Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 113 of 230
Found at i:32908392 original size:51 final size:51
Alignment explanation
Indices: 32908325--32908520 Score: 218
Period size: 51 Copynumber: 3.9 Consensus size: 51
32908315 CAATGATATT
* * * *
32908325 CGGTTCACATAGTAGCCTGCACATAGTACTACGCATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATC
** * * *
32908376 CAATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATTACCATC
** * * * *
32908427 CGGTATGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TT-TCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTACCA-TC
32908477 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
32908521 CACTTTCACT
Statistics
Matches: 116, Mismatches: 25, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
49 1 0.01
50 40 0.34
51 73 0.63
52 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.24
Consensus pattern (51 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATC
Found at i:32908508 original size:101 final size:102
Alignment explanation
Indices: 32908332--32908516 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
32908322 ATTCGGTTCA
* *
32908332 CATAGTAGCCTGCACATAGTACTACGCATGTGACCATTACCATCCAATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATTACCATCCAATACACGTAGTAGCCTGCA
32908397 CATAGTACTACACACGTGATCGAAACTATCCGGTATG
66 CATAGTACTACACACGTGATCGAAACTATCCGGTATG
* **
32908434 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TT-TCATTCCGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATTACCA-TCCAATACACGTAGTAGCCTGC
32908497 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
32908517 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 2 0.03
101 42 0.55
102 33 0.43
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATTACCATCCAATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAACTATCCGGTATG
Found at i:32914202 original size:16 final size:15
Alignment explanation
Indices: 32914175--32914204 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
32914165 AAATTCACAT
32914175 TTATACTATATATAA
1 TTATACTATATATAA
32914190 TTATACATATATATA
1 TTATAC-TATATATA
32914205 TTTCCAACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATACTATATATAA
Found at i:32919278 original size:27 final size:26
Alignment explanation
Indices: 32919231--32919285 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
32919221 TAGGTTAATT
* *
32919231 TTAAAATAAATAATATGTAAAATAAC
1 TTAAAATAAATAACATATAAAATAAC
*
32919257 TTAAAATAAAATGACATATAAAATAAC
1 TTAAAAT-AAATAACATATAAAATAAC
32919284 TT
1 TT
32919286 GAAACAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (26 bp):
TTAAAATAAATAACATATAAAATAAC
Found at i:32944213 original size:40 final size:40
Alignment explanation
Indices: 32944130--32944432 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
32944120 TTGAATGCTG
* * * * * *
32944130 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
32944170 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
32944210 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
32944250 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
32944290 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
32944330 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
32944370 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
32944409 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
32944433 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:32949759 original size:16 final size:17
Alignment explanation
Indices: 32949732--32949780 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
32949722 GTCTAAAATT
*
32949732 ATATGTATTAATTTATA
1 ATATATATTAATTTATA
32949749 ATATA-ATTAATTT-TA
1 ATATATATTAATTTATA
*
32949764 ATTTATATTCAATTTAT
1 ATATATATT-AATTTAT
32949781 TTTGGGTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 6 0.22
16 11 0.41
17 9 0.33
18 1 0.04
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
ATATATATTAATTTATA
Found at i:32953833 original size:10 final size:10
Alignment explanation
Indices: 32953818--32953868 Score: 54
Period size: 9 Copynumber: 5.4 Consensus size: 10
32953808 TTAATAAATG
32953818 TTTTATATAT
1 TTTTATATAT
32953828 TTTTATAT-T
1 TTTTATATAT
*
32953837 TTTTGTA-AT
1 TTTTATATAT
* *
32953846 TTTTTTATAA
1 TTTTATATAT
32953856 TTTTATA-AT
1 TTTTATATAT
32953865 TTTT
1 TTTT
32953869 GCAAGTATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
9 19 0.56
10 15 0.44
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (10 bp):
TTTTATATAT
Found at i:32953849 original size:19 final size:19
Alignment explanation
Indices: 32953818--32953868 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
32953808 TTAATAAATG
* *
32953818 TTTTAT-ATATTTTTATATT
1 TTTTATAATTTTTTTATA-A
*
32953837 TTTTGTAATTTTTTTATAA
1 TTTTATAATTTTTTTATAA
32953856 TTTTATAATTTTT
1 TTTTATAATTTTT
32953869 GCAAGTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTATAATTTTTTTATAA
Found at i:32953851 original size:11 final size:11
Alignment explanation
Indices: 32953802--32953859 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
32953792 AAAATTTCCA
*
32953802 AATTTTTTAAT
1 AATTTTTTTAT
* *
32953813 AAATGTTTTAT
1 AATTTTTTTAT
*
32953824 -ATATTTTTAT
1 AATTTTTTTAT
*
32953834 -A-TTTTTTGT
1 AATTTTTTTAT
32953843 AATTTTTTTAT
1 AATTTTTTTAT
32953854 AATTTT
1 AATTTT
32953860 ATAATTTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
9 6 0.17
10 9 0.25
11 21 0.58
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.67
Consensus pattern (11 bp):
AATTTTTTTAT
Found at i:32953859 original size:28 final size:27
Alignment explanation
Indices: 32953818--32953896 Score: 77
Period size: 28 Copynumber: 2.9 Consensus size: 27
32953808 TTAATAAATG
* * * *
32953818 TTTTATATATTTTTATATTTTTTGTAA
1 TTTTTTATAATTTTATAATTTTTGCAA
32953845 TTTTTTTATAATTTTATAATTTTTGCAA
1 -TTTTTTATAATTTTATAATTTTTGCAA
* * *
32953873 GTATTTATAATTTTAATACTTTTT
1 TTTTTTATAATTTT-ATAATTTTT
32953897 AAATAAATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 12 0.28
28 31 0.72
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.66
Consensus pattern (27 bp):
TTTTTTATAATTTTATAATTTTTGCAA
Found at i:32961949 original size:17 final size:18
Alignment explanation
Indices: 32961903--32961950 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
32961893 AATTACAAAC
32961903 AAATAGAGAAAAATCATAA
1 AAATAG-GAAAAATCATAA
* * *
32961922 ATATA-AAAAAAACATAA
1 AAATAGGAAAAATCATAA
32961939 AAATAGGAAAAA
1 AAATAGGAAAAA
32961951 AGAACCACTC
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
17 14 0.61
18 5 0.22
19 4 0.17
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.15
Consensus pattern (18 bp):
AAATAGGAAAAATCATAA
Found at i:32963753 original size:31 final size:31
Alignment explanation
Indices: 32963711--32963776 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
32963701 CTTAAATATA
* *
32963711 ATAAATTATATTTATATAATTTAATATAATG
1 ATAAATGATATTTAAATAATTTAATATAATG
*
32963742 ATAAATGATATTTAAATAATTTGATATAATG
1 ATAAATGATATTTAAATAATTTAATATAATG
32963773 ATAA
1 ATAA
32963777 TTTAATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (31 bp):
ATAAATGATATTTAAATAATTTAATATAATG
Found at i:32963776 original size:16 final size:16
Alignment explanation
Indices: 32963726--32963784 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
32963716 TTATATTTAT
32963726 ATAATTTAATATAATG
1 ATAATTTAATATAATG
* * *
32963742 ATAAATGATATTTAA--
1 ATAATTTA-ATATAATG
*
32963757 ATAATTTGATATAATG
1 ATAATTTAATATAATG
32963773 ATAATTTAATAT
1 ATAATTTAATAT
32963785 TTTTTAGATT
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
14 5 0.16
15 5 0.16
16 17 0.53
17 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (16 bp):
ATAATTTAATATAATG
Found at i:32964630 original size:39 final size:39
Alignment explanation
Indices: 32964587--32964664 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
32964577 TAGTTATAAT
32964587 CACGATATGAGTGGTTTCATATAAAATCAATATCTAAAC
1 CACGATATGAGTGGTTTCATATAAAATCAATATCTAAAC
*
32964626 CACGATATGAGTGGTTTCATATAAAATTAATATCTAAAC
1 CACGATATGAGTGGTTTCATATAAAATCAATATCTAAAC
32964665 ATCATTAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (39 bp):
CACGATATGAGTGGTTTCATATAAAATCAATATCTAAAC
Found at i:32965036 original size:17 final size:17
Alignment explanation
