Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 325 of 444
Found at i:93744837 original size:33 final size:33
Alignment explanation
Indices: 93744795--93744880 Score: 154
Period size: 33 Copynumber: 2.6 Consensus size: 33
93744785 AGACAAAAAG
93744795 CGCTTTTGAGATAAAAAGTATTCCTAAATAAGA
1 CGCTTTTGAGATAAAAAGTATTCCTAAATAAGA
93744828 CGCTTTTGAGATAAAAAGTATTCCTAAATAAGA
1 CGCTTTTGAGATAAAAAGTATTCCTAAATAAGA
*
93744861 CGCTTTTGAGAGAAAGAAGT
1 CGCTTTTGAGATAAA-AAGT
93744881 GTTTTTCAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 47 0.92
34 4 0.08
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.29
Consensus pattern (33 bp):
CGCTTTTGAGATAAAAAGTATTCCTAAATAAGA
Found at i:93747397 original size:24 final size:25
Alignment explanation
Indices: 93747370--93747420 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
93747360 AGCATTATAT
*
93747370 AAAAAGTTAAAATAGAT-AAT-AATA
1 AAAAAG-TAAAATAAATAAATAAATA
*
93747394 AAAATGTAAAATAAATAAATAAATA
1 AAAAAGTAAAATAAATAAATAAATA
93747419 AA
1 AA
93747421 TAGAATGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 9 0.39
24 8 0.35
25 6 0.26
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (25 bp):
AAAAAGTAAAATAAATAAATAAATA
Found at i:93747421 original size:23 final size:23
Alignment explanation
Indices: 93747306--93747420 Score: 65
Period size: 24 Copynumber: 4.7 Consensus size: 23
93747296 AAAAAGTTTG
*
93747306 AAATACATAATATATGAAAATAT-TA
1 AAATAAATAATA-AT-AAAA-ATGTA
* * * *
93747331 AAGTAAATAATGTATAAAAATTTG
1 AAATAAATAAT-AATAAAAATGTA
*
93747355 AAATAAGCATTAT-ATAAAAA-GTTA
1 AAATAA--ATAATAATAAAAATG-TA
*
93747379 AAATAGATAATAATAAAAATGTA
1 AAATAAATAATAATAAAAATGTA
93747402 AAATAAATAAATAAATAAA
1 AAATAAAT-AAT-AATAAA
93747421 TAGAATGTTA
Statistics
Matches: 70, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
22 4 0.06
23 18 0.26
24 27 0.39
25 17 0.24
26 4 0.06
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.29
Consensus pattern (23 bp):
AAATAAATAATAATAAAAATGTA
Found at i:93747528 original size:29 final size:28
Alignment explanation
Indices: 93747487--93747558 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 28
93747477 ATGTTAGTAT
93747487 ATAAATAGA-AATA-AAAATATAATAAATAG
1 ATAAATA-ATAATAGAAAA-AT-ATAAATAG
*
93747516 A-AATATAATAATAGTAGAAATATAAATAG
1 ATAA-ATAATAATAG-AAAAATATAAATAG
93747545 ATAAATAATAATAG
1 ATAAATAATAATAG
93747559 CATTAGAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
28 3 0.08
29 27 0.73
30 4 0.11
31 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.26
Consensus pattern (28 bp):
ATAAATAATAATAGAAAAATATAAATAG
Found at i:93747535 original size:17 final size:15
Alignment explanation
Indices: 93747495--93747540 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
93747485 ATATAAATAG
*
93747495 AAATAAAAATATAAT
1 AAATAGAAATATAAT
93747510 AAATAGAAATATAAT
1 AAATAGAAATATAAT
93747525 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
93747541 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:93748146 original size:12 final size:11
Alignment explanation
Indices: 93748116--93748149 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
93748106 CTAATTTAAT
93748116 AATAAAAT-AA
1 AATAAAATCAA
93748126 AATAAAATCAA
1 AATAAAATCAA
93748137 AATCAAAATCAA
1 AAT-AAAATCAA
93748149 A
1 A
93748150 TCTTCCTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.36
11 5 0.23
12 9 0.41
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.18
Consensus pattern (11 bp):
AATAAAATCAA
Found at i:93753069 original size:30 final size:29
Alignment explanation
Indices: 93753033--93753093 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
93753023 GAACGGAAGT
93753033 TTTAGCACTAAGTGTGCGATTTAAACTAGC
1 TTTAGCACTAAGTGTGCGATTT-AACTAGC
93753063 TTTAGCACTAAGTGTGCGATTTAACTAGC
1 TTTAGCACTAAGTGTGCGATTTAACTAGC
93753092 TT
1 TT
93753094 CGGCTACTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (29 bp):
TTTAGCACTAAGTGTGCGATTTAACTAGC
Found at i:93760695 original size:2 final size:2
Alignment explanation
Indices: 93760688--93760721 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
93760678 ATCTACATGA
93760688 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93760722 TAGTCATCTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93777491 original size:22 final size:22
Alignment explanation
Indices: 93777466--93777514 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
93777456 TTTTTTGTTG
*
93777466 TTTT-CTACCTATTTTGCTACCA
1 TTTTACTA-CTATGTTGCTACCA
* *
93777488 TTTTACTATTATGTTGCTACTA
1 TTTTACTACTATGTTGCTACCA
93777510 TTTTA
1 TTTTA
93777515 TTGTTATTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.20, C:0.18, G:0.06, T:0.55
Consensus pattern (22 bp):
TTTTACTACTATGTTGCTACCA
Found at i:93777585 original size:30 final size:30
Alignment explanation
Indices: 93777551--93777613 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
93777541 ACTTATTTTA
*
93777551 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTAGTTTAAAGACAT
*
93777581 TTGTTAATTTTGTTATTAGTTTAGAGACAT
1 TTGTTAATTTTGTTATTAGTTTAAAGACAT
93777611 TTG
1 TTG
93777614 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTAGTTTAAAGACAT
Found at i:93777718 original size:18 final size:18
Alignment explanation
Indices: 93777695--93777734 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
93777685 GAAATATTTA
*
93777695 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
93777713 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
93777731 TTTT
1 TTTT
93777735 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:93777766 original size:12 final size:12
Alignment explanation
Indices: 93777736--93777768 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
93777726 TATATTTTTT
93777736 AAAATT-ATATA
1 AAAATTAATATA
93777747 AAAA-TAATATA
1 AAAATTAATATA
93777758 AAAATTAATAT
1 AAAATTAATAT
93777769 GGGTGGCAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:93784417 original size:15 final size:15
Alignment explanation
Indices: 93784380--93784421 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
93784370 TTAGACTTTT
93784380 TTAAAATTTATAAAAA
1 TTAAAA-TTATAAAAA
*
93784396 TTTAAATTAGTAAAAA
1 TTAAAATTA-TAAAAA
93784412 -TAAAATTATA
1 TTAAAATTATA
93784422 CTTTAACCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 2 0.09
15 10 0.43
16 11 0.48
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
TTAAAATTATAAAAA
Found at i:93786117 original size:16 final size:15
Alignment explanation
Indices: 93786098--93786147 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 15
93786088 GACTTATATT
93786098 GATTGATAATTATAAA
1 GATT-ATAATTATAAA
*
93786114 GATTAT-ATGATAAA
1 GATTATAATTATAAA
*
93786128 -A-AATAATTATAAA
1 GATTATAATTATAAA
93786141 GATTATA
1 GATTATA
93786148 TATCCAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
12 2 0.07
13 8 0.30
14 8 0.30
15 5 0.19
16 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (15 bp):
GATTATAATTATAAA
Found at i:93786653 original size:15 final size:15
Alignment explanation
Indices: 93786632--93786672 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
93786622 TTTTTTCTAA
93786632 TTTGATTTCTAATTTG
1 TTTGATTT-TAATTTG
93786648 -TTGA--TTAATTTG
1 TTTGATTTTAATTTG
93786660 TTTGATTTTAATT
1 TTTGATTTTAATT
93786673 ATTATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
12 7 0.32
13 5 0.23
15 10 0.45
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.63
Consensus pattern (15 bp):
TTTGATTTTAATTTG
Found at i:93787438 original size:24 final size:26
Alignment explanation
Indices: 93787388--93787445 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
93787378 CAACTCTTAA
* *
93787388 ATATTATATTTTAGTCATAAAATCAT
1 ATATTATATTTTACTCACAAAATCAT
*
93787414 ATATTATA-TTTACTCACCAAA-CAT
1 ATATTATATTTTACTCACAAAATCAT
*
93787438 ATAGTATA
1 ATATTATA
93787446 GTATATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 10 0.36
25 10 0.36
26 8 0.29
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.41
Consensus pattern (26 bp):
ATATTATATTTTACTCACAAAATCAT
Found at i:93788830 original size:2 final size:2
Alignment explanation
Indices: 93788823--93788855 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
93788813 ATTTGAACTT
93788823 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
93788856 TTCAATTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93790777 original size:14 final size:14
Alignment explanation
Indices: 93790758--93790784 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
93790748 AGATTTAAAA
