Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 108 of 135
Found at i:32891656 original size:15 final size:15
Alignment explanation
Indices: 32891606--32891657 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
32891596 ATGTCCTTTT
32891606 TACTTTTTGTTATTTG
1 TACTTTTTG-TATTTG
* * *
32891622 TACTTTTAGTCTTTC
1 TACTTTTTGTATTTG
* *
32891637 AACTTTTTGAATTTG
1 TACTTTTTGTATTTG
32891652 TACTTT
1 TACTTT
32891658 AACCTCTCAA
Statistics
Matches: 27, Mismatches: 9, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
15 19 0.70
16 8 0.30
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.62
Consensus pattern (15 bp):
TACTTTTTGTATTTG
Found at i:32891668 original size:29 final size:30
Alignment explanation
Indices: 32891607--32891676 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
32891597 TGTCCTTTTT
* ** *
32891607 ACTTTTTGTTATTTGTACTTTTAGTCTTTCA
1 ACTTTTTG-AATTTGTACTTTTAACCTCTCA
32891638 ACTTTTTGAATTTGTAC-TTTAACCTCTCA
1 ACTTTTTGAATTTGTACTTTTAACCTCTCA
32891667 AC-TTTTGAAT
1 ACTTTTTGAAT
32891677 ATTCACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 8 0.23
29 11 0.31
30 8 0.23
31 8 0.23
ACGTcount: A:0.21, C:0.16, G:0.09, T:0.54
Consensus pattern (30 bp):
ACTTTTTGAATTTGTACTTTTAACCTCTCA
Found at i:32891770 original size:16 final size:16
Alignment explanation
Indices: 32891749--32891786 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
32891739 TAATACTATA
*
32891749 TATTTTATTTATTTA-T
1 TATTTTA-TAATTTATT
32891765 TATTTTATAATTTATT
1 TATTTTATAATTTATT
32891781 TATTTT
1 TATTTT
32891787 TGGACCTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTTTATAATTTATT
Found at i:32914220 original size:20 final size:20
Alignment explanation
Indices: 32914195--32914241 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
32914185 AGATTTAACC
*
32914195 AAATTTCATGTGTAGTTTTG
1 AAATTTAATGTGTAGTTTTG
32914215 AAATTTAATGTGTAGTTTTG
1 AAATTTAATGTGTAGTTTTG
32914235 AAATTTA
1 AAATTTA
32914242 TCTCTATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (20 bp):
AAATTTAATGTGTAGTTTTG
Found at i:32922343 original size:29 final size:27
Alignment explanation
Indices: 32922240--32922357 Score: 89
Period size: 28 Copynumber: 4.2 Consensus size: 27
32922230 TTAACAAAGA
*
32922240 TTGCCACAAAGACGTCCTTTTAGAGGT
1 TTGCCACAAAGACTTCCTTTTAGAGGT
* *
32922267 TTGTCACAAAGACTTACCTTTCTA-AAGT
1 TTGCCACAAAGACTT-CCTTT-TAGAGGT
*
32922295 TTGCCACAGAGGA-TGTCCTTTTGAGAGGT
1 TTGCCACA-AAGACT-TCCTTTT-AGAGGT
* * *
32922324 TAGCCACAAAGGCTTACCTTTCTAGA-AT
1 TTGCCACAAAGACTT-CCTTT-TAGAGGT
32922352 TTGCCA
1 TTGCCA
32922358 TAGAAGCTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
27 14 0.20
28 31 0.44
29 25 0.35
30 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (27 bp):
TTGCCACAAAGACTTCCTTTTAGAGGT
Found at i:32922371 original size:57 final size:56
Alignment explanation
Indices: 32922235--32922363 Score: 163
Period size: 57 Copynumber: 2.3 Consensus size: 56
32922225 TTTCTTTAAC
* * * *
32922235 AAAGATTGCCACA-AAGACGTCCTTTTAGAGGTTTGTCACAAAGACTTACCTTTCT
1 AAAGTTTGCCACAGAAGATGTCCTTTTAGAGGTTAGCCACAAAGACTTACCTTTCT
* *
32922290 AAAGTTTGCCACAGAGGATGTCCTTTTGAGAGGTTAGCCACAAAGGCTTACCTTTCT
1 AAAGTTTGCCACAGAAGATGTCCTTTT-AGAGGTTAGCCACAAAGACTTACCTTTCT
*
32922347 AGAA-TTTGCCATAGAAG
1 A-AAGTTTGCCACAGAAG
32922364 CTTTCCTTAC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
55 12 0.19
56 11 0.17
57 38 0.60
58 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (56 bp):
AAAGTTTGCCACAGAAGATGTCCTTTTAGAGGTTAGCCACAAAGACTTACCTTTCT
Found at i:32924181 original size:23 final size:24
Alignment explanation
Indices: 32924129--32924181 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
32924119 TTAGGAGCAG
* *
32924129 AAATT-AAATTATAATTTTTATTA
1 AAATTAAAAATATAATTTTTATAA
*
32924152 TAA-TAAAAATATAATTTTTA-AA
1 AAATTAAAAATATAATTTTTATAA
32924174 AAATTAAA
1 AAATTAAA
32924182 TCAAAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
AAATTAAAAATATAATTTTTATAA
Found at i:32924518 original size:39 final size:39
Alignment explanation
Indices: 32924464--32924540 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
32924454 GTAACCTAAA
32924464 TTCGAATCGCACTAATCACGTTATTGTTAGAAAAAAACT
1 TTCGAATCGCACTAATCACGTTATTGTTAGAAAAAAACT
* *
32924503 TTCGAGTCGCGCTAATCACGTTATTGTTAGAAAAAAAC
1 TTCGAATCGCACTAATCACGTTATTGTTAGAAAAAAAC
32924541 AATATCAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (39 bp):
TTCGAATCGCACTAATCACGTTATTGTTAGAAAAAAACT
Found at i:32930856 original size:17 final size:16
Alignment explanation
Indices: 32930834--32930930 Score: 106
Period size: 17 Copynumber: 5.8 Consensus size: 16
32930824 AATTTTTAAT
*
32930834 TTTTAAACTTTAGTTTA
1 TTTTAAA-TTTAATTTA
32930851 TTTTAAATTTAAATTTA
1 TTTTAAATTT-AATTTA
*
32930868 TTTTAAATTTAAATTCA
1 TTTTAAATTT-AATTTA
32930885 -TTTAGAATTTAAATTTA
1 TTTTA-AATTT-AATTTA
*
32930902 TATTAAATTTGAATTTA
1 TTTTAAATTT-AATTTA
32930919 TTTTAAATTTAA
1 TTTTAAATTTAA
32930931 ATGTTTAAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
16 9 0.13
17 59 0.83
18 3 0.04
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (16 bp):
TTTTAAATTTAATTTA
Found at i:32930872 original size:34 final size:34
Alignment explanation
Indices: 32930834--32930932 Score: 130
Period size: 34 Copynumber: 2.9 Consensus size: 34
32930824 AATTTTTAAT
*
32930834 TTTTAAACTTT-AGTTTATTTTAAATTTAAATTTA
1 TTTTAAA-TTTAAATTTATTTTAAATTTAAATTTA
*
32930868 TTTTAAATTTAAATTCA-TTTAGAATTTAAATTTA
1 TTTTAAATTTAAATTTATTTTA-AATTTAAATTTA
* *
32930902 TATTAAATTTGAATTTATTTTAAATTTAAAT
1 TTTTAAATTTAAATTTATTTTAAATTTAAAT
32930933 GTTTAAATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
33 7 0.12
34 46 0.81
35 4 0.07
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (34 bp):
TTTTAAATTTAAATTTATTTTAAATTTAAATTTA
Found at i:32930894 original size:7 final size:6
Alignment explanation
Indices: 32930852--32930946 Score: 74
Period size: 6 Copynumber: 16.0 Consensus size: 6
32930842 TTTAGTTTAT
* *
32930852 TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA -TT-CA TTTAGAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA-AA TTTAAA
* * *
32930898 TTTATA -TTAAA TTTGAA TTT-AT TTTAAA TTTAAA TGTTTAAA TATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA --TTTAAA T-TTAAA
32930947 AGTCTAAATA
Statistics
Matches: 71, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
4 1 0.01
5 16 0.23
6 38 0.54
7 10 0.14
8 6 0.08
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:32930907 original size:11 final size:11
Alignment explanation
Indices: 32930852--32930932 Score: 56
Period size: 11 Copynumber: 7.1 Consensus size: 11
32930842 TTTAGTTTAT
32930852 TTTAAATTTAAA
1 TTTAAA-TTAAA
**
32930864 TTTATTTTAAA
1 TTTAAATTAAA
*
32930875 TTTAAATT-CA
1 TTTAAATTAAA
32930885 TTTAGAATTTAAA
1 TTTA-AA-TTAAA
*
32930898 TTTATATTAAA
1 TTTAAATTAAA
* * *
32930909 TTTGAATTTAT
1 TTTAAATTAAA
32930920 TTTAAATTTAAA
1 TTTAAA-TTAAA
32930932 T
1 T
32930933 GTTTAAATAT
Statistics
Matches: 51, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
10 5 0.10
11 30 0.59
12 11 0.22
13 5 0.10
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (11 bp):
TTTAAATTAAA
Found at i:32931642 original size:16 final size:16
Alignment explanation
Indices: 32931615--32931652 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
32931605 TAATTGCTAC
*
32931615 TAATAA-TATAATTAT
1 TAATAATTATAATAAT
32931630 TAATAATTATAATAAT
1 TAATAATTATAATAAT
*
32931646 AAATAAT
1 TAATAAT
32931653 ACCAATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATAATTATAATAAT
Found at i:32932786 original size:30 final size:26
Alignment explanation
Indices: 32932756--32932856 Score: 69
Period size: 30 Copynumber: 3.5 Consensus size: 26
32932746 GGACTGTCCA
32932756 AAAATTACCATTTTACCCCTAAACTTTCC
1 AAAATT-CCATTTTACCCC--AACTTTCC
* **
32932785 AAAATTTCATTTTTAACCCC-GGTTTCACC
1 AAAATTCCA-TTTT-ACCCCAACTTT--CC
32932814 AAAAATTACCATTTTACCCCCGAACTTTCC
1 -AAAATT-CCATTTTA-CCCC-AACTTTCC
32932844 AAAATTCCATTTT
1 AAAATTCCATTTT
32932857 TAACCCCGAT
Statistics
Matches: 57, Mismatches: 6, Indels: 19
0.70 0.07 0.23
Matches are distributed among these distances:
27 3 0.05
28 9 0.16
29 19 0.33
30 21 0.37
31 2 0.04
32 3 0.05
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.36
Consensus pattern (26 bp):
AAAATTCCATTTTACCCCAACTTTCC
Found at i:32932815 original size:29 final size:29
Alignment explanation
Indices: 32932783--32932935 Score: 86
Period size: 29 Copynumber: 5.2 Consensus size: 29
32932773 CCTAAACTTT
32932783 CCAAAATTTCATTTTTAACCCCGGTTTCA
1 CCAAAATTTCATTTTTAACCCCGGTTTCA
* * *
32932812 CCAAAAATTACCA-TTTTACCCCCGAACTTT--
1 CC-AAAATT-TCATTTTTAACCCCG--GTTTCA
* *
32932842 CCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAATTTCATTTTTAACCCCGGTTTCA
* * *
32932871 TCAAAAATTATCA-TTTT-ACCCCCGTACTT-T
1 -CCAAAATT-TCATTTTTAACCCCGGT--TTCA
* *
32932901 CCAAAATCTT-ATTTTTAACCCTGGTATCA
1 CCAAAAT-TTCATTTTTAACCCCGGTTTCA
32932930 CCAAAA
1 CCAAAA
32932936 ATCACCATTT
Statistics
Matches: 94, Mismatches: 15, Indels: 30
0.68 0.11 0.22
Matches are distributed among these distances:
27 3 0.03
28 5 0.05
29 41 0.44
30 36 0.38
31 6 0.06
32 3 0.03
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.35
Consensus pattern (29 bp):
CCAAAATTTCATTTTTAACCCCGGTTTCA
Found at i:32932816 original size:59 final size:59
Alignment explanation
Indices: 32932753--32932994 Score: 324
Period size: 59 Copynumber: 4.1 Consensus size: 59
32932743 CCTGGACTGT
* *
32932753 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTTCATTTTTAACCCCGGTTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCA
* *
32932812 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCA
* * ** * * *
32932871 TCAAAAATTATCATTTTACCCCCGTACTTTCCAAAA-TCTTATTTTTAACCCTGGTATCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTC-CATTTTTAACCCCGGTTTCA
* * * *
32932930 CCAAAAATCACCATTTTACCCCTCAAACTTTCTAAAATTCCATTTTTAACCCCTGTTTCG
1 CCAAAAATTACCATTTTACCCC-CAAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCA
32932990 CCAAA
1 CCAAA
32932995 GTTTCCAAAA
Statistics
Matches: 158, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
58 2 0.01
59 123 0.78
60 31 0.20
61 2 0.01
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.35
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCA
Found at i:32932863 original size:30 final size:28
Alignment explanation
Indices: 32932756--32932907 Score: 105
Period size: 29 Copynumber: 5.2 Consensus size: 28
32932746 GGACTGTCCA
**
32932756 AAAATTACCATTTTACCCCTAAACTTTCC
1 AAAATT-CCATTTTACCCCCGAACTTTCC
* * *
32932785 AAAATTTCATTTTTAACCCCG--GTTTCACC
1 AAAATTCCA-TTTTACCCCCGAACTTT--CC
32932814 AAAAATTACCATTTTACCCCCGAACTTTCC
1 -AAAATT-CCATTTTACCCCCGAACTTTCC
*
32932844 AAAATTCCATTTTTAACCCCG-A-TTTCATC
1 AAAATTCCA-TTTTACCCCCGAACTTTC--C
* *
32932873 AAAAATTATCATTTTACCCCCGTACTTTCC
1 -AAAATT-CCATTTTACCCCCGAACTTTCC
32932903 AAAAT
1 AAAAT
32932908 CTTATTTTTA
Statistics
Matches: 98, Mismatches: 11, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
27 7 0.07
28 6 0.06
29 38 0.39
30 35 0.36
31 5 0.05
32 7 0.07
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (28 bp):
AAAATTCCATTTTACCCCCGAACTTTCC
Found at i:32933032 original size:38 final size:38
Alignment explanation
Indices: 32932953--32933032 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
32932943 TTTTACCCCT
* * * ***
32932953 CAAACTTTCTAAAATTCCATTTTTAACCCCTGTTTCGC
1 CAAACTTTCCAAAATTCCATTTTTAACCCCGGGTAAAC
*
32932991 CAAAGTTTCCAAAATTCCATTTTTAACCCCGGGTAAAC
1 CAAACTTTCCAAAATTCCATTTTTAACCCCGGGTAAAC
32933029 CAAA
1 CAAA
32933033 AATTACCATT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.33
Consensus pattern (38 bp):
CAAACTTTCCAAAATTCCATTTTTAACCCCGGGTAAAC
Found at i:32933087 original size:29 final size:29
Alignment explanation
Indices: 32933028--32933091 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
32933018 CCCGGGTAAA
* *
32933028 CCAAAAATTACCATTTTGCCCCTGCGCAT
1 CCAAAAATTACCATTTTGCCCCCGAGCAT
*
32933057 CCAAAAATTACCATTTTGCCCCCGAGTAT
1 CCAAAAATTACCATTTTGCCCCCGAGCAT
32933086 CCAAAA
1 CCAAAA
32933092 GTCCCGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.33, C:0.33, G:0.09, T:0.25
Consensus pattern (29 bp):
CCAAAAATTACCATTTTGCCCCCGAGCAT
Found at i:32945274 original size:76 final size:76
Alignment explanation
Indices: 32945143--32945902 Score: 1325
Period size: 76 Copynumber: 10.0 Consensus size: 76
32945133 CACATCAATC
* *
32945143 CAACATCATTTCCTACCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACGTCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
32945208 TGAAGTAAGAG
66 TGAAGTAAGAG
32945219 CAACGTCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACGTCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
32945284 TGAAGTAAGAG
66 TGAAGTAAGAG
* *
32945295 CAATGTCATCTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACGTCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
32945360 TGAAGTAAGAG
