Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 22 of 206
Found at i:6535223 original size:8 final size:8
Alignment explanation
Indices: 6535210--6535243 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
6535200 ATTTGAGCAT
6535210 TATATACA
1 TATATACA
*
6535218 TATATATA
1 TATATACA
*
6535226 CATATACA
1 TATATACA
6535234 TATATACA
1 TATATACA
6535242 TA
1 TA
6535244 CTCATACCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (8 bp):
TATATACA
Found at i:6537555 original size:20 final size:18
Alignment explanation
Indices: 6537505--6537556 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
6537495 CTATAAGATA
6537505 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
6537522 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
6537542 AATATTAAATTAATA
1 AATATTAAATTAATA
6537557 AAATACTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:6539923 original size:50 final size:49
Alignment explanation
Indices: 6539807--6540035 Score: 234
Period size: 48 Copynumber: 4.7 Consensus size: 49
6539797 GATAATAACA
* *
6539807 TGCCAAAGCCATGTCCCAGACATGGTCTTACAT-GGATGTT-TCATGTAC-
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATCT-CG
* * * * *
6539855 TGCCAATGCCATATCCCAGATATGGTTTTACATGGGAGTTCTCATATCTG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATCTC-G
* * * **
6539905 TGCCCATGCCATGTCCCAGACATGGTCTTAC--GGGGGACCTCATCTCG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATCTCG
* **
6539952 ATGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATCTC-G
*
6540003 TGCCAACGCCATGTCCCAGGCATGGTCTTACAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAT
6540036 AGGACCTCAT
Statistics
Matches: 151, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
47 1 0.01
48 72 0.48
49 8 0.05
50 69 0.46
51 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (49 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATCTCG
Found at i:6540041 original size:50 final size:50
Alignment explanation
Indices: 6539807--6540043 Score: 241
Period size: 50 Copynumber: 4.8 Consensus size: 50
6539797 GATAATAACA
* ** * *
6539807 TGCCAAAGCCATGTCCCAGACATGGTCTTACAT-GGATGTTTCATGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * ** * *
6539855 TGCCAATGCCATATCCCAGATATGGTTTTACATGGGAGTTCTCATATCTG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * ** *
6539905 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGA-C-CTCATCTCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
6539953 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
6540003 TGCCAACGCCATGTCCCAGGCATGGTCTTACATAGGACCTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTC
6540044 ATCCTCTTAA
Statistics
Matches: 157, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
48 69 0.44
49 10 0.06
50 78 0.50
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:6540041 original size:98 final size:99
Alignment explanation
Indices: 6539807--6540046 Score: 263
Period size: 98 Copynumber: 2.4 Consensus size: 99
6539797 GATAATAACA
** * *
6539807 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGATGT-TTCATGTACTGCCAATGCCATATCC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGACCTCATCATGTACTGCCAACGCCATATCC
* * ** *
6539871 CAGATATGGTTTTACATGGGAGTTCTCATATCTG
66 CAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** *
6539905 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCATC-TCG-A-TGCCAACGCCATGT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTAC-ATGGACCTCATCAT-GTACTGCCAACGCCATAT
* *
6539967 CCTAGACATGGTCTTACATGGGACCTCTCATCTCGG
64 CCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
6540003 TGCCAACGCCATGTCCCAGGCATGGTCTTACATAGGACCTCATC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACAT-GGACCTCATC
6540047 CTCTTAATGT
Statistics