93790758 ATTAAAAATAAATT
1 ATTAAAAATAAATT
93790772 ATTAAAAATAAAT
1 ATTAAAAATAAAT
93790785 ATAACACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATTAAAAATAAATT
Found at i:93794093 original size:46 final size:46
Alignment explanation
Indices: 93794040--93794256 Score: 242
Period size: 46 Copynumber: 4.6 Consensus size: 46
93794030 ATTGTTGGTT
*
93794040 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGAGAGCC
* * *
93794086 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGAGAGCC
* * *
93794134 AGTGTAAGACATGTCTGAGACATGCATCGGCCTCGAGAAGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATG-AGAGCC
* * * *
93794180 AGTGTAAGACATGTCTGGGACATACATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGCC
*
93794226 AGTGTAAGACCATGTCTCGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
93794257 ACATCGGCAT
Statistics
Matches: 145, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
45 1 0.01
46 71 0.49
47 44 0.30
48 28 0.19
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGCC
Found at i:93794255 original size:94 final size:93
Alignment explanation
Indices: 93794039--93794256 Score: 250
Period size: 94 Copynumber: 2.3 Consensus size: 93
93794029 TATTGTTGGT
**
93794039 TAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTG
1 TAGTGTAAGACATGTCT-GGACATGCATCGGCCACAGAATGAGAGCCAGTGTAAGACCATGTCTG
* *
93794104 GGACATGGCATCGGCATTGAGACGAGAGC
65 GGACATGACATCGGCATCGAGACGAGAGC
*
93794133 TAGTGTAAGACATGTCTGAGACATGCATCGGCCTCGAGAA-GTA-AGCCAGTGTAAGA-CATGTC
1 TAGTGTAAGACATGTCTG-GACATGCATCGGCCAC-AGAATG-AGAGCCAGTGTAAGACCATGTC
* *
93794195 TGGGACAT-ACATCGGC-TACGAGATGATAG-
63 TGGGACATGACATCGGCAT-CGAGACGAGAGC
93794224 TCAGTGTAAGACCATGTCTCGGACATGGCATCG
1 T-AGTGTAAGA-CATGTCT-GGACAT-GCATCG
93794257 ACATCGGCAT
Statistics
Matches: 109, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
91 2 0.02
92 24 0.22
93 27 0.25
94 53 0.49
95 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (93 bp):
TAGTGTAAGACATGTCTGGACATGCATCGGCCACAGAATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGACATCGGCATCGAGACGAGAGC
Found at i:93804188 original size:7 final size:7
Alignment explanation
Indices: 93804176--93804238 Score: 108
Period size: 7 Copynumber: 9.0 Consensus size: 7
93804166 ACCAAATGGT
93804176 CCCTAAA
1 CCCTAAA
93804183 CCCTAAA
1 CCCTAAA
93804190 CCCTAAA
1 CCCTAAA
93804197 CCCTAAA
1 CCCTAAA
93804204 CCCTAAA
1 CCCTAAA
*
93804211 ACCTAAA
1 CCCTAAA
*
93804218 CTCTAAA
1 CCCTAAA
93804225 CCCTAAA
1 CCCTAAA
93804232 CCCTAAA
1 CCCTAAA
93804239 AAAGAGTTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (7 bp):
CCCTAAA
Found at i:93806920 original size:21 final size:21
Alignment explanation
Indices: 93806896--93806935 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
93806886 ACTTAAACCA
93806896 AAATTTCA-TAATTTTAACATG
1 AAATTTCACT-ATTTTAACATG
*
93806917 AAATTTTACTATTTTAACA
1 AAATTTCACTATTTTAACA
93806936 AATAAATCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (21 bp):
AAATTTCACTATTTTAACATG
Found at i:93810954 original size:19 final size:18
Alignment explanation
Indices: 93810927--93810972 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
93810917 GAAACCTGAA
* *
93810927 TTCTCTCTTTTTCTTTTCT
1 TTCTTTCTTTTTC-CTTCT
93810946 TTCTTTCTTTTTCCTTCT
1 TTCTTTCTTTTTCCTTCT
93810964 TTCCTTTCT
1 TT-CTTTCT
93810973 CTGTTTCGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (18 bp):
TTCTTTCTTTTTCCTTCT
Found at i:93811204 original size:20 final size:22
Alignment explanation
Indices: 93811169--93811208 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
93811159 TTTATTTTAC
93811169 ATAATATAATATAATATATTTT
1 ATAATATAATATAATATATTTT
93811191 ATAAT-TAA-ATAATATATT
1 ATAATATAATATAATATATT
93811209 AATATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAATATAATATAATATATTTT
Found at i:93811227 original size:28 final size:30
Alignment explanation
Indices: 93811169--93811227 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 30
93811159 TTTATTTTAC
* *
93811169 ATAATATAATATAATATATTTTATAATTAA
1 ATAATATAATATAATATATTTTAAAAATAA
93811199 ATAATAT-AT-TAATATA-TTTAAAACATAA
1 ATAATATAATATAATATATTTTAAAA-ATAA
93811227 A
1 A
93811228 AATCTAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 6 0.23
28 11 0.42
29 2 0.08
30 7 0.27
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (30 bp):
ATAATATAATATAATATATTTTAAAAATAA
Found at i:93817324 original size:27 final size:26
Alignment explanation
Indices: 93817276--93817407 Score: 149
Period size: 27 Copynumber: 4.9 Consensus size: 26
93817266 GCGAGGCTGC
* *
93817276 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
*
93817302 ACAGATATTGTGGCAGAGACACCAGAT
1 -CAGATATTGTGGCAGAGCCACCAGAT
* * *
93817329 CAGATAATCGTGGCATAGCCACCAGAA
1 CAGAT-ATTGTGGCAGAGCCACCAGAT
93817356 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
93817383 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
93817408 GACGCTTCCT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
26 7 0.08
27 81 0.89
28 3 0.03
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:93817370 original size:54 final size:54
Alignment explanation
Indices: 93817294--93817407 Score: 194
Period size: 54 Copynumber: 2.1 Consensus size: 54
93817284 GTGACGAAGT
93817294 CACCAGATACAGATATTGTGGCAGAGACACCAGATCAGATAATCGTGGCATAGC
1 CACCAGATACAGATATTGTGGCAGAGACACCAGATCAGATAATCGTGGCATAGC
* *
93817348 CACCAGA-ACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGC
1 CACCAGATACAGATAT-TGTGGCAGAGACACCAGATCAGATAATCGTGGCATAGC
93817402 CACCAG
1 CACCAG
93817408 GACGCTTCCT
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
53 8 0.14
54 49 0.86
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATACAGATATTGTGGCAGAGACACCAGATCAGATAATCGTGGCATAGC
Found at i:93819029 original size:26 final size:26
Alignment explanation
Indices: 93818998--93819105 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
93818988 TGAAATGCCC
*
93818998 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
93819024 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
93819050 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
93819076 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93819102 ATCA
1 ATCA
93819106 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:93824388 original size:27 final size:27
Alignment explanation
Indices: 93824340--93824498 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
93824330 GCGAGGTTGC
* * *
93824340 CAGATATTGTGAC-GAAGTCACCAAATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
93824367 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
93824393 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
93824420 CAGATAATCGTGGTATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
93824447 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
93824474 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
93824499 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 16
0.81 0.07 0.11
Matches are distributed among these distances:
26 10 0.09
27 99 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:93824443 original size:54 final size:54
Alignment explanation
Indices: 93824358--93824498 Score: 221
Period size: 54 Copynumber: 2.6 Consensus size: 54
93824348 GTGACGAAGT
* * *
93824358 CACCAAATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
93824412 CACCAGATCAGATAATCGTGGTATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
93824466 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATCGTGGCATAGCCACCAG
93824499 GACGCTTCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 75 0.94
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:93824912 original size:16 final size:15
Alignment explanation
Indices: 93824891--93824920 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
93824881 AAAATACCGA
93824891 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
93824907 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
93824921 CCAATCTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:93826126 original size:26 final size:26
Alignment explanation
Indices: 93826095--93826202 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
93826085 TGAAATGCCC
* *
93826095 ATCATGGAATATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
93826121 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
93826147 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
93826173 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93826199 ATCA
1 ATCA