66 TGAAGTAAGAG
*
32945371 CAACGTCATTTCCTATCCTCTTGAAACTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACGTCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
32945436 TGAAGTAAGAG
66 TGAAGTAAGAG
* *
32945447 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTTTGAAAT
1 CAACGTCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
32945512 TGAAGTAAGAG
66 TGAAGTAAGAG
*
32945523 CAACGTCATTTCCTATCCTCTTGAAACTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACGTCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
32945588 TGAAGTAAGAG
66 TGAAGTAAGAG
*
32945599 CAACGTCATTTCCTATCCTCTTGAAACTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACGTCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
32945664 TGAAGTAAGAG
66 TGAAGTAAGAG
32945675 CAACGTCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACGTCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
32945740 TGAAGTAAGAG
66 TGAAGTAAGAG
* *
32945751 CAACGTCATCTCCTATCATCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACGTCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
32945816 TGAAGTAAGAG
66 TGAAGTAAGAG
* * *
32945827 CAA-GATCATTTCCTA---TC--GAAATTGAAGTAAAGTTAGATAGCAAGTCTTTATCTCTCTGA
1 CAACG-TCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTA--TCTCTGA
32945886 AATTGAAGTAAGAG
63 AATTGAAGTAAGAG
32945900 CAA
1 CAA
32945903 GATGAAGCCT
Statistics
Matches: 661, Mismatches: 20, Indels: 9
0.96 0.03 0.01
Matches are distributed among these distances:
71 30 0.05
73 26 0.04
75 1 0.00
76 604 0.91
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (76 bp):
CAACGTCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
TGAAGTAAGAG
Found at i:32946209 original size:17 final size:17
Alignment explanation
Indices: 32946189--32946240 Score: 77
Period size: 17 Copynumber: 3.1 Consensus size: 17
32946179 TAAACCTTAG
32946189 TTTATTTTAAATTTAAA
1 TTTATTTTAAATTTAAA
* *
32946206 TTTATGTTAAATTTGAA
1 TTTATTTTAAATTTAAA
*
32946223 TTTATTTTGAATTTAAA
1 TTTATTTTAAATTTAAA
32946240 T
1 T
32946241 GTTTAAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.58
Consensus pattern (17 bp):
TTTATTTTAAATTTAAA
Found at i:32946967 original size:15 final size:15
Alignment explanation
Indices: 32946947--32946988 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
32946937 TCTTAATTGC
32946947 TATTAATAATATAAT
1 TATTAATAATATAAT
32946962 TATTAATAATTATAAT
1 TATTAATAA-TATAAT
* *
32946978 AATAAATAATA
1 TATTAATAATA
32946989 CCAATAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TATTAATAATATAAT
Found at i:32948090 original size:29 final size:28
Alignment explanation
Indices: 32948048--32948336 Score: 153
Period size: 29 Copynumber: 9.8 Consensus size: 28
32948038 GCACTGTCCA
32948048 AAAATTACCATTTTACCCCCGAACTTTCC
1 AAAATT-CCATTTTACCCCCGAACTTTCC
* * *
32948077 AAAATTCCATTTTTAACCTCG--GTTTCACC
1 AAAATTCCA-TTTTACCCCCGAACTTT--CC
*
32948106 AAAAATTACCATTTTACCCCTGAACTTTCC
1 -AAAATT-CCATTTTACCCCCGAACTTTCC
* * *
32948136 CAAATTCCATTTTTAACCCCG--GTTTCATC
1 AAAATTCCA-TTTTACCCCCGAACTTTC--C
**
32948165 AAAAATTACCATTTTACCCCTAAACTTTCC
1 -AAAATT-CCATTTTACCCCCGAACTTTCC
* *
32948195 AAAATTCCATTTTTAACCCC--AGTTTCATC
1 AAAATTCCA-TTTTACCCCCGAACTTTC--C
32948224 AAAAATTACCATTTTACCCCCGAACTTTCC
1 -AAAATT-CCATTTTACCCCCGAACTTTCC
* * **
32948254 AAAA-TCCTATCTTTAACCCCGGTA-TCACC
1 AAAATTCC-AT-TTT-ACCCCCGAACTTTCC
*
32948283 AAAAAATCACCATTTTACCCCCCGAACTTTCC
1 --AAAAT-TCCATTTTA-CCCCCGAACTTTCC
*
32948315 AAAATTCCATTTTTAGCCCCGA
1 AAAATTCCA-TTTTACCCCCGA
32948337 TTTCGCCAAA
Statistics
Matches: 197, Mismatches: 32, Indels: 62
0.68 0.11 0.21
Matches are distributed among these distances:
27 14 0.07
28 12 0.06
29 66 0.34
30 64 0.32
31 22 0.11
32 17 0.09
33 2 0.01
ACGTcount: A:0.31, C:0.31, G:0.04, T:0.33
Consensus pattern (28 bp):
AAAATTCCATTTTACCCCCGAACTTTCC
Found at i:32948109 original size:59 final size:59
Alignment explanation
Indices: 32948045--32948346 Score: 444
Period size: 59 Copynumber: 5.1 Consensus size: 59
32948035 CCTGCACTGT
*
32948045 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGGTTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCA
* *
32948104 CCAAAAATTACCATTTTACCCCTGAACTTTCCCAAATTCCATTTTTAACCCCGGTTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCA
* ** *
32948163 TCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCA
* * *
32948222 TCAAAAATTACCATTTTACCCCCGAACTTTCCAAAA-TCCTATCTTTAACCCCGGTATCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCC-ATTTTTAACCCCGGTTTCA
* * * *
32948281 CCAAAAAATCACCATTTTACCCCCCGAACTTTCCAAAATTCCATTTTTAGCCCCGATTTCG
1 CC-AAAAATTACCATTTTA-CCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCA
32948342 CCAAA
1 CCAAA
32948347 GTTTCCAAAA
Statistics
Matches: 220, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
58 3 0.01
59 162 0.74
60 18 0.08
61 34 0.15
62 3 0.01
ACGTcount: A:0.31, C:0.32, G:0.05, T:0.32
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCA
Found at i:32948384 original size:38 final size:38
Alignment explanation
Indices: 32948310--32948384 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
32948300 CCCCCCGAAC
* * **
32948310 TTTCCAAAATTCCATTTTTAGCCCCGATTTCGCCAAAG
1 TTTCCAAAATTCCATTTTTAACCCCGAGTTAACCAAAG
*
32948348 TTTCCAAAATTCCATTTTTAACCCCGGGTTAACCAAA
1 TTTCCAAAATTCCATTTTTAACCCCGAGTTAACCAAA
32948385 ACTTACCATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.33
Consensus pattern (38 bp):
TTTCCAAAATTCCATTTTTAACCCCGAGTTAACCAAAG
Found at i:32948401 original size:29 final size:28
Alignment explanation
Indices: 32948353--32948443 Score: 73
Period size: 29 Copynumber: 3.1 Consensus size: 28
32948343 CAAAGTTTCC
32948353 AAAATT-CCATTTT-TAACCCCGGGTTAACCA
1 AAAATTACCATTTTGT--CCCCGGG-T-ACCA
*
32948383 AAACTTACCATTTTG-CCCCTGCGCGT-CCA
1 AAAATTACCATTTTGTCCCC-G-G-GTACCA
32948412 AAAATTACCATTTTGTCCCCGGGTATCCA
1 AAAATTACCATTTTGTCCCCGGGTA-CCA
32948441 AAA
1 AAA
32948444 GTCCCGTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
27 2 0.04
28 1 0.02
29 28 0.55
30 10 0.20
31 9 0.18
32 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.29
Consensus pattern (28 bp):
AAAATTACCATTTTGTCCCCGGGTACCA
Found at i:32949827 original size:15 final size:17
Alignment explanation
Indices: 32949807--32949839 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
32949797 ACAGACTTAA
32949807 ATAAATT-TAAAT-TTT
1 ATAAATTATAAATATTT
32949822 ATAAATTATAAATATTT
1 ATAAATTATAAATATTT
32949839 A
1 A
32949840 ATTTTGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 5 0.31
17 4 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATAAATTATAAATATTT
Found at i:32950686 original size:20 final size:18
Alignment explanation
Indices: 32950663--32950755 Score: 80
Period size: 20 Copynumber: 4.8 Consensus size: 18
32950653 CAAAAAAAAT
32950663 AAATAGTTTTCAAAAATTCA
1 AAATA-TTTT-AAAAATTCA
*
32950683 AAATAATTTTTAAAATTCA
1 AAAT-ATTTTAAAAATTCA
*
32950702 AAATATTTATAAAAAATTAA
1 AAATATTT-T-AAAAATTCA
*
32950722 AATTTATATTTTAAAAATTCT
1 AA---ATATTTTAAAAATTCA
32950743 AAAT-TTTTAAAAA
1 AAATATTTTAAAAA
32950756 AATCTAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
17 9 0.15
18 6 0.10
19 13 0.21
20 17 0.27
21 10 0.16
22 1 0.02
23 6 0.10
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (18 bp):
AAATATTTTAAAAATTCA
Found at i:32950716 original size:19 final size:19
Alignment explanation
Indices: 32950674--32950758 Score: 66
Period size: 19 Copynumber: 4.3 Consensus size: 19
32950664 AATAGTTTTC
32950674 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
*
32950693 TAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
32950712 AAAAAATT-AAAATTTATATTTT
1 -AAAAATTCAAAA--TAT-TTAT
* * *
32950734 AAAAATTCTAAATTTTTAA
1 AAAAATTCAAAATATTTAT
32950753 AAAAAT
1 AAAAAT
32950759 CTAATTTTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
18 4 0.08
19 25 0.47
20 8 0.15
21 10 0.19
22 6 0.11
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:32950717 original size:39 final size:37
Alignment explanation
Indices: 32950662--32950803 Score: 128
Period size: 41 Copynumber: 3.7 Consensus size: 37
32950652 ACAAAAAAAA
*
32950662 TAAATAGTTTTCAAAAATTCAAAATAATTTTTAAAATTC
1 TAAATA-TTTTAAAAAATT-AAAATAATTTTTAAAATTC
* *
32950701 AAAATATTTATAAAAAATTAAAATTTATATTTTAAAAATTC
1 TAAATATTT-TAAAAAATTAAAA--TA-ATTTTTAAAATTC
** **
32950742 TAAAT-TTTTAAAAAAATCTAATTTTTTTTTTAAAATT-
1 TAAATATTTT-AAAAAAT-TAAAATAATTTTTAAAATTC
32950779 TAAA-ATTTTAAAAAATTAAAATAAT
1 TAAATATTTTAAAAAATTAAAATAAT
32950804 AATTTTTGGG
Statistics
Matches: 83, Mismatches: 13, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
35 5 0.06
36 7 0.08
37 8 0.10
38 17 0.20
39 15 0.18
40 12 0.14
41 19 0.23
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.44
Consensus pattern (37 bp):
TAAATATTTTAAAAAATTAAAATAATTTTTAAAATTC
Found at i:32950768 original size:18 final size:17
Alignment explanation
Indices: 32950730--32950767 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
32950720 AAAATTTATA
*
32950730 TTTTAAAAATTCTAAAT
1 TTTTAAAAAATCTAAAT
32950747 TTTTAAAAAAATCT-AAT
1 TTTT-AAAAAATCTAAAT
32950764 TTTT
1 TTTT
32950768 TTTTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTTAAAAAATCTAAAT
Found at i:32950787 original size:19 final size:19
Alignment explanation
Indices: 32950675--32950787 Score: 57
Period size: 19 Copynumber: 5.8 Consensus size: 19
32950665 ATAGTTTTCA
* **
32950675 AAAATTCAAAATAATTTTT
1 AAAATTTAAAATTTTTTTT
* * * *
32950694 AAAATTCAAAATATTTATA
1 AAAATTTAAAATTTTTTTT
*
32950713 AAAAATTAAAATTTATATTTT
1 AAAATTTAAAATTT-T-TTTT
***
32950734 AAAAATTCT-AAATTTTTAAA
1 -AAAATT-TAAAATTTTTTTT
* **
32950754 AAAATCTAATTTTTTTTTT
1 AAAATTTAAAATTTTTTTT
32950773 AAAATTTAAAATTTT
1 AAAATTTAAAATTTT
32950788 AAAAAATTAA
Statistics
Matches: 68, Mismatches: 21, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
18 1 0.01
19 50 0.74
20 2 0.03
21 3 0.04
22 11 0.16
23 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAATTTAAAATTTTTTTT
Found at i:32950810 original size:39 final size:38
Alignment explanation
Indices: 32950669--32950810 Score: 119
Period size: 39 Copynumber: 3.7 Consensus size: 38
32950659 AAATAAATAG
* *
32950669 TTTTCAAAAATTCAAAA-TAA-TTTTTAAAATTCAAAATA
1 TTTTAAAAAATT-AAAATTAATTTTTTAAAATTCTAAA-A
* * *
32950707 TTTATAAAAAATTAAAATTTATATTTTAAAAATTCTAAAT
1 TTT-TAAAAAATTAAAATTAAT-TTTTTAAAATTCTAAAA
* ** **
32950747 TTTTAAAAAAATCTAATTTTTTTTTTAAAATT-TAAAA
1 TTTTAAAAAATTAAAATTAATTTTTTAAAATTCTAAAA
32950784 TTTTAAAAAATTAAAATAATAATTTTT
1 TTTTAAAAAATTAAAAT--TAATTTTT
32950811 GGGACCTAAT
Statistics
Matches: 82, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
37 18 0.22
38 17 0.21
39 30 0.37
40 3 0.04
41 14 0.17
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (38 bp):
TTTTAAAAAATTAAAATTAATTTTTTAAAATTCTAAAA
Found at i:32955207 original size:68 final size:68
Alignment explanation
Indices: 32955110--32955360 Score: 351
Period size: 68 Copynumber: 3.7 Consensus size: 68
32955100 CATAGTCGAA
* *
32955110 CTATGGTTTTACA-AAGTATGAACCCATGTTTAATGTCCTGGCGGACTCTATATGTTGCCATAGC
1 CTATGGTCTTACACAA-TATGAACCCATGTTTAATGTCCTGGCGGACTCCATATGTTGCCATAGC
32955174 CTAG
65 CTAG
* * *
32955178 GTATGGTCTTACACAATATGAACCCATGTTTAATGTCCTGGCGGACTCCATATGTTGTCATAGCT
1 CTATGGTCTTACACAATATGAACCCATGTTTAATGTCCTGGCGGACTCCATATGTTGCCATAGCC
32955243 TAG
66 TAG
* * * * * *
32955246 CTATGGTCTTACACATTATAAACTCATGTTTAATGTCCTAGCGGACTCCACATGTTGCCATGGCC
1 CTATGGTCTTACACAATATGAACCCATGTTTAATGTCCTGGCGGACTCCATATGTTGCCATAGCC
32955311 TAG
66 TAG
* * * *
32955314 CTATGATCTTACACATTATGAAACCATGTTTAATGTCCTGGTGGACT
1 CTATGGTCTTACACAATATGAACCCATGTTTAATGTCCTGGCGGACT
32955361 TTTGATTCCA
Statistics
Matches: 162, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
68 160 0.99
69 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (68 bp):
CTATGGTCTTACACAATATGAACCCATGTTTAATGTCCTGGCGGACTCCATATGTTGCCATAGCC
TAG
Found at i:32957599 original size:18 final size:18
Alignment explanation
Indices: 32957566--32957618 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
32957556 GCTGAAAAAA
32957566 AAATAAATTT--TTAATT
1 AAATAAATTTAATTAATT
32957582 AAATAAATTTAATTAATT
1 AAATAAATTTAATTAATT
*
32957600 AAA-AATTTTAAATTAATT
1 AAATAAATTT-AATTAATT
32957618 A
1 A
32957619 CAACTGAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
16 10 0.30
17 5 0.15
18 18 0.55
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATAAATTTAATTAATT
Found at i:32958298 original size:18 final size:18
Alignment explanation
Indices: 32958275--32958331 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
32958265 AATATATTTA
32958275 AAAATTATTAAGAATTAC
1 AAAATTATTAAGAATTAC
*
32958293 AAAATTATTTAA-AATTAA
1 AAAATTA-TTAAGAATTAC
* *
32958311 AATAAATATT-CGAATTAC
1 AA-AATTATTAAGAATTAC
32958329 AAA
1 AAA
32958332 TTAATTATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
17 1 0.03
18 23 0.72
19 8 0.25
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (18 bp):
