACTT-A
1 AAAACCC-T-AACCCTAAACCCTAAAAACCC-TTAACTTAA
*
77479391 AAGACCCTAACCCTAAACCCTAAAAACCCTTAACTTAA
1 AAAACCCTAACCCTAAACCCTAAAAACCCTTAACTTAA
* *
77479429 AAAACTCTAACCCCAAACCCTAAAAA-CCTTAACTCTAA
1 AAAACCCTAACCCTAAACCCTAAAAACCCTTAACT-TAA
77479467 A
1 A
77479468 TAATTTAAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
37 15 0.22
38 47 0.68
39 1 0.01
40 6 0.09
ACGTcount: A:0.48, C:0.32, G:0.01, T:0.20
Consensus pattern (38 bp):
AAAACCCTAACCCTAAACCCTAAAAACCCTTAACTTAA
Found at i:77479940 original size:31 final size:31
Alignment explanation
Indices: 77479869--77479966 Score: 124
Period size: 31 Copynumber: 3.1 Consensus size: 31
77479859 ATATTCTATG
* * *
77479869 TATCATTATATTAAATTATCTAAATCTTTTATA
1 TATCATTATATTAAATTAT-TAAA-ATATTATT
*
77479902 TATCATTATATTAAATTATTAAAATATCATT
1 TATCATTATATTAAATTATTAAAATATTATT
* *
77479933 TATCATTATATTAAATTATTTAAATCTTATT
1 TATCATTATATTAAATTATTAAAATATTATT
77479964 TAT
1 TAT
77479967 TATATTTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
31 35 0.60
32 4 0.07
33 19 0.33
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (31 bp):
TATCATTATATTAAATTATTAAAATATTATT
Found at i:77481834 original size:25 final size:24
Alignment explanation
Indices: 77481776--77481834 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 24
77481766 ATGGTTTTTA
*
77481776 TGAGCTTCCCGTTAATAGCTCTTCG
1 TGAGCTT-CCGATAATAGCTCTTCG
* *
77481801 -GAGTATTCCGATATATGGCTCTTCG
1 TGAG-CTTCCGATA-ATAGCTCTTCG
77481826 TGAGCTTCC
1 TGAGCTTCC
77481835 CGATTAAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
24 8 0.30
25 16 0.59
26 3 0.11
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (24 bp):
TGAGCTTCCGATAATAGCTCTTCG
Found at i:77481866 original size:27 final size:27
Alignment explanation
Indices: 77481817--77481876 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
77481807 TCCGATATAT
* *
77481817 GGCTC-TTCGTGAGCTTCCCGATTAAA
1 GGCTCTTTCATGAACTTCCCGATTAAA
* *
77481843 GGCTCTTTCATGAACTTCCTGATTAAT
1 GGCTCTTTCATGAACTTCCCGATTAAA
77481870 GGCTCTT
1 GGCTCTT
77481877 AAGAGCTTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.17
27 24 0.83
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (27 bp):
GGCTCTTTCATGAACTTCCCGATTAAA
Found at i:77481955 original size:25 final size:25
Alignment explanation
Indices: 77481777--77482019 Score: 136
Period size: 24 Copynumber: 9.8 Consensus size: 25
77481767 TGGTTTTTAT
* *
77481777 GAGCTTCCCG-TTAATAGCTCTTCG
1 GAGCTTCCCGATTAATGGCTCTTCA
* *
77481801 GAG-TATTCCGA-TATATGGCTCTTCGT
1 GAGCT-TCCCGATTA-ATGGCTCTTC-A
*
77481827 GAGCTTCCCGATTAAAGGCTCTTTCA
1 GAGCTTCCCGATTAATGGCTC-TTCA
* * *
77481853 TGAACTTCCTGATTAATGGCTCTTAA
1 -GAGCTTCCCGATTAATGGCTCTTCA
77481879 GAGCTTCCCGA-T-ATGGCTCGCTT--
1 GAGCTTCCCGATTAATGGCT--CTTCA
* * *
77481902 GAACTTCCCGA-TATATGACTTTTC-
1 GAGCTTCCCGATTA-ATGGCTCTTCA
*
77481926 GAGCTTCCTGATTAATGGCTCTTCA
1 GAGCTTCCCGATTAATGGCTCTTCA
* * *
77481951 GAGCTACCCG-TTATTGGCTCGT-A
1 GAGCTTCCCGATTAATGGCTCTTCA
**
77481974 TGAGCTTCCTTATT-ATGGCTCTT-A
1 -GAGCTTCCCGATTAATGGCTCTTCA
77481998 TGAGCTTCCCG-TTACATGGCTC
1 -GAGCTTCCCGATTA-ATGGCTC
77482020 ACATGAGATT
Statistics
Matches: 170, Mismatches: 30, Indels: 37
0.72 0.13 0.16
Matches are distributed among these distances:
23 23 0.14
24 61 0.36
25 45 0.26
26 17 0.10
27 24 0.14
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.35
Consensus pattern (25 bp):
GAGCTTCCCGATTAATGGCTCTTCA
Found at i:77482026 original size:49 final size:49
Alignment explanation
Indices: 77481926--77482026 Score: 125
Period size: 49 Copynumber: 2.1 Consensus size: 49
77481916 ATGACTTTTC
* **
77481926 GAGCTTCCTGATTAATGGCTCTTCAGAGCTACCCGTTATTGGCTCGTAT
1 GAGCTTCCTGATTAATGGCTCTTCAGAGCTACCCGTTAATGGCTCACAT
* *
77481975 GAGCTTCCTTATT-ATGGCTCTT-ATGAGCTTCCCGTTACATGGCTCACAT
1 GAGCTTCCTGATTAATGGCTCTTCA-GAGCTACCCGTTA-ATGGCTCACAT
77482024 GAG
1 GAG
77482027 ATTTTCATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
47 1 0.02
48 21 0.47
49 23 0.51
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (49 bp):
GAGCTTCCTGATTAATGGCTCTTCAGAGCTACCCGTTAATGGCTCACAT
Found at i:77491123 original size:14 final size:16
Alignment explanation
Indices: 77491098--77491129 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
77491088 CATTTCACTA
77491098 TTATGTCGTTTT-TAT
1 TTATGTCGTTTTATAT
77491113 TTATGTC-TTTTATAT
1 TTATGTCGTTTTATAT
77491128 TT
1 TT
77491130 TGCATGCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (16 bp):
TTATGTCGTTTTATAT
Found at i:77503421 original size:11 final size:10
Alignment explanation
Indices: 77503403--77503455 Score: 54
Period size: 11 Copynumber: 5.1 Consensus size: 10
77503393 TTCTCTGTTC
77503403 TTTTTCTTTA
1 TTTTTCTTTA
77503413 TTGTTTCTTTA
1 TT-TTTCTTTA
*
77503424 TTCTT-TTTA
1 TTTTTCTTTA
77503433 TTATTTCTTTTA
1 TT-TTTC-TTTA
*
77503445 TTTTACTTTA
1 TTTTTCTTTA
77503455 T
1 T
77503456 ATTATTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 6 0.17
10 11 0.31
11 13 0.36
12 6 0.17
ACGTcount: A:0.13, C:0.09, G:0.02, T:0.75
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:77503497 original size:20 final size:18
Alignment explanation
Indices: 77503459--77503497 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
77503449 ACTTTATATT
*
77503459 ATTATATTATATTTTTTA
1 ATTATATTATATTTCTTA
77503477 ATTATAATTATTATTTCTTA
1 ATTAT-ATTA-TATTTCTTA
77503497 A
1 A
77503498 ATAATAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTATATTATATTTCTTA
Found at i:77505827 original size:40 final size:40
Alignment explanation
Indices: 77505779--77505856 Score: 140
Period size: 40 Copynumber: 1.9 Consensus size: 40
77505769 CACATAGAGT
77505779 CGAAGCTAT-TTCGAATCGCACACTAAGTGCCATATATAAC
1 CGAAGCTATCTT-GAATCGCACACTAAGTGCCATATATAAC
77505819 CGAAGCTATCTTGAATCGCACACTAAGTGCCATATATA
1 CGAAGCTATCTTGAATCGCACACTAAGTGCCATATATA
77505857 TATCGAAATC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 35 0.95
41 2 0.05
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (40 bp):
CGAAGCTATCTTGAATCGCACACTAAGTGCCATATATAAC
Found at i:77507952 original size:68 final size:69
Alignment explanation
Indices: 77507872--77508005 Score: 180
Period size: 68 Copynumber: 2.0 Consensus size: 69
77507862 TTTAATAGTT
* * * *
77507872 TAATATTGAATTTAATTTAATACTTAACTTAAT-AGTATTTTATTAATTTAATATTAAAGTAATT
1 TAATATTAAATTTAATCTAATACTTAACTTAATAAATATTATATTAATTTAATATTAAAGTAATT
77507936 ATCA
66 ATCA
* * * * *
77507940 TAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTCATATTAAAGTGATT
1 TAATATTAAATTTAATCTAATACTTAACTTAATAAATATTATATTAATTTAATATTAAAGTAATT
77508005 A
66 A
77508006 AGTTTAATTA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
68 28 0.50
69 28 0.50
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (69 bp):
TAATATTAAATTTAATCTAATACTTAACTTAATAAATATTATATTAATTTAATATTAAAGTAATT
ATCA
Found at i:77509257 original size:60 final size:60
Alignment explanation
Indices: 77509184--77509305 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
77509174 ATAATATACC
77509184 ATAAACTTAACCAACCAATGTTAAGTCAGTTGATTAAATCAATTAATACTATGAAAATTG
1 ATAAACTTAACCAACCAATGTTAAGTCAGTTGATTAAATCAATTAATACTATGAAAATTG
*
77509244 ATAAACTTAACCAACCAATGTTAAGTCAGTTGATTAAATCAATTAATACTATGAAATTTG
1 ATAAACTTAACCAACCAATGTTAAGTCAGTTGATTAAATCAATTAATACTATGAAAATTG
77509304 AT
1 AT
77509306 CCATTCAATT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (60 bp):
ATAAACTTAACCAACCAATGTTAAGTCAGTTGATTAAATCAATTAATACTATGAAAATTG
Found at i:77510564 original size:21 final size:22
Alignment explanation
Indices: 77510538--77510584 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
77510528 TAAAATAAAA
77510538 AAATTT-ATATT-AAAATATTTT
1 AAATTTAATATTAAAAAT-TTTT
*
77510559 AAATTTAATTTTAAAAATTTTT
1 AAATTTAATATTAAAAATTTTT
77510581 AAAT
1 AAAT
77510585 GACTAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 12 0.52
23 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAATTTAATATTAAAAATTTTT
Found at i:77517318 original size:19 final size:21
Alignment explanation
Indices: 77517282--77517324 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
77517272 AACAATATTG
77517282 AAAAATCAAAATAATAATATAA
1 AAAAATCAAAAT-ATAATATAA
*
77517304 AAAAAT-AAAAT-TAATTTAA
1 AAAAATCAAAATATAATATAA
77517323 AA
1 AA
77517325 TTTTATACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
21 5 0.25
22 6 0.30
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAATCAAAATATAATATAA
Found at i:77522668 original size:6 final size:6
Alignment explanation
Indices: 77522657--77522683 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
77522647 TTTTGTTAGT
77522657 TTTATA TTTATA TTTATA TTTATA TTT
1 TTTATA TTTATA TTTATA TTTATA TTT
77522684 TATAGTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTATA
Found at i:77523854 original size:67 final size:67
Alignment explanation
Indices: 77523742--77523876 Score: 207
Period size: 67 Copynumber: 2.0 Consensus size: 67
77523732 GAACAACCTT
* * *
77523742 AATAAAGAGAATGCCAAAGTAGGACCATTCGGTATGCACACGGCAACAAACTTAACCGACCATAC
1 AATAAAGAGAATACCAAAGTAGGACCATTCGATATGCACACGGCAACAAACCTAACCGACCATAC
77523807 GA
66 GA
* * * *
77523809 AATAAAGAGAATATCAAAGTAGGACCATTCGATATGCATATGGCAACAAACCTGACCGACCATAC
1 AATAAAGAGAATACCAAAGTAGGACCATTCGATATGCACACGGCAACAAACCTAACCGACCATAC
77523874 GA
66 GA
77523876 A
1 A
77523877 CAGATTTACC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (67 bp):
AATAAAGAGAATACCAAAGTAGGACCATTCGATATGCACACGGCAACAAACCTAACCGACCATAC
GA
Found at i:77525286 original size:29 final size:29
Alignment explanation
Indices: 77525253--77525312 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
77525243 AAATTTTAGA
77525253 TTCAGTTTTTAACTTATTCGTCACTTAAG
1 TTCAGTTTTTAACTTATTCGTCACTTAAG
77525282 TTCAGTTTTTAACTTATTCGTCACTTAAG
1 TTCAGTTTTTAACTTATTCGTCACTTAAG
77525311 TT
1 TT
77525313 TATTAATCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (29 bp):
TTCAGTTTTTAACTTATTCGTCACTTAAG
Found at i:77525481 original size:16 final size:16
Alignment explanation
Indices: 77525460--77525493 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
77525450 GTCTCGATTA
77525460 AATTTAAAGTATAATC
1 AATTTAAAGTATAATC
*
77525476 AATTTAAAGTATAGTC
1 AATTTAAAGTATAATC
77525492 AA
1 AA
77525494 GTTAGACTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (16 bp):
AATTTAAAGTATAATC
Found at i:77525862 original size:31 final size:31
Alignment explanation
Indices: 77525797--77525864 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
77525787 TTTAACTCTC
* * **
77525797 TAAAAATAATAAAATTATAATTTAATTCTTA
1 TAAAAATAATAAAATTATAAGTTAATACAAA
77525828 TAAAAATAATAAAATTATAAGTTAATACAAA
1 TAAAAATAATAAAATTATAAGTTAATACAAA
77525859 TAAAAA
1 TAAAAA
77525865 ATTTATAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (31 bp):
TAAAAATAATAAAATTATAAGTTAATACAAA
Found at i:77529211 original size:22 final size:22
Alignment explanation
Indices: 77529183--77529230 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
77529173 CTCTCTTTCC
77529183 ACTCCGACCACATTATTTGGTA
1 ACTCCGACCACATTATTTGGTA
77529205 ACTCCGACCACATTATTTGGTA
1 ACTCCGACCACATTATTTGGTA
77529227 ACTC
1 ACTC
77529231 TCTGCTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.31
Consensus pattern (22 bp):
ACTCCGACCACATTATTTGGTA
Found at i:77529400 original size:8 final size:9
Alignment explanation
Indices: 77529377--77529403 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
77529367 TTTTACTAAT
77529377 TATTTTTAA
1 TATTTTTAA
77529386 TATTTTTAA
1 TATTTTTAA
77529395 TATTTTTAA
1 TATTTTTAA
77529404 AGACATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TATTTTTAA
Found at i:77536295 original size:21 final size:21
Alignment explanation
Indices: 77536269--77536311 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
77536259 TTTGTTACAT
77536269 AGTCCACAAAACGAATTTGAA
1 AGTCCACAAAACGAATTTGAA
*
77536290 AGTCCACAAAGCGAATTTGAA
1 AGTCCACAAAACGAATTTGAA
77536311 A
1 A
77536312 CCTATGAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.19
Consensus pattern (21 bp):
AGTCCACAAAACGAATTTGAA
Found at i:77537018 original size:11 final size:11
Alignment explanation
Indices: 77537002--77537040 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
77536992 TTCTTTCGAA
77537002 TCTTTTTTCTT
1 TCTTTTTTCTT
*
77537013 TCTTTTTTTTT
1 TCTTTTTTCTT
*
77537024 TGTTTTTTTCTT
1 T-CTTTTTTCTT
77537036 TCTTT
1 TCTTT
77537041 ATATATATAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.85
Consensus pattern (11 bp):
TCTTTTTTCTT
Found at i:77537675 original size:3 final size:3
Alignment explanation
Indices: 77537669--77537846 Score: 86
Period size: 3 Copynumber: 59.0 Consensus size: 3
77537659 TTTTTTTACA
* *
77537669 TAT TAT TAA TAT TAT TAC TAT TAT T-T TAT T-T CTAT TAT TAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT
* * * * * *
77537713 TAT TAT TAC TGT TAG TAT TAT T-T TCAT TAC TAT TAT TTT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * *
77537758 CA- TAT TAAT TAT T-T TCT AACG TAT TAT TAT TACT AAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT
77537804 T-T CTAGT T-T TAT TAT TAT TAT TAT TAT TAGT GTAT TA- TAT TAT
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TA-T -TAT TAT TAT TAT
77537847 ATATGTATGT
Statistics
Matches: 132, Mismatches: 24, Indels: 38
0.68 0.12 0.20
Matches are distributed among these distances:
2 14 0.11
3 102 0.77
4 13 0.10
5 3 0.02
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:77537698 original size:23 final size:23
Alignment explanation
Indices: 77537671--77537716 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
77537661 TTTTTACATA
77537671 TTATTAATATTATTA-CTATTATT
1 TTATTAATATTATTATCT-TTATT
**
77537694 TTATTTCTATTATTATCTTTATT
1 TTATTAATATTATTATCTTTATT
77537717 ATTACTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTAATATTATTATCTTTATT
Found at i:77537846 original size:16 final size:15
Alignment explanation
Indices: 77537812--77537865 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 15
77537802 ATTTCTAGTT
77537812 TTATTAT-TATTATTA
1 TTATTATGTATTA-TA
77537827 TTATTAGTGTATTATA
1 TTATTA-TGTATTATA
77537843 TTATATATGTATGTATA
1 TTAT-TATGTAT-TATA
77537860 TATATT
1 T-TATT
77537866 TATATATAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.18
16 12 0.35
17 13 0.38
18 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (15 bp):
TTATTATGTATTATA
Found at i:77538092 original size:17 final size:17
Alignment explanation
Indices: 77538054--77538106 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
77538044 GTATGTTATG
*
77538054 TATATATGTTTTCAATAT
1 TATATATATTTT-AATAT
*
77538072 TATAT-T-TTTTTATAT
1 TATATATATTTTAATAT
77538087 TATATATATTTTAATAT
1 TATATATATTTTAATAT
77538104 TAT
1 TAT
77538107 TAGTTATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 9 0.29
16 5 0.16
17 12 0.39
18 5 0.16
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TATATATATTTTAATAT
Found at i:77538160 original size:43 final size:44
Alignment explanation
Indices: 77538072--77538183 Score: 144
Period size: 43 Copynumber: 2.6 Consensus size: 44
77538062 TTTTCAATAT
77538072 TATATTTTTT-TA-TATTATA-TATATTTTAATATTATTAGTTA
1 TATATTTTTTATACTATTATATTATATTTTAATATTATTAGTTA
*
77538113 TATATTTTTTATACTATTATATGTATATTTTAATATTA-TA-TTG
1 TATATTTTTTATACTATTATAT-TATATTTTAATATTATTAGTTA
* *
77538156 TATATTTCTAATACTATTATATATATAT
1 TATATTTTTTATACTATTATAT-TATAT
77538184 GTATGTGTGT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
41 10 0.16
42 2 0.03
43 34 0.54
44 2 0.03
45 15 0.24
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (44 bp):
TATATTTTTTATACTATTATATTATATTTTAATATTATTAGTTA
Found at i:77538178 original size:19 final size:19
Alignment explanation
Indices: 77538069--77538179 Score: 64
Period size: 22 Copynumber: 5.5 Consensus size: 19
77538059 ATGTTTTCAA
* *
77538069 TATTATAT-TTTTTTATAT
1 TATTATATATTTTTAATAC
* *
77538087 TA-TATATATTTTAATATTAT
1 TATTATATATTTT--TAATAC
*
77538107 TAGTTATATATTTTTTATAC
1 TA-TTATATATTTTTAATAC
*
77538127 TATTATATGTATATTTTAATATTA
1 TATTATA--TAT-TTTTAATA--C
* *
77538151 TATTGTATATTTCTAATAC
1 TATTATATATTTTTAATAC
77538170 TATTATATAT
1 TATTATATAT
77538180 ATATGTATGT
Statistics
Matches: 72, Mismatches: 11, Indels: 19
0.71 0.11 0.19
Matches are distributed among these distances:
17 5 0.07
18 6 0.08
19 14 0.19
20 11 0.15
21 10 0.14
22 20 0.28
24 6 0.08
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (19 bp):
TATTATATATTTTTAATAC
Found at i:77538405 original size:27 final size:28
Alignment explanation
Indices: 77538355--77538414 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 28
77538345 CCATCTTATG
* *
77538355 TATATATTTTTAAATACTATATTGTATA
1 TATATATTCTTAAATACCATATTGTATA
*
77538383 TATATATTCTT-AATACCATATTGTGTA
1 TATATATTCTTAAATACCATATTGTATA
77538410 TATAT
1 TATAT
77538415 CATTATTACA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.52