93826203 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:93826152 original size:52 final size:52
Alignment explanation
Indices: 93826095--93826202 Score: 207
Period size: 52 Copynumber: 2.1 Consensus size: 52
93826085 TGAAATGCCC
93826095 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
*
93826147 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
93826199 ATCA
1 ATCA
93826203 ATTTGTACCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:93839999 original size:16 final size:17
Alignment explanation
Indices: 93839978--93840015 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
93839968 TTTAGGGTTT
93839978 AAGAAAAGGAA-AAAAA-
1 AAGAAAA-GAAGAAAAAG
93839994 AAGAAAAGAAGAAAAAG
1 AAGAAAAGAAGAAAAAG
93840011 AAGAA
1 AAGAA
93840016 GAATAGGAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 3 0.15
16 12 0.60
17 5 0.25
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAGAAAAGAAGAAAAAG
Found at i:93840744 original size:3 final size:3
Alignment explanation
Indices: 93840732--93840798 Score: 125
Period size: 3 Copynumber: 22.3 Consensus size: 3
93840722 TTACATTTTT
*
93840732 TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
93840780 TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC T
93840799 CTATTATTAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:93842610 original size:10 final size:10
Alignment explanation
Indices: 93842595--93842644 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
93842585 AAATTTTAGG
*
93842595 ATTTATTTTT
1 ATTTATCTTT
93842605 ATTTATCTTT
1 ATTTATCTTT
93842615 ATTTATCTTT
1 ATTTATCTTT
*
93842625 AATTAT-TTGT
1 ATTTATCTT-T
93842635 ATTTATCTTT
1 ATTTATCTTT
93842645 GGGAATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:93843450 original size:38 final size:39
Alignment explanation
Indices: 93843372--93843453 Score: 125
Period size: 39 Copynumber: 2.2 Consensus size: 39
93843362 ATTTTTGAAA
93843372 TTCCA-ATCAAAACTTTTAATTCTGTTTTTATTTTATTT
1 TTCCAGATCAAAACTTTTAATTCTGTTTTTATTTTATTT
*
93843410 TTCCAGATCAAAACTTTTAATTTTGTTTTT-TTTT-TCTT
1 TTCCAGATCAAAACTTTTAATTCTGTTTTTATTTTAT-TT
93843448 TTCCAG
1 TTCCAG
93843454 GTACGCAAGT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
37 1 0.02
38 17 0.41
39 23 0.56
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (39 bp):
TTCCAGATCAAAACTTTTAATTCTGTTTTTATTTTATTT
Found at i:93852405 original size:28 final size:28
Alignment explanation
Indices: 93852372--93852425 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
93852362 TATTTTAAAC
93852372 TTATTCAACTAAAACATATTTACACAAT
1 TTATTCAACTAAAACATATTTACACAAT
* *
93852400 TTATTCAACTAATATATATTTACACA
1 TTATTCAACTAAAACATATTTACACA
93852426 CATACAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (28 bp):
TTATTCAACTAAAACATATTTACACAAT
Found at i:93852654 original size:20 final size:22
Alignment explanation
Indices: 93852615--93852654 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
93852605 GCACTATTAA
93852615 ACAGAGAGCACTAAAGTGTGAT
1 ACAGAGAGCACTAAAGTGTGAT
93852637 ACAGAGAGCAC-AAA-TGTG
1 ACAGAGAGCACTAAAGTGTG
93852655 CTAATAATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 3 0.17
22 11 0.61
ACGTcount: A:0.42, C:0.15, G:0.28, T:0.15
Consensus pattern (22 bp):
ACAGAGAGCACTAAAGTGTGAT
Found at i:93856223 original size:18 final size:18
Alignment explanation
Indices: 93856185--93856225 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
93856175 TTAGCAATAC
* *
93856185 TTTTATCTCAAAAGTATT
1 TTTTATCGCAAAAGTACT
*
93856203 TTTTATCGCAAAAGTGCT
1 TTTTATCGCAAAAGTACT
93856221 TTTTA
1 TTTTA
93856226 AAAACAATGT
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:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (18 bp):
TTTTATCGCAAAAGTACT
Found at i:93857817 original size:11 final size:11
Alignment explanation
Indices: 93857801--93857831 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
93857791 TGGGTCGGGC
93857801 CGGGCCGGGTT
1 CGGGCCGGGTT
93857812 CGGGCCGGGTT
1 CGGGCCGGGTT
*
93857823 AGGGCCGGG
1 CGGGCCGGG
93857832 CCCATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.03, C:0.26, G:0.58, T:0.13
Consensus pattern (11 bp):
CGGGCCGGGTT
Found at i:93858034 original size:19 final size:20
Alignment explanation
Indices: 93857997--93858035 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
93857987 TCAAATACAT
93857997 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
93858017 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
93858036 AAAATGGGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:93858271 original size:17 final size:17
Alignment explanation
Indices: 93858226--93858273 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
93858216 TACTAAAGTT
*
93858226 ATTTAAAATTAAAAATA
1 ATTTAATATTAAAAATA
*** *
93858243 AAAAAATTTTAAAAATA
1 ATTTAATATTAAAAATA
93858260 ATTTAATATTAAAA
1 ATTTAATATTAAAA
93858274 TCGGGCCGGG
Statistics
Matches: 22, Mismatches: 9, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTAATATTAAAAATA
Found at i:93858708 original size:45 final size:44
Alignment explanation
Indices: 93858611--93858774 Score: 167
Period size: 45 Copynumber: 3.7 Consensus size: 44
93858601 TCCCCAAAAG
* * *
93858611 ATGTCATATTATCTTTCAACTAT--TGTTTTTCATTTTCGATT-TA
1 ATGTCATAGTATCTTTCAACTATGGTCTTTTTTATTTT--ATTATA
93858654 ATG-CTATAGTATCTTTCAACTATGGTCTTTTTTATTATTATTATA
1 ATGTC-ATAGTATCTTTCAACTATGGTCTTTTTTATT-TTATTATA
* * *
93858699 ATGTCATAGTATCTTTCAACTATGGACTTTTTCT-TTTCGAATATA
1 ATGTCATAGTATCTTTCAACTATGGTCTTTTT-TATTT-TATTATA
* *
93858744 ATGCCATAGTATCTTTCAACTATGATCTTTT
1 ATGTCATAGTATCTTTCAACTATGGTCTTTT
93858775 CCTTTTGGTT
Statistics
Matches: 104, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
42 1 0.01
43 20 0.19
44 4 0.04
45 75 0.72
46 4 0.04
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.51
Consensus pattern (44 bp):
ATGTCATAGTATCTTTCAACTATGGTCTTTTTTATTTTATTATA
Found at i:93858714 original size:88 final size:89
Alignment explanation
Indices: 93858611--93858774 Score: 251
Period size: 90 Copynumber: 1.8 Consensus size: 89
93858601 TCCCCAAAAG
* * * *
93858611 ATGTCATATTATCTTTCAACTATTG-TTTTTCATTTTCG-ATTTAATGCTATAGTATCTTTCAAC
1 ATGTCATAGTATCTTTCAACTATGGATTTTTC-TTTTCGAATATAATGCCATAGTATCTTTCAAC
*
93858674 TATGGTCTTTTTTATTATTATTATA
65 TATGATCTTTTTTATTATTATTATA
93858699 ATGTCATAGTATCTTTCAACTATGGACTTTTTCTTTTCGAATATAATGCCATAGTATCTTTCAAC
1 ATGTCATAGTATCTTTCAACTATGGA-TTTTTCTTTTCGAATATAATGCCATAGTATCTTTCAAC
93858764 TATGATCTTTT
65 TATGATCTTTT
93858775 CCTTTTGGTT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
88 23 0.34
89 6 0.09
90 39 0.57
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.51
Consensus pattern (89 bp):
ATGTCATAGTATCTTTCAACTATGGATTTTTCTTTTCGAATATAATGCCATAGTATCTTTCAACT
ATGATCTTTTTTATTATTATTATA
Found at i:93862304 original size:25 final size:25
Alignment explanation
Indices: 93862275--93862322 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
93862265 AAAAAAAATT
93862275 AAAT-ATCTCAAACAGATTAAATTTA
1 AAATAATCTCAAACAGA-TAAATTTA
93862300 AAATAATCTCAAACAGATAAATT
1 AAATAATCTCAAACAGATAAATT
93862323 AATAGTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.29
Consensus pattern (25 bp):
AAATAATCTCAAACAGATAAATTTA
Found at i:93862324 original size:24 final size:24
Alignment explanation
Indices: 93862270--93862324 Score: 78
Period size: 26 Copynumber: 2.3 Consensus size: 24
93862260 TTTTAAAAAA
93862270 AAATT-AAATATCTCAAACAGATT
1 AAATTAAAATATCTCAAACAGATT
93862293 AAATTTAAAATAATCTCAAACAGA-T
1 AAA-TTAAAAT-ATCTCAAACAGATT
93862318 AAATTAA
1 AAATTAA
93862325 TAGTAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
23 3 0.10
24 6 0.21
25 8 0.28
26 12 0.41
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.29
Consensus pattern (24 bp):
AAATTAAAATATCTCAAACAGATT
Found at i:93882454 original size:11 final size:11
Alignment explanation
Indices: 93882436--93882504 Score: 51
Period size: 10 Copynumber: 6.6 Consensus size: 11
93882426 AATTAAATTT
93882436 TTTTAAAAAT-
1 TTTTAAAAATA
*
93882446 TCTTAAAAATA
1 TTTTAAAAATA
93882457 TTTT-AAAATA
1 TTTTAAAAATA
*
93882467 ---TAGAAAT-
1 TTTTAAAAATA
93882474 TTATTAAAAATA
1 TT-TTAAAAATA
*
93882486 TTATAAAAATTA
1 TTTTAAAAA-TA
93882498 TTTTAAA
1 TTTTAAA
93882505 GTGCAGAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
7 1 0.02
8 4 0.09
10 15 0.33
11 15 0.33
12 10 0.22
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (11 bp):
TTTTAAAAATA
Found at i:93882531 original size:40 final size:41
Alignment explanation
Indices: 93882449--93882537 Score: 105