Matches: 117, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
98 108 0.92
99 6 0.05
100 3 0.03
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (99 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGACCTCATCATGTACTGCCAACGCCATATCC
CAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:6546364 original size:85 final size:85
Alignment explanation
Indices: 6546221--6546390 Score: 277
Period size: 85 Copynumber: 2.0 Consensus size: 85
6546211 CCCTATTCCG
* * *
6546221 GCAACAGAGACGGGTTAGGGGTGTTACACCAACTCACCAGGAAATAGCCCCAACTTACCAAGAAG
1 GCAACAGAGACGGATTAGGAGTGTTACACCAACTCACCAAGAAATAGCCCCAACTTACCAAGAAG
*
6546286 TTGTCCCAAGAGAAAAGCTT
66 CTGTCCCAAGAGAAAAGCTT
* * *
6546306 GCAACGGAGACGGATTAGGAGTGTTACACCAACTCACTAAGAAATATCCCCAACTTACCAAGAAG
1 GCAACAGAGACGGATTAGGAGTGTTACACCAACTCACCAAGAAATAGCCCCAACTTACCAAGAAG
6546371 CTGTCCCAAGAGAAAAGCTT
66 CTGTCCCAAGAGAAAAGCTT
6546391 TCATTCAAGA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 78 1.00
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (85 bp):
GCAACAGAGACGGATTAGGAGTGTTACACCAACTCACCAAGAAATAGCCCCAACTTACCAAGAAG
CTGTCCCAAGAGAAAAGCTT
Found at i:6550856 original size:22 final size:22
Alignment explanation
Indices: 6550794--6550865 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
6550784 ATTGTTCAAA
* **
6550794 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
6550816 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
6550838 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
6550860 CATGAG
1 CATGAG
6550866 GGTTTCAACT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:6552625 original size:29 final size:29
Alignment explanation
Indices: 6552560--6552626 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
6552550 TATTTTTTTA
* *
6552560 AATGTATAATTAAATTAAATTAAAAATTT
1 AATGTATATTTAAACTAAATTAAAAATTT
* ** *
6552589 TACATATATTTAAACTAAATTCAAAATTT
1 AATGTATATTTAAACTAAATTAAAAATTT
6552618 AATGTATAT
1 AATGTATAT
6552627 AATTACAAAA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (29 bp):
AATGTATATTTAAACTAAATTAAAAATTT
Found at i:6552958 original size:18 final size:18
Alignment explanation
Indices: 6552935--6552973 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
6552925 CAAAATCTAT
6552935 AAAATTAAAACAAATTCA
1 AAAATTAAAACAAATTCA
6552953 AAAATTAAAACAAATTCA
1 AAAATTAAAACAAATTCA
6552971 AAA
1 AAA
6552974 TATATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAATTAAAACAAATTCA
Found at i:6553006 original size:19 final size:17
Alignment explanation
Indices: 6552935--6553006 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 17
6552925 CAAAATCTAT
*
6552935 AAAATTAAAACAAATTCA
1 AAAATTTAAA-AAATTCA
*
6552953 AAAATTAAAACAAATTCA
1 AAAATTTAAA-AAATTCA
* *
6552971 AAATATATAAAATATTCA
1 AAA-ATTTAAAAAATTCA
6552989 AAACATTCTAAAAAATTC
1 AAA-ATT-TAAAAAATTC
6553007 TATATAGATT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
18 32 0.70
19 14 0.30
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATTTAAAAAATTCA
Found at i:6555095 original size:21 final size:21
Alignment explanation
Indices: 6555071--6555114 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6555061 GAATCTTTAG
*
6555071 TATTTATTGTATCATTT-TATT
1 TATTTAAT-TATCATTTCTATT
6555092 TATTTAATTATCATTTCTATT
1 TATTTAATTATCATTTCTATT
6555113 TA
1 TA
6555115 ATTAGGTCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTAATTATCATTTCTATT
Found at i:6555452 original size:27 final size:27
Alignment explanation
Indices: 6555414--6555469 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
6555404 AAAATATGTC
*
6555414 ATAAGTGCTAACGAAAGTGTTCTTTCA
1 ATAAGTGCTAACGAAAGTGTTATTTCA
6555441 ATAAGTGCTAACGAAAGTGTTATTTCA
1 ATAAGTGCTAACGAAAGTGTTATTTCA
6555468 AT
1 AT
6555470 TACAATCCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (27 bp):