AAAATTATTAAGAATTAC
Found at i:32978059 original size:8 final size:8
Alignment explanation
Indices: 32978046--32978072 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
32978036 TAAAAATTTG
32978046 AAATAATA
1 AAATAATA
32978054 AAATAATA
1 AAATAATA
32978062 AAATAATA
1 AAATAATA
32978070 AAA
1 AAA
32978073 ACTAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAATAATA
Found at i:32983433 original size:24 final size:24
Alignment explanation
Indices: 32983405--32983465 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
32983395 AGAAACAATC
*
32983405 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTATTTA
*
32983429 TTTCAATTAAACTCTGTTTATTTA
1 TTTCAGTTAAACTCTGTTTATTTA
* *
32983453 TTTGAGTCAAACT
1 TTTCAGTTAAACT
32983466 TTTATTAGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.51
Consensus pattern (24 bp):
TTTCAGTTAAACTCTGTTTATTTA
Found at i:32985366 original size:29 final size:31
Alignment explanation
Indices: 32985333--32985412 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
32985323 TGATTTGTTA
*
32985333 AAATTTGA-ATTAATTTTAAATTCA-TT-TTT
1 AAATTT-ATATTAAATTTAAATTCACTTATTT
* *
32985362 AAATTTATCTTAAATTTAAATTTACTTATTT
1 AAATTTATATTAAATTTAAATTCACTTATTT
*
32985393 AAATTTATTTTAAATTTAAA
1 AAATTTATATTAAATTTAAA
32985413 CTTAATTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
28 1 0.02
29 19 0.43
30 2 0.05
31 22 0.50
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (31 bp):
AAATTTATATTAAATTTAAATTCACTTATTT
Found at i:32985397 original size:31 final size:29
Alignment explanation
Indices: 32985342--32985412 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 29
32985332 AAAATTTGAA
*
32985342 TTAATTTTAAATTCATTTTTAAATTTATC
1 TTAAATTTAAATTCATTTTTAAATTTATC
* *
32985371 TTAAATTTAAATTTACTTATTTAAATTTATT
1 TTAAATTTAAATTCA-TT-TTTAAATTTATC
32985402 TTAAATTTAAA
1 TTAAATTTAAA
32985413 CTTAATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 13 0.35
30 2 0.05
31 22 0.59
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (29 bp):
TTAAATTTAAATTCATTTTTAAATTTATC
Found at i:32985409 original size:11 final size:11
Alignment explanation
Indices: 32985340--32985410 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
32985330 TTAAAATTTG
*
32985340 AATTAATTTTA
1 AATTTATTTTA
*
32985351 AATTCATTTTTA
1 AATTTA-TTTTA
*
32985363 AATTTATCTTA
1 AATTTATTTTA
*
32985374 AATTTAAATTT-
1 AATTT-ATTTTA
*
32985385 -ACTTA-TTTA
1 AATTTATTTTA
32985394 AATTTATTTTA
1 AATTTATTTTA
32985405 AATTTA
1 AATTTA
32985411 AACTTAATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 3 0.06
9 1 0.02
10 7 0.15
11 24 0.50
12 13 0.27
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTATTTTA
Found at i:32985421 original size:17 final size:17
Alignment explanation
Indices: 32985389--32985423 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
32985379 AAATTTACTT
* *
32985389 ATTTAAATTTATTTTAA
1 ATTTAAACTTAATTTAA
32985406 ATTTAAACTTAATTTAA
1 ATTTAAACTTAATTTAA
32985423 A
1 A
32985424 ATAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAACTTAATTTAA
Found at i:32985507 original size:32 final size:32
Alignment explanation
Indices: 32985466--32985533 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
32985456 GTCCATTTAC
* *
32985466 AAAAAAGGCCCAAATTAAAGGTCCGATTACAA
1 AAAAAAGGCCCAAATTAAAAGCCCGATTACAA
32985498 AAAAAAGGCCCAAATTAAAAGCCCGATTACAA
1 AAAAAAGGCCCAAATTAAAAGCCCGATTACAA
32985530 AAAA
1 AAAA
32985534 GGGCCCGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.54, C:0.19, G:0.13, T:0.13
Consensus pattern (32 bp):
AAAAAAGGCCCAAATTAAAAGCCCGATTACAA
Found at i:32985532 original size:31 final size:31
Alignment explanation
Indices: 32985462--32985539 Score: 113
Period size: 32 Copynumber: 2.5 Consensus size: 31
32985452 CAATGTCCAT
* *
32985462 TTAC-AAAAAAGGCCCAAATTAAAGGTCCGA
1 TTACAAAAAAAGGCCCAAATTAAAAGCCCGA
32985492 TTACAAAAAAAAGGCCCAAATTAAAAGCCCGA
1 TTAC-AAAAAAAGGCCCAAATTAAAAGCCCGA
*
32985524 TTACAAAAAAGGGCCC
1 TTACAAAAAAAGGCCC
32985540 GATTACAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 4 0.09
31 11 0.26
32 28 0.65
ACGTcount: A:0.49, C:0.22, G:0.15, T:0.14
Consensus pattern (31 bp):
TTACAAAAAAAGGCCCAAATTAAAAGCCCGA
Found at i:32987354 original size:162 final size:163
Alignment explanation
Indices: 32987082--32987421 Score: 612
Period size: 162 Copynumber: 2.1 Consensus size: 163
32987072 AGCTTTTAAT
*
32987082 TTAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACGTGTCATTTTTTTGGATTATTTATGC
1 TTAGTCCTTTGACTGTTTGACTGTACCAGAGGCTACCACGTGTCATTTTTTTGGATTATTTATGC
*
32987147 ATTTAGTCCTTTTTATTTTTAATTTGTCTTAATTTAATTCCCAAATCAACTTTTATTTAATTACG
66 ATTTAGTCCTTTTTATTTTTAATTTGTCTTAATTTAATCCCCAAATCAACTTTTATTTAATTACG
*
32987212 AAATTGGCCCAAGAATTTTTCATAG-TTTATAAA
131 AAATTGGCCCAAGAATTTTTCA-AGATTTACAAA
32987245 TTAGTCCTTTGACTGTTTGACTGTACCAGAGGCTACCACGTGTCA-TTTTTTGGATTATTTATGC
1 TTAGTCCTTTGACTGTTTGACTGTACCAGAGGCTACCACGTGTCATTTTTTTGGATTATTTATGC
32987309 ATTTAGTCCTTTTTATTTTTAATTTGTCTTAATTTAATCCCCAAATCAACTTTTATTTAATTACG
66 ATTTAGTCCTTTTTATTTTTAATTTGTCTTAATTTAATCCCCAAATCAACTTTTATTTAATTACG
*
32987374 AAATTGGCCCAAGAATTTTTCAAGATTTACAAC
131 AAATTGGCCCAAGAATTTTTCAAGATTTACAAA
*
32987407 TTAATCCTTTGACTG
1 TTAGTCCTTTGACTG
32987422 CTGGATGCCT
Statistics
Matches: 171, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
161 2 0.01
162 125 0.73
163 44 0.26
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (163 bp):
TTAGTCCTTTGACTGTTTGACTGTACCAGAGGCTACCACGTGTCATTTTTTTGGATTATTTATGC
ATTTAGTCCTTTTTATTTTTAATTTGTCTTAATTTAATCCCCAAATCAACTTTTATTTAATTACG
AAATTGGCCCAAGAATTTTTCAAGATTTACAAA
Found at i:32987682 original size:58 final size:59
Alignment explanation
Indices: 32987553--32987749 Score: 292
Period size: 58 Copynumber: 3.4 Consensus size: 59
32987543 GAAACTTCTG
* **
32987553 AAAATTACCATTTTACCCCCGAATGC-TCTAAAATTCTATTTTTAACCAAGATTTCACCA
1 AAAATTACCATTTTACCCCCGAAT-CTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
32987612 AAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCA-TTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
* *
32987670 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTTAACCCCAATTTCACC-
1 AAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCA-TTTTTAACCCCGATTTCACCA
* *
32987729 AAAATCACCATTTTGCCCCCG
1 AAAATTACCATTTTACCCCCG
32987750 GGTATCCACA
Statistics
Matches: 128, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
58 56 0.44
59 54 0.42
60 18 0.14
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:32987712 original size:29 final size:29
Alignment explanation
Indices: 32987539--32987711 Score: 138
Period size: 29 Copynumber: 5.9 Consensus size: 29
32987529 TACATTCTGA
*
32987539 CCCCGAAACTTCTGAAAATTACCATTTTAC
1 CCCCGAATCTTCT-AAAATTACCATTTTAC
* *
32987569 CCCCGAATGC-TCTAAAATT-CTATTTTTAA
1 CCCCGAAT-CTTCTAAAATTACCA-TTTTAC
** * ** *
32987598 CCAAGATTTCACCAAAAATTACCATTTTAC
1 CCCCGA-ATCTTCTAAAATTACCATTTTAC
*
32987628 CCCCGAATCTTCTAAAATT-CCATTTTAA
1 CCCCGAATCTTCTAAAATTACCATTTTAC
* ** *
32987656 CCCCGATTTCACCAAAAATTACCATTTTAC
1 CCCCGA-ATCTTCTAAAATTACCATTTTAC
*
32987686 CCCCGAATCTTTTAAAATT-CCATTTT
1 CCCCGAATCTTCTAAAATTACCATTTT
32987712 TTAACCCCAA
Statistics
Matches: 109, Mismatches: 27, Indels: 16
0.72 0.18 0.11
Matches are distributed among these distances:
28 23 0.21
29 42 0.39
30 41 0.38
31 3 0.03
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (29 bp):
CCCCGAATCTTCTAAAATTACCATTTTAC
Found at i:32987733 original size:30 final size:28
Alignment explanation
Indices: 32987603--32987742 Score: 90
Period size: 30 Copynumber: 4.8 Consensus size: 28
32987593 TTTAACCAAG
*
32987603 ATTTCACCAAAAATTACCATTTTACCCCCGA
1 ATTTCACC-AAAATT-CCATTTTAACCCC-A
* *
32987634 ATCTT--CTAAAATTCCATTTTAACCCCG
1 AT-TTCACCAAAATTCCATTTTAACCCCA
*
32987661 ATTTCACCAAAAATTACCATTTTACCCCCGA
1 ATTTCACC-AAAATT-CCATTTTAACCCC-A
**
32987692 ATCTT--TTAAAATTCCATTTTTTAACCCCA
1 AT-TTCACCAAAATTCCA--TTTTAACCCCA
*
32987721 ATTTCACCAAAATCACCATTTT
1 ATTTCACCAAAAT-TCCATTTT
32987743 GCCCCCGGGT
Statistics
Matches: 85, Mismatches: 12, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
26 2 0.02
27 2 0.02
28 18 0.21
29 25 0.29
30 27 0.32
31 7 0.08
32 4 0.05
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (28 bp):
ATTTCACCAAAATTCCATTTTAACCCCA
Found at i:32999982 original size:68 final size:69
Alignment explanation
Indices: 32999865--33000710 Score: 1008
Period size: 68 Copynumber: 12.0 Consensus size: 69
32999855 ATCATTTCCT
* * * *
32999865 ATCCTCTTGAAATTGAAGTAAAGCTGGAT-ATCAAGTCTTCATCTCTGAAATTGAAGTAAGAGCG
1 ATCCTCTTGAAATTGAAGTAGAGCTGGATAAT-ACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
32999929 ACGTC
65 ACGTC
* * *
32999934 ATCCTCTTGAAGTTGAAGTAGAG-TGGATAATATGTCTTTACCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAGAGCTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
32999998 CGTC
66 CGTC
* *
33000002 ATCCCCTTGAAATTGAAGTAGAG-TGGATAATACGTCTTTACCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAGAGCTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
33000066 CGTC
66 CGTC
* *
33000070 ATCCCCTTGAAATTGAAGTAGAG-TGGATAATACGTCTTTACCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAGAGCTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
33000134 CGTC
66 CGTC
* *
33000138 ATCCCCTTGAAATTGAAGTAGAG-TGGATAATACGTCTTTACCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAGAGCTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
33000202 CGTC
66 CGTC
* *
33000206 ATCCCCTTAAAATTGAAGTAGAG-TGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAGAGCTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
33000270 CGTC
66 CGTC
* *
33000274 ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAGAGCTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
33000338 CGTT
66 CGTC
* * * *
33000342 GTCCTCTTGAAATTGAAGTAAAGCTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAGAGCTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
33000407 CGTT
66 CGTC
* * * * **
33000411 GTCCTCTTGAAATTGAAGTAAAGCTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAATAA
1 ATCCTCTTGAAATTGAAGTAGAGCTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAG-AGCA
*
33000476 GATCATTTCC
65 -A-C--GT-C
* * *
33000486 TATCCTCTTGAAATTGAAGTAAAGCTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGTA
1 -ATCCTCTTGAAATTGAAGTAGAGCTGGATAATACGTCTTTATCTCTGAAATTGAAGT-A-AG-A
**
33000551 GCATCATTTCC
62 GCA--ACGT-C
* * * * *
33000562 TATCCTCTTGAAATTGAAGTAAAGCTGGAT-ATCAAGTTTTTTATCTCCGAAAATGAAGTAAGAG
1 -ATCCTCTTGAAATTGAAGTAGAGCTGGATAAT-ACG-TCTTTATCTCTGAAATTGAAGTAAGAG
*
33000626 CAAGATCATTTCTC
63 C-A-A-C----GTC
* * *
33000640 ATCCTCTTGAAATTGAAGTAGAGTTGGAT-ATCAAGTCTTTATCTCCGAAATTGAAGTAAGAGCA
1 ATCCTCTTGAAATTGAAGTAGAGCTGGATAAT-ACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
33000704 ACGTC
65 ACGTC
33000709 AT
1 AT
33000711 TTCCTATCCG
Statistics
Matches: 716, Mismatches: 41, Indels: 40
0.90 0.05 0.05
Matches are distributed among these distances:
68 390 0.54
69 131 0.18
70 2 0.00
71 1 0.00
72 1 0.00
73 1 0.00
74 6 0.01
75 5 0.01
76 119 0.17
77 53 0.07
78 5 0.01
79 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (69 bp):
ATCCTCTTGAAATTGAAGTAGAGCTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
CGTC
Found at i:33000400 original size:38 final size:38
Alignment explanation
Indices: 33000349--33000698 Score: 227
Period size: 38 Copynumber: 9.4 Consensus size: 38
33000339 GTTGTCCTCT
33000349 TGAAATTGAAGTAAAGCTGGATAACATGTCTTTATCTC
1 TGAAATTGAAGTAAAGCTGGATAACATGTCTTTATCTC
* *
33000387 TGAAATTGAAGTAAGAGC-----AAC--GT-TGT-CCTC
1 TGAAATTGAAGTAA-AGCTGGATAACATGTCTTTATCTC
33000417 TTGAAATTGAAGTAAAGCTGGATAACATGTCTTTATCTC
1 -TGAAATTGAAGTAAAGCTGGATAACATGTCTTTATCTC
* * * *
33000456 TGAAATTGAAGT-AAGAATAAGAT--CATTTC-CTATCCTC
1 TGAAATTGAAGTAAAG-CT-GGATAACATGTCTTTAT-CTC
33000493 TTGAAATTGAAGTAAAGCTGGATAACATGTCTTTATCTC
1 -TGAAATTGAAGTAAAGCTGGATAACATGTCTTTATCTC
* * *
33000532 TGAAATTGAAGTAAGAG-TAGCAT--CATTTC-CTATCCTC
1 TGAAATTGAAGTAA-AGCT-GGATAACATGTCTTTAT-CTC
* * *
33000569 TTGAAATTGAAGTAAAGCTGGATATCAAGTTTTTTATCTC
1 -TGAAATTGAAGTAAAGCTGGATAACATG-TCTTTATCTC
* * ** * *
33000609 CGAAAATGAAGTAAGAGCAAGAT--CATTTC-TCATCCTC
1 TGAAATTGAAGTAA-AGCTGGATAACATGTCTTTAT-CTC
* * * *
33000646 TTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTC
1 -TGAAATTGAAGTAAAGCTGGATAACATGTCTTTATCTC
*
33000685 CGAAATTGAAGTAA
1 TGAAATTGAAGTAA
33000699 GAGCAACGTC
Statistics
Matches: 239, Mismatches: 39, Indels: 68
0.69 0.11 0.20
Matches are distributed among these distances:
30 6 0.03
31 16 0.07
32 2 0.01
34 3 0.01
35 3 0.01
36 9 0.04
37 38 0.16
38 97 0.41
39 46 0.19
40 16 0.07
41 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (38 bp):
TGAAATTGAAGTAAAGCTGGATAACATGTCTTTATCTC
Found at i:33001064 original size:31 final size:29
Alignment explanation
Indices: 33001009--33001079 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 29