Indices: 32965014--32965046 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32965004 ATAATTTATT
*
32965014 TTTCTTTTTATAAAATA
1 TTTCTTTTTAAAAAATA
32965031 TTTCTTTTTAAAAAAT
1 TTTCTTTTTAAAAAAT
32965047 CGTGGCTCCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTCTTTTTAAAAAATA
Found at i:32969416 original size:40 final size:41
Alignment explanation
Indices: 32969340--32969418 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 41
32969330 AAGTACTTTG
***
32969340 TCCACGTGGACAGAAAACGCTTCCTTGAGGGCGCGCTTTGTA
1 TCCACGTGGACA-AAAACGCTTCCTTGAGAAAGCGCTTTGTA
*
32969382 TCCACGTGGAC-AAAGCGCTTCCTTGAGAAAGCGCTTT
1 TCCACGTGGACAAAAACGCTTCCTTGAGAAAGCGCTTT
32969419 TCCGGTCTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 22 0.67
42 11 0.33
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.24
Consensus pattern (41 bp):
TCCACGTGGACAAAAACGCTTCCTTGAGAAAGCGCTTTGTA
Found at i:32969479 original size:15 final size:15
Alignment explanation
Indices: 32969447--32969489 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
32969437 GCAATCAAGG
*
32969447 TTAGGGTTTGAGATTT
1 TTAGGGTTTTA-ATTT
32969463 TT-GGGATTTTAATTT
1 TTAGGG-TTTTAATTT
32969478 TTAGGGTTTTAA
1 TTAGGGTTTTAA
32969490 GAAAAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 15 0.62
16 9 0.38
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (15 bp):
TTAGGGTTTTAATTT
Found at i:32969596 original size:10 final size:10
Alignment explanation
Indices: 32969583--32969610 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
32969573 CTAAATTTAT
32969583 TTAAATATAG
1 TTAAATATAG
32969593 TTAAATATAG
1 TTAAATATAG
32969603 TTAAATAT
1 TTAAATAT
32969611 TAATTACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (10 bp):
TTAAATATAG
Found at i:32970231 original size:97 final size:96
Alignment explanation
Indices: 32970113--32970430 Score: 507
Period size: 96 Copynumber: 3.3 Consensus size: 96
32970103 AACAGCTACC
* *
32970113 TTTATTTGA-TTTTTCCTTAAAAACCCTAAATACTAAACCCCAATCTAATTTTTTTAAAATTTAT
1 TTTATTTAATTTTTTCCTTAAAAACCCTAAATACTAAACCCTAATCTAA-TTTTTTAAAATTTAT
32970177 AATTAATTTATTCAAGTAACCCTAAACCCTAA
65 AATTAATTTATTCAAGTAACCCTAAACCCTAA
* *
32970209 TTTATTTAATTTTTTCCTTAAAAATCCTAAACACTAAACCCTAATCTAATTTTTTAAAATTTATA
1 TTTATTTAATTTTTTCCTTAAAAACCCTAAATACTAAACCCTAATCTAATTTTTTAAAATTTATA
*
32970274 ATTAATTTACTCAAGTAACCCTAAACCCTAA
66 ATTAATTTATTCAAGTAACCCTAAACCCTAA
* * *
32970305 TTTATTTGATTTTTTCCTTAAAAACCATAAATGCTAAACCCTAATCTAATTTTTTAAAATTTATA
1 TTTATTTAATTTTTTCCTTAAAAACCCTAAATACTAAACCCTAATCTAATTTTTTAAAATTTATA
* *
32970370 ATTAATTTAATT-AAGAAACCCTAAACCCTTA
66 ATTAATTT-ATTCAAGTAACCCTAAACCCTAA
32970401 TTTATTTAATTTTTTCCTT-AAAACCCTAAA
1 TTTATTTAATTTTTTCCTTAAAAACCCTAAA
32970431 ATTTAAAAAC
Statistics
Matches: 205, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
95 10 0.05
96 157 0.77
97 38 0.19
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.42
Consensus pattern (96 bp):
TTTATTTAATTTTTTCCTTAAAAACCCTAAATACTAAACCCTAATCTAATTTTTTAAAATTTATA
ATTAATTTATTCAAGTAACCCTAAACCCTAA
Found at i:32972563 original size:15 final size:15
Alignment explanation
Indices: 32972543--32972594 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
32972533 ACTACAAAAC
32972543 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
32972558 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
32972577 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
32972592 ATT
1 ATT
32972595 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:32972646 original size:16 final size:16
Alignment explanation
Indices: 32972622--32972663 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
32972612 ATAATATGTG
*
32972622 ATTAATATTATTTAAA
1 ATTATTATTATTTAAA
32972638 ATTATTATT-TTTAAA
1 ATTATTATTATTTAAA
32972653 ATTTATTATTA
1 A-TTATTATTA
32972664 AAATAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTATTATTATTTAAA
Found at i:32972702 original size:16 final size:18
Alignment explanation
Indices: 32972677--32972735 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 18
32972667 TAAAATTGAA
32972677 ATATTAAATAATTTATTAT
1 ATATT-AATAATTTATTAT
32972696 -T-TTAATAAATTATATTTACT
1 ATATTAAT-AATT-TA-TTA-T
32972716 ATATTAATAATTTATTAT
1 ATATTAATAATTTATTAT
32972734 AT
1 AT
32972736 GACTACATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
16 3 0.09
17 6 0.18
18 6 0.18
19 6 0.18
20 3 0.09
21 5 0.15
22 5 0.15
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATTAATAATTTATTAT
Found at i:32972713 original size:22 final size:22
Alignment explanation
Indices: 32972687--32972730 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
32972677 ATATTAAATA
* *
32972687 ATTTATTATTTTAATAAATTAT
1 ATTTACTATATTAATAAATTAT
*
32972709 ATTTACTATATTAATAATTTAT
1 ATTTACTATATTAATAAATTAT
32972731 TATATGACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTACTATATTAATAAATTAT
Found at i:32978143 original size:30 final size:29
Alignment explanation
Indices: 32978107--32978386 Score: 137
Period size: 30 Copynumber: 9.4 Consensus size: 29
32978097 GGTTGTCACC
32978107 ATCCCTTTTCATAGTTCGATAGCTGAAGCT
1 ATCCCTTTTCATAGTTCGATAGCTGAA-CT
* * * *
32978137 ATCCCTTGTCATATTTCGAT-GGTCG-TCT
1 ATCCCTTTTCATAGTTCGATAGCT-GAACT
* * *
32978165 CCATCCCTTTTCATTGTT-GATAGTCAT-CACC
1 --ATCCCTTTTCATAGTTCGATAG-C-TGAACT
* *
32978196 ATCCGTTTTCATAATTCGATAGCTGAAGCT
1 ATCCCTTTTCATAGTTCGATAGCTGAA-CT
* * * * *
32978226 ATCCCTTTTCATATTTCAATGGTCAT-TACC
1 ATCCCTTTTCATAGTTCGATAG-C-TGAACT
* **
32978256 ATCCCTTTTCATAATTCGATAGCCAAAGCT
1 ATCCCTTTTCATAGTTCGATAGCTGAA-CT
* * *
32978286 ATCCCTTTTCATAGTTCGAT-GGTCGTCACC
1 ATCCCTTTTCATAGTTCGATAGCT-G-AACT
* * *
32978316 ATCCCTTTTCATGGTT-GAT-GGTCGTCACT
1 ATCCCTTTTCATAGTTCGATAGCT-G-AACT
32978345 ATCCCTTTTCATA-TTCTGATAGCTGAAGCT
1 ATCCCTTTTCATAGTTC-GATAGCTGAA-CT
*
32978375 ATCCTTTTTCAT
1 ATCCCTTTTCAT
32978387 TGGTTGATGA
Statistics
Matches: 191, Mismatches: 39, Indels: 40
0.71 0.14 0.15
Matches are distributed among these distances:
28 5 0.03
29 48 0.25
30 130 0.68
31 6 0.03
32 2 0.01
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.40
Consensus pattern (29 bp):
ATCCCTTTTCATAGTTCGATAGCTGAACT
Found at i:32978258 original size:89 final size:89
Alignment explanation
Indices: 32978102--32978267 Score: 271
Period size: 89 Copynumber: 1.9 Consensus size: 89
32978092 ACAATGGTTG
* * *
32978102 TCACCATCCCTTTTCATAGTTCGATAGCTGAAGCTATCCCTTGTCATATTTCGATGGTCGTCTCC
1 TCACCATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTGTCATATTTCAATGGTCATCTCC
32978167 ATCCCTTTTCATTGTTGATAGTCA
66 ATCCCTTTTCATTGTTGATAGTCA
* *
32978191 TCACCATCCGTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATATTTCAATGGTCAT-TAC
1 TCACCATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTGTCATATTTCAATGGTCATCT-C
32978255 CATCCCTTTTCAT
65 CATCCCTTTTCAT
32978268 AATTCGATAG
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
88 1 0.01
89 70 0.99
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.40
Consensus pattern (89 bp):
TCACCATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTGTCATATTTCAATGGTCATCTCC
ATCCCTTTTCATTGTTGATAGTCA
Found at i:32978267 original size:60 final size:60
Alignment explanation
Indices: 32978167--32978327 Score: 225
Period size: 60 Copynumber: 2.7 Consensus size: 60
32978157 GGTCGTCTCC
* * * * **
32978167 ATCCCTTTTCATTGTT-GATAGTCATCACCATCCGTTTTCATAATTCGATAGCTGAAGCT
1 ATCCCTTTTCATAGTTCAATGGTCATCACCATCCCTTTTCATAATTCGATAGCCAAAGCT
* *
32978226 ATCCCTTTTCATATTTCAATGGTCATTACCATCCCTTTTCATAATTCGATAGCCAAAGCT
1 ATCCCTTTTCATAGTTCAATGGTCATCACCATCCCTTTTCATAATTCGATAGCCAAAGCT
* *
32978286 ATCCCTTTTCATAGTTCGATGGTCGTCACCATCCCTTTTCAT
1 ATCCCTTTTCATAGTTCAATGGTCATCACCATCCCTTTTCAT
32978328 GGTTGATGGT
Statistics
Matches: 89, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
59 14 0.16
60 75 0.84
ACGTcount: A:0.23, C:0.27, G:0.11, T:0.39
Consensus pattern (60 bp):
ATCCCTTTTCATAGTTCAATGGTCATCACCATCCCTTTTCATAATTCGATAGCCAAAGCT
Found at i:32978348 original size:29 final size:30
Alignment explanation
Indices: 32978095--32978357 Score: 180
Period size: 30 Copynumber: 8.8 Consensus size: 30
32978085 TAAAATTACA
* *
32978095 ATGGTTGTCACCATCCCTTTTCATAGTTCG
1 ATGGTCGTCACTATCCCTTTTCATAGTTCG
* * * *
32978125 ATAG-C-TGAAGCTATCCCTTGTCATATTTCG
1 ATGGTCGT-CA-CTATCCCTTTTCATAGTTCG
* * *