Consensus pattern (28 bp):
TATATATTCTTAAATACCATATTGTATA
Found at i:77538548 original size:34 final size:36
Alignment explanation
Indices: 77538505--77538571 Score: 86
Period size: 34 Copynumber: 1.9 Consensus size: 36
77538495 TATATGTAGT
*
77538505 ATTATTTTCA-TAT-ATCA-TTATAATTATTATACCC
1 ATTAATTTCACTATCATCACTTATAATT-TTATACCC
*
77538539 ATTAATTTCACTATCATCACTTATTATTTTATA
1 ATTAATTTCACTATCATCACTTATAATTTTATA
77538572 TTACTATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 9 0.32
35 3 0.11
36 9 0.32
37 7 0.25
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (36 bp):
ATTAATTTCACTATCATCACTTATAATTTTATACCC
Found at i:77540735 original size:31 final size:31
Alignment explanation
Indices: 77540697--77540760 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
77540687 TTACATAATG
77540697 GTCACTGAACAATTCGAAAGTTTTCATTTAA
1 GTCACTGAACAATTCGAAAGTTTTCATTTAA
*** *
77540728 GTCACTGAATTTTTCGAAAGTTTTTATTTAA
1 GTCACTGAACAATTCGAAAGTTTTCATTTAA
77540759 GT
1 GT
77540761 GGGCTATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.42
Consensus pattern (31 bp):
GTCACTGAACAATTCGAAAGTTTTCATTTAA
Found at i:77544850 original size:34 final size:34
Alignment explanation
Indices: 77544781--77544852 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
77544771 ACCCGAACCG
* *
77544781 AAATCATGAACCCTGAACCCTGAACCTCGAATTT
1 AAATCATGAACCCTGAACCCTAAACCTCAAATTT
*
77544815 AAATCATGAA-CCTGAACCTTAAACACT-AAACTTT
1 AAATCATGAACCCTGAACCCTAAAC-CTCAAA-TTT
77544849 AAAT
1 AAAT
77544853 TCAAACCCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 14 0.42
34 19 0.58
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.25
Consensus pattern (34 bp):
AAATCATGAACCCTGAACCCTAAACCTCAAATTT
Found at i:77545970 original size:14 final size:15
Alignment explanation
Indices: 77545944--77545973 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
77545934 ATATCGTATT
77545944 TATATTATCATTTTG
1 TATATTATCATTTTG
77545959 TATATTAT-ATTTTG
1 TATATTATCATTTTG
77545973 T
1 T
77545974 TAAATTTTTC
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:0.27, C:0.03, G:0.07, T:0.63
Consensus pattern (15 bp):
TATATTATCATTTTG
Found at i:77560263 original size:35 final size:34
Alignment explanation
Indices: 77560198--77560264 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 34
77560188 CATGATAGTG
* **
77560198 AAATAATAATAGTAATAATGTTAATAAAGATACA
1 AAATAATAATAGTAAAAATGCCAATAAAGATACA
* *
77560232 AAATGATAATAAGTAAAAATGCCAATGAAGATA
1 AAATAATAAT-AGTAAAAATGCCAATAAAGATA
77560265 ATAAAAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 9 0.33
35 18 0.67
ACGTcount: A:0.58, C:0.04, G:0.12, T:0.25
Consensus pattern (34 bp):
AAATAATAATAGTAAAAATGCCAATAAAGATACA
Found at i:77560350 original size:12 final size:12
Alignment explanation
Indices: 77560306--77560353 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
77560296 TGTTCATGCG
*
77560306 TAAATATAAAGA
1 TAAATATAAACA
**
77560318 TAGGTATAATACA
1 TAAATATAA-ACA
77560331 TAAAATATAAACA
1 T-AAATATAAACA
77560344 TAAATATAAA
1 TAAATATAAA
77560354 GAGAGAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 16 0.55
13 7 0.24
14 6 0.21
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.27
Consensus pattern (12 bp):
TAAATATAAACA
Found at i:77561296 original size:12 final size:12
Alignment explanation
Indices: 77561279--77561303 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77561269 TTGGGTTAGT
77561279 GTTTTGGGCTAA
1 GTTTTGGGCTAA
77561291 GTTTTGGGCTAA
1 GTTTTGGGCTAA
77561303 G
1 G
77561304 GGTTTTGGGT
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:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (12 bp):
GTTTTGGGCTAA
Found at i:77561720 original size:17 final size:17
Alignment explanation
Indices: 77561687--77561720 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
77561677 TAAACAAATT
*
77561687 ATTAAAAATTATAAAAA
1 ATTAAAAATGATAAAAA
77561704 ATTAAAAATAGATAAAA
1 ATTAAAAAT-GATAAAA
77561721 TTAGTTCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
ATTAAAAATGATAAAAA
Found at i:77564593 original size:24 final size:26
Alignment explanation
Indices: 77564556--77564605 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
77564546 TGGTAATCTT
77564556 TTTTATAAATAAAAT-TTCA-GAAAA
1 TTTTATAAATAAAATATTCACGAAAA
77564580 TTTTA-AAATCAAAATATTCACGAAAA
1 TTTTATAAAT-AAAATATTCACGAAAA
77564606 AAGTTCGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.17
24 10 0.43
25 4 0.17
26 5 0.22
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.34
Consensus pattern (26 bp):
TTTTATAAATAAAATATTCACGAAAA
Found at i:77574299 original size:22 final size:21
Alignment explanation
Indices: 77574274--77574314 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
77574264 TATTAAATGT
77574274 GTTAAATAAATAAAAATTTGAA
1 GTTAAA-AAATAAAAATTTGAA
*
77574296 GTTAGAAAATAAAAATTTG
1 GTTAAAAAATAAAAATTTG
77574315 TCTACAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (21 bp):
GTTAAAAAATAAAAATTTGAA
Found at i:77576564 original size:12 final size:12
Alignment explanation
Indices: 77576543--77576575 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
77576533 AAATGTTATC
*
77576543 TATATGTATGTA
1 TATATATATGTA
77576555 TATATATATGTA
1 TATATATATGTA
77576567 TATATATAT
1 TATATATAT
77576576 ATGAACTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (12 bp):
TATATATATGTA
Found at i:77576564 original size:16 final size:16
Alignment explanation
Indices: 77576543--77576577 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
77576533 AAATGTTATC
*
77576543 TATATGTATGTATATA
1 TATATGTATATATATA
77576559 TATATGTATATATATA
1 TATATGTATATATATA
77576575 TAT
1 TAT
77576578 GAACTTAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (16 bp):
TATATGTATATATATA
Found at i:77578736 original size:43 final size:43
Alignment explanation
Indices: 77578675--77578761 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
77578665 TTTCTTATTG
*
77578675 AGCTAAGCTCTGTAGACATAAGGAAACCGAACTGCATAAACAA
1 AGCTAAGCTCTGTAGACATAAGAAAACCGAACTGCATAAACAA
77578718 AGCTAAGCTCTGTAGACATAAGAAAACCGAACTGCATAAACAA
1 AGCTAAGCTCTGTAGACATAAGAAAACCGAACTGCATAAACAA
77578761 A
1 A
77578762 CTTGATTATC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.46, C:0.21, G:0.17, T:0.16
Consensus pattern (43 bp):
AGCTAAGCTCTGTAGACATAAGAAAACCGAACTGCATAAACAA
Found at i:77579461 original size:31 final size:31
Alignment explanation
Indices: 77579426--77579485 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
77579416 TCTTTAAATA
*
77579426 TATATAATTAAATCAAAATTAAAATTTTAAG
1 TATATAATTAAATCAAAATCAAAATTTTAAG
* *
77579457 TATATATTTAAATCACAATCAAAATTTTA
1 TATATAATTAAATCAAAATCAAAATTTTA
77579486 CGAGTACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.40
Consensus pattern (31 bp):
TATATAATTAAATCAAAATCAAAATTTTAAG
Found at i:77579886 original size:7 final size:7
Alignment explanation
Indices: 77579874--77579904 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
77579864 TAACCTTTTT
77579874 AATTAAA
1 AATTAAA
77579881 AATTAAA
1 AATTAAA
77579888 AATTAAA
1 AATTAAA
77579895 AATTAAA
1 AATTAAA
77579902 AAT
1 AAT
77579905 ATTATTAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATTAAA
Found at i:77580531 original size:33 final size:33
Alignment explanation
Indices: 77580484--77580562 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
77580474 CACATTGAAT
*
77580484 CTTAA-TTTTTTTTAAAAAGAAGCAATTAGACC
1 CTTAATTTTTTTTTAAAAAGAAGCAATTAAACC
77580516 CTTAATTTTTTTTTAAAAAGAAGCAATTAAACC
1 CTTAATTTTTTTTTAAAAAGAAGCAATTAAACC
77580549 CTTAATTTTTTTTT
1 CTTAATTTTTTTTT
77580563 GCACTTAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 5 0.11
33 40 0.89
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (33 bp):
CTTAATTTTTTTTTAAAAAGAAGCAATTAAACC
Found at i:77580756 original size:35 final size:37
Alignment explanation
Indices: 77580717--77580785 Score: 106
Period size: 35 Copynumber: 1.9 Consensus size: 37
77580707 ATAAAAAAAT
77580717 ATTAAATTTTAATAAAAAATA-AAAAATA-AAAACTA
1 ATTAAATTTTAATAAAAAATAGAAAAATATAAAACTA
* *
77580752 ATTAAATTTTATTAAAAATTAGAAAAATATAAAA
1 ATTAAATTTTAATAAAAAATAGAAAAATATAAAA
77580786 ATCGTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 19 0.63
36 7 0.23
37 4 0.13
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (37 bp):
ATTAAATTTTAATAAAAAATAGAAAAATATAAAACTA
Found at i:77580784 original size:17 final size:17