33000999 AAAGTTTGAA
*
33001009 TTAATTTTAAATTCATTTTTAAATTTATC
1 TTAAATTTAAATTCATTTTTAAATTTATC
* *
33001038 TTAAATTTAAATTTACTTATTTAAATTTATT
1 TTAAATTTAAATTCA-TT-TTTAAATTTATC
33001069 TTAAATTTAAA
1 TTAAATTTAAA
33001080 CTTAATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 13 0.35
30 2 0.05
31 22 0.59
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (29 bp):
TTAAATTTAAATTCATTTTTAAATTTATC
Found at i:33001076 original size:11 final size:11
Alignment explanation
Indices: 33001007--33001077 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
33000997 TTAAAGTTTG
*
33001007 AATTAATTTTA
1 AATTTATTTTA
*
33001018 AATTCATTTTTA
1 AATTTA-TTTTA
*
33001030 AATTTATCTTA
1 AATTTATTTTA
*
33001041 AATTTAAATTT-
1 AATTT-ATTTTA
*
33001052 -ACTTA-TTTA
1 AATTTATTTTA
33001061 AATTTATTTTA
1 AATTTATTTTA
33001072 AATTTA
1 AATTTA
33001078 AACTTAATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 3 0.06
9 1 0.02
10 7 0.15
11 24 0.50
12 13 0.27
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTATTTTA
Found at i:33001088 original size:17 final size:17
Alignment explanation
Indices: 33001056--33001090 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
33001046 AAATTTACTT
* *
33001056 ATTTAAATTTATTTTAA
1 ATTTAAACTTAATTTAA
33001073 ATTTAAACTTAATTTAA
1 ATTTAAACTTAATTTAA
33001090 A
1 A
33001091 ATAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAACTTAATTTAA
Found at i:33001174 original size:31 final size:31
Alignment explanation
Indices: 33001129--33001205 Score: 147
Period size: 31 Copynumber: 2.5 Consensus size: 31
33001119 CAATGTCCAT
33001129 TTACAAAAAA-GGCCCAAATTAAAGGCCCGA
1 TTACAAAAAAGGGCCCAAATTAAAGGCCCGA
33001159 TTACAAAAAAGGGCCCAAATTAAAGGCCCGA
1 TTACAAAAAAGGGCCCAAATTAAAGGCCCGA
33001190 TTACAAAAAAGGGCCC
1 TTACAAAAAAGGGCCC
33001206 GATTACAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 10 0.22
31 36 0.78
ACGTcount: A:0.45, C:0.23, G:0.18, T:0.13
Consensus pattern (31 bp):
TTACAAAAAAGGGCCCAAATTAAAGGCCCGA
Found at i:33001217 original size:17 final size:18
Alignment explanation
Indices: 33001152--33001216 Score: 77
Period size: 18 Copynumber: 3.9 Consensus size: 18
33001142 CCAAATTAAA
33001152 GGCCCGATTACAAAAAAG
1 GGCCCGATTACAAAAAAG
**
33001170 GGCCC-A--A-ATTAAA-
1 GGCCCGATTACAAAAAAG
33001183 GGCCCGATTACAAAAAAG
1 GGCCCGATTACAAAAAAG
33001201 GGCCCGATTACAAAAA
1 GGCCCGATTACAAAAA
33001217 GCCCAATTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
13 5 0.13
14 5 0.13
15 1 0.03
16 1 0.03
17 5 0.13
18 21 0.55
ACGTcount: A:0.45, C:0.23, G:0.20, T:0.12
Consensus pattern (18 bp):
GGCCCGATTACAAAAAAG
Found at i:33002873 original size:162 final size:162
Alignment explanation
Indices: 33002705--33003015 Score: 595
Period size: 162 Copynumber: 1.9 Consensus size: 162
33002695 AGCTTTCAAT
*
33002705 TTAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACGTGTCATTTTTTGGATTATTTATGCA
1 TTAGTCCTTTGACTGTTTGACTGTACCAGAGGCTACCACGTGTCATTTTTTGGATTATTTATGCA
33002770 TTTAGTCCTTTTTATTTTTAATTTATCTTAATTTAATCCCCAAATCAACTTTTATTTAATTACGA
66 TTTAGTCCTTTTTATTTTTAATTTATCTTAATTTAATCCCCAAATCAACTTTTATTTAATTACGA
33002835 AATTGGCCCAAGAATTTTTCATGGTTTATAAA
131 AATTGGCCCAAGAATTTTTCATGGTTTATAAA
*
33002867 TTAGTCCTTTGATTGTTTGACTGTACCAGAGGCTACCACGTGTCATTTTTTGGATTATTTATGCA
1 TTAGTCCTTTGACTGTTTGACTGTACCAGAGGCTACCACGTGTCATTTTTTGGATTATTTATGCA
*
33002932 TTTAGTCCTTTTTATTTTTAATTTGTCTTAATTTAATCCCCAAATCAACTTTTATTTAATTACGA
66 TTTAGTCCTTTTTATTTTTAATTTATCTTAATTTAATCCCCAAATCAACTTTTATTTAATTACGA
33002997 AATTGGCCCAAGAATTTTT
131 AATTGGCCCAAGAATTTTT
33003016 TAAGATTTAC
Statistics
Matches: 146, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
162 146 1.00
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.46
Consensus pattern (162 bp):
TTAGTCCTTTGACTGTTTGACTGTACCAGAGGCTACCACGTGTCATTTTTTGGATTATTTATGCA
TTTAGTCCTTTTTATTTTTAATTTATCTTAATTTAATCCCCAAATCAACTTTTATTTAATTACGA
AATTGGCCCAAGAATTTTTCATGGTTTATAAA
Found at i:33003276 original size:29 final size:29
Alignment explanation
Indices: 33003147--33003343 Score: 140
Period size: 30 Copynumber: 6.7 Consensus size: 29
33003137 AAATTTTAGG
* * *
33003147 AAATTA-CATTCTGACCCCGAAACTTCTGA
1 AAATTACCATTTTAACCCCGAATCTTCT-A
* *
33003176 AAATTACCATTTTACCCCCGAATCCTCTA
1 AAATTACCATTTTAACCCCGAATCTTCTA
33003205 AAATT-CCATTTTTAACCCC-AAT-TTCATCGA
1 AAATTACCA-TTTTAACCCCGAATCTTC-T--A
*
33003235 AAATTACCATTTTACCCCCGAATCTTCTA
1 AAATTACCATTTTAACCCCGAATCTTCTA
* * * *
33003264 AAATT-CCATTTTTAACCTCGATTTCATCGA
1 AAATTACCA-TTTTAACCCCGA-ATCTTCTA
* *
33003294 AAATTACCA-TTT-ACCCTCAAATCTTTTA
1 AAATTACCATTTTAACCC-CGAATCTTCTA
33003322 AAATT-CCATTTTTTAACCCCGA
1 AAATTACCA--TTTTAACCCCGA
33003344 TTTCACCAAA
Statistics
Matches: 132, Mismatches: 20, Indels: 31
0.72 0.11 0.17
Matches are distributed among these distances:
27 5 0.04
28 22 0.17
29 42 0.32
30 46 0.35
31 14 0.11
32 3 0.02
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (29 bp):
AAATTACCATTTTAACCCCGAATCTTCTA
Found at i:33003355 original size:58 final size:59
Alignment explanation
Indices: 33003174--33003371 Score: 292
Period size: 59 Copynumber: 3.4 Consensus size: 59
33003164 CGAAACTTCT
* *
33003174 GAAAATTACCATTTTACCCCCGAATCCTCTAAAATTCCATTTTTAACCCCAATTTCATC
1 GAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCATC
*
33003233 GAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCTCGATTTCATC
1 GAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCATC
* * *
33003292 GAAAATTACCA-TTTACCCTCAAATCTTTTAAAATTCCATTTTTTAACCCCGATTTCA-C
1 GAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCA-TTTTTAACCCCGATTTCATC
* * *
33003350 CAAAATCACCATTTTGCCCCCG
1 GAAAATTACCATTTTACCCCCG
33003372 GGTATCCACA
Statistics
Matches: 125, Mismatches: 12, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
58 34 0.27
59 91 0.73
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (59 bp):
GAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCATC
Found at i:33003393 original size:117 final size:118
Alignment explanation
Indices: 33003174--33003409 Score: 280
Period size: 117 Copynumber: 2.0 Consensus size: 118
33003164 CGAAACTTCT
* *
33003174 GAAAATTACCATTTTACCCCCGAATCCTCTAAAATTCCATTTTTAACCCCAATTTCATCGAAAAT
1 GAAAATTACCATTTTACCCCCAAATCCTCTAAAATTCCATTTTTAACCCCAATTTCATCCAAAAT
* * * * *
33003239 TACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCTCGATTTCATC
66 CACCATTTTACCCCCGAATCATCCAAAATCCCATTTTTAACCCCGATTTCATC
* * * *
33003292 GAAAATTACCA-TTTACCCTCAAATCTTTTAAAATTCCATTTTTTAACCCCGATTTCA-CCAAAA
1 GAAAATTACCATTTTACCCCCAAATCCTCTAAAATTCCA-TTTTTAACCCCAATTTCATCCAAAA
* ** * * *
33003355 TCACCATTTTGCCCCCGGGT-ATCCACAAGTCCCGTTTTTCACCCCGATTTCATC
65 TCACCATTTTACCCCCGAATCATCCA-AAATCCCATTTTTAACCCCGATTTCATC
33003409 G
1 G
33003410 TTTATCAATG
Statistics
Matches: 99, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
116 3 0.03
117 68 0.69
118 28 0.28
ACGTcount: A:0.29, C:0.30, G:0.06, T:0.34
Consensus pattern (118 bp):
GAAAATTACCATTTTACCCCCAAATCCTCTAAAATTCCATTTTTAACCCCAATTTCATCCAAAAT
CACCATTTTACCCCCGAATCATCCAAAATCCCATTTTTAACCCCGATTTCATC
Found at i:33005488 original size:28 final size:24
Alignment explanation
Indices: 33005462--33005556 Score: 163
Period size: 24 Copynumber: 4.0 Consensus size: 24
33005452 TGACTCAAAT
33005462 AAATAAACAGAGTTTAATTGAAAC
1 AAATAAACAGAGTTTAATTGAAAC
33005486 AAATAAACAGAGTTTAATTGAAAC
1 AAATAAACAGAGTTTAATTGAAAC
33005510 AAATAAACAGAGTTTAATTGAAAC
1 AAATAAACAGAGTTTAATTGAAAC
* * *
33005534 AATTAAATAGAGTTTAACTGAAA
1 AAATAAACAGAGTTTAATTGAAA
33005557 ATTATTTCTT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 68 1.00
ACGTcount: A:0.54, C:0.07, G:0.13, T:0.26
Consensus pattern (24 bp):
AAATAAACAGAGTTTAATTGAAAC
Found at i:33005514 original size:48 final size:48
Alignment explanation
Indices: 33005446--33005556 Score: 168
Period size: 48 Copynumber: 2.3 Consensus size: 48
33005436 TAGAGTAATA
* * *
33005446 AGAGTTTGACTCAAATAAATAAACAGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAACAGAGTTTAATTGAAACAAATAAAC
* * *
33005494 AGAGTTTAATTGAAACAAATAAACAGAGTTTAATTGAAACAATTAAAT
1 AGAGTTTAACTGAAACAAATAAACAGAGTTTAATTGAAACAAATAAAC
33005542 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
33005557 ATTATTTCTT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.27
Consensus pattern (48 bp):
AGAGTTTAACTGAAACAAATAAACAGAGTTTAATTGAAACAAATAAAC
Found at i:33006117 original size:22 final size:22
Alignment explanation
Indices: 33006092--33006137 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
33006082 CAAATTTATG
33006092 GAAAT-GTTAGAATGAAAGTTTA
1 GAAATAGTT-GAATGAAAGTTTA
*
33006114 GAAATAGTTGAATGAATGTTTA
1 GAAATAGTTGAATGAAAGTTTA
33006136 GA
1 GA
33006138 CGTGCTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.43, C:0.00, G:0.24, T:0.33
Consensus pattern (22 bp):
GAAATAGTTGAATGAAAGTTTA
Found at i:33008674 original size:30 final size:30
Alignment explanation
Indices: 33008580--33008674 Score: 77
Period size: 30 Copynumber: 3.2 Consensus size: 30
33008570 CCAAAATAGA
* *
33008580 TTATTTATTAAAATGGTACAAAATATATAT
1 TTATTTACTAAAATGGTACAAAATAAATAT
* * * * * * **
33008610 TTATATACCAAAATAGTATCCACA-CACCA-
1 TTATTTACTAAAATGGTA-CAAAATAAATAT
33008639 TTATTTACTAAAATGGTACAAAATAAATAT
1 TTATTTACTAAAATGGTACAAAATAAATAT
33008669 TTATTT
1 TTATTT
33008675 TGTACTATTT
Statistics
Matches: 44, Mismatches: 18, Indels: 6
0.65 0.26 0.09
Matches are distributed among these distances:
28 3 0.07
29 17 0.39
30 21 0.48
31 3 0.07
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (30 bp):
TTATTTACTAAAATGGTACAAAATAAATAT
Found at i:33008728 original size:16 final size:16
Alignment explanation
Indices: 33008707--33008757 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
33008697 TGATGGGGAT
33008707 ATTATTTTGATAATTA
1 ATTATTTTGATAATTA
**
33008723 ATTATTTTTTTATATT-
1 ATTATTTTGATA-ATTA
*
33008739 A-TATTTTGGTAATTA
1 ATTATTTTGATAATTA
33008754 ATTA
1 ATTA
33008758 GATAAGTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
14 3 0.11
15 9 0.32
16 13 0.46
17 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
ATTATTTTGATAATTA
Found at i:33019451 original size:2 final size:2
Alignment explanation
Indices: 33019444--33019476 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
33019434 AGTTGTTCCT
33019444 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
33019477 TAATTGGTAT
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:33025902 original size:7 final size:7
Alignment explanation
Indices: 33025890--33025920 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
33025880 AACTGCAAAA
33025890 TGGGCAG
1 TGGGCAG
33025897 TGGGCAG
1 TGGGCAG
33025904 TGGGCAG
1 TGGGCAG
33025911 TGGGCAG
1 TGGGCAG
33025918 TGG
1 TGG
33025921 CAAACGAATT
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:0.13, C:0.13, G:0.58, T:0.16
Consensus pattern (7 bp):
TGGGCAG
Found at i:33031702 original size:52 final size:52
Alignment explanation
Indices: 33031645--33031749 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
33031635 CACTTTTTTC
33031645 CAACTAAAACATTTTTTTAATGCTAAACTATTTCCATGAATTAGATACATCA
1 CAACTAAAACATTTTTTTAATGCTAAACTATTTCCATGAATTAGATACATCA
* **
33031697 CAACTAAAACATTTTTTTAATGCTAAACTATTTCCGTGGGTTAGATACATCA
1 CAACTAAAACATTTTTTTAATGCTAAACTATTTCCATGAATTAGATACATCA
33031749 C
1 C
33031750 GGATGGGTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (52 bp):
CAACTAAAACATTTTTTTAATGCTAAACTATTTCCATGAATTAGATACATCA
Found at i:33032463 original size:23 final size:19
Alignment explanation
Indices: 33032421--33032466 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 19
33032411 CCATTATATG
33032421 TATTTTTTTTATTAAATAA
1 TATTTTTTTTATTAAATAA
33032440 TATTTTATTTTCATGTAAAGTAA
1 TATTTT-TTTT-AT-TAAA-TAA
33032463 TATT
1 TATT
33032467 ATTCAAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.26
20 4 0.17
21 2 0.09
22 4 0.17
23 7 0.30
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (19 bp):
TATTTTTTTTATTAAATAA
Found at i:33038835 original size:27 final size:27
Alignment explanation
Indices: 33038782--33038850 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 27
33038772 ATTATACTAA
** *
33038782 ACCCAAACTCAAATAATATGCTCATTATT
1 ACCCAAACT-AAATAATAAACTAATTA-T
33038811 ACCCAAACTAAA-AATAAACTAATTAT
1 ACCCAAACTAAATAATAAACTAATTAT
33038837 AGCCCAAATCTAAA
1 A-CCCAAA-CTAAA
33038851 GTCCAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 2 0.06
27 16 0.46
28 8 0.23
29 9 0.26
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.25
Consensus pattern (27 bp):
ACCCAAACTAAATAATAAACTAATTAT
Found at i:33039075 original size:16 final size:18
Alignment explanation
Indices: 33039054--33039086 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
33039044 ATATATATTT
33039054 ATTTAT-TTATT-TAATA
1 ATTTATATTATTATAATA
33039070 ATTTATATTATTATAAT
1 ATTTATATTATTATAAT
33039087 GGTTGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTATATTATTATAATA
Found at i:33039708 original size:223 final size:226