Period size: 39 Copynumber: 2.2 Consensus size: 41
93882439 TAAAAATTCT
*
93882449 TAAAAA-TATTTTAAAATATAGAAATTTATTAAAAATATTA
1 TAAAAATTATTTTAAAATACAGAAATTTATTAAAAATATTA
* * *
93882489 TAAAAATTATTTTAAAGTGCAGAAA-TTA-TAAATATA-TA
1 TAAAAATTATTTTAAAATACAGAAATTTATTAAAAATATTA
93882527 TATAAAATTAT
1 TA-AAAATTAT
93882538 AAAAATATCA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
38 4 0.09
39 15 0.35
40 9 0.21
41 15 0.35
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (41 bp):
TAAAAATTATTTTAAAATACAGAAATTTATTAAAAATATTA
Found at i:93882585 original size:8 final size:9
Alignment explanation
Indices: 93882563--93882708 Score: 64
Period size: 9 Copynumber: 14.7 Consensus size: 9
93882553 AATTAAATCA
93882563 ATTTTTAAT
1 ATTTTTAAT
93882572 ATTTTTAAT
1 ATTTTTAAT
93882581 ATTTTTAAAT
1 ATTTTT-AAT
93882591 ATCTTTCATTAAT
1 A--TTT--TTAAT
*
93882604 AATTGGTTTTTAT
1 -A-T--TTTTAAT
*
93882617 GATTTTTATT
1 -ATTTTTAAT
*
93882627 TTTTTAATAAT
1 ATTTT--TAAT
93882638 ATTTTTAAT
1 ATTTTTAAT
93882647 ATTTTTAA-
1 ATTTTTAAT
*
93882655 ATTAACTTAAT
1 ATT--TTTAAT
**
93882666 -TTTAAAAT
1 ATTTTTAAT
93882674 ATTTTTAAT
1 ATTTTTAAT
93882683 AATTTTCT-AT
1 -ATTTT-TAAT
93882693 ATTTTTAAT
1 ATTTTTAAT
93882702 ATATTTT
1 AT-TTTT
93882709 CATAAATTTT
Statistics
Matches: 105, Mismatches: 14, Indels: 35
0.68 0.09 0.23
Matches are distributed among these distances:
8 7 0.07
9 46 0.44
10 26 0.25
11 8 0.08
12 4 0.04
13 9 0.09
14 3 0.03
15 2 0.02
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:93882688 original size:66 final size:66
Alignment explanation
Indices: 93882568--93882708 Score: 157
Period size: 66 Copynumber: 2.1 Consensus size: 66
93882558 AATCAATTTT
* * * *
93882568 TAATATTTTTAATATTTTTAAATATCTTTCATTAATAATTGGTTTTTATGATTTT-TATTTTTTT
1 TAATATTTTTAATATTTTTAAATAACTTTCATTAATAATT-GTTTTAATAATTTTCTATATTTTT
93882632 AA
65 AA
*
93882634 TAATATTTTTAATATTTTTAAATTAACTTAAT-TTTAA-AATAT-TTTTAATAATTTTCTATATT
1 TAATATTTTTAATATTTTTAAA-TAACTT--TCATTAATAAT-TGTTTTAATAATTTTCTATATT
93882696 TTTAA
62 TTTAA
93882701 T-ATATTTT
1 TAATATTTT
93882709 CATAAATTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
66 40 0.62
67 19 0.29
68 5 0.08
69 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (66 bp):
TAATATTTTTAATATTTTTAAATAACTTTCATTAATAATTGTTTTAATAATTTTCTATATTTTTA
A
Found at i:93882706 original size:11 final size:11
Alignment explanation
Indices: 93882627--93882708 Score: 55
Period size: 11 Copynumber: 7.4 Consensus size: 11
93882617 GATTTTTATT
93882627 TTTTTAATAATA
1 TTTTTAAT-ATA
93882639 TTTTTAATAT-
1 TTTTTAATATA
*
93882649 TTTTAAATTAACTTA
1 TTTTTAA-T-A--TA
* *
93882664 ATTTTAAAATA
1 TTTTTAATATA
93882675 TTTTTAATA-A
1 TTTTTAATATA
*
93882685 -TTTT-CTATA
1 TTTTTAATATA
93882694 TTTTTAATATA
1 TTTTTAATATA
93882705 TTTT
1 TTTT
93882709 CATAAATTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 17
0.68 0.10 0.22
Matches are distributed among these distances:
8 2 0.04
9 5 0.09
10 11 0.20
11 20 0.37
12 9 0.17
13 1 0.02
14 1 0.02
15 5 0.09
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTTAATATA
Found at i:93882718 original size:20 final size:20
Alignment explanation
Indices: 93882676--93882733 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
93882666 TTTAAAATAT
*
93882676 TTTTAATA-ATTTTC-TATAT
1 TTTTAATATATTTTCATA-AA
93882695 TTTTAATATATTTTCATAAA
1 TTTTAATATATTTTCATAAA
*
93882715 TTTTACA-ATTTTTTCATAA
1 TTTTA-ATATATTTTCATAA
93882734 TTATATAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 8 0.24
20 23 0.68
21 3 0.09
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTAATATATTTTCATAAA
Found at i:93882747 original size:20 final size:20
Alignment explanation
Indices: 93882698--93882761 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
93882688 TCTATATTTT
*
93882698 TAATATATTTTCATAAATTTTA
1 TAATAT-TTTTCAT-AATTATA
*
93882720 CAAT-TTTTTCATAATTATA
1 TAATATTTTTCATAATTATA
*
93882739 TAATATTTTT-ATAGTTTATA
1 TAATATTTTTCATA-ATTATA
93882759 TAA
1 TAA
93882762 ATTAAACAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 12 0.33
20 20 0.56
21 1 0.03
22 3 0.08
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (20 bp):
TAATATTTTTCATAATTATA
Found at i:93882814 original size:20 final size:19
Alignment explanation
Indices: 93882770--93882821 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
93882760 AAATTAAACA
*
93882770 AATAGTTTTTATAATTTAT
1 AATATTTTTTATAATTTAT
*
93882789 -ATATTTTTTAGTCATTTAT
1 AATATTTTTTA-TAATTTAT
93882808 AATATTTTTTATAA
1 AATATTTTTTATAA
93882822 GTTTTTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 9 0.32
19 9 0.32
20 10 0.36
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
AATATTTTTTATAATTTAT
Found at i:93882892 original size:10 final size:9
Alignment explanation
Indices: 93882775--93882899 Score: 60
Period size: 9 Copynumber: 13.7 Consensus size: 9
93882765 AAACAAATAG
93882775 TTTTTATAA
1 TTTTTATAA
* *
93882784 TTTATATAT
1 TTTTTATAA
*
93882793 TTTTTAGTCA
1 TTTTTA-TAA
* *
93882803 TTTATAATAT
1 TTT-TTATAA
93882813 TTTTTATAA
1 TTTTTATAA
93882822 GTTTTT-TAA
1 -TTTTTATAA
93882831 TTTTTAT--
1 TTTTTATAA
**
93882838 TTTGTT-GCA
1 TTT-TTATAA
* * *
93882847 CTTATATAT
1 TTTTTATAA
93882856 TTTTTATAA
1 TTTTTATAA
* *
93882865 TCTTTAAATA
1 TTTTTATA-A
93882875 TTTTTATAA
1 TTTTTATAA
93882884 TTTTCTATAA
1 TTTT-TATAA
93882894 TTTTTA
1 TTTTTA
93882900 ACATTTTTTA
Statistics
Matches: 83, Mismatches: 23, Indels: 20
0.66 0.18 0.16
Matches are distributed among these distances:
7 3 0.04
8 8 0.10
9 41 0.49
10 29 0.35
11 2 0.02
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:93882892 original size:29 final size:30
Alignment explanation
Indices: 93882848--93882910 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
93882838 TTTGTTGCAC
*
93882848 TTATATATTTTTTATAATCTTTAA-ATATTT
1 TTATATATTTTCTATAATCTTTAACAT-TTT
*
93882878 TTATA-ATTTTCTATAATTTTTAACATTTT
1 TTATATATTTTCTATAATCTTTAACATTTT
93882907 TTAT
1 TTAT
93882911 TAAATTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 23 0.77
30 7 0.23
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (30 bp):
TTATATATTTTCTATAATCTTTAACATTTT
Found at i:93882896 original size:19 final size:18
Alignment explanation
Indices: 93882851--93882899 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
93882841 GTTGCACTTA
*
93882851 TATATTTTTTATAATCTT
1 TATAATTTTTATAATCTT
* *
93882869 TAAATATTTTTATAATTTT
1 TATA-ATTTTTATAATCTT
93882888 CTATAATTTTTA
1 -TATAATTTTTA
93882900 ACATTTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 3 0.12
19 19 0.76
20 3 0.12
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (18 bp):
TATAATTTTTATAATCTT
Found at i:93886674 original size:21 final size:21
Alignment explanation
Indices: 93886648--93886688 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
93886638 AGACGAGCGA
* *
93886648 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
93886669 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
93886689 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:93890854 original size:32 final size:31
Alignment explanation
Indices: 93890780--93890855 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
93890770 AGTACGAGAA
*
93890780 TAGTCACCCAACTATTAAGTTTGTTCTATTT
1 TAGTCACTCAACTATTAAGTTTGTTCTATTT
* * * * *
93890811 TGGTCACTCAACTATTAATTTTTTTGTTTATT
1 TAGTCACTCAACTATTAAGTTTGTTCTAT-TT
93890843 TAGTCACTCAACT
1 TAGTCACTCAACT
93890856 TTTTAAAATT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 23 0.62
32 14 0.38
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.47
Consensus pattern (31 bp):
TAGTCACTCAACTATTAAGTTTGTTCTATTT
Found at i:93891688 original size:16 final size:16
Alignment explanation
Indices: 93891667--93891710 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
93891657 ATTTACTCCC
93891667 TATTTTTTAATTTGAT-
1 TATTTTTTAATTT-ATA
*
93891683 TA-TTTTTAATTTTTA
1 TATTTTTTAATTTATA
93891698 TATTTTTTAATTT
1 TATTTTTTAATTT
93891711 TTAAATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 1 0.04
15 12 0.48
16 12 0.48
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (16 bp):
TATTTTTTAATTTATA
Found at i:93891696 original size:7 final size:7
Alignment explanation
Indices: 93891670--93891720 Score: 50
Period size: 7 Copynumber: 6.9 Consensus size: 7
93891660 TACTCCCTAT
93891670 TTTTTAA
1 TTTTTAA
93891677 TTTGATT-A
1 TTT--TTAA
93891685 TTTTTAA
1 TTTTTAA
93891692 TTTTTATA
1 TTTTTA-A
93891700 TTTTTTAA
1 -TTTTTAA
93891708 TTTTTAA
1 TTTTTAA
*
93891715 ATTTTA
1 TTTTTA
93891721 GTCTTGATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