Alignment explanation
Indices: 77580764--77580806 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
77580754 TAAATTTTAT
*
77580764 TAAAAATTAGAAAAATA
1 TAAAAATTAAAAAAATA
77580781 TAAAAATCGTAAAAAAATA
1 TAAAAAT--TAAAAAAATA
77580800 -AAAAATT
1 TAAAAATT
77580807 GTAAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 1 0.04
17 7 0.30
18 6 0.26
19 9 0.39
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (17 bp):
TAAAAATTAAAAAAATA
Found at i:77580812 original size:17 final size:19
Alignment explanation
Indices: 77580774--77580812 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
77580764 TAAAAATTAG
77580774 AAAAATATAAAAATCGTAA
1 AAAAATATAAAAATCGTAA
*
77580793 AAAAATA-AAAAATTGTAA
1 AAAAATATAAAAATCGTAA
77580811 AA
1 AA
77580813 TTTTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.21
Consensus pattern (19 bp):
AAAAATATAAAAATCGTAA
Found at i:77581077 original size:19 final size:18
Alignment explanation
Indices: 77581036--77581090 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
77581026 AGTACGATAG
77581036 TTTTTATATTTTTTACGA
1 TTTTTATATTTTTTACGA
*
77581054 ATTTTATATTTCTTTAC-A
1 TTTTTATATTT-TTTACGA
77581072 TTTTTTATAATTTTCTTAC
1 -TTTTTAT-ATTTT-TTAC
77581091 AACTTTATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 11 0.35
19 12 0.39
20 8 0.26
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTTATATTTTTTACGA
Found at i:77581156 original size:19 final size:17
Alignment explanation
Indices: 77581132--77581183 Score: 77
Period size: 19 Copynumber: 2.9 Consensus size: 17
77581122 TATTTCTATT
77581132 TATTTTATAATTTTTAA
1 TATTTTATAATTTTTAA
77581149 TGATTTTTATAATTTTTAA
1 T-A-TTTTATAATTTTTAA
*
77581168 TATTTTATAGTTTTTA
1 TATTTTATAATTTTTA
77581184 TTAAAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 14 0.44
18 2 0.06
19 16 0.50
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TATTTTATAATTTTTAA
Found at i:77581182 original size:9 final size:9
Alignment explanation
Indices: 77581134--77581213 Score: 56
Period size: 9 Copynumber: 8.7 Consensus size: 9
77581124 TTTCTATTTA
77581134 TTTTATAAT
1 TTTTATAAT
*
77581143 TTTTAATGAT
1 TTTT-ATAAT
77581153 TTTTATAA-
1 TTTTATAAT
77581161 TTTT-TAAT
1 TTTTATAAT
*
77581169 ATTTTATAGT
1 -TTTTATAAT
*
77581179 TTTTATTAAAA
1 TTTTA-T-AAT
* *
77581190 ATTAATAAT
1 TTTTATAAT
*
77581199 TTTTATAAC
1 TTTTATAAT
77581208 TTTTAT
1 TTTTAT
77581214 TGATTTTTTA
Statistics
Matches: 54, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
7 3 0.06
8 4 0.07
9 30 0.56
10 13 0.24
11 4 0.07
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Found at i:77583867 original size:10 final size:10
Alignment explanation
Indices: 77583828--77583873 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
77583818 TAACTTTTAG
77583828 AAAAATTATT
1 AAAAATTATT
** *
77583838 AAACTTTAAT
1 AAAAATTATT
77583848 AAAAA-T-TT
1 AAAAATTATT
77583856 AAAAATTATT
1 AAAAATTATT
77583866 AAAAATTA
1 AAAAATTA
77583874 GAATTTTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
8 6 0.21
9 2 0.07
10 20 0.71
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAAATTATT
Found at i:77584127 original size:21 final size:21
Alignment explanation
Indices: 77584070--77584127 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
77584060 TTGGTGCGAT
*
77584070 AATTTTTATAATTTTTTTTAC
1 AATTTTTATAATTTTCTTTAC
*
77584091 AAATTTTAT-A-TTTCTTTAC
1 AATTTTTATAATTTTCTTTAC
77584110 -ATTTTGTATAATTTTCTT
1 AATTTT-TATAATTTTCTT
77584128 ATGACTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 4 0.13
19 11 0.35
20 2 0.06
21 14 0.45
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.64
Consensus pattern (21 bp):
AATTTTTATAATTTTCTTTAC
Found at i:77584155 original size:10 final size:10
Alignment explanation
Indices: 77584068--77584247 Score: 61
Period size: 10 Copynumber: 17.9 Consensus size: 10
77584058 TTTTGGTGCG
77584068 ATAA-TTTTT
1 ATAATTTTTT
77584077 ATAATTTTTT
1 ATAATTTTTT
* **
77584087 TTACAAATTTT
1 ATA-ATTTTTT
77584098 AT-ATTTCTTT
1 ATAATTT-TTT
* *
77584108 A-CATTTTGT
1 ATAATTTTTT
77584117 ATAATTTTCTT
1 ATAATTTT-TT
* *
77584128 ATGA--CTTT
1 ATAATTTTTT
**
77584136 ATAAAATTTT
1 ATAATTTTTT
77584146 ATAATTTTTT
1 ATAATTTTTT
77584156 ATATTATATATTTT
1 ATA--AT-T-TTTT
77584170 ATAATTTTTT
1 ATAATTTTTT
**
77584180 ACGATTTTTAT
1 ATAATTTTT-T
* * *
77584191 AAAAATTTTC
1 ATAATTTTTT
*
77584201 A-ATTTTTTT
1 ATAATTTTTT
77584210 A-ATATTTTTT
1 ATA-ATTTTTT
*
77584220 ACAA-TTTTT
1 ATAATTTTTT
*
77584229 ATATTTTTTT
1 ATAATTTTTT
*
77584239 CTAATTTTT
1 ATAATTTTT
77584248 ATTAAAATTT
Statistics
Matches: 126, Mismatches: 29, Indels: 31
0.68 0.16 0.17
Matches are distributed among these distances:
8 5 0.04
9 24 0.19
10 66 0.52
11 19 0.15
12 4 0.03
13 1 0.01
14 7 0.06
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:77584190 original size:19 final size:20
Alignment explanation
Indices: 77584166--77584260 Score: 81
Period size: 19 Copynumber: 4.8 Consensus size: 20
77584156 ATATTATATA
*
77584166 TTTTAT-AATTTTTTACGAT
1 TTTTATAAATTTTTTACAAT
**
77584185 TTTTATAAAAATTTT-CAAT
1 TTTTATAAATTTTTTACAAT
*
77584204 TTTTTTAATATTTTTTACAAT
1 TTTTATAA-ATTTTTTACAAT
*
77584225 TTTTAT--ATTTTTTTCTAAT
1 TTTTATAAATTTTTTAC-AAT
*
77584244 TTTTATTAAAATTTTTA
1 TTTTA-TAAATTTTTTA
77584261 TTATTTGAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
18 8 0.14
19 24 0.41
20 12 0.20
21 9 0.15
22 6 0.10
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (20 bp):
TTTTATAAATTTTTTACAAT
Found at i:77584190 original size:53 final size:49
Alignment explanation
Indices: 77584116--77584228 Score: 120
Period size: 53 Copynumber: 2.2 Consensus size: 49
77584106 TTACATTTTG
* *
77584116 TATAATTTTCTTATGACTTTAT-AAAATTTTATAATTTTTTATATTATATATTT
1 TATAATTTT-TTACGACTTTATAAAAATTTT-CAATTTTTT-TA--ATATATTT
* *
77584169 TATAATTTTTTACGATTTTTATAAAAATTTTCAATTTTTTTAATATTTTT
1 TATAATTTTTTACGA-CTTTATAAAAATTTTCAATTTTTTTAATATATTT
*
77584219 TACAATTTTT
1 TATAATTTTT
77584229 ATATTTTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
50 16 0.30
52 7 0.13
53 22 0.42
54 8 0.15
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (49 bp):
TATAATTTTTTACGACTTTATAAAAATTTTCAATTTTTTTAATATATTT
Found at i:77584217 original size:29 final size:27
Alignment explanation
Indices: 77584201--77584284 Score: 80
Period size: 27 Copynumber: 3.0 Consensus size: 27
77584191 AAAAATTTTC
*
77584201 AATTTTTTTAATATTTT-TTACAATTTTT
1 AATTTTTTTAAT-TTTTATTA-AAATTTT
77584229 ATATTTTTTTCTAATTTTTATTAAAATTTT
1 A-A-TTTTTT-TAATTTTTATTAAAATTTT
* * *
77584259 TATTATTTGAATTTTTATTAAAATTT
1 AATTTTTTTAATTTTTATTAAAATTT
77584285 AATACTATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
27 17 0.35
28 6 0.12
29 2 0.04
30 16 0.33
31 7 0.15
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.65
Consensus pattern (27 bp):
AATTTTTTTAATTTTTATTAAAATTTT
Found at i:77584245 original size:40 final size:41
Alignment explanation
Indices: 77584172--77584259 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 41
77584162 TATATTTTAT
*
77584172 AATTTTTTACGATTTTTATAAAAATTTTCAATTTTT-TTAA
1 AATTTTTTACAATTTTTATAAAAATTTTCAATTTTTATTAA
* ***
77584212 TATTTTTTACAATTTTTAT-ATTTTTTTCTAATTTTTATTAA
1 AATTTTTTACAATTTTTATAAAAATTTTC-AATTTTTATTAA
77584253 AATTTTT
1 AATTTTT
77584260 ATTATTTGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 6 0.15
40 24 0.60
41 10 0.25
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.64
Consensus pattern (41 bp):
AATTTTTTACAATTTTTATAAAAATTTTCAATTTTTATTAA
Found at i:77584256 original size:12 final size:12
Alignment explanation
Indices: 77584241--77584284 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
77584231 ATTTTTTTCT
77584241 AATTTTTATTAA
1 AATTTTTATTAA
*
77584253 AATTTTTATTATTTG
1 AATTTTTATTA---A
77584268 AATTTTTATTAA
1 AATTTTTATTAA
77584280 AATTT
1 AATTT
77584285 AATACTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 16 0.59
15 11 0.41
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (12 bp):
AATTTTTATTAA
Found at i:77584556 original size:89 final size:89
Alignment explanation
Indices: 77584383--77584555 Score: 269
Period size: 89 Copynumber: 2.0 Consensus size: 89
77584373 TTTCTTTCTA
* * *
77584383 AAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAGGTACCCAATTGAGTGTAAAAAAAAGTA
1 AAGTTTGAGGGTCTTTTTGATCCATTTTGAAAATTCAGGTAACCAATTGAGTGTAAAAAAAAGTA
*
77584448 GGGGCTTAATTGATTTTTTTGAAG