Alignment explanation
Indices: 33039405--33039828 Score: 599
Period size: 223 Copynumber: 1.9 Consensus size: 226
33039395 ATATAATATA
* *
33039405 ATATCATATCATATAGTATATATATATATATAGGCATAAGTGATTAAATATTATAATATTATGTA
1 ATATCATATCATATAGTATATATATATATATA-GCATAAATGATTAAATATTATAATATCATGTA
* * * *
33039470 ATATTATATCTTTTATTATAATTTATAATATAATAATAGTTATATATAATAGTCGTACATTATAT
65 ATATTATAACTTTTATTATAATATATAATACAATAATAGTTATATATAATA---ATACATTATAT
* *
33039535 ATGA-TA-TTGTTTATTATTATACTAGTCGAAATATGTT-CAAGTCCTTATACTTTTCATACATT
127 ATGATTATTTATTTATTATTATACTAGTCGAAATATATTCCAAGTCCTTATACTTTTCATACATT
**
33039597 TGAAAGTTAATCCTCTTACTATATTGTATAATGCT
192 CAAAAGTTAATCCTCTTACTATATTGTATAATGCT
* *
33039632 ATATCATATCATATAGT-T-TATATATATGT-GCATAAATGATTAAATATTATAATATCATGTAG
1 ATATCATATCATATAGTATATATATATATATAGCATAAATGATTAAATATTATAATATCATGTAA
* * *
33039694 TATTATAACTTTTATTATAATATATATTACAATAATAGTTATTTATAATAATACATTATATATTA
66 TATTATAACTTTTATTATAATATATAATACAATAATAGTTATATATAATAATACATTATATATGA
* * **
33039759 TTATTTATTTATTATTATATTAGTTGAAATATATTCCAAGTTGTTATACTTTTCATACATTCAAA
131 TTATTTATTTATTATTATACTAGTCGAAATATATTCCAAGTCCTTATACTTTTCATACATTCAAA
33039824 AGTTA
196 AGTTA
33039829 GCCTACACCG
Statistics
Matches: 175, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
220 13 0.07
221 2 0.01
222 27 0.15
223 105 0.60
225 10 0.06
226 1 0.01
227 17 0.10
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (226 bp):
ATATCATATCATATAGTATATATATATATATAGCATAAATGATTAAATATTATAATATCATGTAA
TATTATAACTTTTATTATAATATATAATACAATAATAGTTATATATAATAATACATTATATATGA
TTATTTATTTATTATTATACTAGTCGAAATATATTCCAAGTCCTTATACTTTTCATACATTCAAA
AGTTAATCCTCTTACTATATTGTATAATGCT
Found at i:33044648 original size:30 final size:27
Alignment explanation
Indices: 33044615--33044883 Score: 131
Period size: 30 Copynumber: 9.1 Consensus size: 27
33044605 ACTCGAGGGC
*
33044615 AAAATGGTAATTTTCGATGAAATCGGGGT
1 AAAATGG-AATTTT-GGTGAAATCGGGGT
*
33044644 CAAAAATGGAATTTT-G-GAAAGTTTGAGGGT
1 --AAAATGGAATTTTGGTGAAA--TCG-GGGT
*
33044674 AAAATGGTAATTTTTGGTGAAATAGGGGTT
1 AAAATGG-AA-TTTTGGTGAAATCGGGG-T
* *
33044704 AAAAATGGAATTTT--AGAAAGTTTAGGGGT
1 -AAAATGGAATTTTGGTGAAA---TCGGGGT
*
33044733 AAAATGGTAATTTTTGGTGAAATCGAGGTT
1 AAAATGG-AA-TTTTGGTGAAATCG-GGGT
33044763 AAAAATGGAATTTT-G-GAAAGTTCGAGGGT
1 -AAAATGGAATTTTGGTGAAA--TCG-GGGT
*
33044792 GAAATGGTAATTTTTGGTGAAATCGGGGAT
1 AAAATGG-AA-TTTTGGTGAAATCGGGG-T
*
33044822 AAAATGGAATTTT-G-GAAAGTTAGGGGGT
1 AAAATGGAATTTTGGTGAAA--T-CGGGGT
*
33044850 AAAATGGTAATTTTTGGTGAAATTGGGGTT
1 AAAATGG-AA-TTTTGGTGAAATCGGGG-T
33044880 AAAA
1 AAAA
33044884 ATATGATTTC
Statistics
Matches: 193, Mismatches: 12, Indels: 67
0.71 0.04 0.25
Matches are distributed among these distances:
26 4 0.02
27 13 0.07
28 34 0.18
29 44 0.23
30 58 0.30
31 24 0.12
32 16 0.08
ACGTcount: A:0.36, C:0.02, G:0.30, T:0.32
Consensus pattern (27 bp):
AAAATGGAATTTTGGTGAAATCGGGGT
Found at i:33044672 original size:59 final size:59
Alignment explanation
Indices: 33044574--33044925 Score: 433
Period size: 59 Copynumber: 6.0 Consensus size: 59
33044564 AAGAAACGAC
* * * * * * * * *
33044574 GAAATCGGGGTTGAAAACGAGACTTTTGGATA-CTCGAGGGCAAAATGGTAATTTTCGAT
1 GAAATCGGGGTTAAAAATG-GAATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGGT
*
33044633 GAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGGT
1 GAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGGT
* *
33044692 GAAATAGGGGTTAAAAATGGAATTTTAGAAAGTTT-AGGGGTAAAATGGTAATTTTTGGT
1 GAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGA-GGGTAAAATGGTAATTTTTGGT
* * *
33044751 GAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTGAAATGGTAATTTTTGGT
1 GAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGGT
* * *
33044810 GAAATCGGGGAT-AAAATGGAATTTTGGAAAGTTAGGGGGTAAAATGGTAATTTTTGGT
1 GAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGGT
* * * * * *
33044868 GAAATTGGGGTTAAAAATATG-ATTTCGAAAAGTTTGAGCGTAAATTGGTAATTTTTGG
1 GAAATCGGGGTTAAAAAT-GGAATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGG
33044926 ACAGTTTAAG
Statistics
Matches: 256, Mismatches: 32, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
58 64 0.25
59 190 0.74
60 2 0.01
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.32
Consensus pattern (59 bp):
GAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGGT
Found at i:33044782 original size:118 final size:117
Alignment explanation
Indices: 33044615--33044925 Score: 446
Period size: 117 Copynumber: 2.6 Consensus size: 117
33044605 ACTCGAGGGC
* * *
33044615 AAAATGGTAATTTTCGATGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATG
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATG
*
33044680 GTAATTTTTGGTGAAATAGGGGTTAAAAATGGAATTTTAGAAAGTTTA-GGGGT
66 GTAATTTTTGGTGAAATAGGGGAT-AAAATGGAATTTTAGAAAG-TTAGGGGGT
* * *
33044733 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTGAAATG
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATG
* *
33044798 GTAATTTTTGGTGAAATCGGGGATAAAATGGAATTTTGGAAAGTTAGGGGGT
66 GTAATTTTTGGTGAAATAGGGGATAAAATGGAATTTTAGAAAGTTAGGGGGT
* * * * * *
33044850 AAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATATG-ATTTCGAAAAGTTTGAGCGTAAATT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAAT-GGAATTTTGGAAAGTTTGAGGGTAAAAT
33044914 GGTAATTTTTGG
65 GGTAATTTTTGG
33044926 ACAGTTTAAG
Statistics
Matches: 173, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
116 3 0.02
117 88 0.51
118 82 0.47
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (117 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATG
GTAATTTTTGGTGAAATAGGGGATAAAATGGAATTTTAGAAAGTTAGGGGGT
Found at i:33046848 original size:11 final size:11
Alignment explanation
Indices: 33046835--33046921 Score: 60
Period size: 11 Copynumber: 8.0 Consensus size: 11
33046825 TAATATTATT
33046835 TTAAA-TTAAA
1 TTAAATTTAAA
33046845 TTTAAATTTAAA
1 -TTAAATTTAAA
*
33046857 ATAAATTTAAA
1 TTAAATTTAAA
*
33046868 -T-AA-GTAAA
1 TTAAATTTAAA
33046876 TTTAAATTTAAGA
1 -TTAAATTTAA-A
33046889 -TAAATTTAAAA
1 TTAAATTT-AAA
*
33046900 ATAAATTTAAAA
1 TTAAATTT-AAA
33046912 TT-AATTTAAA
1 TTAAATTTAAA
33046922 CTTTAAAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
8 4 0.06
9 2 0.03
10 5 0.08
11 30 0.47
12 22 0.34
13 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:33046851 original size:6 final size:6
Alignment explanation
Indices: 33046834--33046928 Score: 74
Period size: 6 Copynumber: 16.0 Consensus size: 6
33046824 TTAATATTAT
* *
33046834 TTTAAA -TTAAA TTTAAA TTTAAA -ATAAA TTTAAA TAAGTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA TTTAAA
** *
33046882 TTTAAGA --TAAA TTTAAA AATAAA TTTAAA ATT-AA TTTAAA CTTTAAA
1 TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA
33046929 AAAAATCAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
4 1 0.01
5 16 0.23
6 41 0.59
7 7 0.10
8 5 0.07
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (6 bp):
TTTAAA
Found at i:33046854 original size:17 final size:17
Alignment explanation
Indices: 33046834--33046921 Score: 78
Period size: 17 Copynumber: 5.4 Consensus size: 17
33046824 TTAATATTAT
33046834 TTTAAATTAAATTTAAA
1 TTTAAATTAAATTTAAA
*
33046851 TTTAAAATAAATTTAAA
1 TTTAAATTAAATTTAAA
*
33046868 --T-AAGTAAATTTAAA
1 TTTAAATTAAATTTAAA
33046882 TTTAAGA-TAAATTTAAA
1 TTTAA-ATTAAATTTAAA
** *
33046899 AATAAATTTAAAATT-AA
1 TTTAAA-TTAAATTTAAA
33046916 TTTAAA
1 TTTAAA
33046922 CTTTAAAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
14 12 0.21
15 1 0.02
16 2 0.03
17 36 0.62
18 7 0.12
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
TTTAAATTAAATTTAAA
Found at i:33046879 original size:31 final size:29
Alignment explanation
Indices: 33046832--33046934 Score: 118
Period size: 29 Copynumber: 3.5 Consensus size: 29
33046822 GTTTAATATT
* *
33046832 ATTTTAAATTAAATTTAAATTTAAAATAA
1 ATTTAAAAATAAATTTAAATTTAAAATAA
*
33046861 ATTTAAATAAGTAAATTTAAATTTAAGATAA
1 ATTTAAA-AA-TAAATTTAAATTTAAAATAA
* **
33046892 ATTTAAAAATAAATTTAAAATTAATTTAA
1 ATTTAAAAATAAATTTAAATTTAAAATAA
33046921 ACTTTAAAAA-AAAT
1 A-TTTAAAAATAAAT
33046935 CAAAAGCCCA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
29 28 0.43
30 11 0.17
31 26 0.40
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (29 bp):
ATTTAAAAATAAATTTAAATTTAAAATAA
Found at i:33047346 original size:76 final size:76
Alignment explanation
Indices: 33047193--33047721 Score: 421
Period size: 76 Copynumber: 7.0 Consensus size: 76
33047183 TTGAGGCTTC
*
33047193 ATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCA-----ACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTC--AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAG
*
33047253 AGGATAGGAAATG
64 AGGATAGGAAATA
* *
33047266 ATCTTGCTCTTACTTCAATTTCAGAGATAAGGATTTGATATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
33047331 GATAGGAAATA
66 GATAGGAAATA
* * * * *
33047342 ATCTTGCTCTTACTTCAATTTCGGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCGAGA-
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
* **
33047406 GATAAAGACTTGA
66 GAT-AGGAAAT-A
** * * ** **
33047419 TATCCAGCT-TTACTTCAATTTGAAGAGGAT-AGGAAATG--ATCTTGCTCTTACTTCAATTTC-
1 -ATCTTGCTCTTACTTCAATTT-CAGA-GATAAAGACTTGATATCCAGCT-TTACTTCAATTTCA
* **
33047479 AGA-GATAAAGACTTGA
62 AGAGGAT-AGGAAAT-A
** * ** **
33047495 TATCCAGCT-TTACTTCAATTTCAAGAGGAT-AGGAAATG--ATCTTGCTCTTACTTCAATTTC-
1 -ATCTTGCTCTTACTTCAATTTC-AGA-GATAAAGACTTGATATCCAGCT-TTACTTCAATTTCA
* ** *
33047555 AGA-GATAAAGACTTGTT
62 AGAGGAT-AGGA--AATA
***
33047572 ATCCAACTC-TACTTCAATTTCAAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGA
1 ATCTTGCTCTTACTTCAATTTC-AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGA
33047636 GGATAGGAAATA
65 GGATAGGAAATA
33047648 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
*
33047713 GACAGGAAA
66 GATAGGAAA
33047722 ATGATGTTGG
Statistics
Matches: 392, Mismatches: 43, Indels: 39
0.83 0.09 0.08
Matches are distributed among these distances:
71 19 0.05
73 22 0.06
75 6 0.02
76 263 0.67
77 50 0.13
78 26 0.07
79 6 0.02
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (76 bp):
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
GATAGGAAATA
Found at i:33047429 original size:115 final size:114
Alignment explanation
Indices: 33047276--33047517 Score: 403
Period size: 115 Copynumber: 2.1 Consensus size: 114
33047266 ATCTTGCTCT
* *
33047276 TACTTCAATTTCAGAGATAAGGATTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAT
1 TACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAT
* *
33047341 AATCTTGCTCTTACTTCAATTTCGGAGATAAAGACTTGTTATCCAACTC
66 AATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTC
*
33047390 TACTTCAATTTCGAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTGAAGAGGATAGGAAA
1 TACTTCAATTTC-AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAA
* * *
33047455 TGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTT
65 TAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTC
33047505 TACTTCAATTTCA
1 TACTTCAATTTCA
33047518 AGAGGATAGG
Statistics
Matches: 119, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
114 13 0.11
115 106 0.89
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (114 bp):
TACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAAT
AATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTC
Found at i:33047563 original size:191 final size:191
Alignment explanation
Indices: 33047203--33047726 Score: 914
Period size: 191 Copynumber: 2.8 Consensus size: 191
33047193 ATCTTGCTCT
*
33047203 TACTTCAATTTCAGAGAGATAAAGACTTGCTATCCA-----ACTTCAATTTCAAGAGGATAGGAA
1 TACTTCAATTTC-GAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAA
* *
33047263 ATGATCTTGCTCTTACTTCAATTTCAGAGATAAGGATTTGATATCCAGCTTTACTTCAATTTCAA
65 ATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAA
* *
33047328 GAGGATAGGAAATAATCTTGCTCTTACTTCAATTTCGGAGATAAAGACTTGTTATCCAACTC
130 GAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTC
*
33047390 TACTTCAATTTCGAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTGAAGAGGATAGGAAA
1 TACTTCAATTTCGAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAA
33047455 TGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAG
66 TGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAG
33047520 AGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTC
131 AGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTC
*
33047581 TACTTCAATTTCAAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAA
1 TACTTCAATTTCGAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAA
*
33047646 TAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAG
66 TGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAG
*
33047711 AGGACAGGAAAATGAT
131 AGGATAGG-AAATGAT
33047727 GTTGGTCCTT
Statistics
Matches: 321, Mismatches: 10, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
186 22 0.07
187 12 0.04
191 280 0.87
192 7 0.02
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.33