6 2 0.05
7 22 0.58
8 6 0.16
9 8 0.21
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:93891711 original size:16 final size:16
Alignment explanation
Indices: 93891667--93891719 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
93891657 ATTTACTCCC
*
93891667 TATTTTTTAA-TTTGA
1 TATTTTTTAATTTTTA
93891682 T-TATTTTTAATTTTTA
1 TAT-TTTTTAATTTTTA
93891698 TATTTTTTAATTTTTA
1 TATTTTTTAATTTTTA
*
93891714 AATTTT
1 TATTTT
93891720 AGTCTTGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
14 1 0.03
15 8 0.24
16 23 0.70
17 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (16 bp):
TATTTTTTAATTTTTA
Found at i:93903981 original size:21 final size:21
Alignment explanation
Indices: 93903940--93903981 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
93903930 TATTATGTTT
**
93903940 TTTTTATTTTTTTACTTTTGA
1 TTTTTATTTTTTTACAATTGA
93903961 TTTTTATTGTTTTTA-AATTGA
1 TTTTTATT-TTTTTACAATTGA
93903982 AAATTACATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (21 bp):
TTTTTATTTTTTTACAATTGA
Found at i:93905736 original size:32 final size:30
Alignment explanation
Indices: 93905699--93905887 Score: 84
Period size: 30 Copynumber: 6.5 Consensus size: 30
93905689 AAAAAATATT
* *
93905699 TAAATTAGGGTTT-ATGATTTTAAATAAATTAA
1 TAAATTAGGGTTTAAAG-GTTTAAATAAA-T-A
*
93905731 TAAATTAAGGTTTAAAGGTTTAAATAAATA
1 TAAATTAGGGTTTAAAGGTTTAAATAAATA
93905761 -AAATTAGGGTTTTAAA----TAAATTAAACTA
1 TAAATTAGGG-TTTAAAGGTTTAAA-TAAA-TA
*
93905789 -AGATTTATGGTGTTTAAA----TAAATAAAT-
1 TA-AATTA-GG-GTTTAAAGGTTTAAATAAATA
** * *
93905816 TAAATTAGGGTTCTAGTGTTTTAAAT-AATT
1 TAAATTAGGGTT-TAAAGGTTTAAATAAATA
* * *
93905846 TAAATTAGGGTTT-ATGGTTAAAATTAAT-
1 TAAATTAGGGTTTAAAGGTTTAAATAAATA
93905874 TAAATTAGGGTTTA
1 TAAATTAGGGTTTA
93905888 GTTTTTTTTA
Statistics
Matches: 130, Mismatches: 11, Indels: 35
0.74 0.06 0.20
Matches are distributed among these distances:
25 3 0.02
26 8 0.06
27 8 0.06
28 26 0.20
29 23 0.18
30 36 0.28
31 2 0.02
32 22 0.17
33 2 0.02
ACGTcount: A:0.43, C:0.01, G:0.15, T:0.41
Consensus pattern (30 bp):
TAAATTAGGGTTTAAAGGTTTAAATAAATA
Found at i:93905842 original size:30 final size:29
Alignment explanation
Indices: 93905764--93905894 Score: 120
Period size: 28 Copynumber: 4.3 Consensus size: 29
93905754 ATAAATAAAA
* * * *
93905764 TTAGGGTTTTAAATAAATTAAACTAAGAT
1 TTAGTGTTTTAAATAAATTAAATTAGGGT
93905793 TTATGGTGTTTAAATAAATAAATTAAATTAGGGT
1 TTA--GTGTTT---TAAATAAATTAAATTAGGGT
*
93905827 TCTAGTGTTTTAAATAATTTAAATTAGGGT
1 T-TAGTGTTTTAAATAAATTAAATTAGGGT
* * *
93905857 TTA-TGGTTAAAATTAATTAAATTAGGGT
1 TTAGTGTTTTAAATAAATTAAATTAGGGT
*
93905885 TTAGTTTTTT
1 TTAGTGTTTT
93905895 TTAAAAATGA
Statistics
Matches: 83, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
28 24 0.29
29 8 0.10
30 20 0.24
31 5 0.06
33 6 0.07
34 18 0.22
35 2 0.02
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (29 bp):
TTAGTGTTTTAAATAAATTAAATTAGGGT
Found at i:93906228 original size:126 final size:127
Alignment explanation
Indices: 93905947--93906323 Score: 634
Period size: 126 Copynumber: 3.0 Consensus size: 127
93905937 TTTTGACATC
* * *
93905947 GAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAAATACTTCAAGAATGATGCA
1 GAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCA
* * * *
93906012 CTGTCAGCAAAATTAT-AGAAAAAAATCTCCCACGTGGACTCTCTTTTTCTATAGTAGTTCCT
66 CTGTCAGCAAAATT-TCTGAAAAAAAGCTCCCACGTGGACGCCCTTTTTCTATAGTAGTTCCT
*
93906074 AAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCA
1 GAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCA
93906139 CTGTCAGCAAAATTTCTGAAAAAAA-CTCCCACGTGGACGCCCTTTTTCTATAGTAGTTCCT
66 CTGTCAGCAAAATTTCTGAAAAAAAGCTCCCACGTGGACGCCCTTTTTCTATAGTAGTTCCT
* *
93906200 GAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGAATGCA
1 GAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCA
93906265 CTGTCAGCAAAATTTCT-AAAAAAAGCTCCCACGTGGACGCCCTTTTTCTATAGTAGTTC
66 CTGTCAGCAAAATTTCTGAAAAAAAGCTCCCACGTGGACGCCCTTTTTCTATAGTAGTTC
93906324 ATGCTTGGCC
Statistics
Matches: 238, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
125 7 0.03
126 148 0.62
127 83 0.35
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (127 bp):
GAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCA
CTGTCAGCAAAATTTCTGAAAAAAAGCTCCCACGTGGACGCCCTTTTTCTATAGTAGTTCCT
Found at i:93907462 original size:18 final size:18
Alignment explanation
Indices: 93907439--93907505 Score: 89
Period size: 18 Copynumber: 3.7 Consensus size: 18
93907429 GAATGATTAT
*
93907439 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAG
* *
93907457 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAG
* *
93907475 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAG
93907493 TTATTCAGTAACA
1 TTATTCAGTAACA
93907506 GTCGATCTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATCAG
Found at i:93907690 original size:53 final size:53
Alignment explanation
Indices: 93907627--93907746 Score: 177
Period size: 53 Copynumber: 2.3 Consensus size: 53
93907617 CCGAAACAGT
* * * * *
93907627 AACAGTAACAGTAGCAGTATGGTACACAGAGTGCCTCATCAGAACAAATTCGA
1 AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCAA
* *
93907680 AACAGTAACAGTAACATTACGGTACATAGAGTACCTCATCAGAACAAATCCAA
1 AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCAA
93907733 AACAGTAACAGTAA
1 AACAGTAACAGTAA
93907747 TGGTAACAGT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 60 1.00
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (53 bp):
AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCAA
Found at i:93907753 original size:59 final size:57
Alignment explanation
Indices: 93907620--93907757 Score: 149
Period size: 53 Copynumber: 2.4 Consensus size: 57
93907610 GCCGAAGCCG
* * * * *
93907620 AAACAGTAACAGTAACAGTAGCAGTATGGTACACAGAGTGCCTCATCAGAACAAATTCG
1 AAACAGTAACAGT-A-AGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCA
* *
93907679 AAACAGTAAC----AGTAACATTACGGTACATAGAGTACCTCATCAGAACAAATCCA
1 AAACAGTAACAGTAAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCA
93907732 AAACAGTAACAGTAATGGTAACAGTA
1 AAACAGTAACAGTAA--GTAACAGTA
93907758 ACAATATCCG
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
53 46 0.71
57 1 0.02
59 18 0.28
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (57 bp):
AAACAGTAACAGTAAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAATCCA
Found at i:93909611 original size:31 final size:32
Alignment explanation
Indices: 93909555--93909617 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
93909545 CACACTTGTC
*
93909555 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
*
93909587 ATAATATAA-ATATTTAATTA-ATAAATATCTT
1 ATAATATAATATATTT-ATTACATAAAAATCTT
93909618 TTATAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:93912602 original size:30 final size:30
Alignment explanation
Indices: 93912538--93912607 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
93912528 AATCGGAAGA
* * * *
93912538 TTTGGCACTAAGTGTGCGGTTTAAATTAAT
1 TTTGGTACTAAGTGTGCGATTTAAACTAAC
*
93912568 TTTGGTACTAAGTGTGCGATTTAAACTAGC
1 TTTGGTACTAAGTGTGCGATTTAAACTAAC
93912598 TTTGGCTACT
1 TTTGG-TACT
93912608 TGAGGCACTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 30 0.88
31 4 0.12
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.40
Consensus pattern (30 bp):
TTTGGTACTAAGTGTGCGATTTAAACTAAC
Found at i:93913951 original size:46 final size:46
Alignment explanation
Indices: 93913898--93913989 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
93913888 CCCTTGTAAT
* *
93913898 ACCCCTACCTGTATTCATTTCCAGAATAGGGTACGAGGCATTACCG
1 ACCCCTACCCGTATTCATTGCCAGAATAGGGTACGAGGCATTACCG
* *
93913944 ACCCCTACCCGTATTCATTGCCGGAATAGGGTACGAGGTATTACCG
1 ACCCCTACCCGTATTCATTGCCAGAATAGGGTACGAGGCATTACCG
93913990 GAGTTTACGA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (46 bp):
ACCCCTACCCGTATTCATTGCCAGAATAGGGTACGAGGCATTACCG
Found at i:93914119 original size:22 final size:23
Alignment explanation
Indices: 93914094--93914139 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
93914084 CAACCAAATC
93914094 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
93914116 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
93914139 A
1 A
93914140 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:93914145 original size:23 final size:23
Alignment explanation
Indices: 93914101--93914145 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
93914091 ATCAATTCAA
*
93914101 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