ATAAGTGCTAACGAAAGTGTTATTTCA
Found at i:6556344 original size:23 final size:24
Alignment explanation
Indices: 6556283--6556345 Score: 58
Period size: 23 Copynumber: 2.6 Consensus size: 24
6556273 CTCAAAACTT
*
6556283 TTTTATATATATTTAGATTTTTATTA
1 TTTTATA-AT-TTTAGATTTTGATTA
* *
6556309 TTTT-TAAAATTTA-ATTTTGATTC
1 TTTTAT-AATTTTAGATTTTGATTA
6556332 TTTTATAATTTTAG
1 TTTTATAATTTTAG
6556346 GATCAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
23 18 0.60
24 5 0.17
25 2 0.07
26 5 0.17
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (24 bp):
TTTTATAATTTTAGATTTTGATTA
Found at i:6556654 original size:19 final size:19
Alignment explanation
Indices: 6556630--6556667 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6556620 AATGCATTCA
6556630 CCAAAGTTTGTAGTTCTTT
1 CCAAAGTTTGTAGTTCTTT
6556649 CCAAAGTTTGTAGTTCTTT
1 CCAAAGTTTGTAGTTCTTT
6556668 TTTACCCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (19 bp):
CCAAAGTTTGTAGTTCTTT
Found at i:6557538 original size:2 final size:2
Alignment explanation
Indices: 6557476--6557525 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
6557466 ATAAGCATTG
6557476 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6557518 TA TA TA TA
1 TA TA TA TA
6557526 AATTGAAATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6558536 original size:41 final size:41
Alignment explanation
Indices: 6558453--6558686 Score: 369
Period size: 41 Copynumber: 5.7 Consensus size: 41
6558443 TTAATTTAAA
* * * *
6558453 CAGATTCACTGGCACTTAGCCCTGTTAGGCTTAAAGCTTGATT
1 CAGA-TCACCGGCACTTAG-CCTGCTAGGCTTATAGCCTGATT
*
6558496 CAGATCACCGACACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
6558537 CAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
6558578 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTTATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
6558619 TAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
6558660 CAGTTCACCGGCACTTAGCCTGCTAGG
1 CAGATCACCGGCACTTAGCCTGCTAGG
6558687 TTTTAAAACC
Statistics
Matches: 178, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
41 162 0.91
42 12 0.07
43 4 0.02
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:6561378 original size:21 final size:21
Alignment explanation
Indices: 6561316--6561380 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
6561306 TGTAAAATAC
* * *
6561316 TTTTTTGTCATAATTTTAGAA
1 TTTTTTGTTAAAATTTTATAA
* * *
6561337 TTTTTAAGATTTAAATATTATAA
1 TTTTT-TG-TTAAAATTTTATAA
6561360 TTTTTTGTTAAAATTTTATAA
1 TTTTTTGTTAAAATTTTATAA
6561381 ATACACATAA
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
21 17 0.52
22 2 0.06
23 14 0.42
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (21 bp):
TTTTTTGTTAAAATTTTATAA
Found at i:6561696 original size:10 final size:10
Alignment explanation
Indices: 6561681--6561709 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
6561671 CCACTTTTGT
6561681 GCAATTACAA
1 GCAATTACAA
6561691 GCAATTACAA
1 GCAATTACAA
6561701 GCAATTACA
1 GCAATTACA
6561710 CCTAAATCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.48, C:0.21, G:0.10, T:0.21
Consensus pattern (10 bp):
GCAATTACAA
Found at i:6567522 original size:15 final size:15
Alignment explanation
Indices: 6567488--6567522 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6567478 TATATATGCC
6567488 ACAATAATAAATACA
1 ACAATAATAAATACA
* *
6567503 TCAATAATAAATATA
1 ACAATAATAAATACA
6567518 ACAAT
1 ACAAT
6567523 GGCATAGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (15 bp):
ACAATAATAAATACA
Found at i:6567800 original size:11 final size:11
Alignment explanation
Indices: 6567784--6567820 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
6567774 ACGTATATAT
6567784 ATAAAATAATA
1 ATAAAATAATA
6567795 ATAAAATAA-A
1 ATAAAATAATA
6567805 ATAAAA-AATA