Consensus pattern (191 bp):
TACTTCAATTTCGAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAA
TGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAG
AGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTC
Found at i:33047598 original size:115 final size:115
Alignment explanation
Indices: 33047467--33047712 Score: 449
Period size: 115 Copynumber: 2.1 Consensus size: 115
33047457 ATCTTGCTCT
33047467 TACTTCAATTTC-AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAA
1 TACTTCAATTTCAAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAA
* *
33047531 TGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTC
66 TAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTC
33047581 TACTTCAATTTCAAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAA
1 TACTTCAATTTCAAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAA
* *
33047646 TAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTT
66 TAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTC
33047696 TACTTCAATTTCAAGAG
1 TACTTCAATTTCAAGAG
33047713 GACAGGAAAA
Statistics
Matches: 127, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
114 12 0.09
115 115 0.91
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (115 bp):
TACTTCAATTTCAAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAA
TAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTC
Found at i:33047812 original size:92 final size:90
Alignment explanation
Indices: 33047649--33047821 Score: 265
Period size: 92 Copynumber: 1.9 Consensus size: 90
33047639 TAGGAAATAA
* *
33047649 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
1 TCTTACTCTTACTTCAATTTCAGAGACAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
33047714 ACAGGAAAATGATGTTGGTCCTTCT
66 ACAGGAAAATGATGTTGGTCCTTCT
* * * *
33047739 TCTTACTCTTACTTCAATTTTAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTCAGA--GACAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGA
*
33047804 GGATAGGAAAATGATGTT
64 GGACAGGAAAATGATGTT
33047822 TGATTGATGT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
90 22 0.30
92 52 0.70
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (90 bp):
TCTTACTCTTACTTCAATTTCAGAGACAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGG
ACAGGAAAATGATGTTGGTCCTTCT
Found at i:33055236 original size:34 final size:34
Alignment explanation
Indices: 33055193--33055261 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
33055183 TGGAACCAGA
33055193 CTTAGTTCTTTGGCATCGATTCCACTATAGACGT
1 CTTAGTTCTTTGGCATCGATTCCACTATAGACGT
33055227 CTTAGTTCTTTGGCATCGATTCCACTATAGACGT
1 CTTAGTTCTTTGGCATCGATTCCACTATAGACGT
33055261 C
1 C
33055262 AAACCCTTCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (34 bp):
CTTAGTTCTTTGGCATCGATTCCACTATAGACGT
Found at i:33059977 original size:28 final size:28
Alignment explanation
Indices: 33059936--33060005 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
33059926 ATCGGGGTTG
* *
33059936 AAAATGGGACTTTTGGATATCCTGG-GGC
1 AAAATGGTAATTTTGGA-ATCCTGGAGGC
* *
33059964 AAAATGGTAATTTTGGACTCTTGGAGGC
1 AAAATGGTAATTTTGGAATCCTGGAGGC
33059992 AAAATGGTAATTTT
1 AAAATGGTAATTTT
33060006 CGGTGAAATC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 5 0.14
28 32 0.86
ACGTcount: A:0.30, C:0.10, G:0.27, T:0.33
Consensus pattern (28 bp):
AAAATGGTAATTTTGGAATCCTGGAGGC
Found at i:33060116 original size:88 final size:90
Alignment explanation
Indices: 33059992--33060168 Score: 277
Period size: 88 Copynumber: 2.0 Consensus size: 90
33059982 TCTTGGAGGC
* * *
33059992 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATG
1 AAAATGGTAATTTTCGGTAAAATCAGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGTAAAATG
*
33060057 GTAATTTTTGGTGAAATCGGGGTTA
66 GTAATTTTTGGTGAAATCAGGGTTA
* * *
33060082 AAAATGG-AATTTT-GGTAAAATTAGGGTTATAAATGGAATTTTAGAAAGTTTGAGGGTAAAATG
1 AAAATGGTAATTTTCGGTAAAATCAGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGTAAAATG
33060145 GTAATTTTTGGTGAAATCAGGGTT
66 GTAATTTTTGGTGAAATCAGGGTT
33060169 CAAATTGAAC
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
88 67 0.84
89 6 0.08
90 7 0.09
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (90 bp):
AAAATGGTAATTTTCGGTAAAATCAGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGTAAAATG
GTAATTTTTGGTGAAATCAGGGTTA
Found at i:33060122 original size:59 final size:58
Alignment explanation
Indices: 33059992--33060123 Score: 196
Period size: 59 Copynumber: 2.2 Consensus size: 58
33059982 TCTTGGAGGC
*
33059992 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAATTC-AGGGT
*
33060051 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGTAAAATT-AGGGTT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGG-AAAATTCAGGG-T
33060110 ATAAATGG-AATTTT
1 A-AAATGGTAATTTT
33060124 AGAAAGTTTG
Statistics
Matches: 68, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
58 4 0.06
59 53 0.78
60 11 0.16
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (58 bp):
AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAATTCAGGGT
Found at i:33060166 original size:29 final size:28
Alignment explanation
Indices: 33059992--33060183 Score: 126
Period size: 29 Copynumber: 6.5 Consensus size: 28
33059982 TCTTGGAGGC
*
33059992 AAAATGGTAATTTTCGGTGAAATCGGGGTT
1 AAAATGG-AATTTT-GGTGAAATCAGGGTT
33060022 AAAAATGGAATTTT-G-GAAAGTTCGAGGG-T
1 -AAAATGGAATTTTGGTGAAA--TC-AGGGTT
*
33060051 AAAATGGTAATTTTTGGTGAAATCGGGGTT
1 AAAATGG-AA-TTTTGGTGAAATCAGGGTT
* *
33060081 AAAAATGGAATTTTGGTAAAATTAGGGTT
1 -AAAATGGAATTTTGGTGAAATCAGGGTT
* *
33060110 ATAAATGGAATTTT--AGAAAGTTTGAGGG-T
1 A-AAATGGAATTTTGGTGAAA---TCAGGGTT
33060139 AAAATGGTAATTTTTGGTGAAATCAGGGTT
1 AAAATGG-AA-TTTTGGTGAAATCAGGGTT
* * *
33060169 CAAATTGAACTTTGG
1 AAAATGGAATTTTGG
33060184 AAGTTTGGGG
Statistics
Matches: 130, Mismatches: 13, Indels: 39
0.71 0.07 0.21
Matches are distributed among these distances:
27 7 0.05
28 20 0.15
29 47 0.36
30 33 0.25
31 15 0.12
32 8 0.06
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.34
Consensus pattern (28 bp):
AAAATGGAATTTTGGTGAAATCAGGGTT
Found at i:33060267 original size:60 final size:58
Alignment explanation
Indices: 33060091--33060270 Score: 184
Period size: 58 Copynumber: 3.1 Consensus size: 58
33060081 AAAAATGGAA
* * * * * * *
33060091 TTTTGGTAAAATTAGGGTTATAAATGGAATTTTAGAAAGTTTGAGGGTAAAATGGTAA-T
1 TTTTGGTGAAATCAGGGTTA-AAATTGAACTTT-GGAAGTTCGGGGGTAAAATGGTAATT
* * *
33060150 TTTTGGTGAAATCAGGGTTCAAATTGAACTTTGGAAGTTTGGGGGTAAAATGATAATT
1 TTTTGGTGAAATCAGGGTTAAAATTGAACTTTGGAAGTTCGGGGGTAAAATGGTAATT
* * *
33060208 TTTTGGTGAAATCGGGGTTAAAAATATG-ATTTTGAGAAGTTCGGGGGTAAATTGGTAATT
1 TTTTGGTGAAATCAGGGTT-AAAAT-TGAACTTTG-GAAGTTCGGGGGTAAAATGGTAATT
33060268 TTT
1 TTT
33060271 AGACAGTCCA
Statistics
Matches: 103, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
57 21 0.20
58 29 0.28
59 26 0.25
60 27 0.26
ACGTcount: A:0.32, C:0.03, G:0.27, T:0.38
Consensus pattern (58 bp):
TTTTGGTGAAATCAGGGTTAAAATTGAACTTTGGAAGTTCGGGGGTAAAATGGTAATT
Found at i:33060607 original size:33 final size:32
Alignment explanation
Indices: 33060548--33060611 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
33060538 TTACTGGGCC
* *
33060548 AAATTGAAAATAATTAAAAGTATGAAAAGGACT
1 AAATTGAAAACAATTAAAAATATG-AAAGGACT
*
33060581 AAATTG-AAACAATTAAAAAATGTGAAAGGAC
1 AAATTGAAAACAATT-AAAAATATGAAAGGAC
33060612 CAAAGGCGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.58, C:0.05, G:0.16, T:0.22
Consensus pattern (32 bp):
AAATTGAAAACAATTAAAAATATGAAAGGACT
Found at i:33062162 original size:11 final size:11
Alignment explanation
Indices: 33062149--33062235 Score: 53
Period size: 11 Copynumber: 8.0 Consensus size: 11
33062139 TAATATTATT
33062149 TTAAA-TTAAA
1 TTAAATTTAAA
33062159 TTTAAATTTAAA
1 -TTAAATTTAAA
*
33062171 ATAAATTTAAA
1 TTAAATTTAAA
*
33062182 -T-AA-GTAAA
1 TTAAATTTAAA
33062190 TTTAAATTTAAGA
1 -TTAAATTTAA-A
33062203 -TAAATTTAAAAA
1 TTAAATTT--AAA
33062215 TT-AATTTAAAA
1 TTAAATTT-AAA
33062226 TT-AATTTAAA
1 TTAAATTTAAA
33062236 CTTTAAAAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 19
0.74 0.03 0.22
Matches are distributed among these distances:
8 4 0.06
9 2 0.03
10 5 0.08
11 35 0.55
12 14 0.22
13 4 0.06
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:33062165 original size:6 final size:6
Alignment explanation
Indices: 33062148--33062242 Score: 67
Period size: 6 Copynumber: 16.0 Consensus size: 6
33062138 TTAATATTAT
* *
33062148 TTTAAA -TTAAA TTTAAA TTTAAA -ATAAA TTTAAA TAAGTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA TTTAAA
* *
33062196 TTTAAGA --TAAA TTTAAAA ATT-AA TTTAAA ATT-AA TTTAAA CTTTAAA
1 TTTAA-A TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA
33062243 AAAAATCAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
4 1 0.01
5 20 0.29
6 32 0.46
7 12 0.17
8 5 0.07
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:33062193 original size:31 final size:29
Alignment explanation
Indices: 33062146--33062248 Score: 109
Period size: 29 Copynumber: 3.5 Consensus size: 29
33062136 GTTTAATATT
* *
33062146 ATTTTAAATTAAATTTAAATTTAAAATAA
1 ATTTAAAAATAAATTTAAATTTAAAATAA
*
33062175 ATTTAAATAAGTAAATTTAAATTTAAGATAA
1 ATTTAAA-AA-TAAATTTAAATTTAAAATAA
* * **
33062206 ATTTAAAAATTAATTTAAAATTAATTTAA
1 ATTTAAAAATAAATTTAAATTTAAAATAA
33062235 ACTTTAAAAA-AAAT
1 A-TTTAAAAATAAAT
33062249 CAAAAGCCCA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
29 26 0.41
30 11 0.17
31 26 0.41
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (29 bp):
ATTTAAAAATAAATTTAAATTTAAAATAA
Found at i:33062241 original size:23 final size:22
Alignment explanation
Indices: 33062150--33062235 Score: 56
Period size: 23 Copynumber: 4.0 Consensus size: 22
33062140 AATATTATTT
33062150 TAAA-TTAAATTTAAATTTAAAA
1 TAAATTTAAATTT-AATTTAAAA
* *
33062172 TAAATTTAAA--TAA-GTAAATT
1 TAAATTTAAATTTAATTTAAA-A
*
33062192 TAAATTTAAGA-TAAATTTAAAAA
1 TAAATTTAA-ATTTAATTT-AAAA
* *
33062215 TTAATTTAAAATTAATTTAAA
1 TAAATTTAAATTTAATTTAAA
33062236 CTTTAAAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
19 4 0.08
20 11 0.22
21 2 0.04
22 10 0.20
23 20 0.40
24 3 0.06
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
TAAATTTAAATTTAATTTAAAA
Found at i:33063107 original size:10 final size:10
Alignment explanation
Indices: 33063092--33063150 Score: 52
Period size: 9 Copynumber: 6.0 Consensus size: 10
33063082 ACAATTAATT
33063092 AATTTATAAA
1 AATTTATAAA
33063102 AATTTA-AAA
1 AATTTATAAA
*
33063111 AATTCA-AAA
1 AATTTATAAA
*
33063120 AAGTTATAAA
1 AATTTATAAA
*
33063130 ATATATTTTAAA
1 A-AT-TTATAAA
33063142 AA-TTATAAA
1 AATTTATAAA
33063151 TATTAAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
9 21 0.52
10 10 0.25
11 2 0.05
12 7 0.17
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
AATTTATAAA
Found at i:33072590 original size:11 final size:13
Alignment explanation
Indices: 33072574--33072610 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 13
33072564 ATAATAGATT
33072574 ATAAATAAATTT-
1 ATAAATAAATTTC
33072586 A-AAATAAATTTC
1 ATAAATAAATTTC
33072598 ATAAATATAATTT
1 ATAAATA-AATTT
33072611 TAACAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 10 0.45
12 2 0.09
13 5 0.23
14 5 0.23
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (13 bp):
ATAAATAAATTTC
Found at i:33074535 original size:21 final size:21
Alignment explanation
Indices: 33074511--33074562 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
33074501 CATCTTAAAC
33074511 TTAAATTAAATAATAAAAATG
1 TTAAATTAAATAATAAAAATG
* *
33074532 TTAAGA-TAAATAATAAATATT
1 TTAA-ATTAAATAATAAAAATG
33074553 TTAAAATTAA
1 TT-AAATTAA
33074563 TCAAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (21 bp):
TTAAATTAAATAATAAAAATG
Found at i:33079174 original size:29 final size:29
Alignment explanation
Indices: 33079142--33079348 Score: 159
Period size: 30 Copynumber: 7.0 Consensus size: 29
33079132 TAATTAGGAT
* *
33079142 TAAAAATGAAATTTTAAAAGATTCGGGGG
1 TAAAAATGGAATTTTAGAAGATTCGGGGG
* ** * *
33079171 T-AAAATGGTAATTTTCGGTGAAATCGGGGT
1 TAAAAATGG-AATTTTAGAAG-ATTCGGGGG
*
33079201 TAAAAATGGAATTTTAGAAGCTTCGGGGG
1 TAAAAATGGAATTTTAGAAGATTCGGGGG
* ** *
33079230 T-AAAATGGTAATTTTCGGTGAATTCGGGGT
1 TAAAAATGG-AATTTTAGAAG-ATTCGGGGG
*
33079260 TAAAAATGGAATTTTAAAAGATTCGGGGGG
1 TAAAAATGGAATTTTAGAAGATTC-GGGGG
* ** * *
33079290 T-AAAATGGTAATTTTTGGTGAAATCGGGGT
1 TAAAAATGG-AATTTTAGAAG-ATTCGGGGG
*
33079320 TAAAAATGGAATTTTAGAAGTTTCGGGGG
1 TAAAAATGGAATTTTAGAAGATTCGGGGG
33079349 GTGAAATCGG
Statistics
Matches: 133, Mismatches: 35, Indels: 20
0.71 0.19 0.11
Matches are distributed among these distances:
28 13 0.10
29 40 0.30
30 56 0.42
31 24 0.18
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.31
Consensus pattern (29 bp):
TAAAAATGGAATTTTAGAAGATTCGGGGG
Found at i:33079205 original size:30 final size:30
Alignment explanation
Indices: 33079107--33079336 Score: 154
Period size: 30 Copynumber: 7.8 Consensus size: 30
33079097 TATGGATACC