66 GAGGCTTAATTGATTTTTTTGAAG
*
77584472 AAGTTTGAGGGTCTTTTTGATCCATTTTGAAAATTCCA-GTAACCAATTGAGTG-CAAAAAAAGT
1 AAGTTTGAGGGTCTTTTTGATCCATTTTGAAAATT-CAGGTAACCAATTGAGTGTAAAAAAAAGT
*
77584535 AGAGGCTTAATTGCTTTTTTT
65 AGAGGCTTAATTGATTTTTTT
77584556 TTTTGAAAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
88 28 0.36
89 47 0.61
90 2 0.03
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.38
Consensus pattern (89 bp):
AAGTTTGAGGGTCTTTTTGATCCATTTTGAAAATTCAGGTAACCAATTGAGTGTAAAAAAAAGTA
GAGGCTTAATTGATTTTTTTGAAG
Found at i:77584743 original size:24 final size:24
Alignment explanation
Indices: 77584711--77584759 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
77584701 CAAATTGACA
77584711 AGGAAAAGACGGATCGGTGAAAAT
1 AGGAAAAGACGGATCGGTGAAAAT
* *
77584735 AGGAAAAGACGTATTGGTGAAAAT
1 AGGAAAAGACGGATCGGTGAAAAT
77584759 A
1 A
77584760 ATGCAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.06, G:0.31, T:0.16
Consensus pattern (24 bp):
AGGAAAAGACGGATCGGTGAAAAT
Found at i:77589612 original size:14 final size:14
Alignment explanation
Indices: 77589593--77589620 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
77589583 AAACATAGTC
77589593 TATTCCTCTTGTAA
1 TATTCCTCTTGTAA
77589607 TATTCCTCTTGTAA
1 TATTCCTCTTGTAA
77589621 CAATTCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.50
Consensus pattern (14 bp):
TATTCCTCTTGTAA
Found at i:77598279 original size:19 final size:20
Alignment explanation
Indices: 77598242--77598279 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
77598232 TATTTTTCAG
*
77598242 ATTTTATTGTTTTGCTCAAA
1 ATTTTATTGATTTGCTCAAA
*
77598262 ATTTTA-TGATTTGGTCAA
1 ATTTTATTGATTTGCTCAA
77598280 GGTAGTCCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (20 bp):
ATTTTATTGATTTGCTCAAA
Found at i:77598862 original size:47 final size:47
Alignment explanation
Indices: 77598803--77598975 Score: 174
Period size: 47 Copynumber: 3.7 Consensus size: 47
77598793 GTTTATCTAC
*
77598803 TCGACC-GATGGTTTATCCATAACGTATTTTAGTCGACATTCACCTGT
1 TCGACCAG-TGGTTTATCCACAACGTATTTTAGTCGACATTCACCTGT
* * * * *
77598850 TCGACCAGTGGTTTGTCCACAACATATCTTAGTCGACAGTCATCTGCT
1 TCGACCAGTGGTTTATCCACAACGTATTTTAGTCGACATTCACCTG-T
* * *
77598898 T-GACTAGTGGTTTATCCATAACGTATTTTAGTC-ATCAATT-ACCTGC
1 TCGACCAGTGGTTTATCCACAACGTATTTTAGTCGA-C-ATTCACCTGT
* * *
77598944 TGGACTAGTGGTATATCCACAACGTATTTTAG
1 TCGACCAGTGGTTTATCCACAACGTATTTTAG
77598976 CAGCTTTTAT
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
46 2 0.02
47 98 0.93
48 5 0.05
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (47 bp):
TCGACCAGTGGTTTATCCACAACGTATTTTAGTCGACATTCACCTGT
Found at i:77603896 original size:40 final size:40
Alignment explanation
Indices: 77603837--77603928 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 40
77603827 TTAATATCAT
* *
77603837 ACACTTAGTGCC-TCATGTAGCCGAAGCTA-TTCCAACTCGC
1 ACACTTAGTGCCAT-TTGTAGCCGAAGCTATTTCAAAC-CGC
*
77603877 ACACTTGGTGCCATTTGTAGCCGAAGCTATTTCAAACCGC
1 ACACTTAGTGCCATTTGTAGCCGAAGCTATTTCAAACCGC
77603917 ACACTTAGTGCC
1 ACACTTAGTGCC
77603929 GAACTTAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
40 39 0.85
41 7 0.15
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (40 bp):
ACACTTAGTGCCATTTGTAGCCGAAGCTATTTCAAACCGC
Found at i:77604957 original size:12 final size:12
Alignment explanation
Indices: 77604940--77604964 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77604930 ATGATTAAAT
77604940 TTTCACACATAC
1 TTTCACACATAC
77604952 TTTCACACATAC
1 TTTCACACATAC
77604964 T
1 T
77604965 GTAAACACAA
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:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (12 bp):
TTTCACACATAC
Found at i:77611308 original size:40 final size:40
Alignment explanation
Indices: 77611256--77611348 Score: 127
Period size: 40 Copynumber: 2.3 Consensus size: 40
77611246 AACAATCTCT
* *
77611256 CACACTTAGTGCC-TCATGTAGCCGAAGCTA-TTCCAACTCG
1 CACACTTGGTGCCAT-ATGTAGCCGAAGCTATTTCAAAC-CG
*
77611296 CACACTTGGTGCCATTTGTAGCCGAAGCTATTTCAAACCG
1 CACACTTGGTGCCATATGTAGCCGAAGCTATTTCAAACCG
77611336 CACACTTGGTGCC
1 CACACTTGGTGCC
77611349 GAACTTAATC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
40 41 0.85
41 7 0.15
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (40 bp):
CACACTTGGTGCCATATGTAGCCGAAGCTATTTCAAACCG
Found at i:77615177 original size:19 final size:20
Alignment explanation
Indices: 77615155--77615193 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
77615145 ACTTTTCTCT
77615155 TCTCTTTTTT-TTTTTCAGG
1 TCTCTTTTTTCTTTTTCAGG
77615174 TCTCTTTTTTCCTTTTTCAG
1 TCTCTTTTTT-CTTTTTCAG
77615194 ATTCAACACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.05, C:0.21, G:0.08, T:0.67
Consensus pattern (20 bp):
TCTCTTTTTTCTTTTTCAGG
Found at i:77616080 original size:22 final size:22
Alignment explanation
Indices: 77616055--77616100 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
77616045 TTGTAAGGAT
77616055 ATTAGTTTGAATTAGAGTGTTG
1 ATTAGTTTGAATTAGAGTGTTG
77616077 ATTAGTTTGAATTAGAGTGTTG
1 ATTAGTTTGAATTAGAGTGTTG
77616099 AT
1 AT
77616101 GGGTCGGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (22 bp):
ATTAGTTTGAATTAGAGTGTTG
Found at i:77619665 original size:28 final size:29
Alignment explanation
Indices: 77619634--77619693 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
77619624 GGTTACATTT
77619634 TAATCATCA-ACTTTAAAAGATTTTAAAA
1 TAATCATCAGACTTTAAAAGATTTTAAAA
* * *
77619662 TAATTATTAGATTTTAAAAGATTTTAAAA
1 TAATCATCAGACTTTAAAAGATTTTAAAA
77619691 TAA
1 TAA
77619694 CTTTGCTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 7 0.25
29 21 0.75
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (29 bp):
TAATCATCAGACTTTAAAAGATTTTAAAA
Found at i:77622651 original size:327 final size:331
Alignment explanation
Indices: 77621979--77622774 Score: 933
Period size: 327 Copynumber: 2.4 Consensus size: 331
77621969 TTCGAAATTG
* * * * * *
77621979 TTGTGTCAAATCTTTTGAATTTT-CAATCTTCGTGCAGTTTAATCTGATCTAAATCTGGGAAGCG
1 TTGTGTCAAATATTTTGAATTTTGCAATGTACGT--AGTCT-ACCTGATCTAAATCTCGGAA-CG
* * *
77622043 TCTGAGTTCGTTCGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTATAGATTGG
62 -CTGAGCTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATTGG
77622108 ATTTAGATTTCTCCTTTAAGTGTTGATCTGCTCAGAAATTGGTGTGTCAAATCTTTTGAATTCTG
126 ATTTAGATTTCTCCTTTAAGTGTTGATCTGCTCAGAAATTGGTGTGTCAAATCTTTTGAATTCTG
* * ** *
77622173 AATTTTTCGCGTAGTGGTATCTGATCTGAATCTCTGATCTTGAGTTCATTGGTTTGCTTAGATTT
191 AATTATTCGCGTAGTGGTATCTGATCTGAATCTCAGATCGCGAGTTCATTGGTTTGCTCAGATTT
*
77622238 TTAATTCTCGAATTGAATTTATGTTTGTTACAGATTGGATTTAGATTATTTTCTACATGTTACTC
256 GTAATTCTCGAATTGAATTTATGTTTGTTACAGATTGGATTTAGATTATTTTCTACATGTTACTC
77622303 TGCTCAGAAATT
321 TGCTCAGAAA-T
*
77622315 GTTGTGTCAAATCATTTTGAATTATT-CGA-GTA-GT-GTC-ACCTGATCTAAATCTCGGAA-G-
1 -TTGTGTCAAAT-ATTTTGAATT-TTGCAATGTACGTAGTCTACCTGATCTAAATCTCGGAACGC
*
77622373 TGAGCTCGTTGGTTTGCTCAGATTTGTATTTTTCGAATTGAATTTATGTTTGTTACAGATTGGAT
63 TGAGCTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATTGGAT
* * *
77622438 TTAGATTATCTTCTTT-TG-GTTGATCTGCTCAGAAATT-GTCGTGTCAAATCTTTTGAATTTTG
128 TTAGATT-TCTCCTTTAAGTGTTGATCTGCTCAGAAATTGGT-GTGTCAAATCTTTTGAATTCTG
*
77622500 AATTATTCGCGTAGT-GTCATCTGATCT-AATTCTCAGAAGCGTCGCGAGTTCCTTGGTTTGCTC
191 AATTATTCGCGTAGTGGT-ATCTGATCTGAA-TCTCAG-A---TCGCGAGTTCATTGGTTTGCTC
* * * * * * * **
77622563 GGATTTGTATTTCTCTATTTGAATTTATGTTTGTTACGGATTGGATTTAGCTTCTTTT-TATGTG
250 AGATTTGTAATTCTCGAATTGAATTTATGTTTGTTACAGATTGGATTTAGATTATTTTCTACATG
77622627 TTGA-TCTGCTCAGAAA-
315 TT-ACTCTGCTCAGAAAT
* * *
77622643 TTGTGTCAAATATTTTGAATTTTGGACAATTTACGTAGTCTTATCTGATC-AGAATCTCAGAAGC
1 TTGTGTCAAATATTTTGAATTTT-G-CAATGTACGTAGTC-TACCTGATCTA-AATCTCGGAA-C
* *
77622707 GACTTGAGCTCGTTGGTTTGCTCAGATTTGTATATCTCGAAATGAATTTATGTTTGTTACAGATT
61 G-C-TGAGCTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATT
77622772 GGA
124 GGA
77622775 CTTGGGTTTT
Statistics
Matches: 397, Mismatches: 37, Indels: 49
0.82 0.08 0.10
Matches are distributed among these distances:
325 2 0.01
326 16 0.04
327 79 0.20
328 72 0.18
329 9 0.02
330 21 0.05
331 72 0.18
332 19 0.05
333 16 0.04
334 2 0.01
335 1 0.00
337 13 0.03
338 71 0.18
339 4 0.01
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.44
Consensus pattern (331 bp):
TTGTGTCAAATATTTTGAATTTTGCAATGTACGTAGTCTACCTGATCTAAATCTCGGAACGCTGA
GCTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATTGGATTTA
GATTTCTCCTTTAAGTGTTGATCTGCTCAGAAATTGGTGTGTCAAATCTTTTGAATTCTGAATTA
TTCGCGTAGTGGTATCTGATCTGAATCTCAGATCGCGAGTTCATTGGTTTGCTCAGATTTGTAAT
TCTCGAATTGAATTTATGTTTGTTACAGATTGGATTTAGATTATTTTCTACATGTTACTCTGCTC
AGAAAT
Found at i:77622737 original size:167 final size:165
Alignment explanation
Indices: 77621979--77622800 Score: 774
Period size: 167 Copynumber: 4.9 Consensus size: 165
77621969 TTCGAAATTG
**
77621979 TTGTGTCAAATCTTTTGAATTTT-CAATCTT-CGTGCAGT-TTAATCTGATCTAAATCTGGGAAG
1 TTGTGTCAAATCTTTTGAATTTTACAAT-TTACGT--AGTCTT-ATCTGATCTAAATCTCAGAAG
* *
77622041 CGTCTGAGTTCGTTCGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTATAGATT
62 CGTCTGAGTTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATT
* *
77622106 GGATTTAGATTTCTCCTTTAAGTGTTGATCTGCTCAGAAAT
127 GGATTTAG-TTTCT-TTTTATGTGTTGATCTGCTCAGAAAT
* * * ** * *
77622147 TGGTGTGTCAAATCTTTTGAATTCTGA-ATTTTTCGCGTAGTGGTATCTGATCTGAATCTCTG-A
1 T--TGTGTCAAATCTTTTGAATT-TTACA-ATTT-ACGTAGTCTTATCTGATCTAAATCTCAGAA
* * * * *
77622210 TC-T-TGAGTTCATTGGTTTGCTTAGATTTTTAATTCTCGAATTGAATTTATGTTTGTTACAGAT
61 GCGTCTGAGTTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGAT
* * **
77622273 TGGATTTAGATTATTTTCTACATGTT-ACTCTGCTCAGAAATT
126 TGGATTTAGTTTCTTTT-TATGTGTTGA-TCTGCTCAGAAA-T
* * * *
77622315 GTTGTGTCAAATCATTTTGAATTATT-CGA-GTA-GT-GTC--ACCTGATCTAAATCTCGGAA--
1 -TTGTGTCAAATC-TTTTGAATT-TTACAATTTACGTAGTCTTATCTGATCTAAATCTCAGAAGC
* *
77622372 G--TGAGCTCGTTGGTTTGCTCAGATTTGTATTTTTCGAATTGAATTTATGTTTGTTACAGATTG
63 GTCTGAGTTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATTG
77622435 GATTTAGATTATCTTCTTT-TG-GTTGATCTGCTCAGAAAT
128 GATTTAG-TT-TCTT-TTTATGTGTTGATCTGCTCAGAAAT
** * * *
77622474 TGTCGTGTCAAATCTTTTGAATTTTGA-ATTATTCGCGTAGTGTCATCTGATCTAATTCTCAGAA
1 T-T-GTGTCAAATCTTTTGAATTTT-ACA--ATTTACGTAGTCTTATCTGATCTAAATCTCAGAA
* * * * * *
77622538 GCGTCGCGAGTTCCTTGGTTTGCTCGGATTTGTATTTCTCTATTTGAATTTATGTTTGTTACGGA
61 GCGTC-TGAGTTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGA
*
77622603 TTGGATTTAGCTTCTTTTTATGTGTTGATCTGCTCAGAAA-
125 TTGGATTTAGTTTCTTTTTATGTGTTGATCTGCTCAGAAAT
*
77622643 TTGTGTCAAATATTTTGAATTTTGGACAATTTACGTAGTCTTATCTGATC-AGAATCTCAGAAGC
1 TTGTGTCAAATCTTTTGAATTTT--ACAATTTACGTAGTCTTATCTGATCTA-AATCTCAGAAGC
* * * *
77622707 GACTTGAGCTCGTTGGTTTGCTCAGATTTGTATATCTCGAAATGAATTTATGTTTGTTACAGATT
63 GTC-TGAGTTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATT
* * *
77622772 GGACTTGGGTT-TTTTTATGTGTTGATCTG
127 GGATTTAGTTTCTTTTTATGTGTTGATCTG
77622801 GTCAATTCTG
Statistics
Matches: 538, Mismatches: 75, Indels: 84
0.77 0.11 0.12
Matches are distributed among these distances:
158 3 0.01
159 11 0.02
160 88 0.16
161 18 0.03
162 5 0.01
163 6 0.01
164 4 0.01
166 40 0.07
167 143 0.27
168 82 0.15
169 10 0.02
170 40 0.07
171 83 0.15
172 2 0.00
173 3 0.01
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.45
Consensus pattern (165 bp):
TTGTGTCAAATCTTTTGAATTTTACAATTTACGTAGTCTTATCTGATCTAAATCTCAGAAGCGTC
TGAGTTCGTTGGTTTGCTCAGATTTGTATTTCTCGAATTGAATTTATGTTTGTTACAGATTGGAT
TTAGTTTCTTTTTATGTGTTGATCTGCTCAGAAAT
Found at i:77624582 original size:12 final size:12
Alignment explanation
Indices: 77624565--77624589 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77624555 AGGTTTTGTG
77624565 GCTTTGGAGAAT
1 GCTTTGGAGAAT
77624577 GCTTTGGAGAAT
1 GCTTTGGAGAAT
77624589 G
1 G
77624590 GATTTGATAT
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:0.24, C:0.08, G:0.36, T:0.32
Consensus pattern (12 bp):
GCTTTGGAGAAT
Found at i:77625098 original size:11 final size:11
Alignment explanation
Indices: 77625079--77625123 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
77625069 AAATTTTAAA
*
77625079 ATTTAAATAAT
1 ATTTTAATAAT
*
77625090 ATTTTAATACT
1 ATTTTAATAAT
* *
77625101 TTTTTAAAAAT
1 ATTTTAATAAT
77625112 ATTTTAATAAT
1 ATTTTAATAAT
77625123 A
1 A
77625124 AATATTTAGC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (11 bp):
ATTTTAATAAT
Found at i:77631530 original size:46 final size:46
Alignment explanation
Indices: 77631479--77631569 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
77631469 ATATATATTT
77631479 ATATGTAGATATTGTTTTATTTTTAAACCTTACTTTTATGTTATGA
1 ATATGTAGATATTGTTTTATTTTTAAACCTTACTTTTATGTTATGA
77631525 ATATGTAGATATTGTTTTATTTTTAAACCTTACTTTTATGTTATG
1 ATATGTAGATATTGTTTTATTTTTAAACCTTACTTTTATGTTATG
77631570 TACTATAAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.55
Consensus pattern (46 bp):
ATATGTAGATATTGTTTTATTTTTAAACCTTACTTTTATGTTATGA
Found at i:77631606 original size:17 final size:17
Alignment explanation
Indices: 77631579--77631665 Score: 72
Period size: 17 Copynumber: 5.2 Consensus size: 17
77631569 GTACTATAAG
77631579 ATTATTTTATCATATATT
1 ATTA-TTTATCATATATT
*
77631597 ATTATTTATCGTATATT
1 ATTATTTATCATATATT
* * * *
77631614 ATTTTTTTTCACAAATT
1 ATTATTTATCATATATT
* *
77631631 ATT-TTTATTAT-TATC
1 ATTATTTATCATATATT
*
77631646 ATTATTT-TTATATATT
1 ATTATTTATCATATATT
77631662 ATTA
1 ATTA
77631666 ATATATTTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
15 9 0.16
16 15 0.27
17 27 0.49
18 4 0.07
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (17 bp):
ATTATTTATCATATATT
Found at i:77631811 original size:23 final size:23
Alignment explanation
Indices: 77631779--77631841 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
77631769 ATATATTCAA
*
77631779 ATTATATTTTATTATATAAAATTT
1 ATTAT-TTTTATTATATAAAACTT
* **
77631803 ATTATTTTTATTCTATATTACTT
1 ATTATTTTTATTATATAAAACTT
*
77631826 ATTATTATT-TTATATA
1 ATTATTTTTATTATATA
77631842 TGTTATGTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 6 0.18
23 22 0.67
24 5 0.15
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (23 bp):
ATTATTTTTATTATATAAAACTT
Found at i:77631895 original size:19 final size:19
Alignment explanation
Indices: 77631849--77631897 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
77631839 ATATGTTATG
*
77631849 TATATTATATATTATCCAT
1 TATATTATTTATTATCCAT
*
77631868 TATATTATTTATTATTCAT
1 TATATTATTTATTATCCAT
77631887 TATATTATTTA
1 TATATTATTTA
77631898 AAATTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (19 bp):
TATATTATTTATTATCCAT
Found at i:77632023 original size:17 final size:17
Alignment explanation
Indices: 77631973--77632026 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
77631963 ATTATTTATT
*
77631973 TATTATGTATTATTTTA
1 TATTATGTGTTATTTTA
* ** *
77631990 TTTTAAAATGATATTTTA
1 TATT-ATGTGTTATTTTA
77632008 TATTATGTGTTATTTTA
1 TATTATGTGTTATTTTA
77632025 TA
1 TA
77632027 AATTCTTTTA
Statistics
Matches: 27, Mismatches: 9, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.61
Consensus pattern (17 bp):
TATTATGTGTTATTTTA
Found at i:77635676 original size:15 final size:15
Alignment explanation
Indices: 77635640--77635689 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
77635630 CGATATCTTT
77635640 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
77635654 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
77635670 TTT-CATCAT-AT-CA
1 TTTGCATC-TCATGCA
77635683 TTTGCAT
1 TTTGCAT
77635690 TCAAAGTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 10 0.31
16 7 0.22
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.44
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:77640329 original size:124 final size:124
Alignment explanation
Indices: 77640109--77640359 Score: 493
Period size: 124 Copynumber: 2.0 Consensus size: 124
77640099 TGCCGTTTGG
*
77640109 ATTAAAGAACGCAGGGGCAACGTACCAAAGGGCCATGGTGAACTTGTTCCACGATATGATGCATA
1 ATTAAAGAACACAGGGGCAACGTACCAAAGGGCCATGGTGAACTTGTTCCACGATATGATGCATA
77640174 AGGATATTGAGGTATATGTTGATGATATGATTGCCAAGTCACGTACAGAAAAAGAACAT
66 AGGATATTGAGGTATATGTTGATGATATGATTGCCAAGTCACGTACAGAAAAAGAACAT
77640233 ATTAAAGAACACAGGGGCAACGTACCAAAGGGCCATGGTGAACTTGTTCCACGATATGATGCATA
1 ATTAAAGAACACAGGGGCAACGTACCAAAGGGCCATGGTGAACTTGTTCCACGATATGATGCATA
77640298 AGGATATTGAGGTATATGTTGATGATATGATTGCCAAGTCACGTACAGAAAAAGAACAT
66 AGGATATTGAGGTATATGTTGATGATATGATTGCCAAGTCACGTACAGAAAAAGAACAT
77640357 ATT
1 ATT
77640360 GAGGTTTTGA
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
124 126 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (124 bp):
ATTAAAGAACACAGGGGCAACGTACCAAAGGGCCATGGTGAACTTGTTCCACGATATGATGCATA
AGGATATTGAGGTATATGTTGATGATATGATTGCCAAGTCACGTACAGAAAAAGAACAT
Found at i:77644161 original size:210 final size:210
Alignment explanation
Indices: 77643799--77644565 Score: 987