32978155 ATGGTCGTCTCCATCCCTTTTCATTGTT-G
1 ATGGTCGTCACTATCCCTTTTCATAGTTCG
* * * * *
32978184 ATAGTCATCACCATCCGTTTTCATAATTCG
1 ATGGTCGTCACTATCCCTTTTCATAGTTCG
* * * *
32978214 ATAG-C-TGAAGCTATCCCTTTTCATATTTCA
1 ATGGTCGT-CA-CTATCCCTTTTCATAGTTCG
* * * *
32978244 ATGGTCATTACCATCCCTTTTCATAATTCG
1 ATGGTCGTCACTATCCCTTTTCATAGTTCG
* ***
32978274 ATAG-CCAAAGCTATCCCTTTTCATAGTTCG
1 ATGGTCGTCA-CTATCCCTTTTCATAGTTCG
* *
32978304 ATGGTCGTCACCATCCCTTTTCATGGTT-G
1 ATGGTCGTCACTATCCCTTTTCATAGTTCG
32978333 ATGGTCGTCACTATCCCTTTTCATA
1 ATGGTCGTCACTATCCCTTTTCATA
32978358 TTCTGATAGC
Statistics
Matches: 179, Mismatches: 43, Indels: 23
0.73 0.18 0.09
Matches are distributed among these distances:
28 2 0.01
29 52 0.29
30 118 0.66
31 5 0.03
32 2 0.01
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.39
Consensus pattern (30 bp):
ATGGTCGTCACTATCCCTTTTCATAGTTCG
Found at i:32978366 original size:149 final size:149
Alignment explanation
Indices: 32978104--32978386 Score: 442
Period size: 149 Copynumber: 1.9 Consensus size: 149
32978094 AATGGTTGTC
* ** * *
32978104 ACCATCCCTTTTCATAGTTCGATAGCTGAAGCTATCCCTTGTCATATTTCGATGGTCGTCTCCAT
1 ACCATCCCTTTTCATAATTCGATAGCCAAAGCTATCCCTTGTCATAGTTCGATGGTCGTCACCAT
* *
32978169 CCCTTTTCATTGTTGATAGTCATCACCATCCGTTTTCATAATTCGATAGCTGAAGCTATCCCTTT
66 CCCTTTTCATGGTTGATAGTCATCACCATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTT
32978234 TCATATTTCAATGGTCATT
131 TCATATTTCAATGGTCATT
*
32978253 ACCATCCCTTTTCATAATTCGATAGCCAAAGCTATCCCTTTTCATAGTTCGATGGTCGTCACCAT
1 ACCATCCCTTTTCATAATTCGATAGCCAAAGCTATCCCTTGTCATAGTTCGATGGTCGTCACCAT
* * * *
32978318 CCCTTTTCATGGTTGATGGTCGTCACTATCCCTTTTCAT-ATTCTGATAGCTGAAGCTATCCTTT
66 CCCTTTTCATGGTTGATAGTCATCACCATCCCTTTTCATAATTC-GATAGCTGAAGCTATCCCTT
32978382 TTCAT
130 TTCAT
32978387 TGGTTGATGA
Statistics
Matches: 121, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
148 4 0.03
149 117 0.97
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.39
Consensus pattern (149 bp):
ACCATCCCTTTTCATAATTCGATAGCCAAAGCTATCCCTTGTCATAGTTCGATGGTCGTCACCAT
CCCTTTTCATGGTTGATAGTCATCACCATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTT
TCATATTTCAATGGTCATT
Found at i:32981902 original size:18 final size:18
Alignment explanation
Indices: 32981879--32981913 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32981869 TCTTATTCCT
32981879 TCATTCATCATCCCTCAA
1 TCATTCATCATCCCTCAA
* *
32981897 TCATTCCTCATTCCTCA
1 TCATTCATCATCCCTCA
32981914 TTCTCTCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.40, G:0.00, T:0.37
Consensus pattern (18 bp):
TCATTCATCATCCCTCAA
Found at i:32987658 original size:60 final size:60
Alignment explanation
Indices: 32987591--32987841 Score: 183
Period size: 59 Copynumber: 4.2 Consensus size: 60
32987581 ACAATGGTTG
* * *
32987591 TCACCATCCCTTTTTATAGTTCGATAGTCGAAGCTATCCCTTTTCATATTTCGATGGTCA
1 TCACCATCCCTTTTCATAGTTCGATAGTCGAAGCCATCCCTTTTCATAGTTCGATGGTCA
* * * * * ***
32987651 TCACCATCCCTTTTCATTGTT-GATGGTC-ATAACCATCCCTTTTTATAATTCGATAACCGA
1 TCACCATCCCTTTTCATAGTTCGATAGTCGA-AGCCATCCCTTTTCATAGTTCGATGGTC-A
* * * * * * *
32987711 --AGCTATCCCTTTACATATTTTGATGGTCGTCA-CCATCCCTTTTCATGGTT-GATGGTCA
1 TCA-CCATCCCTTTTCATAGTTCGATAGTCG-AAGCCATCCCTTTTCATAGTTCGATGGTCA
* * * * * * *
32987769 TCA-CAGTCCCATTTCATAATTCGATAGCCAAAGCTATCCTTTTTCATAGTTCGATGGTCG
1 TCACCA-TCCCTTTTCATAGTTCGATAGTCGAAGCCATCCCTTTTCATAGTTCGATGGTCA
32987829 TCACCATCCCTTT
1 TCACCATCCCTTT
32987842 CCATGGTTGA
Statistics
Matches: 144, Mismatches: 35, Indels: 24
0.71 0.17 0.12
Matches are distributed among these distances:
58 5 0.03
59 77 0.53
60 59 0.41
61 3 0.02
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.38
Consensus pattern (60 bp):
TCACCATCCCTTTTCATAGTTCGATAGTCGAAGCCATCCCTTTTCATAGTTCGATGGTCA
Found at i:32987685 original size:29 final size:29
Alignment explanation
Indices: 32987591--32987888 Score: 167
Period size: 30 Copynumber: 10.1 Consensus size: 29
32987581 ACAATGGTTG
* *
32987591 TCACCATCCCTTTTTATAGTTCGATAGTCGA
1 TCACCATCCCTTTTCATAGTT-GATGGTC-A
* *
32987622 --AGCTATCCCTTTTCATATTTCGATGGTCA
1 TCA-CCATCCCTTTTCATAGTT-GATGGTCA
*
32987651 TCACCATCCCTTTTCATTGTTGATGGTCA
1 TCACCATCCCTTTTCATAGTTGATGGTCA
* * * ***
32987680 TAACCATCCCTTTTTATAATTCGATAACCGA
1 TCACCATCCCTTTTCATAGTT-GATGGTC-A
* * * *
32987711 --AGCTATCCCTTTACATATTTTGATGGTCG
1 TCA-CCATCCCTTTTCATA-GTTGATGGTCA
*
32987740 TCACCATCCCTTTTCATGGTTGATGGTCA
1 TCACCATCCCTTTTCATAGTTGATGGTCA
* * * *
32987769 TCA-CAGTCCCATTTCATAATTCGATAGCCA
1 TCACCA-TCCCTTTTCATAGTT-GATGGTCA
* * * *
32987799 -AAGCTATCCTTTTTCATAGTTCGATGGTCG
1 TCA-CCATCCCTTTTCATAGTT-GATGGTCA
* *
32987829 TCACCATCCCTTTCCATGGTTGATGGTCA
1 TCACCATCCCTTTTCATAGTTGATGGTCA
* * ** *
32987858 TTACCGTCTATTTTCATGGTTGATGGTCA
1 TCACCATCCCTTTTCATAGTTGATGGTCA
32987887 TC
1 TC
32987889 CCTTTTCATT
Statistics
Matches: 201, Mismatches: 52, Indels: 30
0.71 0.18 0.11
Matches are distributed among these distances:
28 2 0.01
29 85 0.42
30 107 0.53
31 7 0.03
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (29 bp):
TCACCATCCCTTTTCATAGTTGATGGTCA
Found at i:32987736 original size:89 final size:89
Alignment explanation
Indices: 32987593--32987858 Score: 390
Period size: 89 Copynumber: 3.0 Consensus size: 89
32987583 AATGGTTGTC
* * *
32987593 ACCATCCCTTTTTATAGTTCGATAGTCGAAGCTATCCCTTTTCATATTTCGATGGTCATCACCAT
1 ACCATCCCTTTTTATAATTCGATAGCCGAAGCTATCCCTTTTCATATTTCGATGGTCGTCACCAT
*
32987658 CCCTTTTCATTGTTGATGGTCATA
66 CCCTTTTCATGGTTGATGGTCATA
* * *
32987682 ACCATCCCTTTTTATAATTCGATAACCGAAGCTATCCCTTTACATATTTTGATGGTCGTCACCAT
1 ACCATCCCTTTTTATAATTCGATAGCCGAAGCTATCCCTTTTCATATTTCGATGGTCGTCACCAT
*
32987747 CCCTTTTCATGGTTGATGGTCATC
66 CCCTTTTCATGGTTGATGGTCATA
* * * * *
32987771 A-CAGTCCCATTTCATAATTCGATAGCCAAAGCTATCCTTTTTCATAGTTCGATGGTCGTCACCA
1 ACCA-TCCCTTTTTATAATTCGATAGCCGAAGCTATCCCTTTTCATATTTCGATGGTCGTCACCA
*
32987835 TCCCTTTCCATGGTTGATGGTCAT
65 TCCCTTTTCATGGTTGATGGTCAT
32987859 TACCGTCTAT
Statistics
Matches: 159, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
88 2 0.01
89 157 0.99
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (89 bp):
ACCATCCCTTTTTATAATTCGATAGCCGAAGCTATCCCTTTTCATATTTCGATGGTCGTCACCAT
CCCTTTTCATGGTTGATGGTCATA
Found at i:32998026 original size:17 final size:17
Alignment explanation
Indices: 32998006--32998048 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
32997996 CATATTATTG
*
32998006 TTGCATTTTTATTTTCA
1 TTGCATTTTTATTGTCA
32998023 TTGCATTTTTATTGTCA
1 TTGCATTTTTATTGTCA
32998040 TTGCATTTT
1 TTGCATTTT
32998049 AATGTTAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.16, C:0.12, G:0.09, T:0.63
Consensus pattern (17 bp):
TTGCATTTTTATTGTCA
Found at i:33001654 original size:19 final size:19
Alignment explanation
Indices: 33001627--33001663 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
33001617 TGCACGCACG
* *
33001627 ATTCTACTAATCAAACACA
1 ATTCCACTAATAAAACACA
33001646 ATTCCACTAATAAAACAC
1 ATTCCACTAATAAAACAC
33001664 CATGAATGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (19 bp):
ATTCCACTAATAAAACACA
Found at i:33019290 original size:42 final size:42
Alignment explanation
Indices: 33019229--33019337 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 42
33019219 ACGACCAAGC
*
33019229 CACACACCAATGTGCCAAGCTGTGTAACACTCGAAATGGCCT
1 CACACACCAATGTGCCAAGCCGTGTAACACTCGAAATGGCCT
** * *
33019271 CACACACCCGTGTGTCAAGCCGTGTAACACTTGAAATGGCCT
1 CACACACCAATGTGCCAAGCCGTGTAACACTCGAAATGGCCT
* *
33019313 CACACATCC-ACGTGCCAGGCCGTGT
1 CACACA-CCAATGTGCCAAGCCGTGT
33019338 GCTAGGCCGT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 55 0.96
43 2 0.04
ACGTcount: A:0.27, C:0.33, G:0.21, T:0.19
Consensus pattern (42 bp):
CACACACCAATGTGCCAAGCCGTGTAACACTCGAAATGGCCT
Found at i:33020818 original size:50 final size:50
Alignment explanation
Indices: 33020742--33020933 Score: 233
Period size: 50 Copynumber: 3.9 Consensus size: 50
33020732 CATTTGGGTA
* * *
33020742 AAGAGGTCACATGTAAGACCAAGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
**
33020792 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* * * * * *
33020842 GAGAGGTCCC-CGCAAGACCATGTTTGGGACATGGCATGGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * *
33020891 GAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
33020934 GTACAGAAAA
Statistics