33079107 CGGGGG-AAAAATGGCAATTTT-GGTGTAATT
1 CGGGGGTAAAAATGG-AATTTTAGGTG-AATT
* ** * ***
33079137 -AGGATTAAAAATGAAATTTTAAAAG-ATT
1 CGGGGGTAAAAATGGAATTTTAGGTGAATT
* *
33079165 CGGGGGT-AAAATGGTAATTTTCGGTGAAAT
1 CGGGGGTAAAAATGG-AATTTTAGGTGAATT
* ** *
33079195 CGGGGTTAAAAATGGAATTTTAGAAG-CTT
1 CGGGGGTAAAAATGGAATTTTAGGTGAATT
*
33079224 CGGGGGT-AAAATGGTAATTTTCGGTGAATT
1 CGGGGGTAAAAATGG-AATTTTAGGTGAATT
* ***
33079254 CGGGGTTAAAAATGGAATTTTAAAAG-ATT
1 CGGGGGTAAAAATGGAATTTTAGGTGAATT
* *
33079283 CGGGGGGT-AAAATGGTAATTTTTGGTGAAAT
1 C-GGGGGTAAAAATGG-AATTTTAGGTGAATT
*
33079314 CGGGGTTAAAAATGGAATTTTAG
1 CGGGGGTAAAAATGGAATTTTAG
33079337 AAGTTTCGGG
Statistics
Matches: 147, Mismatches: 40, Indels: 26
0.69 0.19 0.12
Matches are distributed among these distances:
28 16 0.11
29 44 0.30
30 63 0.43
31 24 0.16
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (30 bp):
CGGGGGTAAAAATGGAATTTTAGGTGAATT
Found at i:33079315 original size:119 final size:117
Alignment explanation
Indices: 33079107--33079348 Score: 387
Period size: 119 Copynumber: 2.1 Consensus size: 117
33079097 TATGGATACC
33079107 CGGGGGAAAAATGGCAATTTTGGTGTAATTAGGATTAAAAATGAAATTTTAAAAGATTCGGGGGT
1 CGGGGGAAAAATGGCAATTTTGGTGTAATTAGGATTAAAAATGAAATTTTAAAAGATTCGGGGGT
33079172 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
66 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
* * * * *
33079224 CGGGGGTAAAATGGTAATTTTCGGTG-AATTCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGG
1 CGGGGGAAAAATGGCAATTTT-GGTGTAATT-AGGATTAAAAATGAAATTTTAAAAGATTC-GGG
* *
33079288 GGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGTTT
63 GGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
33079343 CGGGGG
1 CGGGGG
33079349 GTGAAATCGG
Statistics
Matches: 115, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
117 23 0.20
118 30 0.26
119 62 0.54
ACGTcount: A:0.34, C:0.05, G:0.30, T:0.31
Consensus pattern (117 bp):
CGGGGGAAAAATGGCAATTTTGGTGTAATTAGGATTAAAAATGAAATTTTAAAAGATTCGGGGGT
AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
Found at i:33079350 original size:60 final size:59
Alignment explanation
Indices: 33079107--33079348 Score: 351
Period size: 59 Copynumber: 4.1 Consensus size: 59
33079097 TATGGATACC
* * * ** * *
33079107 CGGGGGAAAAATGGCAATTTT-GGTGTAATTAGGATTAAAAATGAAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
* *
33079165 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
*
33079224 CGGGGGTAAAATGGTAATTTTCGGTGAATTCGGGGTTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
* * *
33079283 CGGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGTTT
1 C-GGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
33079343 CGGGGG
1 CGGGGG
33079349 GTGAAATCGG
Statistics
Matches: 166, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
58 19 0.11
59 92 0.55
60 55 0.33
ACGTcount: A:0.34, C:0.05, G:0.30, T:0.31
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
Found at i:33079541 original size:30 final size:29
Alignment explanation
Indices: 33079430--33079545 Score: 144
Period size: 30 Copynumber: 3.9 Consensus size: 29
33079420 ATCGGGGTTA
* *
33079430 AAAATGTAATTTTGGAAAAGTTTTGGGGTT
1 AAAATGTAATTTTGGAAAA-TTTTAGGGTC
* * *
33079460 AAAATGTAATTTTGGTAAAGTTTCGGGTC
1 AAAATGTAATTTTGGAAAATTTTAGGGTC
33079489 AAAATGTAATTTTGGGAAAATTTTAGGGTC
1 AAAATGTAATTTT-GGAAAATTTTAGGGTC
*
33079519 AAAATGTAATTTCTGGACAA-TTTAGGG
1 AAAATGTAATTT-TGGAAAATTTTAGGG
33079546 GCTTACAAAG
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
29 27 0.36
30 48 0.63
31 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.37
Consensus pattern (29 bp):
AAAATGTAATTTTGGAAAATTTTAGGGTC
Found at i:33079845 original size:162 final size:161
Alignment explanation
Indices: 33079636--33079940 Score: 452
Period size: 162 Copynumber: 1.9 Consensus size: 161
33079626 ATCTTGAAAA
* * * *
33079636 AATTTTGGACCAATTTTGTAATTAAATAAAAGTCGATTTAAGGATTAAATTAAAACAGATTAAAA
1 AATTTTGGACCAATTTCGCAATTAAATAAAAGTCGATTTAAGGATTAAATTAAAACAAATAAAAA
* *
33079701 ATAAAAAGGACTAAATACAGAAATAATCCAAAAAGATGACACGTGGCAACCTCTGGTGCAGTCAA
66 ATAAAAAGGACTAAATACAGAAATAATCCAAAAAG-TGACACGTGGCAACCTATGGTACAGTCAA
33079766 ACAGTCAAAGGACTGGTTTATAAACCTTGAAG
130 ACAGTCAAAGGACTGGTTTATAAACCTTGAAG
* * *
33079798 AATTATTGGGCCAATTTCGCAATTAAA-ATAAAGTTGATTT-GGGATTAAATTAAAACAAATAAA
1 AATT-TTGGACCAATTTCGCAATTAAATA-AAAGTCGATTTAAGGATTAAATTAAAACAAATAAA
* * **
33079861 AAATAAAAAGGACTAAATGCAGAAATGATCCAAAAAGTGACACGTGGCAGTCTATGGTACAGTCA
64 AAATAAAAAGGACTAAATACAGAAATAATCCAAAAAGTGACACGTGGCAACCTATGGTACAGTCA
33079926 AACAGTCAAAGGACT
129 AACAGTCAAAGGACT
33079941 AAATTATAAA
Statistics
Matches: 128, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
161 39 0.30
162 60 0.47
163 29 0.23
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.25
Consensus pattern (161 bp):
AATTTTGGACCAATTTCGCAATTAAATAAAAGTCGATTTAAGGATTAAATTAAAACAAATAAAAA
ATAAAAAGGACTAAATACAGAAATAATCCAAAAAGTGACACGTGGCAACCTATGGTACAGTCAAA
CAGTCAAAGGACTGGTTTATAAACCTTGAAG
Found at i:33080007 original size:162 final size:162
Alignment explanation
Indices: 33079675--33080024 Score: 386
Period size: 162 Copynumber: 2.2 Consensus size: 162
33079665 AAGTCGATTT
* *
33079675 AAGGATTAAATTAAAACAGATTAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAAGATGA
1 AAGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAAGATGA
* * *** **
33079740 CACGTGGCAACCTCTGGTGCAGTCAAACAGTCAAAGGACTGGTTTATAAACCTTGAAGAATTATT
66 CACGTGGCAACCTATGGTACAGTCAAACAGTCAAAGGACTAAATTATAAACCTTGAAGAATTACA
* * * * **
33079805 GGGCCAATTTCGCAATTAAAATAAAGTTGATT
131 GGGCAAAATTCGCAAATAAAATAAAGGTGAAA
** * *
33079837 TGGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATGCAGAAATGATCCAAAAAG-TGA
1 AAGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAAGATGA
**
33079901 CACGTGGCAGTCTATGGTACAGTCAAACAGTCAAAGGACTAAATTATAAACCAATT-AA-AATTA
66 CACGTGGCAACCTATGGTACAGTCAAACAGTCAAAGGACTAAATTATAAACC--TTGAAGAATTA
* *
33079964 CAGGGTAAAATT-GCAAAT-AATTGAAAGAGTGCAAA
129 CAGGGCAAAATTCGCAAATAAAAT-AAAG-GTG-AAA
* **
33079999 AAGGATTAAATTGAAGTAAATAAAAA
1 AAGGATTAAATTAAAACAAATAAAAA
33080025 TACGGAATGA
Statistics
Matches: 155, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
159 3 0.02
160 9 0.06
161 62 0.40
162 79 0.51
163 2 0.01
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.23
Consensus pattern (162 bp):
AAGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAAGATGA
CACGTGGCAACCTATGGTACAGTCAAACAGTCAAAGGACTAAATTATAAACCTTGAAGAATTACA
GGGCAAAATTCGCAAATAAAATAAAGGTGAAA
Found at i:33081422 original size:14 final size:14
Alignment explanation
Indices: 33081403--33081436 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
33081393 GGCCGAAAAA
*
33081403 TGGGCCTTTGTAAT
1 TGGGCCATTGTAAT
33081417 TGGGCCATTGTAAT
1 TGGGCCATTGTAAT
33081431 TGGGCC
1 TGGGCC
33081437 GTGGGCCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.15, C:0.18, G:0.32, T:0.35
Consensus pattern (14 bp):
TGGGCCATTGTAAT
Found at i:33081526 original size:48 final size:48
Alignment explanation
Indices: 33081466--33081572 Score: 119
Period size: 48 Copynumber: 2.2 Consensus size: 48
33081456 ATTTGGACTT
* * ** *
33081466 TTAAATGTTAAAT-TTAATATTTTAATTTTTATTTAAATTTAAATTCAAA
1 TTAAAT-TTAAATATTAA-ATTTTAAATTTAAAATAAATCTAAATTCAAA
* *
33081515 TTAAATTTAAATATTTAATTTTAAATTTAAAATAAATCTAAATTTAAA
1 TTAAATTTAAATATTAAATTTTAAATTTAAAATAAATCTAAATTCAAA
33081563 -TAAATTTAAA
1 TTAAATTTAAA
33081573 ATCAATTTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 10 0.20
48 31 0.62
49 9 0.18
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (48 bp):
TTAAATTTAAATATTAAATTTTAAATTTAAAATAAATCTAAATTCAAA
Found at i:33081530 original size:31 final size:31
Alignment explanation
Indices: 33081495--33081557 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
33081485 TTTTAATTTT
* *
33081495 TATTTAAATTTAAATTCAAATTAAATTTAAA
1 TATTTAAATTTAAATTCAAAATAAATCTAAA
* *
33081526 TATTTAATTTTAAATTTAAAATAAATCTAAA
1 TATTTAAATTTAAATTCAAAATAAATCTAAA
33081557 T
1 T
33081558 TTAAATAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (31 bp):
TATTTAAATTTAAATTCAAAATAAATCTAAA
Found at i:33081545 original size:6 final size:6
Alignment explanation
Indices: 33081465--33081572 Score: 89
Period size: 6 Copynumber: 18.0 Consensus size: 6
33081455 CATTTGGACT
* ** *
33081465 TTTAAA TGTTAAA TTTAATA TTTTAA TTTTTA TTTAAA TTTAAA TTCAAA
1 TTTAAA T-TTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
33081515 -TTAAA TTTAAATA TTTAAT TTTAAA TTTAAA -ATAAA TCTAAA TTTAAA
1 TTTAAA TTT-AA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
33081563 --TAAA TTTAAA
1 TTTAAA TTTAAA
33081573 ATCAATTTAA
Statistics
Matches: 83, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 52 0.63
7 15 0.18
8 4 0.05
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:33081558 original size:42 final size:43
Alignment explanation
Indices: 33081468--33081563 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 43
33081458 TTGGACTTTT
* *
33081468 AAATGTTAAATTTAATATTTTAATTTTTATTTAAATTTAAATTC
1 AAAT-TTAAATTTAATATTTTAATTTTAATTTAAATATAAATTC
33081512 AAA-TTAAATTTAA-ATATTTAATTTTAAATTTAAA-ATAAA-TC
1 AAATTTAAATTTAATAT-TTTAATTTT-AATTTAAATATAAATTC
33081553 TAAATTTAAAT
1 -AAATTTAAAT
33081564 AAATTTAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
41 4 0.09
42 26 0.57
43 13 0.28
44 3 0.07
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (43 bp):
AAATTTAAATTTAATATTTTAATTTTAATTTAAATATAAATTC
Found at i:33081963 original size:68 final size:68
Alignment explanation
Indices: 33081876--33082657 Score: 1224
Period size: 68 Copynumber: 11.4 Consensus size: 68
33081866 GTCCAACTTC
* * *
33081876 ACTTCAATTCCAAGAGG-ATGACGTTGCTCTTACTTCAATTTCAGAGGTAAAGATGTGTTATCCA
1 ACTTCAATTTCAAG-GGAATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGATGTGTTATCCA
*
33081940 CTTT
65 CTCT
* * *
33081944 ACTTCAATTTCGAGGGGATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCA
1 ACTTCAATTTCAAGGGAATGACGTTGC-TCTTACTTCAATTTCAGAGATGAAGATGTGTTATCCA
33082009 CTCT
65 CTCT
* * * *
33082013 ACTTCAATTTCAAAGGGGATGACGTTGTTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA
1 ACTTCAATTTC-AAGGGAATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGATGTGTTATCCA
33082078 CTCT
65 CTCT
* *
33082082 ACTTCAATTTCAAGGGAATGACGTTGCTCTTACTTCAATTTCAGAGGTAAAGATGTGTTATCCAC
1 ACTTCAATTTCAAGGGAATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGATGTGTTATCCAC
33082147 TCT
66 TCT
* * *
33082150 ACTTCAATTTCGAGGGGATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCA
1 ACTTCAATTTCAAGGGAATGACGTTGC-TCTTACTTCAATTTCAGAGATGAAGATGTGTTATCCA
33082215 CTCT
65 CTCT
* * *
33082219 ACTTCAATTTCAAGGGAATGACGTTACTCTTACTTCAATTTCAGAGGTAAAGATGTGTTATCCAC
1 ACTTCAATTTCAAGGGAATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGATGTGTTATCCAC
33082284 TCT
66 TCT
* * *
33082287 ACTTCAATTTCGAGGGGATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGATGCGTTATCCA
1 ACTTCAATTTCAAGGGAATGACGTTGC-TCTTACTTCAATTTCAGAGATGAAGATGTGTTATCCA
33082352 CTCT
65 CTCT
* *
33082356 ACTTCAATTTCAAGGGAATGACGTTGCTCTTACTTCAATTTTAGAGATGAAGACGTGTTATCCAC
1 ACTTCAATTTCAAGGGAATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGATGTGTTATCCAC
33082421 TCT
66 TCT
* * *
33082424 ACTTCAATTTCAAGGGAATGACGTTACTCTTACTTCAATTTCAGAGGTAAAGATGTGTTATCCAC
1 ACTTCAATTTCAAGGGAATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGATGTGTTATCCAC
33082489 TCT
66 TCT
* * *
33082492 ACTTCAATTTCGAGGGGATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGATGCGTTATCCA
1 ACTTCAATTTCAAGGGAATGACGTTGC-TCTTACTTCAATTTCAGAGATGAAGATGTGTTATCCA
33082557 CTCT
65 CTCT
*
33082561 ACTTCAATTTCAAGGGAATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCAC
1 ACTTCAATTTCAAGGGAATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGATGTGTTATCCAC
33082626 TCT
66 TCT
33082629 ACTTCAATTTCAAGGGAATGACGTTGCTC
1 ACTTCAATTTCAAGGGAATGACGTTGCTC
33082658 CTGCAGAAAA
Statistics
Matches: 658, Mismatches: 50, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
67 2 0.00
68 355 0.54
69 287 0.44
70 14 0.02
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (68 bp):
ACTTCAATTTCAAGGGAATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGATGTGTTATCCAC
TCT
Found at i:33082192 original size:137 final size:136
Alignment explanation
Indices: 33081876--33082657 Score: 1240
Period size: 137 Copynumber: 5.7 Consensus size: 136
33081866 GTCCAACTTC
* * * *
33081876 ACTTCAATTCCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGGTAAAGATGTGTTATCCAC
1 ACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAC
* * * *
33081941 TTTACTTCAATTTCGAGGGGATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGACGTGTTAT
66 TCTACTTCAATTTCAAGGGAATGACGTTGC-TCTTACTTCAATTTCAGAGATGAAGATGTGTTAT
33082006 CCACTCT
130 CCACTCT
*
33082013 ACTTCAATTTCAAAGGGGATGACGTTGTTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA
1 ACTTCAATTTC-AAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA
* *