Period size: 210 Copynumber: 3.7 Consensus size: 210
77643789 TCATTGAGGC
77643799 AGATCCAAGATGACAGATCTTATCTCTCTGTATTC-AGCGGGGAGCAGATCGAAGATATAGCTGA
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGA-CGGGGAGCAGATCGAAGATATAGCTGA
* * * *
77643863 TTTGGCTTTCACGTGTTTACAATGAAGCAAATCTAAGATTATTTGTCGCCTCTGTATTGTCAGAG
65 TTTGACTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
77643928 AACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCAG
130 AACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCAG
*
77643993 ATGTTTACACTGAAGT
195 ATGTTTACACTGAAGA
* * * *
77644009 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGATGGGGAGCAGATCAAAGACATGGCTGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAGATATAGCTGAT
* * *
77644074 TTGACCTTCACGTGTTTACGATAAAGTAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
66 TTGACTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
*
77644139 ACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACGTAGCAGATCTCACCTTCAGA
131 ACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCAGA
* *
77644204 TGTTTGCGCTGAAGA
196 TGTTTACACTGAAGA
* *
77644219 AGATCTAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTGAT
1 AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAGATATAGCTGAT
* * *
77644284 TT-AGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTTTTGTCTATGTATTGTCAGAG
66 TTGA-CTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
** * * * *
77644348 AACAAATCGAAGTCTGGCATTTCCACTTCAATGG-AGAGCAGATACACAACAGATCTGACCTTCA
130 AACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAG-GCAGACACATAGCAGATCTCACCTTCA
* * *
77644412 GACGATTAGACTGAAGCA
194 GATGTTTACACTGAAG-A
* ** * * ** * * *
77644430 AGAACCAAGATGATTTG-GC--ATC-CT-TGTGCTT--ACAAGGAACAAATCGAAGACATAGCTG
1 AGATCCAAGATGA-CAGATCTTATCTCTCTGT-ATTCGACGGGGAGCAGATCGAAGATATAGCTG
* * ** * * *
77644488 ATTGGACTTTCACATACTTACGATGAAGCAAATCTAAGATAATTTGGCATCTCTGTATTGTCAGA
64 ATTTGACTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
*
77644553 GAACGAATCGAAG
129 GAACAAATCGAAG
77644566 AGGCAGATTT
Statistics
Matches: 488, Mismatches: 62, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
206 86 0.18
207 4 0.01
208 4 0.01
209 6 0.01
210 373 0.76
211 14 0.03
212 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (210 bp):
AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAGATATAGCTGAT
TTGACTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGA
ACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCAGA
TGTTTACACTGAAGA
Found at i:77646259 original size:17 final size:17
Alignment explanation
Indices: 77646232--77646318 Score: 72
Period size: 17 Copynumber: 5.2 Consensus size: 17
77646222 GTACTAGAAG
77646232 ATTATTTTATCATATATT
1 ATTA-TTTATCATATATT
*
77646250 ATTATTTATCGTATATT
1 ATTATTTATCATATATT
* * * *
77646267 ATTTTTTTTCACAAATT
1 ATTATTTATCATATATT
* *
77646284 ATTA-TTATTAT-TATC
1 ATTATTTATCATATATT
*
77646299 ATTATTT-TTATATATT
1 ATTATTTATCATATATT
77646315 ATTA
1 ATTA
77646319 ATATATTTTT
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
15 10 0.19
16 13 0.24
17 27 0.50
18 4 0.07
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (17 bp):
ATTATTTATCATATATT
Found at i:77646465 original size:23 final size:24
Alignment explanation
Indices: 77646433--77646497 Score: 71
Period size: 26 Copynumber: 2.7 Consensus size: 24
77646423 ATATATTCAA
77646433 ATTATATTTTATTATATAACAT-TT
1 ATTAT-TTTTATTATATAACATATT
* *
77646457 ATTATTTTTATTCTATATTACTTATT
1 ATTATTTTTA-T-TATATAACATATT
77646483 ATTATTTTTA-TATAT
1 ATTATTTTTATTATAT
77646498 GTTATGTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
23 10 0.28
24 6 0.17
25 8 0.22
26 12 0.33
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTATTTTTATTATATAACATATT
Found at i:77646550 original size:19 final size:19
Alignment explanation
Indices: 77646452--77646552 Score: 85
Period size: 19 Copynumber: 5.7 Consensus size: 19
77646442 TATTATATAA
77646452 CATT-TATTATTT-TTATT
1 CATTATATTATTTATTATT
*
77646469 C--TATATTACTTATTATT
1 CATTATATTATTTATTATT
* *
77646486 -ATT-T-TTATATA-TGTT
1 CATTATATTATTTATTATT
* *
77646501 -ATGTATATTATATATTATC
1 CAT-TATATTATTTATTATT
77646520 CATTATATTATTTATTATT
1 CATTATATTATTTATTATT
77646539 CATTATATTATTTA
1 CATTATATTATTTA
77646553 AAATTTATAA
Statistics
Matches: 67, Mismatches: 8, Indels: 16
0.74 0.09 0.18
Matches are distributed among these distances:
15 6 0.09
16 13 0.19
17 8 0.12
18 8 0.12
19 30 0.45
20 2 0.03
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (19 bp):
CATTATATTATTTATTATT
Found at i:77646644 original size:19 final size:19
Alignment explanation
Indices: 77646616--77646679 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
77646606 TAAATTATCA
77646616 ATTA-TTTATTTATTATGT
1 ATTATTTTATTTATTATGT
**
77646634 ATTATTTTATTTTAAAATG-
1 ATTATTTTA-TTTATTATGT
*
77646653 A-TATTTT-TATATTATGT
1 ATTATTTTATTTATTATGT
*
77646670 GTTATTTTAT
1 ATTATTTTAT
77646680 AAATTCTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
16 6 0.17
18 16 0.46
19 6 0.17
20 7 0.20
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (19 bp):
ATTATTTTATTTATTATGT
Found at i:77653718 original size:40 final size:40
Alignment explanation
Indices: 77653642--77653718 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
77653632 AATTCTTTTT
* **
77653642 AAAAAATTTAAAATTAATGAGAATTTCCAATCATTTTTAA
1 AAAAAAATTAAAATTAATGAGAATTTCCAAAAATTTTTAA
77653682 AAAAAAATTAAAATTAATGAGAATTTCCAAAAATTTT
1 AAAAAAATTAAAATTAATGAGAATTTCCAAAAATTTT
77653719 ATAAGAACTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.35
Consensus pattern (40 bp):
AAAAAAATTAAAATTAATGAGAATTTCCAAAAATTTTTAA
Found at i:77655750 original size:15 final size:15
Alignment explanation
Indices: 77655718--77655767 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
77655708 TCTAAAAATA
*
77655718 AATTATACTATTTGT
1 AATTATACTATTTAT
77655733 AATT-TACTATTTAAT
1 AATTATACTATTT-AT
*
77655748 AATTATA-TATATTTT
1 AATTATACTAT-TTAT
77655763 AATTA
1 AATTA
77655768 AAATTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 8 0.27
15 18 0.60
16 4 0.13
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (15 bp):
AATTATACTATTTAT
Found at i:77676561 original size:35 final size:35
Alignment explanation
Indices: 77676515--77676584 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
77676505 GTGGAGAGAA
*
77676515 CTTTGACACTGTGTTAGCCGACCACGTGCCCCCAT
1 CTTTGACACTGTGTTAGCCAACCACGTGCCCCCAT
77676550 CTTTGACACTGTGTTAGCCAACCACGTGCCCCCAT
1 CTTTGACACTGTGTTAGCCAACCACGTGCCCCCAT
77676585 AAGACTTGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.19, C:0.37, G:0.19, T:0.26
Consensus pattern (35 bp):
CTTTGACACTGTGTTAGCCAACCACGTGCCCCCAT
Found at i:77677564 original size:30 final size:29
Alignment explanation
Indices: 77677530--77677593 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
77677520 TTAATAAAGG
*
77677530 TAAAATTGTACTTTGAA-CCTCTAAAAATTA
1 TAAAATT-TAATTT-AATCCTCTAAAAATTA
*
77677560 TAAAAATTTAATTTAATCCTTTAAAAATTA
1 T-AAAATTTAATTTAATCCTCTAAAAATTA
77677590 TAAA
1 TAAA
77677594 TATATAAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
29 5 0.17
30 19 0.63
31 6 0.20
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.39
Consensus pattern (29 bp):
TAAAATTTAATTTAATCCTCTAAAAATTA
Found at i:77680201 original size:89 final size:89
Alignment explanation
Indices: 77680050--77680223 Score: 321
Period size: 89 Copynumber: 2.0 Consensus size: 89
77680040 GAAAGTTTAC
77680050 TAATGGAAAGTAAATGAATCGAGGATTAACCAGTCTTATAAGCAACGATGTATCATTAATATAAT
1 TAATGGAAAGTAAATGAATCGAGGATTAACCAGTCTTATAAGCAACGATGTATCATTAATATAAT
77680115 GATTTCAATATCAACACAAATTAT
66 GATTTCAATATCAACACAAATTAT
* * *
77680139 TAATGGAAAGTAAATGAATCTAGGATTAACTAGTCTTATAGGCAACGATGTATCATTAATATAAT
1 TAATGGAAAGTAAATGAATCGAGGATTAACCAGTCTTATAAGCAACGATGTATCATTAATATAAT
77680204 GATTTCAATATCAACACAAA
66 GATTTCAATATCAACACAAA
77680224 CTTTAGTTGA
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 82 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (89 bp):
TAATGGAAAGTAAATGAATCGAGGATTAACCAGTCTTATAAGCAACGATGTATCATTAATATAAT
GATTTCAATATCAACACAAATTAT
Found at i:77683342 original size:47 final size:48
Alignment explanation
Indices: 77683255--77683377 Score: 137
Period size: 47 Copynumber: 2.6 Consensus size: 48
77683245 TAAGGTGCCG
* * * * * *
77683255 ATGCCTTGTCCCAGACACGGTCTTAAACTGGCTCATATCTCA-AGTCA