Matches: 122, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
49 40 0.33
50 82 0.67
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.20
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:33025838 original size:47 final size:48
Alignment explanation
Indices: 33025763--33025917 Score: 179
Period size: 57 Copynumber: 3.1 Consensus size: 48
33025753 TGACAAGTGA
33025763 TAAGTGGTAGC-TTAGCTACACTTATCTGATCGGTGACAAGTGACAAG
1 TAAGTGGTAGCTTTAGCTACACTTATCTGATCGGTGACAAGTGACAAG
*
33025810 TAAGTGGTAGCTTTAGCTACAGTT-TCTGATCAGTGACAAGTGACAAGTGACAAGTG
1 TAAGTGGTAGCTTTAGCTACACTTATCTGATC---G----GTGACAAGTGACAA--G
* *
33025866 ATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAG
1 -TAAGTGGTAGCTTTAGCTACACTTATCTGATCGGTGACAAGTGACAAG
33025915 TAA
1 TAA
33025918 CAAGTGACAA
Statistics
Matches: 92, Mismatches: 4, Indels: 23
0.77 0.03 0.19
Matches are distributed among these distances:
47 18 0.20
48 14 0.15
49 1 0.01
50 1 0.01
51 13 0.14
54 14 0.15
56 1 0.01
57 23 0.25
58 7 0.08
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (48 bp):
TAAGTGGTAGCTTTAGCTACACTTATCTGATCGGTGACAAGTGACAAG
Found at i:33025853 original size:7 final size:7
Alignment explanation
Indices: 33025841--33025872 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
33025831 GTTTCTGATC
33025841 AGTGACA
1 AGTGACA
33025848 AGTGACA
1 AGTGACA
33025855 AGTGACA
1 AGTGACA
*
33025862 AGTGATA
1 AGTGACA
33025869 AGTG
1 AGTG
33025873 GTAGCTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.31, T:0.19
Consensus pattern (7 bp):
AGTGACA
Found at i:33025914 original size:7 final size:7
Alignment explanation
Indices: 33025899--33025938 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
33025889 TTATCTGATC
33025899 AGTGACA
1 AGTGACA
*
33025906 AGTGGCA
1 AGTGACA
*
33025913 AGTAACA
1 AGTGACA
33025920 AGTGACA
1 AGTGACA
33025927 AGTGACA
1 AGTGACA
33025934 AGTGA
1 AGTGA
33025939 TAAATGTGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.42, C:0.12, G:0.30, T:0.15
Consensus pattern (7 bp):
AGTGACA
Found at i:33025915 original size:58 final size:57
Alignment explanation
Indices: 33025751--33025930 Score: 229
Period size: 58 Copynumber: 3.3 Consensus size: 57
33025741 ACTTCTGATC
33025751 AGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATC---G----GTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTT-TCTGATCAGTGACAAGTGACA
*
33025801 AGTGACAA--G-TAAGTGGTAGCTTTAGCTACAGTTTCTGATCAGTGACAAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTTCTGATCAGTGACAAGTGACA
*
33025855 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTT-TCTGATCAGTGACAAGTGACA
* *
33025913 AGTAACAAGTGACAAGTG
1 AGTGACAAGTGATAAGTG
33025931 ACAAGTGATA
Statistics
Matches: 113, Mismatches: 5, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
47 18 0.16
48 12 0.11
50 9 0.08
54 14 0.12
56 1 0.01
57 23 0.20
58 36 0.32
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (57 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTTCTGATCAGTGACAAGTGACA
Found at i:33040569 original size:17 final size:16
Alignment explanation
Indices: 33040536--33040568 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
33040526 TTCTTTGTGT
*
33040536 ATTCAGTATTAAAAAA
1 ATTCAGAATTAAAAAA
33040552 ATTCAGAATTAAAAAA
1 ATTCAGAATTAAAAAA
33040568 A
1 A
33040569 AAGAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (16 bp):
ATTCAGAATTAAAAAA
Found at i:33040577 original size:8 final size:8
Alignment explanation
Indices: 33040564--33040588 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
33040554 TCAGAATTAA
33040564 AAAAAAAG
1 AAAAAAAG
33040572 AAAAAAAG
1 AAAAAAAG
33040580 AAAAAAAG
1 AAAAAAAG
33040588 A
1 A
33040589 GAAGTGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:33042645 original size:15 final size:14
Alignment explanation
Indices: 33042609--33042663 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
33042599 TCTATTGATC
33042609 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
33042623 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
33042637 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
33042652 GAAAGAAAAGAA
1 GAGA-AAAAGAA
33042664 TGAGGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:33047225 original size:12 final size:12
Alignment explanation
Indices: 33047208--33047238 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
33047198 AATCTCACTC
33047208 TCTTTTCAATTT
1 TCTTTTCAATTT
33047220 TCTTTTCAATTT
1 TCTTTTCAATTT
33047232 TCTTTTC
1 TCTTTTC
33047239 TATCTCACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.19, G:0.00, T:0.68
Consensus pattern (12 bp):
TCTTTTCAATTT
Found at i:33048871 original size:20 final size:20
Alignment explanation
Indices: 33048831--33048891 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
33048821 ACCAATAAGA
33048831 TAAA-TGAGCT-GAATTGTAGC
1 TAAATTGAGCTCG-ATTG-AGC
33048851 TAAATTGAGCTCGATTGAGC
1 TAAATTGAGCTCGATTGAGC
* * * *
33048871 TGACTCGAGCTCGAGTGAGC
1 TAAATTGAGCTCGATTGAGC
33048891 T
1 T
33048892 GGAAACGAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 24 0.69
21 10 0.29
22 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (20 bp):
TAAATTGAGCTCGATTGAGC
Found at i:33052970 original size:17 final size:18
Alignment explanation
Indices: 33052948--33052981 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33052938 ACAACACTCC
*
33052948 TTTCTT-CTTCACTCTCG
1 TTTCTTCCTTCAATCTCG
33052965 TTTCTTCCTTCAATCTC
1 TTTCTTCCTTCAATCTC
33052982 ACTCTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.35, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTCTTCCTTCAATCTCG
Found at i:33053089 original size:15 final size:16
Alignment explanation
Indices: 33053064--33053095 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
33053054 TATCTCACAC
33053064 TCATCTTCTTTTTCTT
1 TCATCTTCTTTTTCTT
33053080 TCAT-TTCTTTTTCTT
1 TCATCTTCTTTTTCTT
33053095 T
1 T
33053096 TTCATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (16 bp):
TCATCTTCTTTTTCTT
Found at i:33054044 original size:23 final size:24
Alignment explanation
Indices: 33053998--33054050 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
33053988 ACTCACAATA
*
33053998 CTTTTCACTTTTTTTTGTTCTTTT
1 CTTTTCACTTTTTTTTGATCTTTT
*
33054022 CTTTT-ACTTTTTTTTCGATTTTTT
1 CTTTTCACTTTTTTTT-GATCTTTT
*
33054046 TTTTT
1 CTTTT
33054051 GAAATTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.06, C:0.13, G:0.04, T:0.77
Consensus pattern (24 bp):
CTTTTCACTTTTTTTTGATCTTTT
Found at i:33054045 original size:13 final size:13
Alignment explanation
Indices: 33054029--33054102 Score: 60
Period size: 13 Copynumber: 5.3 Consensus size: 13
33054019 TTTCTTTTAC
33054029 TTTTTTTTCGATT
1 TTTTTTTTCGATT
*
33054042 TTTTTTTTTGAAATT
1 TTTTTTTTCG--ATT
*
33054057 TTTTTTCTGAATCAATT
1 TTTTTT-T---TCGATT
*
33054074 TTTTTTTTCGAAT
1 TTTTTTTTCGATT
33054087 TTTTTTTT-GATT
1 TTTTTTTTCGATT
33054099 TTTT
1 TTTT
33054103 GTTACTCCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
12 7 0.14
13 21 0.43
15 9 0.18
16 2 0.04
17 9 0.18
19 1 0.02
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.73
Consensus pattern (13 bp):
TTTTTTTTCGATT
Found at i:33056124 original size:6 final size:6
Alignment explanation
Indices: 33056113--33056149 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
33056103 TTCAATTTTT
* *
33056113 TCTCAA TATCAA TATCAA TCTCAA TCTCAA TCTCAA T
1 TCTCAA TCTCAA TCTCAA TCTCAA TCTCAA TCTCAA T
33056150 TTTTTTTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.00, T:0.35
Consensus pattern (6 bp):
TCTCAA
Found at i:33056167 original size:26 final size:27
Alignment explanation
Indices: 33056137--33056202 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
33056127 TCAATCTCAA
33056137 TCTCAATCTCAATTTT-TTTTTCTT-TT-
1 TCTCAATCTC-ATTTTCTTTTT-TTCTTC
*
33056163 TCTCACTCTCATTTTCTTTTTTTCTTC
1 TCTCAATCTCATTTTCTTTTTTTCTTC
*
33056190 TCTCAATTTCATT
1 TCTCAATCTCATT
33056203 CAAGATTCGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 7 0.21
26 16 0.47
27 11 0.32
ACGTcount: A:0.14, C:0.24, G:0.00, T:0.62
Consensus pattern (27 bp):
TCTCAATCTCATTTTCTTTTTTTCTTC
Found at i:33056199 original size:21 final size:20
Alignment explanation
Indices: 33056155--33056199 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