33082078 CTCTACTTCAATTTCAAGGGAATGACGTTGCTCTTACTTCAATTTCAGAGGTAAAGATGTGTTAT
65 CTCTACTTCAATTTCAAGGGAATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGATGTGTTAT
33082143 CCACTCT
130 CCACTCT
* *
33082150 ACTTCAATTTCGAGGGGATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCA
1 ACTTCAATTTCAAGGGGATGACGTTGC-TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA
* * *
33082215 CTCTACTTCAATTTCAAGGGAATGACGTTACTCTTACTTCAATTTCAGAGGTAAAGATGTGTTAT
65 CTCTACTTCAATTTCAAGGGAATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGATGTGTTAT
33082280 CCACTCT
130 CCACTCT
* * * *
33082287 ACTTCAATTTCGAGGGGATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGATGCGTTATCCA
1 ACTTCAATTTCAAGGGGATGACGTTGC-TCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA
* *
33082352 CTCTACTTCAATTTCAAGGGAATGACGTTGCTCTTACTTCAATTTTAGAGATGAAGACGTGTTAT
65 CTCTACTTCAATTTCAAGGGAATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGATGTGTTAT
33082417 CCACTCT
130 CCACTCT
* * * *
33082424 ACTTCAATTTCAAGGGAATGACGTTACTCTTACTTCAATTTCAGAGGTAAAGATGTGTTATCCAC
1 ACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAC
* * *
33082489 TCTACTTCAATTTCGAGGGGATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGATGCGTTAT
66 TCTACTTCAATTTCAAGGGAATGACGTTGC-TCTTACTTCAATTTCAGAGATGAAGATGTGTTAT
33082554 CCACTCT
130 CCACTCT
* *
33082561 ACTTCAATTTCAAGGGAATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCAC
1 ACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAC
33082626 TCTACTTCAATTTCAAGGGAATGACGTTGCTC
66 TCTACTTCAATTTCAAGGGAATGACGTTGCTC
33082658 CTGCAGAAAA
Statistics
Matches: 603, Mismatches: 39, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
136 79 0.13
137 447 0.74
138 77 0.13
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (136 bp):
ACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAC
TCTACTTCAATTTCAAGGGAATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGATGTGTTATC
CACTCT
Found at i:33082389 original size:205 final size:205
Alignment explanation
Indices: 33081876--33082653 Score: 1317
Period size: 205 Copynumber: 3.8 Consensus size: 205
33081866 GTCCAACTTC
* * * *
33081876 ACTTCAATTCCAAGAGGATGACGTTGCTCTTACTTCAATTTCAGAGGTAAAGATGTGTTATCCAC
1 ACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGATGCGTTATCCAC
* * *
33081941 TTTACTTCAATTTCGAGGGGATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGACGTGTTAT
66 TCTACTTCAATTTCAAGGGAATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGACGTGTTAT
* ** * *
33082006 CCACTCTACTTCAATTTCAAAGGGGATGACGTTGTTCTTACTTCAATTTCAGAGATAAAGACGTG
131 CCACTCTACTTCAATTTC-AAGGGAATGACGTTACTCTTACTTCAATTTCAGAGGTAAAGATGTG
33082071 TTATCCACTCT
195 TTATCCACTCT
* * *
33082082 ACTTCAATTTCAAGGGAATGACGTTGCTCTTACTTCAATTTCAGAGGTAAAGATGTGTTATCCAC
1 ACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGATGCGTTATCCAC
* *
33082147 TCTACTTCAATTTCGAGGGGATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGACGTGTTAT
66 TCTACTTCAATTTCAAGGGAATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGACGTGTTAT
33082212 CCACTCTACTTCAATTTCAAGGGAATGACGTTACTCTTACTTCAATTTCAGAGGTAAAGATGTGT
131 CCACTCTACTTCAATTTCAAGGGAATGACGTTACTCTTACTTCAATTTCAGAGGTAAAGATGTGT
33082277 TATCCACTCT
196 TATCCACTCT
* *
33082287 ACTTCAATTTCGAGGGGATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGATGCGTTATCCA
1 ACTTCAATTTCAAGGGGATGACGTTGC-TCTTACTTCAATTTCAGAGATAAAGATGCGTTATCCA
*
33082352 CTCTACTTCAATTTCAAGGGAATGACGTTGC-TCTTACTTCAATTTTAGAGATGAAGACGTGTTA
65 CTCTACTTCAATTTCAAGGGAATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGACGTGTTA
33082416 TCCACTCTACTTCAATTTCAAGGGAATGACGTTACTCTTACTTCAATTTCAGAGGTAAAGATGTG
130 TCCACTCTACTTCAATTTCAAGGGAATGACGTTACTCTTACTTCAATTTCAGAGGTAAAGATGTG
33082481 TTATCCACTCT
195 TTATCCACTCT
* *
33082492 ACTTCAATTTCGAGGGGATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGATGCGTTATCCA
1 ACTTCAATTTCAAGGGGATGACGTTGC-TCTTACTTCAATTTCAGAGATAAAGATGCGTTATCCA
33082557 CTCTACTTCAATTTCAAGGGAATGACGTTGC-TCTTACTTCAATTTCAGAGATGAAGACGTGTTA
65 CTCTACTTCAATTTCAAGGGAATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGACGTGTTA
33082621 TCCACTCTACTTCAATTTCAAGGGAATGACGTT
130 TCCACTCTACTTCAATTTCAAGGGAATGACGTT
33082654 GCTCCTGCAG
Statistics
Matches: 553, Mismatches: 18, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
205 346 0.63
206 207 0.37
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (205 bp):
ACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGATGCGTTATCCAC
TCTACTTCAATTTCAAGGGAATGACGTTGCTTCTTACTTCAATTTCAGAGATGAAGACGTGTTAT
CCACTCTACTTCAATTTCAAGGGAATGACGTTACTCTTACTTCAATTTCAGAGGTAAAGATGTGT
TATCCACTCT
Found at i:33094591 original size:57 final size:55
Alignment explanation
Indices: 33094520--33094674 Score: 170
Period size: 57 Copynumber: 2.7 Consensus size: 55
33094510 TATGGATACC
* *
33094520 CGGGGGCAAAATGGTAATTTTGGTGTAATCGGGATTAAAAATGG-AA-TTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTGGTG-AATCGGG-TTAAAAACGGAAATTTTAAAAG--T
*
33094577 CGGGGGTAAAATGGTAATTTTCGGTGAAAATCGAGGTTAAAAACGGAAATTTTAGAAGT
1 CGGGGGTAAAATGGTAATTTT-GGTG--AATCG-GGTTAAAAACGGAAATTTTAAAAGT
*
33094636 CGAGGGGTAAAATGGTAATTTCGGTGAATCAGGGTTAAA
1 CG-GGGGTAAAATGGTAATTTTGGTGAATC-GGGTTAAA
33094675 GGTTTTAAAA
Statistics
Matches: 86, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
57 31 0.36
58 5 0.06
59 21 0.24
60 22 0.26
61 7 0.08
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.28
Consensus pattern (55 bp):
CGGGGGTAAAATGGTAATTTTGGTGAATCGGGTTAAAAACGGAAATTTTAAAAGT
Found at i:33094660 original size:59 final size:57
Alignment explanation
Indices: 33094520--33094663 Score: 168
Period size: 59 Copynumber: 2.5 Consensus size: 57
33094510 TATGGATACC
* * * *
33094520 CGGGGGCAAAATGGTAATTTTGGTG-TAATCGGGATTAAAAATGGAATTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTCGGTGAAAATCGGGATTAAAAACGGAATTTAAAAGA-T
*
33094577 CGGGGGTAAAATGGTAATTTTCGGTGAAAATCGAGG-TTAAAAACGGAAATTTTAGAAG-T
1 CGGGGGTAAAATGGTAA-TTTCGGTGAAAATCG-GGATTAAAAACGG-AA-TTTAAAAGAT
33094636 CGAGGGGTAAAATGGTAATTTCGGTGAA
1 CG-GGGGTAAAATGGTAATTTCGGTGAA
33094664 TCAGGGTTAA
Statistics
Matches: 76, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
57 16 0.21
58 7 0.09
59 27 0.36
60 19 0.25
61 7 0.09
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.28
Consensus pattern (57 bp):
CGGGGGTAAAATGGTAATTTCGGTGAAAATCGGGATTAAAAACGGAATTTAAAAGAT
Found at i:33094842 original size:57 final size:56
Alignment explanation
Indices: 33094771--33094901 Score: 169
Period size: 57 Copynumber: 2.3 Consensus size: 56
33094761 GAGATTCAGG
*
33094771 GGGT-AAAATGGTAATTTTCGGTGAAA-TT-GGGTTAAAAATGTAATTTTGGAAAAGTTT
1 GGGTCAAAAT-GTAATTTT-GGT-AAAGTTCGGG-TAAAAATGTAATTTGGGAAAAGTTT
* *
33094828 GGGTCAAAATGTAATTTTGGTAAAGTTTCGGGTCAAAATGTAATTTGGGAAAATTTT
1 GGGTCAAAATGTAATTTTGGTAAAG-TTCGGGTAAAAATGTAATTTGGGAAAAGTTT
33094885 GGGTCAAAATGTAATTT
1 GGGTCAAAATGTAATTT
33094902 CTGGCAATTT
Statistics
Matches: 67, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
55 3 0.04
56 3 0.04
57 53 0.79
58 8 0.12
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (56 bp):
GGGTCAAAATGTAATTTTGGTAAAGTTCGGGTAAAAATGTAATTTGGGAAAAGTTT
Found at i:33094845 original size:28 final size:28
Alignment explanation
Indices: 33094805--33094901 Score: 158
Period size: 28 Copynumber: 3.4 Consensus size: 28
33094795 AATTGGGTTA
33094805 AAAATGTAATTTTGGAAAAGTTTGGGTC
1 AAAATGTAATTTTGGAAAAGTTTGGGTC
*
33094833 AAAATGTAATTTTGGTAAAGTTTCGGGTC
1 AAAATGTAATTTTGGAAAAGTTT-GGGTC
* *
33094862 AAAATGTAATTTGGGAAAATTTTGGGTC
1 AAAATGTAATTTTGGAAAAGTTTGGGTC
33094890 AAAATGTAATTT
1 AAAATGTAATTT
33094902 CTGGCAATTT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
28 39 0.61
29 25 0.39
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.37
Consensus pattern (28 bp):
AAAATGTAATTTTGGAAAAGTTTGGGTC
Found at i:33095235 original size:158 final size:160
Alignment explanation
Indices: 33095014--33095305 Score: 421
Period size: 158 Copynumber: 1.8 Consensus size: 160
33095004 AAAATTTTGA
* * *
33095014 CCAATTTTGTAATTAAATAAAAGTCGATTTAAGAATTAAATTAAAACAGATTAAAAATAAAAAGG
1 CCAATTTCGTAATTAAATAAAAGTCGATTTAAGAATTAAATTAAAACAAATAAAAAATAAAAAGG
* *
33095079 ACTAAATACAAAAATAAT-CAAAAAGATGACACGTGGCAACCTCT-GTGCAGTCAAACAGTCAAA
66 ACTAAATACAAAAATAATCCAAAAAG-TGACACGTGGCAACCTATGGTACAGTCAAACAGTCAAA
33095142 GGACTGTTTTATAAACTTGAAGAATTATGGG
130 GGACTGTTTTATAAACTTGAAGAATTATGGG
* * *
33095173 CCAATTTCGTAATTAAA-ATAAAGTTGATTT-GGGATTAAATTAAAACAAATAAAAAATAAAAAG
1 CCAATTTCGTAATTAAATA-AAAGTCGATTTAAGAATTAAATTAAAACAAATAAAAAATAAAAAG
* * * **
33095236 GACTAAATGCAGAAATGATCCAAAAAGTGACACGTGGCAGTCTATGGTACAGTCAAACAGTCAAA
65 GACTAAATACAAAAATAATCCAAAAAGTGACACGTGGCAACCTATGGTACAGTCAAACAGTCAAA
33095301 GGACT
130 GGACT
33095306 AAATTATAAA
Statistics
Matches: 117, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
158 61 0.52
159 56 0.48
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (160 bp):
CCAATTTCGTAATTAAATAAAAGTCGATTTAAGAATTAAATTAAAACAAATAAAAAATAAAAAGG
ACTAAATACAAAAATAATCCAAAAAGTGACACGTGGCAACCTATGGTACAGTCAAACAGTCAAAG
GACTGTTTTATAAACTTGAAGAATTATGGG
Found at i:33095313 original size:159 final size:159
Alignment explanation
Indices: 33095014--33095316 Score: 414
Period size: 159 Copynumber: 1.9 Consensus size: 159
33095004 AAAATTTTGA
* * *
33095014 CCAATTTTGTAATTAAATAAAAGTCGATTTAAGAATTAAATTAAAACAGATTAAAAATAAAAAGG
1 CCAATTTCGTAATTAAATAAAAGTCGATTTAAGAATTAAATTAAAACAAATAAAAAATAAAAAGG
* *
33095079 ACTAAATACAAAAATAATCAAAAAGATGACACGTGGCAACCTCTGTGCAGTCAAACAGTCAAAGG
66 ACTAAATACAAAAATAATCAAAAAGATGACACGTGGCAACCTATGTACAGTCAAACAGTCAAAGG
***
33095144 ACTGTTTTATAAACTTGAAGAATTATGGG
131 ACTAAATTATAAACTTGAAGAATTATGGG
* * *
33095173 CCAATTTCGTAATTAAA-ATAAAGTTGATTT-GGGATTAAATTAAAACAAATAAAAAATAAAAAG
1 CCAATTTCGTAATTAAATA-AAAGTCGATTTAAGAATTAAATTAAAACAAATAAAAAATAAAAAG
* * * **
33095236 GACTAAATGCAGAAATGATCCAAAAAG-TGACACGTGGCAGTCTATGGTACAGTCAAACAGTCAA
65 GACTAAATACAAAAATAAT-CAAAAAGATGACACGTGGCAACCTAT-GTACAGTCAAACAGTCAA
33095300 AGGACTAAATTATAAAC
128 AGGACTAAATTATAAAC
33095317 CAATTAAAAT
Statistics
Matches: 125, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
158 61 0.49
159 64 0.51
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.25
Consensus pattern (159 bp):
CCAATTTCGTAATTAAATAAAAGTCGATTTAAGAATTAAATTAAAACAAATAAAAAATAAAAAGG
ACTAAATACAAAAATAATCAAAAAGATGACACGTGGCAACCTATGTACAGTCAAACAGTCAAAGG
ACTAAATTATAAACTTGAAGAATTATGGG
Found at i:33102437 original size:30 final size:30
Alignment explanation
Indices: 33102364--33102616 Score: 134
Period size: 30 Copynumber: 8.5 Consensus size: 30
33102354 GTAATCGGGA
* ** *
33102364 TTAAAAATGGAATTTTAAAAG-ATTCGGGG
1 TTAAAAATGGAATTTTCAGTGAATTCGAGG
* *
33102393 GT-AAAATGGTAATTTTCAGTGAAATCGAGG
1 TTAAAAATGG-AATTTTCAGTGAATTCGAGG
*
33102423 TTAAAAACGGAATTTT-A--GAAGCTTCGAGG
1 TTAAAAATGGAATTTTCAGTGAA--TTCGAGG
* *
33102452 GT-AAAATGGTAATTTTCGGTGAATTCGAGG
1 TTAAAAATGG-AATTTTCAGTGAATTCGAGG
* ** *
33102482 TTAAAAATGGAATTTTAAAAG-ATTCGGGGG
1 TTAAAAATGGAATTTTCAGTGAATTC-GAGG
* ** * *
33102512 GT-AAAATGGTAATTTTTGGTGAAATCGGGG
1 TTAAAAATGG-AATTTTCAGTGAATTCGAGG
* *
33102542 TTAAAAATGGAATTTTAAGAG-ATTC-AGGG
1 TTAAAAATGGAATTTTCAGTGAATTCGA-GG
* *
33102571 GT-AAAATGGTAATTTTCGGTGAAATT-GAGG
1 TTAAAAATGG-AATTTTCAGTG-AATTCGAGG
*
33102601 TTAAAAATGTAATTTT
1 TTAAAAATGGAATTTT
33102617 GGAAAAGTTT
Statistics
Matches: 168, Mismatches: 36, Indels: 39
0.69 0.15 0.16
Matches are distributed among these distances:
27 3 0.02
28 20 0.12
29 48 0.29
30 61 0.36
31 33 0.20
32 3 0.02
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (30 bp):
TTAAAAATGGAATTTTCAGTGAATTCGAGG
Found at i:33102438 original size:59 final size:59
Alignment explanation
Indices: 33102330--33102646 Score: 417
Period size: 59 Copynumber: 5.4 Consensus size: 59
33102320 TATGGATACC
* *
33102330 CGGGGGCAAAATGGTAATTTT-GGTGTAATCG-GGATTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGAGG-TTAAAAATGGAATTTTAAAAGATT
* * * *
33102388 CGGGGGTAAAATGGTAATTTTCAGTGAAATCGAGGTTAAAAACGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGAGGTTAAAAATGGAATTTTAAAAGATT
* *
33102447 CGAGGGTAAAATGGTAATTTTCGGTGAATTCGAGGTTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGAGGTTAAAAATGGAATTTTAAAAGATT
* * *
33102506 CGGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAGAGATT
1 C-GGGGGTAAAATGGTAATTTTCGGTGAAATCGAGGTTAAAAATGGAATTTTAAAAGATT
* * *
33102566 CAGGGGTAAAATGGTAATTTTCGGTGAAATTGAGGTTAAAAATGTAATTTTGGAAAAG-TT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGAGGTTAAAAATGGAATTTT--AAAAGATT
**
33102626 TTGGGGTCAAAAT-GTAATTTT
1 CGGGGGT-AAAATGGTAATTTT
33102647 GGTAAAGTTT
Statistics
Matches: 228, Mismatches: 25, Indels: 10
0.87 0.10 0.04
Matches are distributed among these distances:
58 20 0.09
59 128 0.56
60 71 0.31
61 9 0.04
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.32
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTCGGTGAAATCGAGGTTAAAAATGGAATTTTAAAAGATT
Done.