1 ATGCCATGTCCCAGACATGGTCTTACATTGACTCATATCTCATAGCCA
77683302 ATGCCATGTCCCAGACATGGTCTTACATTGACT-ATCATCTCATAGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATTGACTCAT-ATCTCATAGCCA
* *
77683350 ATG-CATGTGCTAGACAT-GTCTTACATTG
1 ATGCCATGTCCCAGACATGGTCTTACATTG
77683378 GCTTACGTCT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 13 0.20
47 46 0.70
48 7 0.11
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATTGACTCATATCTCATAGCCA
Found at i:77691119 original size:3 final size:3
Alignment explanation
Indices: 77691113--77691201 Score: 65
Period size: 3 Copynumber: 28.7 Consensus size: 3
77691103 TACATTGTTG
* * *
77691113 TTA TTA TTA TTA TTA TTCC TGA TT- TTA TTA TTA TTCA CGTA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TT-A -TTA TTA TTA
* **
77691160 TCA TCC TTCA TT- TTCA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TT-A TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TT
77691202 TTAAACATAT
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
2 4 0.06
3 57 0.83
4 7 0.10
5 1 0.01
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:77701048 original size:79 final size:79
Alignment explanation
Indices: 77700913--77701060 Score: 199
Period size: 79 Copynumber: 1.9 Consensus size: 79
77700903 ATGTATTAAG
* * *
77700913 ATATGCAATCCATGAATATATAAGCTGACTTTATGCTCTTTTGTAACCTTACATTAAGGATAATT
1 ATATGCAATCCAAGAAGATATAAGCTGACTTTAAGCTCTTTTGTAACCTTACATTAAGGATAATT
77700978 GATTATATATTGAT
66 GATTATATATTGAT
* * * ** *
77700992 ATATGCAATCCAAGAAGATATGAGTTGATTTTACAG-TCTTTTGTATTCTTATATTAAGGATAAT
1 ATATGCAATCCAAGAAGATATAAGCTGACTTTA-AGCTCTTTTGTAACCTTACATTAAGGATAAT
77701056 TGATT
65 TGATT
77701061 TGATTAGATT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
79 58 0.98
80 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (79 bp):
ATATGCAATCCAAGAAGATATAAGCTGACTTTAAGCTCTTTTGTAACCTTACATTAAGGATAATT
GATTATATATTGAT
Found at i:77704422 original size:12 final size:13
Alignment explanation
Indices: 77704384--77704426 Score: 52
Period size: 12 Copynumber: 3.2 Consensus size: 13
77704374 CTGAAATTGC
77704384 AATAATAAATAAAT
1 AATAATAAAT-AAT
77704398 AAATAAGTAAATAAT
1 -AATAA-TAAATAAT
77704413 AATAAT-AATAAT
1 AATAATAAATAAT
77704425 AA
1 AA
77704427 ATTTCATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.30
13 1 0.04
14 5 0.19
15 8 0.30
16 5 0.19
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (13 bp):
AATAATAAATAAT
Found at i:77704453 original size:65 final size:65
Alignment explanation
Indices: 77704330--77704453 Score: 171
Period size: 65 Copynumber: 1.9 Consensus size: 65
77704320 GTAAGACAAT
* *
77704330 AATAAATAAGTAAATAATAGTAAAATAAAAAAATGCATGAAAGGCTGAAATTGCAATAATAAATA
1 AATAAATAAGTAAATAATAATAAAATAAAAAAATGCATGAAAGGCTGAAATTGAAATAATAAATA
* * *
77704395 AATAAATAAGTAAATAATAATAATAATAATAAATTTCATGAAAGGCT-AAGATT-AAATAA
1 AATAAATAAGTAAATAATAATAA-AATAAAAAAATGCATGAAAGGCTGAA-ATTGAAATAA
77704454 ATAAGGGACT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
65 29 0.56
66 23 0.44
ACGTcount: A:0.60, C:0.04, G:0.10, T:0.26
Consensus pattern (65 bp):
AATAAATAAGTAAATAATAATAAAATAAAAAAATGCATGAAAGGCTGAAATTGAAATAATAAATA
Found at i:77707296 original size:44 final size:45
Alignment explanation
Indices: 77707236--77707882 Score: 237
Period size: 45 Copynumber: 13.8 Consensus size: 45
77707226 TCGTATATTC
* * *
77707236 AATCTGCTCCATTGCAACTTCAGAGAGATAAGGTTTG-TGGCTTT
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTGGCTTT
* * * * * **
77707280 AATCTACTTTACTGCAACTTTAGAGAGATAAAAGTTGCT-ATTTT
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTGGCTTT
*
77707324 CAATCTGCTCAACTGCAACTTCA-AGAAGATAAGATTTGC-GGCTTT
1 -AATCTGCTCTACTGCAACTTCAGAG-AGATAAGATTTGCTGGCTTT
* * * ** *
77707369 AATCTGCTCTACTGCAGCTTCAAAAAGATAAGATTTGCTATCTTC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTGGCTTT
* * * * *
77707414 AATCTTCTCCACTGCAACTTCAGGGAGATAAGATTCATAACTCATAGCTTT
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATT--T---GC-TGGCTTT
* * * * * * *
77707465 AATTTGTTCCACTACAACCTCAAAGAGATAAGATTTATAACTTGTAGCTTT
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TT-T-GC-TG--GCTTT
* * * * * ** ** *
77707516 AATCTGTTCCACTGCAACTTTAGGGAAATAAGATTCACTATCTTC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTGGCTTT
* * *
77707561 AATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAACTTGTAGCTTT
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTG---C-TG--GCTTT
** * * * ** * *
77707612 AATCTATTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCCTC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTGGCTTT
* *
77707657 AATCTGCTCTACTGCAACTTCA-AGGAGATAAGATTTATAACTTGTAGCTCT
1 AATCTGCTCTACTGCAACTTCAGA-GAGATAAGA-TT-T-GC-TG--GCTTT
* * * * * * * * ** *
77707708 AATCTGTTCCACTGTAACTTTAGGGAAATAATATTCGCTATCTTC
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTGGCTTT
* * * *
77707753 AATCTACT-TCACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAACTTT
1 AATCTGCTCT-ACTGCAACTTCAGAGAGATAAGA-TT-T-GC-TG--GCTTT
* * * * * * **
77707804 AATCTGTTCCACTGCAACTTTAGGGAAATAAGATTTAC-AACTTT
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTGGCTTT
* *
77707848 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATT
77707883 GGTCATGATG
Statistics
Matches: 449, Mismatches: 117, Indels: 74
0.70 0.18 0.12
Matches are distributed among these distances:
44 104 0.23
45 156 0.35
46 4 0.01
47 5 0.01
48 9 0.02
49 6 0.01
50 7 0.02
51 156 0.35
52 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (45 bp):
AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTGGCTTT
Found at i:77707384 original size:89 final size:89
Alignment explanation
Indices: 77707233--77707448 Score: 272
Period size: 89 Copynumber: 2.4 Consensus size: 89
77707223 GACTCGTATA
* * * *
77707233 TTCAATCTGCTCCATTGCAACTTC-AGAGAGATAAGGTTTGTGGCTTTAATCTACTTTACTGCAA
1 TTCAATCTGCTCCACTGCAACTTCAAGA-AGATAAGATTTGCGGCTTTAATCTACTCTACTGCAA
* * * *
77707297 CTTTAGAGAGATAAAAGTTGCTATT
65 CTTCAAAAAGATAAAAGTTGCTATC
* * *
77707322 TTCAATCTGCTCAACTGCAACTTCAAGAAGATAAGATTTGCGGCTTTAATCTGCTCTACTGCAGC
1 TTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTTGCGGCTTTAATCTACTCTACTGCAAC
* *
77707387 TTCAAAAAGATAAGATTTGCTATC
66 TTCAAAAAGATAAAAGTTGCTATC
* * *
77707411 TTCAATCTTCTCCACTGCAACTTCAGGGAGATAAGATT
1 TTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATT
77707449 CATAACTCAT
Statistics
Matches: 109, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
89 106 0.97
90 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (89 bp):
TTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTTGCGGCTTTAATCTACTCTACTGCAAC
TTCAAAAAGATAAAAGTTGCTATC
Found at i:77707547 original size:51 final size:51
Alignment explanation
Indices: 77707421--77707882 Score: 375
Period size: 51 Copynumber: 9.5 Consensus size: 51
77707411 TTCAATCTTC
* ** *
77707421 TCCACTGCAACTTCAGGGAGATAAGATTCATAACTCATAGCTTTAATTTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGT
* * **
77707472 TCCACTACAACCTCAAAGAGATAAGATTTATAACTTGTAGCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGT
* * * * * *
77707523 TCCACTGCAACTTTAGGGAAATAAGA--T-TCAC---TATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGT
* * *
77707568 TCCACTGCAACTTCAGGGAGATAAGGTTTGTAACTTGTAGCTTTAATCTAT
1 TCCACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGT
* * * * * *
77707619 TCCACTGCAACTTCAGGGAAATAAGA-TT-T-GC---TATCCTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGT
* * *
77707664 TCTACTGCAACTTCAAGGAGATAAGATTTATAACTTGTAGCTCTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGT
* * * * * * *
77707715 TCCACTGTAACTTTAGGGAAAT-A-A--TAT---TCGCTATCTTCAATCTACT
1 TCCACTGCAACTTCAGGGAGATAAGATTTATAACTTG-TAGCTTTAATCT-GT
*
77707761 T-CACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAACTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGT
* * * *
77707811 TCCACTGCAACTTTAGGGAAATAAGA-TT-T-AC----AACTTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGT
77707855 TCCACTGCAACTTCAGGGAGATAAGATT
1 TCCACTGCAACTTCAGGGAGATAAGATT
77707883 GGTCATGATG
Statistics
Matches: 323, Mismatches: 65, Indels: 52
0.73 0.15 0.12
Matches are distributed among these distances:
44 38 0.12
45 93 0.29
46 5 0.02
47 6 0.02
48 10 0.03
49 7 0.02
50 7 0.02
51 155 0.48
52 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (51 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTATAACTTGTAGCTTTAATCTGT
Done.