33056145 TCAATTTTTT
*
33056155 TTTCTTTTTCTCACTCTCAT
1 TTTCTTTTTCTCACTCTCAA
* *
33056175 TTTCTTTTTTTCTTCTCTCAA
1 TTTCTTTTTCTC-ACTCTCAA
33056196 TTTC
1 TTTC
33056200 ATTCAAGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.09, C:0.27, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTCTTTTTCTCACTCTCAA
Found at i:33056999 original size:35 final size:35
Alignment explanation
Indices: 33056960--33057037 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 35
33056950 TTTCAATCAC
*
33056960 TCTTTTTTCTTTTTTTCAATTTTG-A-TTTTTTTTCT
1 TCTTTTTT-TTTTTTT-AATTCTGAATTTTTTTTTCT
33056995 TC---TTTTTTTTTTAATTCTGAATTTTTTTTTCT
1 TCTTTTTTTTTTTTTAATTCTGAATTTTTTTTTCT
33057027 TCTTTTTTTTT
1 TCTTTTTTTTT
33057038 CTTCAATACT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
30 6 0.16
31 8 0.22
32 15 0.41
35 8 0.22
ACGTcount: A:0.09, C:0.10, G:0.03, T:0.78
Consensus pattern (35 bp):
TCTTTTTTTTTTTTTAATTCTGAATTTTTTTTTCT
Found at i:33057005 original size:30 final size:32
Alignment explanation
Indices: 33056969--33057038 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
33056959 CTCTTTTTTC
*
33056969 TTTTTTTCAATTTTG-A-TTTTTTTTCTTCTT
1 TTTTTTTCAATTCTGAATTTTTTTTTCTTCTT
*
33056999 TTTTTTTTAATTCTGAATTTTTTTTTCTTCTT
1 TTTTTTTCAATTCTGAATTTTTTTTTCTTCTT
33057031 TTTTTTTC
1 TTTTTTTC
33057039 TTCAATACTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
30 13 0.37
31 1 0.03
32 21 0.60
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.77
Consensus pattern (32 bp):
TTTTTTTCAATTCTGAATTTTTTTTTCTTCTT
Found at i:33057099 original size:13 final size:13
Alignment explanation
Indices: 33057081--33057126 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
33057071 GAATACAAAC
**
33057081 TTTTTTTTTTGAA
1 TTTTTTTTTAAAA
33057094 TTTTTTTTTCAAAA
1 TTTTTTTTT-AAAA
*
33057108 TTTTTTTTTCAAA
1 TTTTTTTTTAAAA
33057121 TTTTTT
1 TTTTTT
33057127 ATATATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 18 0.62
14 11 0.38
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTTTTTTTAAAA
Found at i:33057100 original size:14 final size:14
Alignment explanation
Indices: 33057092--33057126 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
33057082 TTTTTTTTTG
33057092 AATTTTTTTTTCAA
1 AATTTTTTTTTCAA
33057106 AATTTTTTTTTC-A
1 AATTTTTTTTTCAA
33057119 AATTTTTT
1 AATTTTTT
33057127 ATATATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (14 bp):
AATTTTTTTTTCAA
Found at i:33058427 original size:20 final size:20
Alignment explanation
Indices: 33058387--33058447 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
33058377 ACCAATAAGA
33058387 TAAA-TGAGCT-GAATTGTAGC
1 TAAATTGAGCTCG-ATTG-AGC
33058407 TAAATTGAGCTCGATTGAGC
1 TAAATTGAGCTCGATTGAGC
* * * *
33058427 TGACTCGAGCTCGAGTGAGC
1 TAAATTGAGCTCGATTGAGC
33058447 T
1 T
33058448 GGAAACGAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 24 0.69
21 10 0.29
22 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (20 bp):
TAAATTGAGCTCGATTGAGC
Found at i:33059159 original size:16 final size:13
Alignment explanation
Indices: 33059128--33059153 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33059118 CAATTTCAAA
33059128 TTTTTTTTCTTCT
1 TTTTTTTTCTTCT
33059141 TTTTTTTTCTTCT
1 TTTTTTTTCTTCT
33059154 GATTTTATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTTCTTCT
Found at i:33059225 original size:14 final size:14
Alignment explanation
Indices: 33059206--33059239 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
33059196 TGAATACAAA
*
33059206 TTTTTTT-TTGAAT
1 TTTTTTTGTTCAAT
33059219 TTTTTTTGTTCAAT
1 TTTTTTTGTTCAAT
33059233 TTTTTTT
1 TTTTTTT
33059240 ACAATACCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.12, C:0.03, G:0.06, T:0.79
Consensus pattern (14 bp):
TTTTTTTGTTCAAT
Found at i:33060602 original size:55 final size:55
Alignment explanation
Indices: 33060487--33060603 Score: 148
Period size: 55 Copynumber: 2.1 Consensus size: 55
33060477 TGCATGTTTT
* * *
33060487 CATT-AATGCCGTCCATGCATGGGAACATCTCATTAAATCCATGTCTTTGCTTCC
1 CATTAAATGCCGTCCATGCATGGGAACATCTCATTAAATCCATGGCTTTGCTGCA
* * * *
33060541 CTTTAAATGCCGTTCCATGCATGGGAACATCTCCTT-AATTCGTGGCTTTGCTGCA
1 CATTAAATGCCG-TCCATGCATGGGAACATCTCATTAAATCCATGGCTTTGCTGCA
33060596 CATTAAAT
1 CATTAAAT
33060604 CAGCAAGCAA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 3 0.06
55 28 0.53
56 22 0.42
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (55 bp):
CATTAAATGCCGTCCATGCATGGGAACATCTCATTAAATCCATGGCTTTGCTGCA
Found at i:33060825 original size:23 final size:22
Alignment explanation
Indices: 33060791--33060855 Score: 94
Period size: 23 Copynumber: 2.9 Consensus size: 22
33060781 GACTCCATTT
*
33060791 AAAACATGCATTAAATTCGGCCA
1 AAAACATACATTAAATTCGG-CA
*
33060814 GAAACATACATTAAATTCGGCA
1 AAAACATACATTAAATTCGGCA
33060836 AAAGACATACATTAAATTCG
1 AAA-ACATACATTAAATTCG
33060856 TCTGGAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 4 0.11
23 34 0.89
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.23
Consensus pattern (22 bp):
AAAACATACATTAAATTCGGCA
Found at i:33061092 original size:13 final size:13
Alignment explanation
Indices: 33061076--33061110 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
33061066 TTTAAACAAA
*
33061076 TTAATTAACTTAT
1 TTAATTAACTAAT
33061089 TTAATTAACTAAT
1 TTAATTAACTAAT
*
33061102 TTAACTAAC
1 TTAATTAAC
33061111 AGCAACTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAATTAACTAAT
Found at i:33061686 original size:24 final size:23
Alignment explanation
Indices: 33061632--33061687 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
33061622 GGATAACTAA
* *
33061632 GAAAGGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGATTTGGTAC
***
33061655 GTTTTGGTATTTGGGATTTGGTAC
1 GAAATGGTATTT-GGATTTGGTAC
33061679 GAAATGGTA
1 GAAATGGTA
33061688 ATGGTTCAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.21, C:0.04, G:0.34, T:0.41
Consensus pattern (23 bp):
GAAATGGTATTTGGATTTGGTAC
Found at i:33066225 original size:16 final size:16
Alignment explanation
Indices: 33066201--33066259 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
33066191 GACCGTATGC
33066201 AATTTTTTTTTTCAA-
1 AATTTTTTTTTTCAAT
*
33066216 AATATTTTTTTTTTAATT
1 AAT-TTTTTTTTTCAA-T
*
33066234 AATTTTTTTTTTCGAT
1 AATTTTTTTTTTCAAT
33066250 --TTTTTTTTTT
1 AATTTTTTTTTT
33066260 GAATCTACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
14 10 0.26
15 3 0.08
16 12 0.32
17 10 0.26
18 3 0.08
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (16 bp):
AATTTTTTTTTTCAAT
Found at i:33066589 original size:24 final size:23
Alignment explanation
Indices: 33066535--33066590 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
33066525 GGATAACTAA
* *
33066535 GAAAGGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGATTTGGTAC
***
33066558 GTTTTGGTATTTGGGATTTGGTAC
1 GAAATGGTATTT-GGATTTGGTAC
33066582 GAAATGGTA
1 GAAATGGTA
33066591 ATGGTTCAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.21, C:0.04, G:0.34, T:0.41
Consensus pattern (23 bp):
GAAATGGTATTTGGATTTGGTAC
Found at i:33069875 original size:15 final size:14
Alignment explanation
Indices: 33069839--33069893 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
33069829 CCTATTGAGC
33069839 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
33069853 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
33069867 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
33069882 GAAAGAAAAGAA
1 GAGA-AAAAGAA
33069894 TGATGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:33075529 original size:17 final size:18
Alignment explanation
Indices: 33075504--33075538 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
33075494 AGTATGGAAA
*
33075504 GGATGTGATTCTGCCAAG
1 GGATGTGATTCGGCCAAG
33075522 GGAT-TGATTCGGCCAAG
1 GGATGTGATTCGGCCAAG
33075539 AATGCCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (18 bp):
GGATGTGATTCGGCCAAG
Found at i:33076659 original size:15 final size:14
Alignment explanation
Indices: 33076623--33076677 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
33076613 TCTATTGAGC
33076623 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
33076637 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
33076651 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
33076666 GAAAGAAAAGAA
1 GAGA-AAAAGAA