1 ATAAAATAATA
6567815 AGTAAA
1 A-TAAA
6567821 TATTTACTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.08
10 9 0.38
11 13 0.54
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:6567912 original size:23 final size:24
Alignment explanation
Indices: 6567857--6567919 Score: 83
Period size: 26 Copynumber: 2.6 Consensus size: 24
6567847 ATATACGTAT
*
6567857 AAATATAAAAATATTCATTTAAAA
1 AAATAGAAAAATATTCATTTAAAA
6567881 AAATGTAGAAAAATATTCA-TTAAAA
1 AAA--TAGAAAAATATTCATTTAAAA
*
6567906 AAATAGAAATATAT
1 AAATAGAAAAATAT
6567920 ATGCATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 10 0.29
24 3 0.09
25 9 0.26
26 13 0.37
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (24 bp):
AAATAGAAAAATATTCATTTAAAA
Found at i:6567948 original size:21 final size:21
Alignment explanation
Indices: 6567923--6567967 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
6567913 AATATATATG
6567923 CATATATAG-ATAAAATAATTA
1 CATATAT-GTATAAAATAATTA
6567944 CATATATGTATAAAATAATTA
1 CATATATGTATAAAATAATTA
6567965 CAT
1 CAT
6567968 TATCAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (21 bp):
CATATATGTATAAAATAATTA
Found at i:6572024 original size:22 final size:19
Alignment explanation
Indices: 6571944--6572055 Score: 59
Period size: 20 Copynumber: 5.6 Consensus size: 19
6571934 TTTTATCTAA
*
6571944 AAAATAAATATTTAA-TATT
1 AAAAT-AATATTAAACTATT
* *
6571963 AAGATAATCAATTCAA-TATT
1 AAAATAAT--ATTAAACTATT
* *
6571983 AAATTAATA-AAATACTATT
1 AAAATAATATTAA-ACTATT
*
6572002 AAAATAAGTATTAAATTAAATT
1 AAAATAA-TATTAAACT--ATT
* *
6572024 AAATTAAATTTTAAACTATT
1 AAAAT-AATATTAAACTATT
6572044 AAAATAATATTA
1 AAAATAATATTA
6572056 TTTTTGGAAT
Statistics
Matches: 70, Mismatches: 14, Indels: 18
0.69 0.14 0.18
Matches are distributed among these distances:
17 1 0.01
18 5 0.07
19 20 0.29
20 26 0.37
21 2 0.03
22 14 0.20
23 2 0.03
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATAATATTAAACTATT
Found at i:6574866 original size:26 final size:26
Alignment explanation
Indices: 6574837--6574910 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 26
6574827 TCTCATCCCT
6574837 ATTTTACCCCTGGTAAAATTTTGACA
1 ATTTTACCCCTGGTAAAATTTTGACA
*
6574863 ATTTTA-CCCTCGGTGAAAATTTTGACG
1 ATTTTACCCCT-GGT-AAAATTTTGACA
*
6574890 ATTTTACCTCTGGTAAAATTT
1 ATTTTACCCCTGGTAAAATTT
6574911 CGAGAAAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
25 4 0.09
26 16 0.37
27 20 0.47
28 3 0.07
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.41
Consensus pattern (26 bp):
ATTTTACCCCTGGTAAAATTTTGACA
Found at i:6574886 original size:27 final size:27
Alignment explanation
Indices: 6574837--6574910 Score: 109
Period size: 26 Copynumber: 2.8 Consensus size: 27
6574827 TCTCATCCCT
6574837 ATTTTACCC-CTGGTAAAATTTTGACA
1 ATTTTACCCTCTGGTAAAATTTTGACA
*
6574863 ATTTTACCCTC-GGTGAAAATTTTGACG
1 ATTTTACCCTCTGGT-AAAATTTTGACA
6574890 ATTTTA-CCTCTGGTAAAATTT
1 ATTTTACCCTCTGGTAAAATTT
6574911 CGAGAAAATA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
26 23 0.52
27 21 0.48
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTCTGGTAAAATTTTGACA
Found at i:6586511 original size:16 final size:17
Alignment explanation
Indices: 6586479--6586513 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
6586469 ATTTAATCTT
*
6586479 TATATAACATAACATAA
1 TATATAACATAAAATAA
6586496 TATATAA-ATAAAATAA
1 TATATAACATAAAATAA
6586512 TA
1 TA
6586514 AGTTACATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TATATAACATAAAATAA
Found at i:6590929 original size:29 final size:31
Alignment explanation
Indices: 6590881--6590938 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
6590871 AAAATTTTAG
* *
6590881 AATTTAATTCTTATAGTTTT-ATTTTCAATA
1 AATTTAATTCCTATAGTTTTCAGTTTCAATA
*
6590911 AATTTAA-TCCTATATTTTTCAGTTTCAA
1 AATTTAATTCCTATAGTTTTCAGTTTCAA