93914124 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
93914146 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:93921799 original size:22 final size:23
Alignment explanation
Indices: 93921774--93921819 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
93921764 CAACCAAATC
93921774 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
93921796 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
93921819 A
1 A
93921820 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:93921825 original size:23 final size:23
Alignment explanation
Indices: 93921781--93921825 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
93921771 ATCAATTCAA
*
93921781 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
93921804 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
93921826 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:93923840 original size:13 final size:13
Alignment explanation
Indices: 93923824--93923850 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
93923814 CATTCTATTT
93923824 CATCATAAACTTA
1 CATCATAAACTTA
93923837 CATCATAAACTTA
1 CATCATAAACTTA
93923850 C
1 C
93923851 GGAACTCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (13 bp):
CATCATAAACTTA
Found at i:93927188 original size:46 final size:46
Alignment explanation
Indices: 93927082--93927344 Score: 384
Period size: 46 Copynumber: 5.6 Consensus size: 46
93927072 TTTGACATGA
* * * *
93927082 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTC-T--T-ATTC-TTTTCATGTCACGT
93927132 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
* * *
93927178 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
93927224 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
* * *
93927270 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
93927316 TGCCATGGTATCTTTCAACCATGGTCTTA
1 TGCCATGGTATCTTTCAACCATGGTCTTA
93927345 CACATTTCAT
Statistics
Matches: 199, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
45 5 0.03
46 169 0.85
47 1 0.01
49 1 0.01
50 23 0.12
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
Found at i:93927294 original size:138 final size:141
Alignment explanation
Indices: 93927082--93927358 Score: 427
Period size: 138 Copynumber: 2.0 Consensus size: 141
93927072 TTTGACATGA
* * *
93927082 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTATCTTT
1 TGCCATAGTATCTTTCAACCATGGTCTTA-TCATTCATTTTCTGTCACGTTGCCATGGTATCTTT
* * * **
93927147 CAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCAT
65 CAACCATGGTCTTATTCATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACAT
93927212 TTCATATCAAGT
130 TTCATATCAAGT
*
93927224 TGCCATGGTATCTTTCAACCATGGTC-T-T-ATTC-TTTTCATGTCACGTTGCCATGGTATCTTT
1 TGCCATAGTATCTTTCAACCATGGTCTTATCATTCATTTTC-TGTCACGTTGCCATGGTATCTTT
93927285 CAACCATGGTCTTATTCATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACAT
65 CAACCATGGTCTTATTCATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACAT
93927350 TTCATATCA
130 TTCATATCA
93927359 GAGAGCACAC
Statistics
Matches: 125, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
137 5 0.04
138 95 0.76
139 1 0.01
141 1 0.01
142 23 0.18
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.42
Consensus pattern (141 bp):
TGCCATAGTATCTTTCAACCATGGTCTTATCATTCATTTTCTGTCACGTTGCCATGGTATCTTTC
AACCATGGTCTTATTCATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACATT
TCATATCAAGT
Found at i:93929396 original size:16 final size:16
Alignment explanation
Indices: 93929371--93929402 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
93929361 AATCCCAATT
93929371 TTTCTCTTTTTCCTTC
1 TTTCTCTTTTTCCTTC
*
93929387 TTTCTTTTTTTCCTTC
1 TTTCTCTTTTTCCTTC
93929403 CCCCTGCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTCTCTTTTTCCTTC
Found at i:93929462 original size:16 final size:18
Alignment explanation
Indices: 93929433--93929473 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
93929423 TCATCCTTTC
93929433 TTTCTTTTTCTATT-CTT
1 TTTCTTTTTCTATTCCTT
93929450 TTTCTTTTT-TATTCCTT
1 TTTCTTTTTCTATTCCTT
*
93929467 TTACTTT
1 TTTCTTT
93929474 ATATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTCTTTTTCTATTCCTT
Found at i:93930545 original size:30 final size:30
Alignment explanation
Indices: 93930490--93930575 Score: 109
Period size: 30 Copynumber: 2.9 Consensus size: 30
93930480 GGCATTGGGT
** *
93930490 CCGGTGATTGTGTGGGTACTGTTGATAGGC
1 CCGGTGATTGTGTGGGCGCTATTGATAGGC
*
93930520 CCGGTGATTGTGTGGGCGCTATTGATGGGC
1 CCGGTGATTGTGTGGGCGCTATTGATAGGC
* * *
93930550 TCGATAATTGTGTGGGCGCTATTGAT
1 CCGGTGATTGTGTGGGCGCTATTGAT
93930576 GGGCTCGTCC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.14, C:0.14, G:0.38, T:0.34
Consensus pattern (30 bp):
CCGGTGATTGTGTGGGCGCTATTGATAGGC
Found at i:93930576 original size:30 final size:30
Alignment explanation
Indices: 93930526--93930582 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
93930516 AGGCCCGGTG
93930526 ATTGTGTGGGCGCTATTGATGGGCTCGATA
1 ATTGTGTGGGCGCTATTGATGGGCTCGATA
93930556 ATTGTGTGGGCGCTATTGATGGGCTCG
1 ATTGTGTGGGCGCTATTGATGGGCTCG
93930583 TCCCATCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.14, C:0.14, G:0.39, T:0.33
Consensus pattern (30 bp):
ATTGTGTGGGCGCTATTGATGGGCTCGATA
Found at i:93931319 original size:85 final size:85
Alignment explanation
Indices: 93931214--93931383 Score: 286
Period size: 85 Copynumber: 2.0 Consensus size: 85
93931204 TAACTTGCCG
* * **
93931214 GATGGTTCCACTTAATTAAATAAATTTTCAGCATACAATTTTATTTTATATCTATGGAATAATTG
1 GATGGTTCCACCTAATTAAATAAATTTTCAGCATACAATTTTATTTTAAATCTATACAATAATTG
*
93931279 TAAAATCAAATAAAATTTTT
66 TAAAATCAAATAAAAATTTT
*
93931299 GATGGTTCCACCTAATTAAATAAATTTTCAGCATATAATTTTATTTTAAATCTATACAATAATTG
1 GATGGTTCCACCTAATTAAATAAATTTTCAGCATACAATTTTATTTTAAATCTATACAATAATTG
93931364 TAAAATCAAATAAAAATTTT
66 TAAAATCAAATAAAAATTTT
93931384 ACCTCGTTAT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (85 bp):
GATGGTTCCACCTAATTAAATAAATTTTCAGCATACAATTTTATTTTAAATCTATACAATAATTG
TAAAATCAAATAAAAATTTT
Found at i:93932161 original size:33 final size:32
Alignment explanation
Indices: 93932116--93932187 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 32
93932106 AAAAAAATAT
93932116 AAAATAAAAATTAATTAAAATTACATAAATGAA
1 AAAAT-AAAATTAATTAAAATTACATAAATGAA
93932149 AATAATAAAATTAATTAAAATTACATAAATGAA
1 AA-AATAAAATTAATTAAAATTACATAAATGAA
93932182 AAAATA
1 AAAATA
93932188 TTAAATAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
32 4 0.11
33 31 0.82
34 3 0.08
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (32 bp):
AAAATAAAATTAATTAAAATTACATAAATGAA
Found at i:93933599 original size:22 final size:22
Alignment explanation
Indices: 93933571--93933616 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
93933561 ATTTACATAC
*
93933571 TTAATTTTAAAATTGAGTCATT
1 TTAATTTCAAAATTGAGTCATT
93933593 TTAATTTCAAAATTGAGTCATT
1 TTAATTTCAAAATTGAGTCATT
93933615 TT
1 TT
93933617 CATAAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.50
Consensus pattern (22 bp):
TTAATTTCAAAATTGAGTCATT
Found at i:93937511 original size:2 final size:2
Alignment explanation
Indices: 93937504--93937529 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
93937494 TTAAAAGATA
93937504 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
93937530 CCCAAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93942739 original size:25 final size:26
Alignment explanation
Indices: 93942683--93942739 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
93942673 GACAATATAA
*
93942683 AAAAAATTTAATAAATAGAAAAATAT
1 AAAAAATTAAATAAATAGAAAAATAT
* * * *
93942709 ATAAAATTAAAT-AATATAAATATTT
1 AAAAAATTAAATAAATAGAAAAATAT
93942734 AAAAAA
1 AAAAAA
93942740 AATAAAAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (26 bp):
AAAAAATTAAATAAATAGAAAAATAT
Found at i:93948582 original size:42 final size:42
Alignment explanation
Indices: 93948450--93948592 Score: 160
Period size: 42 Copynumber: 3.4 Consensus size: 42
93948440 ATGCCAATAG
*
93948450 CCCAGCTATGGTCTTACATGAAATCGCATGCCGATGTCATAT
1 CCCAGATATGGTCTTACATGAAATCGCATGCCGATGTCATAT
* * * * * ** * *
93948492 CCCAGATATGGCCTTATACGAAGTCTCATTTTCGAAGCCATAT
1 CCCAGATATGGTCTTACATGAAATCGCA-TGCCGATGTCATAT
** *
93948535 CCCAGACGTGGTCTTACATTAAATCGCATGCCGATGTCATAT
1 CCCAGATATGGTCTTACATGAAATCGCATGCCGATGTCATAT
93948577 CCCAGATATGGTCTTA
1 CCCAGATATGGTCTTA
93948593 TACAGAATCT
Statistics
Matches: 76, Mismatches: 24, Indels: 2
0.75 0.24 0.02
Matches are distributed among these distances:
42 46 0.61
43 30 0.39
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (42 bp):