33076678 TGAACAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:33078405 original size:30 final size:30
Alignment explanation
Indices: 33078371--33078467 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
33078361 TAAACTAAAA
*
33078371 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
33078401 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
33078431 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
33078460 ATGAGCTA
1 -TGAGCTA
33078468 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:33080661 original size:12 final size:12
Alignment explanation
Indices: 33080646--33080676 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
33080636 TTCTTTTTGC
33080646 TTTTCAAAGGCT
1 TTTTCAAAGGCT
33080658 TTTTCAAAGGCT
1 TTTTCAAAGGCT
33080670 TTTTCAA
1 TTTTCAA
33080677 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:33080753 original size:6 final size:6
Alignment explanation
Indices: 33080737--33080786 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
33080727 TTTCTTTTTA
*
33080737 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
33080786 T
1 T
33080787 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:33080769 original size:37 final size:37
Alignment explanation
Indices: 33080726--33080796 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
33080716 CTTGCCTCTC
33080726 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTGCT
*
33080763 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
33080797 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTGCT
Found at i:33080797 original size:16 final size:16
Alignment explanation
Indices: 33080722--33080782 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
33080712 GCCTCTTGCC
*
33080722 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
33080738 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
33080754 TCTC-TTGCTTTTTCTT
1 TCTCTTTTCTTTTTC-T
*
33080770 TTTCTTTTCTTTT
1 TCTCTTTTCTTTT
33080783 CTTTGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:33081732 original size:10 final size:10
Alignment explanation
Indices: 33081715--33081766 Score: 61
Period size: 11 Copynumber: 5.0 Consensus size: 10
33081705 TTTTAACTCG
33081715 ATTTTTTTGTC
1 ATTTTTTT-TC
33081726 ATTTTTTTTC
1 ATTTTTTTTC
33081736 -TTTTTTTTC
1 ATTTTTTTTC
*
33081745 GATTTTTTTTGA
1 -ATTTTTTTT-C
33081757 ATTTTTTTTC
1 ATTTTTTTTC
33081767 TGAATTTCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
9 9 0.25
10 2 0.06
11 25 0.69
ACGTcount: A:0.10, C:0.08, G:0.06, T:0.77
Consensus pattern (10 bp):
ATTTTTTTTC
Found at i:33081741 original size:20 final size:20
Alignment explanation
Indices: 33081716--33081754 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
33081706 TTTAACTCGA
33081716 TTTTTTTGTC-ATTTTTTTTC
1 TTTTTTT-TCGATTTTTTTTC
33081736 TTTTTTTTCGATTTTTTTT
1 TTTTTTTTCGATTTTTTTT
33081755 GAATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.05, C:0.08, G:0.05, T:0.82
Consensus pattern (20 bp):
TTTTTTTTCGATTTTTTTTC
Found at i:33083533 original size:30 final size:30
Alignment explanation
Indices: 33083499--33083595 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
33083489 TAAACTAAAA
*
33083499 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
33083529 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
33083559 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
33083588 ATGAGCTA
1 -TGAGCTA
33083596 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:33087397 original size:21 final size:19
Alignment explanation
Indices: 33087371--33087440 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 19
33087361 TCGGGATTCC
* *
33087371 AAAAAAAATTTTGAAAGTAAA
1 AAAAAAAAATTCGAAAG--AA
33087392 AAAAAAGAAATTCGAAAGAA
1 AAAAAA-AAATTCGAAAGAA
*
33087412 AAAAAGAGAAATTCGAAAGCA
1 AAAAA-A-AAATTCGAAAGAA
33087433 AAAAAAAA
1 AAAAAAAA
33087441 TTGTGAACGG
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
19 2 0.05
20 8 0.18
21 25 0.57
22 9 0.20
ACGTcount: A:0.70, C:0.04, G:0.13, T:0.13
Consensus pattern (19 bp):
AAAAAAAAATTCGAAAGAA
Found at i:33089010 original size:20 final size:19
Alignment explanation
Indices: 33088987--33089051 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
33088977 AAGCTCAAAC
33088987 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
33089007 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
33089027 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
33089047 GAGCT
1 GAGCT
33089052 GGAAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:33090339 original size:17 final size:18
Alignment explanation
Indices: 33090317--33090350 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33090307 ACAACACTCC
*
33090317 TTTCTT-CTTCACTCTCG
1 TTTCTTCCTTCAATCTCG
33090334 TTTCTTCCTTCAATCTC
1 TTTCTTCCTTCAATCTC
33090351 ACTCTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.35, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTCTTCCTTCAATCTCG
Found at i:33090458 original size:15 final size:16
Alignment explanation
Indices: 33090433--33090464 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
33090423 TATCTCACAC
33090433 TCATCTTCTTTTTCTT
1 TCATCTTCTTTTTCTT
33090449 TCAT-TTCTTTTTCTT
1 TCATCTTCTTTTTCTT
33090464 T
1 T
33090465 TTCATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (16 bp):
TCATCTTCTTTTTCTT
Found at i:33091447 original size:13 final size:13
Alignment explanation
Indices: 33091418--33091492 Score: 50
Period size: 12 Copynumber: 5.7 Consensus size: 13
33091408 TTTTTGCTCA
*
33091418 ATTTTTTTTCACT
1 ATTTTTTTTCAAT
*
33091431 -TTTTTTTTGAAT
1 ATTTTTTTTCAAT
33091443 ATTTTTTTTTCAAT
1 A-TTTTTTTTCAAT
*
33091457 CAATTTTTTTTTTCGA-
1 --A--TTTTTTTTCAAT
33091473 ATTTTTTTT--AT
1 ATTTTTTTTCAAT
33091484 ATTTTTTTT
1 ATTTTTTTT
33091493 TGTTACTCCA
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
10 1 0.02
11 9 0.17
12 18 0.35
14 12 0.23
16 1 0.02
17 11 0.21
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.73
Consensus pattern (13 bp):
ATTTTTTTTCAAT
Found at i:33091447 original size:14 final size:14
Alignment explanation
Indices: 33091430--33091481 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
33091420 TTTTTTTCAC
33091430 TTTTTTTTTGAATA
1 TTTTTTTTTGAATA
*
33091444 TTTTTTTTTCAATCAA
1 TTTTTTTTTGAAT--A
33091460 TTTTTTTTTTCGAAT-
1 -TTTTTTTTT-GAATA
33091475 TTTTTTT
1 TTTTTTT
33091482 ATATTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
14 19 0.59
16 1 0.03
17 9 0.28
18 3 0.09
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.73
Consensus pattern (14 bp):
TTTTTTTTTGAATA
Found at i:33093135 original size:20 final size:19
Alignment explanation
Indices: 33093112--33093176 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
33093102 AAGCTCAAAC
33093112 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
33093132 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
33093152 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
33093172 GAGCT
1 GAGCT
33093177 GGAAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:33106050 original size:14 final size:13
Alignment explanation
Indices: 33106032--33106070 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
33106022 AAAGGAGTTC
33106032 GAAAAAAAAAATT
1 GAAAAAAAAAATT
33106045 GAAAAAAAAAATT
1 GAAAAAAAAAATT
33106058 GAAAAAAAAAATT
1 GAAAAAAAAAATT
33106071 TTGCATACGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
GAAAAAAAAAATT
Found at i:33108091 original size:20 final size:20
Alignment explanation
Indices: 33108066--33108112 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
33108056 AGCTTGTTTC
33108066 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCGAGCTCAAGT
* *
33108086 CAGCTCATTCGAGCTCAATT
1 CAGCTCACTCGAGCTCAAGT
33108106 CAGCTCA
1 CAGCTCA
33108113 ATCTTAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCGAGCTCAAGT
Found at i:33108110 original size:10 final size:10
Alignment explanation
Indices: 33108077--33108114 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
33108067 AGCTCACTCG
*
33108077 AGCTCAAGTC
1 AGCTCAATTC
33108087 AGCTC-ATTC
1 AGCTCAATTC
33108096 GAGCTCAATTC
1 -AGCTCAATTC
33108107 AGCTCAAT
1 AGCTCAAT
33108115 CTTAACCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 3 0.12
10 18 0.72
11 4 0.16