6590939 AATTCAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.53
Consensus pattern (31 bp):
AATTTAATTCCTATAGTTTTCAGTTTCAATA
Found at i:6592731 original size:19 final size:19
Alignment explanation
Indices: 6592709--6592751 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
6592699 AATTTTGATA
6592709 AAATAAAATAAAATAAAAT
1 AAATAAAATAAAATAAAAT
* * *
6592728 AAATCAAATCAATTAAAAT
1 AAATAAAATAAAATAAAAT
*
6592747 TAATA
1 AAATA
6592752 TGATATTTTT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATAAAATAAAATAAAAT
Found at i:6592739 original size:5 final size:5
Alignment explanation
Indices: 6592706--6592730 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6592696 AATAATTTTG
6592706 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
6592731 TCAAATCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:6611134 original size:7 final size:7
Alignment explanation
Indices: 6611122--6611181 Score: 75
Period size: 7 Copynumber: 8.4 Consensus size: 7
6611112 ATTTCTTCTC
6611122 ATTTTAA
1 ATTTTAA
6611129 ATTTTAA
1 ATTTTAA
6611136 ATTTTAA
1 ATTTTAA
**
6611143 ATTTTTT
1 ATTTTAA
* *
6611150 GTGTTATA
1 ATTTTA-A
6611158 ATTTTAA
1 ATTTTAA
6611165 ATTTTAA
1 ATTTTAA
6611172 ATTTTAA
1 ATTTTAA
6611179 ATT
1 ATT
6611182 ATAGTTTGTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 40 0.91
8 4 0.09
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (7 bp):
ATTTTAA
Found at i:6611169 original size:36 final size:38
Alignment explanation
Indices: 6611122--6611208 Score: 151
Period size: 36 Copynumber: 2.3 Consensus size: 38
6611112 ATTTCTTCTC
6611122 ATTTTAAATTTTAAATTTTAAATT-T-TTTGTGTTATA
1 ATTTTAAATTTTAAATTTTAAATTATATTTGTGTTATA
6611158 ATTTTAAATTTTAAATTTTAAATTATAGTTTGTGTTATA
1 ATTTTAAATTTTAAATTTTAAATTATA-TTTGTGTTATA
6611197 ATTTTAAATTTT
1 ATTTTAAATTTT
6611209 TTGTGGTATG
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 24 0.50
37 1 0.02
39 23 0.48
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (38 bp):
ATTTTAAATTTTAAATTTTAAATTATATTTGTGTTATA
Found at i:6612825 original size:18 final size:18
Alignment explanation
Indices: 6612779--6612826 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
6612769 TATAAGAATA
*
6612779 TTAATTATTA-ATA-ATT
1 TTAATTATAATATATATT
6612795 TT-ATTA-AATTATATATT
1 TTAATTATAA-TATATATT
6612812 TTAATTATAATATAT
1 TTAATTATAATATAT
6612827 TTAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 4 0.15
16 5 0.19
17 5 0.19
18 9 0.35
19 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTATAATATATATT
Found at i:6612826 original size:16 final size:16
Alignment explanation
Indices: 6612779--6612843 Score: 55
Period size: 16 Copynumber: 4.0 Consensus size: 16
6612769 TATAAGAATA
6612779 TTAATTATTAATA-ATT
1 TTAATTA-TAATATATT
*
6612795 TT-ATTAAATTATATATT
1 TTAATT--ATAATATATT
6612812 TTAATTATAATATA-T
1 TTAATTATAATATATT
*
6612827 TTAATAATAATTATATT
1 TTAATTATAA-TATATT
6612844 AAATTATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
15 13 0.32
16 17 0.43
17 7 0.17
18 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAATTATAATATATT
Found at i:6612868 original size:59 final size:59
Alignment explanation
Indices: 6612682--6612868 Score: 150
Period size: 59 Copynumber: 3.1 Consensus size: 59
6612672 ATTTTATTAA
* * * *
6612682 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTCTTATAGT
1 ATCATATATTTTAATTATAATATATTTAATAATAATTATATT-AAATTATATTTTATAGT
* * * * * * ** *
6612741 ATCAGATATTATGATT-TGAGTA-AATTCAT-ATAAGAATATTAATTATTAATAATTTTATTA-A
1 ATCATATATTTTAATTAT-AATATATTTAATAATAATTATATTAA--ATT-AT-ATTTTA-TAGT
*
6612802 ATTATATATTTTAATTATAATATATTTAATAATAATTATATTAAATTATATTTTATAGT
1 ATCATATATTTTAATTATAATATATTTAATAATAATTATATTAAATTATATTTTATAGT
6612861 ATCATATA
1 ATCATATA
6612869 NNNNNNNNNN
Statistics