CCCAGATATGGTCTTACATGAAATCGCATGCCGATGTCATAT
Found at i:93954873 original size:11 final size:11
Alignment explanation
Indices: 93954845--93954875 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
93954835 GTCTTATCAC
*
93954845 AATTCTCTCTA
1 AATTCTTTCTA
93954856 AATTCTTTCTA
1 AATTCTTTCTA
93954867 AATTCTTTC
1 AATTCTTTC
93954876 AATTTTTGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.52
Consensus pattern (11 bp):
AATTCTTTCTA
Found at i:93955489 original size:11 final size:11
Alignment explanation
Indices: 93955475--93955515 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
93955465 TGTTTTCTCC
93955475 CTATTTTGCTA
1 CTATTTTGCTA
*
93955486 CTATTTTACTA
1 CTATTTTGCTA
* *
93955497 TTATGTTGCTA
1 CTATTTTGCTA
93955508 CTATTTTG
1 CTATTTTG
93955516 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:93955588 original size:30 final size:30
Alignment explanation
Indices: 93955552--93955614 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
93955542 ACTTATTTTA
93955552 TTGTTAATTTT-TTCATTATTTTA-AAGACAT
1 TTGTTAATTTTGTT-ATTATTTTAGAA-ACAT
93955582 TTGTTAATTTTGTTATTATTTTAGAAACAT
1 TTGTTAATTTTGTTATTATTTTAGAAACAT
93955612 TTG
1 TTG
93955615 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
30 27 0.87
31 4 0.13
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAAACAT
Found at i:93957321 original size:18 final size:18
Alignment explanation
Indices: 93957298--93957335 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
93957288 TGCCAGGTAC
*
93957298 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
*
93957316 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
93957334 GT
1 GT
93957336 TTTCTTTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:93957994 original size:12 final size:12
Alignment explanation
Indices: 93957970--93958002 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
93957960 AAATTATCCA
*
93957970 ATTTTTTTA-TT
1 ATTTTTATATTT
93957981 ATTTTTATATTT
1 ATTTTTATATTT
93957993 ATTTTTATAT
1 ATTTTTATAT
93958003 AGTTTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
ATTTTTATATTT
Found at i:93958039 original size:128 final size:128
Alignment explanation
Indices: 93957738--93958110 Score: 592
Period size: 128 Copynumber: 2.9 Consensus size: 128
93957728 TGTAGAAACT
* *
93957738 TTTTTTATATAG-TTTCATATAATAAAATAAAAGTCGTTTTTAATATTTTAATTGTACTTTACTT
1 TTTTTTATATAGTTTTAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTT
* *
93957802 TTTTTAATTTTATTAAAATAAATATTCTTTTAAATTAGCCAATATTTTTAGTATTTTATATTTA
65 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTATATTTA
*
93957866 TTTTTTATATA-TTTTAATTAATAAAATAAAAGTTATTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
* * *
93957930 TTTTAATTTTATTAAAATAAATGTTCTTTGAAATTATCCAATTTTTTTATTATTTTTATATTTA
66 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTA-TTTTATATTTA
*
93957994 -TTTTTATATAGTTTTAATTAATAAAATAAAAATTGTTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
*
93958058 TTTTAATTTTA-AAACAATAAATGTTCTTTTAAATTAGCCAATAATTTTTATTA
66 TTTTAATTTTATTAA-AATAAATGTTCTTTTAAATTAGCCAAT-ATTTTTATTA
93958111 AAATAAATGT
Statistics
Matches: 226, Mismatches: 14, Indels: 9
0.91 0.06 0.04
Matches are distributed among these distances:
127 103 0.46
128 114 0.50
129 9 0.04
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (128 bp):
TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTATATTTA
Found at i:93961430 original size:126 final size:126
Alignment explanation
Indices: 93961185--93961460 Score: 412
Period size: 126 Copynumber: 2.2 Consensus size: 126
93961175 TCTAAGCCCA
* * *
93961185 TTTT-AGATACTACTGTAG-AAAAGAGTGTCCATATGGGAGCTTTTTTCCATAATTTTGCTGACA
1 TTTTCAGATACTACTATAGCAAAAGAGCGTCCACATGGGAGCTTTTTTCCATAATTTTGCTGACA
* *
93961248 GTGTATCCTTCTTGAAGCGTTTTTGACACTATTAGCTCAGAAACATCTTCTTAAAATTATT
66 GTGCATCCTTCTTGAAGCGTTTTTGACACTATTAGCTCAGAAACATCTTCTCAAAATTATT
* *
93961309 TTTTCAGATACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGACA
1 TTTTCAGATACTACTATAGCAAAAGAGCGTCCACATGGGAGCTTTTTTCCATAATTTTGCTGACA
* * * * * * *
93961374 GTGCATCTTTCTTGAAGTGTTTTTGACACTATTTGTTCAGAACCGTTTTCTCAAAATTATT
66 GTGCATCCTTCTTGAAGCGTTTTTGACACTATTAGCTCAGAAACATCTTCTCAAAATTATT
93961435 TTTTCAGATACTACTATAGCAAAAGA
1 TTTTCAGATACTACTATAGCAAAAGA
93961461 TTAACCCTAA
Statistics
Matches: 136, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
124 4 0.03
125 13 0.10
126 119 0.88
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (126 bp):
TTTTCAGATACTACTATAGCAAAAGAGCGTCCACATGGGAGCTTTTTTCCATAATTTTGCTGACA
GTGCATCCTTCTTGAAGCGTTTTTGACACTATTAGCTCAGAAACATCTTCTCAAAATTATT
Found at i:93961588 original size:24 final size:23
Alignment explanation
Indices: 93961553--93961598 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
93961543 TTTTCTCTTA
*
93961553 AAAAATACTAAAACTCTAAACCC
1 AAAAATACTAAAACACTAAACCC
* *
93961576 AAAAATCCATAAACCACTAAACC
1 AAAAATAC-TAAAACACTAAACC
93961599 TTAACCTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.57, C:0.28, G:0.00, T:0.15
Consensus pattern (23 bp):
AAAAATACTAAAACACTAAACCC
Found at i:93964314 original size:28 final size:27
Alignment explanation
Indices: 93964268--93964335 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 27
93964258 TTTAAAATGT
* *
93964268 CATAAAGAGAATTTAGAATAAATATTA
1 CATAAAAAGAATTTAGAATAAATAATA
*
93964295 CATAAAAAGTAATTTGGAATAAATAATA
1 CATAAAAAG-AATTTAGAATAAATAATA
*
93964323 CATATATAAGAAT
1 CATA-AAAAGAAT
93964336 ACATAACAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.23
28 23 0.66
29 4 0.11
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.29
Consensus pattern (27 bp):
CATAAAAAGAATTTAGAATAAATAATA
Found at i:93972109 original size:5 final size:5
Alignment explanation
Indices: 93972088--93972129 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
93972078 CTGTGTGTTC
93972088 TTTAT TTT-T TATT-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
93972130 CACAAATGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTAT
Found at i:93977460 original size:16 final size:16
Alignment explanation
Indices: 93977439--93977478 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
93977429 TGAATTATTG
* *
93977439 ATTACAGCTTTATTCT
1 ATTACAGCTCTATTCC
*
93977455 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
93977471 ATTACAGC
1 ATTACAGC
93977479 GAACCAAACG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:93977475 original size:118 final size:118
Alignment explanation
Indices: 93977256--93977611 Score: 522
Period size: 118 Copynumber: 3.0 Consensus size: 118
93977246 TCATTTCATT
93977256 CAACCAAACAT-AGAATATCATTACAATTCTATTCCA-TTCTATTCAACTAAACAATTGAATTAC
1 CAACCAAACATAAGAATATCATTACAATTCTATTCCATTTC-ATTCAACTAAACAATTGAATTAC
* * **
93977319 TAATTAAAGCTTTATTCCATTACAGTTCTATTCCATTACAGCGAACCAAACGTG
65 TGATTAAAGCTTTATTCTATTACAACTCTATTCCATTACAGCGAACCAAACGTG
* * * * *
93977373 CAACCAAACATAAGAATATAATTACAGTTCTATTTCATTTCATTCAACTAAATAATTGAATTATT
1 CAACCAAACATAAGAATATCATTACAATTCTATTCCATTTCATTCAACTAAACAATTGAATTACT
*
93977438 GATTACAGCTTTATTCTATTACAACTCTATTCCATTACAGCGAACCAAACGTG
66 GATTAAAGCTTTATTCTATTACAACTCTATTCCATTACAGCGAACCAAACGTG
* * *
93977491 CAACCAAACATAAGAATATCATTACAATTCTATTCCATTCCATTCAACCAAACAATTAAATTACT
1 CAACCAAACATAAGAATATCATTACAATTCTATTCCATTTCATTCAACTAAACAATTGAATTACT
* *
93977556 GATTATAA-CTTTATTCCT-TTACAACTCTATTCCATTACAGCGAACCATATGTG
66 GATTA-AAGCTTTATT-CTATTACAACTCTATTCCATTACAGCGAACCAAACGTG
93977609 CAA
1 CAA
93977612 GTGTTTCCTT
Statistics
Matches: 214, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
117 11 0.05
118 197 0.92
119 6 0.03
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.33
Consensus pattern (118 bp):
CAACCAAACATAAGAATATCATTACAATTCTATTCCATTTCATTCAACTAAACAATTGAATTACT
GATTAAAGCTTTATTCTATTACAACTCTATTCCATTACAGCGAACCAAACGTG
Found at i:93982162 original size:22 final size:22
Alignment explanation
Indices: 93982137--93982182 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
93982127 CATTATTGTA
93982137 AAGTCAATCAACTAACGATGAC
1 AAGTCAATCAACTAACGATGAC
*
93982159 AAGTCGATCAACTAACGATGAC
1 AAGTCAATCAACTAACGATGAC
93982181 AA
1 AA
93982183 AATGACCTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.17
Consensus pattern (22 bp):
AAGTCAATCAACTAACGATGAC
Found at i:93990478 original size:19 final size:21
Alignment explanation
Indices: 93990432--93990479 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
93990422 AAGTGTATAA
**
93990432 AATATTTTTTATTATTCATAT
1 AATATTTTTTATTATAAATAT
93990453 AACTATTTTTTATT-TAAAT-T