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (10 bp):
AGCTCAATTC
Found at i:33109751 original size:21 final size:22
Alignment explanation
Indices: 33109727--33109769 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
33109717 CTTTGGAGAT
33109727 TTGAAAGA-ACTGAAAAAGAAA
1 TTGAAAGAGACTGAAAAAGAAA
* *
33109748 TTGAGAGAGAGTGAAAAAGAAA
1 TTGAAAGAGACTGAAAAAGAAA
33109770 AGAAAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.58, C:0.02, G:0.26, T:0.14
Consensus pattern (22 bp):
TTGAAAGAGACTGAAAAAGAAA
Found at i:33109818 original size:20 final size:20
Alignment explanation
Indices: 33109793--33109835 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
33109783 AAAAGAAAAG
33109793 AAAGAAGAGAGATTGAGAGA
1 AAAGAAGAGAGATTGAGAGA
** *
33109813 AAAGAATCGAGATTGTGAGA
1 AAAGAAGAGAGATTGAGAGA
33109833 AAA
1 AAA
33109836 ACAAGAGCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.30, T:0.14
Consensus pattern (20 bp):
AAAGAAGAGAGATTGAGAGA
Found at i:33113483 original size:18 final size:19
Alignment explanation
Indices: 33113447--33113485 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
33113437 TCACTTTTTC
* *
33113447 TTTTTGTTTTCTCACTCTT
1 TTTTTCTTTTCCCACTCTT
33113466 TTTTTCTTTTCCCA-TCTT
1 TTTTTCTTTTCCCACTCTT
33113484 TT
1 TT
33113486 CTTTTTGTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.05, C:0.23, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTTCTTTTCCCACTCTT
Found at i:33126262 original size:33 final size:33
Alignment explanation
Indices: 33126224--33126286 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
33126214 GATTACTCAC
33126224 TTCACTCG-TTTCTTTT-ATAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
33126257 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
33126287 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.25, G:0.06, T:0.56
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:33126343 original size:12 final size:13
Alignment explanation
Indices: 33126303--33126365 Score: 58
Period size: 13 Copynumber: 4.6 Consensus size: 13
33126293 TTTTTTCGCT
33126303 TTTTCTTTTTCAA
1 TTTTCTTTTTCAA
*
33126316 TTTTTTTCATTCTCAA
1 TTTTCTT--TT-TCAA
33126332 -TTTCTTTTTCAA
1 TTTTCTTTTTCAA
33126344 TTTTCTTTTCTTC-A
1 TTTTC-TTT-TTCAA
33126358 TTTTCTTT
1 TTTTCTTT
33126366 CTCTCACTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
12 4 0.10
13 15 0.36
14 9 0.21
15 10 0.24
16 4 0.10
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCTTTTTCAA
Found at i:33128884 original size:20 final size:20
Alignment explanation
Indices: 33128861--33128914 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
33128851 AGTTTTTCCC
*
33128861 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
33128881 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
33128901 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
33128915 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:33128896 original size:30 final size:30
Alignment explanation
Indices: 33128861--33128934 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
33128851 AGTTTTTCCC
33128861 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
33128891 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
33128921 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
33128935 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:33128924 original size:20 final size:20
Alignment explanation
Indices: 33128861--33128925 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
33128851 AGTTTTTCCC
* * * *
33128861 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
33128881 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
33128900 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
33128921 AGCTC
1 AGCTC
33128926 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:33130534 original size:13 final size:14
Alignment explanation
Indices: 33130516--33130579 Score: 76
Period size: 14 Copynumber: 4.4 Consensus size: 14
33130506 TTGGAGTAAC
33130516 AAAAAAAA-TCAAA
1 AAAAAAAATTCAAA
*
33130529 AAAAAAAATTCGAA
1 AAAAAAAATTCAAA
*
33130543 AAAAAAAATTGATTGAA
1 AAAAAAAATTCA---AA
33130560 AAAAAAAATTCAAA
1 AAAAAAAATTCAAA
33130574 AAAAAA
1 AAAAAA
33130580 GTGAAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
13 8 0.19
14 22 0.51
17 13 0.30
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (14 bp):
AAAAAAAATTCAAA
Found at i:33130574 original size:12 final size:12
Alignment explanation
Indices: 33130559--33130592 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
33130549 AATTGATTGA
33130559 AAAAAAAAATTC
1 AAAAAAAAATTC
* *
33130571 AAAAAAAAAGTG
1 AAAAAAAAATTC
33130583 AAAAAAAAAT
1 AAAAAAAAAT
33130593 CGAGCAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (12 bp):
AAAAAAAAATTC
Found at i:33130588 original size:14 final size:14
Alignment explanation
Indices: 33130516--33130636 Score: 52
Period size: 14 Copynumber: 8.4 Consensus size: 14
33130506 TTGGAGTAAC
*
33130516 AAAAAAAA-TCAAA
1 AAAAAAAAGTGAAA
*
33130529 AAAAAAAATTCG-AA
1 AAAAAAAAGT-GAAA
*
33130543 AAAAAAAATTGATTGAA
1 AAAAAAAAGTGA---AA
**
33130560 AAAAAAAA-T-TCA
1 AAAAAAAAGTGAAA
33130572 AAAAAAAAGTGAAA
1 AAAAAAAAGTGAAA
** *
33130586 AAAAAATCGAGCAAA
1 AAAAAAAAGTG-AAA
*
33130601 AAAAAAAGGTGACAA
1 AAAAAAAAGTGA-AA
*
33130616 AAAAAATCAAGTTAAA
1 AAAAAA--AAGTGAAA
33130632 AAAAA
1 AAAAA
33130637 GTGAAAAGTC
Statistics
Matches: 83, Mismatches: 13, Indels: 21
0.71 0.11 0.18
Matches are distributed among these distances:
12 9 0.11
13 10 0.12
14 23 0.28
15 19 0.23
16 8 0.10
17 14 0.17
ACGTcount: A:0.73, C:0.06, G:0.09, T:0.12
Consensus pattern (14 bp):
AAAAAAAAGTGAAA
Found at i:33130633 original size:30 final size:28
Alignment explanation
Indices: 33130571--33130643 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
33130561 AAAAAAATTC
*
33130571 AAAAAAAAAGTGAAAAAAAAATCGAGCA
1 AAAAAAAAAGTGAAAAAAAAATCAAGCA
*
33130599 AAAAAAAAAGGTGACAAAAAAAATCAAG-T
1 AAAAAAAAA-GTGA-AAAAAAAATCAAGCA
*
33130628 TAAAAAAAAGTGAAAA
1 AAAAAAAAAGTGAAAA
33130644 GTCTTGCGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
27 3 0.08
28 13 0.32
29 12 0.30
30 12 0.30
ACGTcount: A:0.71, C:0.05, G:0.14, T:0.10
Consensus pattern (28 bp):
AAAAAAAAAGTGAAAAAAAAATCAAGCA
Found at i:33131569 original size:15 final size:16
Alignment explanation
Indices: 33131549--33131580 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
33131539 AGAAAATGAA
33131549 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
33131564 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
33131580 A
1 A
33131581 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:33131695 original size:17 final size:18
Alignment explanation
Indices: 33131663--33131696 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33131653 AAAAGAGAGT
*
33131663 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
33131681 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
33131697 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:33132985 original size:20 final size:20
Alignment explanation
Indices: 33132962--33133015 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
33132952 AGTTTTTCCC
*
33132962 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
33132982 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
33133002 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
33133016 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:33132997 original size:30 final size:30
Alignment explanation
Indices: 33132962--33133035 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
33132952 AGTTTTTCCC
33132962 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
33132992 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
33133022 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
33133036 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:33133025 original size:20 final size:20
Alignment explanation
Indices: 33132962--33133026 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
33132952 AGTTTTTCCC
* * * *
33132962 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
33132982 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
33133001 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
33133022 AGCTC
1 AGCTC
33133027 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:33135115 original size:20 final size:20