1 AA-TATTTTTTATTATAAATAT
93990473 AATATTT
1 AATATTT
93990480 ACATTAATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.21
20 3 0.12
21 5 0.21
22 11 0.46
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (21 bp):
AATATTTTTTATTATAAATAT
Found at i:93990570 original size:33 final size:33
Alignment explanation
Indices: 93990533--93990602 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 33
93990523 GATATTTACC
*
93990533 ATATAAA-ATTTT-AATATTATAATTTATATGTTT
1 ATATAAATATTTTAAAAATT-TAATTTA-ATGTTT
* *
93990566 ATATAAATGTTTTAAAAATTTAATTTAATTTTT
1 ATATAAATATTTTAAAAATTTAATTTAATGTTT
93990599 ATAT
1 ATAT
93990603 TATTTTTACT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 16 0.50
34 11 0.34
35 5 0.16
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (33 bp):
ATATAAATATTTTAAAAATTTAATTTAATGTTT
Found at i:93994980 original size:39 final size:39
Alignment explanation
Indices: 93994921--93994995 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
93994911 GTTACCAAAC
* * *
93994921 ATTTGCCATATTAACTCATTTGATCATGATTTAATTAAT
1 ATTTACCATATTAACACATTTGATCATAATTTAATTAAT
*
93994960 ATTTACCATATTAACACATTTGATCTTAATTTAATT
1 ATTTACCATATTAACACATTTGATCATAATTTAATT
93994996 CCTTTCTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.05, T:0.47
Consensus pattern (39 bp):
ATTTACCATATTAACACATTTGATCATAATTTAATTAAT
Found at i:93996051 original size:22 final size:21
Alignment explanation
Indices: 93996020--93996075 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
93996010 TTTAGACATT
93996020 AAAATAGAAAGGAAACCTTAA
1 AAAATAGAAAGGAAACCTTAA
**
93996041 AAAACTAGAAAGGAAAGGTTAAA
1 AAAA-TAGAAAGGAAACCTT-AA
93996064 AAAATAGAAAGG
1 AAAATAGAAAGG
93996076 GTTGCGTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 4 0.13
22 21 0.68
23 6 0.19
ACGTcount: A:0.62, C:0.05, G:0.20, T:0.12
Consensus pattern (21 bp):
AAAATAGAAAGGAAACCTTAA
Found at i:94002263 original size:45 final size:45
Alignment explanation
Indices: 94002199--94002287 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
94002189 TGCATGGTAG
94002199 AACTTATTCCTGGTATGTATTCTCCCATGTTCTGTCCCATGTTAC
1 AACTTATTCCTGGTATGTATTCTCCCATGTTCTGTCCCATGTTAC
*
94002244 AACTTATTCCT-GTCATGTATTCTCCCATGTTCTGTCCTATGTTA
1 AACTTATTCCTGGT-ATGTATTCTCCCATGTTCTGTCCCATGTTA
94002288 AGTGGTTTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
44 2 0.05
45 40 0.95
ACGTcount: A:0.18, C:0.26, G:0.12, T:0.44
Consensus pattern (45 bp):
AACTTATTCCTGGTATGTATTCTCCCATGTTCTGTCCCATGTTAC
Found at i:94004162 original size:5 final size:5
Alignment explanation
Indices: 94004152--94004184 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
94004142 TAAGAATTTA
94004152 CACGC CACGC CACGC CACGC CACGC CAGCGC CA
1 CACGC CACGC CACGC CACGC CACGC CA-CGC CA
94004185 GTCTTACTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.21, C:0.58, G:0.21, T:0.00
Consensus pattern (5 bp):
CACGC
Found at i:94011077 original size:36 final size:35
Alignment explanation
Indices: 94011030--94011097 Score: 100
Period size: 36 Copynumber: 1.9 Consensus size: 35
94011020 AAACCTTTAA
*
94011030 TAATTTAATTTAATGTAAAATTTTAAAAAATAACAG
1 TAATTTAATTTAATGTAAAA-TTAAAAAAATAACAG
* *
94011066 TAATTTAATTTAGTTTAAAATTAAAAAAATAA
1 TAATTTAATTTAATGTAAAATTAAAAAAATAA
94011098 GTAACCTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 11 0.38
36 18 0.62
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.40
Consensus pattern (35 bp):
TAATTTAATTTAATGTAAAATTAAAAAAATAACAG
Found at i:94016464 original size:21 final size:21
Alignment explanation
Indices: 94016440--94016481 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
94016430 ATCAAAACAA
94016440 AATAGTTTT-ACCTTTTAACTT
1 AATAGTTTTGA-CTTTTAACTT
94016461 AATAGTTTTGACTTTTAACTT
1 AATAGTTTTGACTTTTAACTT
94016482 TAGAAAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (21 bp):
AATAGTTTTGACTTTTAACTT
Found at i:94016841 original size:19 final size:19
Alignment explanation
Indices: 94016807--94016856 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
94016797 AAAATTGAAC
* *
94016807 TTTTTTATATATTTTTTAGAT
1 TTTTTTA-AAATTTTATA-AT
94016828 TTTTTTAAAATTTTATAAT
1 TTTTTTAAAATTTTATAAT
94016847 TTTTTTAAAA
1 TTTTTTAAAA
94016857 ATACAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 12 0.44
20 8 0.30
21 7 0.26
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTTTAAAATTTTATAAT
Found at i:94016857 original size:20 final size:21
Alignment explanation
Indices: 94016807--94016858 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
94016797 AAAATTGAAC
* * *
94016807 TTTTTTATATATTTTTTAGAT
1 TTTTTTAAAAATTTTATAGAT
94016828 TTTTTT-AAAATTTTATA-AT
1 TTTTTTAAAAATTTTATAGAT
94016847 TTTTTTAAAAAT
1 TTTTTTAAAAAT
94016859 ACAAAATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 8 0.30
20 13 0.48
21 6 0.22
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTTTAAAAATTTTATAGAT
Found at i:94016904 original size:19 final size:19
Alignment explanation
Indices: 94016864--94016905 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
94016854 AAAATACAAA
*
94016864 ATTTAGAATTTTTATAAAT
1 ATTTAGAATTTTGATAAAT
94016883 ATTTAGAATTTTGA-AAATT
1 ATTTAGAATTTTGATAAA-T
94016902 ATTT
1 ATTT
94016906 TGATTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (19 bp):
ATTTAGAATTTTGATAAAT
Found at i:94020916 original size:16 final size:17
Alignment explanation
Indices: 94020895--94020929 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
94020885 AGATGTGTAA
*
94020895 GTAATGAA-TTAATCAT
1 GTAATGAACTTAAACAT
94020911 GTAATGAACTTAAACAT
1 GTAATGAACTTAAACAT
94020928 GT
1 GT
94020930 TAAGTAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (17 bp):
GTAATGAACTTAAACAT
Found at i:94021236 original size:18 final size:18
Alignment explanation
Indices: 94021209--94021249 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
94021199 GTTTTTGTAG
94021209 TTCT-TTCACTAGTTATT
1 TTCTATTCACTAGTTATT
94021226 TTCTATTCACTAGTTATT
1 TTCTATTCACTAGTTATT
94021244 TTCTAT
1 TTCTAT
94021250 GTACCTAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.20, C:0.17, G:0.05, T:0.59
Consensus pattern (18 bp):
TTCTATTCACTAGTTATT
Found at i:94025870 original size:12 final size:12
Alignment explanation
Indices: 94025853--94025922 Score: 60
Period size: 12 Copynumber: 6.2 Consensus size: 12
94025843 TTGTAAGTTG
94025853 ATTATATATATT
1 ATTATATATATT
94025865 ATTATATATATT
1 ATTATATATATT
* *
94025877 CTTA-ATGT-TT
1 ATTATATATATT
* *
94025887 AAGTAAATATA-T
1 -ATTATATATATT
94025899 ATTATATATATT
1 ATTATATATATT
94025911 A-TAT-TATATT
1 ATTATATATATT
94025921 AT
1 AT
94025923 AATAAAACAA
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
10 9 0.20
11 16 0.35
12 21 0.46
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (12 bp):
ATTATATATATT
Found at i:94031728 original size:27 final size:27
Alignment explanation
Indices: 94031698--94031838 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
94031688 ATGACGAAGT
94031698 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
94031725 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* * *
94031752 CACCAGAT-TAGATAATCGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
94031779 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
94031806 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
94031833 CACCAG
1 CACCAG
94031839 GACGCTTCCT
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
26 10 0.10
27 86 0.86
28 4 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:94031773 original size:54 final size:54
Alignment explanation
Indices: 94031698--94031838 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
94031688 ATGACGAAGT
*
94031698 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
94031752 CACCAGATTAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
94031806 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
94031839 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 4 0.05
54 77 0.95
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:94033478 original size:26 final size:26
Alignment explanation
Indices: 94033447--94033554 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
94033437 ATGAATGCCC
*
94033447 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
94033473 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
94033499 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
94033525 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
94033551 ATCA
1 ATCA
94033555 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Done.