Alignment explanation
Indices: 33135092--33135145 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
33135082 AGTTTTTCCC
*
33135092 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
33135112 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
33135132 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
33135146 TACTTTAGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:33136767 original size:13 final size:14
Alignment explanation
Indices: 33136749--33136813 Score: 78
Period size: 14 Copynumber: 4.5 Consensus size: 14
33136739 TTGGAGTAAC
33136749 AAAAAAAAA-TCAA
1 AAAAAAAAATTCAA
*
33136762 AAAAAAAAATTCGA
1 AAAAAAAAATTCAA
*
33136776 AAAAAAAAATTGATTGA
1 AAAAAAAAATTCA---A
33136793 AAAAAAAAATTCAA
1 AAAAAAAAATTCAA
33136807 AAAAAAA
1 AAAAAAA
33136814 GTGAAAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
13 9 0.20
14 22 0.50
17 13 0.30
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (14 bp):
AAAAAAAAATTCAA
Found at i:33136808 original size:12 final size:12
Alignment explanation
Indices: 33136793--33136826 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
33136783 AATTGATTGA
33136793 AAAAAAAAATTC
1 AAAAAAAAATTC
* *
33136805 AAAAAAAAAGTG
1 AAAAAAAAATTC
33136817 AAAAAAAAAT
1 AAAAAAAAAT
33136827 CGAGCAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (12 bp):
AAAAAAAAATTC
Found at i:33136822 original size:14 final size:14
Alignment explanation
Indices: 33136749--33136870 Score: 54
Period size: 14 Copynumber: 8.4 Consensus size: 14
33136739 TTGGAGTAAC
*
33136749 AAAAAAAAA-TCAA
1 AAAAAAAAAGTGAA
*
33136762 AAAAAAAAATTCG-A
1 AAAAAAAAAGT-GAA
*
33136776 AAAAAAAAATTGATTGA
1 AAAAAAAAAGTGA---A
**
33136793 AAAAAAAAA-T-TC
1 AAAAAAAAAGTGAA
33136805 AAAAAAAAAGTGAA
1 AAAAAAAAAGTGAA
** *
33136819 AAAAAAATCGAGCAA
1 AAAAAAAAAGTG-AA
*
33136834 AAAAAAAAGGTGACA
1 AAAAAAAAAGTGA-A
*
33136849 AAAAAAATCAAGTTAA
1 AAAAAAA--AAGTGAA
33136865 AAAAAA
1 AAAAAA
33136871 GTGAAAAGTC
Statistics
Matches: 84, Mismatches: 13, Indels: 21
0.71 0.11 0.18
Matches are distributed among these distances:
12 9 0.11
13 11 0.13
14 23 0.27
15 19 0.23
16 8 0.10
17 14 0.17
ACGTcount: A:0.73, C:0.06, G:0.09, T:0.12
Consensus pattern (14 bp):
AAAAAAAAAGTGAA
Found at i:33136867 original size:30 final size:28
Alignment explanation
Indices: 33136805--33136877 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
33136795 AAAAAAATTC
*
33136805 AAAAAAAAAGTGAAAAAAAAATCGAGCA
1 AAAAAAAAAGTGAAAAAAAAATCAAGCA
*
33136833 AAAAAAAAAGGTGACAAAAAAAATCAAG-T
1 AAAAAAAAA-GTGA-AAAAAAAATCAAGCA
*
33136862 TAAAAAAAAGTGAAAA
1 AAAAAAAAAGTGAAAA
33136878 GTCTTGCGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
27 3 0.08
28 13 0.32
29 12 0.30
30 12 0.30
ACGTcount: A:0.71, C:0.05, G:0.14, T:0.10
Consensus pattern (28 bp):
AAAAAAAAAGTGAAAAAAAAATCAAGCA
Found at i:33137803 original size:15 final size:16
Alignment explanation
Indices: 33137783--33137814 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
33137773 AGAAAATGAA
33137783 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
33137798 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
33137814 A
1 A
33137815 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:33137929 original size:17 final size:18
Alignment explanation
Indices: 33137897--33137930 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33137887 AAAAGAGAGT
*
33137897 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
33137915 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
33137931 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:33139220 original size:20 final size:20
Alignment explanation
Indices: 33139197--33139250 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
33139187 AGTTTTTCCC
*
33139197 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
33139217 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
33139237 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
33139251 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:33139232 original size:30 final size:30
Alignment explanation
Indices: 33139197--33139270 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
33139187 AGTTTTTCCC
33139197 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
33139227 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
33139257 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
33139271 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:33139260 original size:20 final size:20
Alignment explanation
Indices: 33139197--33139261 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
33139187 AGTTTTTCCC
* * * *
33139197 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
33139217 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
33139236 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
33139257 AGCTC
1 AGCTC
33139262 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:33141350 original size:20 final size:20
Alignment explanation
Indices: 33141327--33141380 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
33141317 AGTTTTTCCC
*
33141327 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
33141347 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
33141367 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
33141381 TACTTTAGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:33143480 original size:20 final size:20
Alignment explanation
Indices: 33143457--33143510 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
33143447 AGTTTTTCCC
*
33143457 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
33143477 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
33143497 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
33143511 TACTTTAGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:33145610 original size:20 final size:20
Alignment explanation
Indices: 33145587--33145640 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
33145577 AGTTTTTCCC
*
33145587 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
33145607 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
33145627 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
33145641 TACTTTAGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:33147282 original size:13 final size:12
Alignment explanation
Indices: 33147256--33147311 Score: 69
Period size: 12 Copynumber: 4.7 Consensus size: 12
33147246 TTGGAGTAAC
*
33147256 AAAAAAAA-TCA
1 AAAAAAAATTGA
*
33147267 AAAAAAAGTTCGA
1 AAAAAAAATT-GA
*
33147280 AAAAAAAATTAA
1 AAAAAAAATTGA
33147292 AAAAAAAATTGA
1 AAAAAAAATTGA
33147304 AAAAAAAA
1 AAAAAAAA
33147312 ATTGCATACG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
11 7 0.18
12 21 0.55
13 10 0.26
ACGTcount: A:0.79, C:0.04, G:0.05, T:0.12
Consensus pattern (12 bp):
AAAAAAAATTGA
Found at i:33147287 original size:24 final size:24
Alignment explanation
Indices: 33147256--33147311 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
33147246 TTGGAGTAAC
* *
33147256 AAAAAAAA-TCAAAAAAAAGTTCGA
1 AAAAAAAATTAAAAAAAAAATT-GA
33147280 AAAAAAAATTAAAAAAAAAATTGA
1 AAAAAAAATTAAAAAAAAAATTGA
33147304 AAAAAAAA
1 AAAAAAAA
33147312 ATTGCATACG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 18 0.62
25 11 0.38
ACGTcount: A:0.79, C:0.04, G:0.05, T:0.12
Consensus pattern (24 bp):
AAAAAAAATTAAAAAAAAAATTGA
Found at i:33147312 original size:13 final size:13
Alignment explanation
Indices: 33147266--33147315 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
33147256 AAAAAAAATC
*
33147266 AAAAAAAAGTTCG-
1 AAAAAAAAATT-GA
33147279 AAAAAAAAATT-A
1 AAAAAAAAATTGA
33147291 AAAAAAAAATTGA
1 AAAAAAAAATTGA
33147304 AAAAAAAAATTG
1 AAAAAAAAATTG
33147316 CATACGGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
12 11 0.32
13 23 0.68
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.16
Consensus pattern (13 bp):
AAAAAAAAATTGA
Found at i:33148509 original size:17 final size:18
Alignment explanation
Indices: 33148477--33148510 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33148467 AAAAGAGAGT
*
33148477 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
33148495 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
33148511 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Done.