Matches: 93, Mismatches: 24, Indels: 22
0.67 0.17 0.16
Matches are distributed among these distances:
57 7 0.08
58 9 0.10
59 32 0.34
60 4 0.04
61 22 0.24
62 8 0.09
63 11 0.12
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (59 bp):
ATCATATATTTTAATTATAATATATTTAATAATAATTATATTAAATTATATTTTATAGT
Found at i:6613017 original size:18 final size:17
Alignment explanation
Indices: 6612990--6613023 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6612980 TTATTAAGAG
*
6612990 TTTTATTAAATTATATA
1 TTTTATTAAAATATATA
6613007 TTTTAATTAAAATATAT
1 TTTT-ATTAAAATATAT
6613024 TTAATATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTATTAAAATATATA
Found at i:6619689 original size:3 final size:3
Alignment explanation
Indices: 6619675--6619739 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
6619665 CAAAATTTGG
*
6619675 ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6619723 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
6619740 CACTTTTAAC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:6619823 original size:29 final size:27
Alignment explanation
Indices: 6619791--6619845 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
6619781 CATTTGCTTA
6619791 TTTTCAATT-TTTATTTAAACTTTTTTTAG
1 TTTT-AATTGTTTATTT--ACTTTTTTTAG
*
6619820 TTTTATTTGTTTATTTACTTTTTTTA
1 TTTTAATTGTTTATTTACTTTTTTTA
6619846 ATTAGTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 10 0.42
28 3 0.12
29 11 0.46
ACGTcount: A:0.20, C:0.05, G:0.04, T:0.71
Consensus pattern (27 bp):
TTTTAATTGTTTATTTACTTTTTTTAG
Found at i:6624470 original size:13 final size:13
Alignment explanation
Indices: 6624452--6624476 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6624442 TTTTTAAAAT
6624452 TATTATTTTAATG
1 TATTATTTTAATG
6624465 TATTATTTTAAT
1 TATTATTTTAAT
6624477 TGAAATAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TATTATTTTAATG
Found at i:6626207 original size:94 final size:94
Alignment explanation
Indices: 6626092--6626265 Score: 258
Period size: 94 Copynumber: 1.9 Consensus size: 94
6626082 CACATTTATA
* * *
6626092 CTCACACTTACCCTATAAATAAGTGTCAACTTCTTCACTATTTTTATTAAAATGATAATTTTAAT
1 CTCACACTTACCCTATAAATAAGTGACAACTTCTTCACTATTTTCATTAAAAAGATAATTTTAAT
* *
6626157 CCCACGTTGATTAGAGAATACTCTCATAT
66 CCCACATTGACTAGAGAATACTCTCATAT
* * * * *
6626186 CTCACATTTACCTTATAAATAAGTGACAATTTCTTCTCTATTTTCATTAAAAAGCTAATTTTAAT
1 CTCACACTTACCCTATAAATAAGTGACAACTTCTTCACTATTTTCATTAAAAAGATAATTTTAAT
6626251 CCCACATTGACTAGA
66 CCCACATTGACTAGA
6626266 AAAATATTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 70 1.00
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (94 bp):
CTCACACTTACCCTATAAATAAGTGACAACTTCTTCACTATTTTCATTAAAAAGATAATTTTAAT
CCCACATTGACTAGAGAATACTCTCATAT
Found at i:6626487 original size:77 final size:76
Alignment explanation
Indices: 6626335--6626490 Score: 217
Period size: 77 Copynumber: 2.0 Consensus size: 76
6626325 AAAAAGTTAA
* * *
6626335 TTTTAATCTCACATTGGCCAGAGAACACTCACATGCTCACATTAACCTTATAAATAAGTGTAAAT
1 TTTTAATCCCACATTGACCAGAGAACACTCACATGCTCAAATTAACCTTATAAATAAGTGTAAAT
6626400 TTCTTCATTAT
66 TTCTTCATTAT
* * *
6626411 TTTTAATCCCACATTGACCAGAGAACACTC-CTATATCTCAAATTTATCTTATAAATAAGTG-AT
1 TTTTAATCCCACATTGACCAGAGAACACTCAC-AT-GCTCAAATTAACCTTATAAATAAGTGTA-
6626474 AATTTCTTCATTAT
63 AATTTCTTCATTAT
6626488 TTT
1 TTT
6626491 CGTTAAAAAG
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
75 1 0.01
76 31 0.44
77 39 0.55
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (76 bp):
TTTTAATCCCACATTGACCAGAGAACACTCACATGCTCAAATTAACCTTATAAATAAGTGTAAAT
TTCTTCATTAT
Found at i:6626617 original size:19 final size:19
Alignment explanation
Indices: 6626593--6626629 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
6626583 AATACAATAC
6626593 TAGTACTAAAATTTTGCAG
1 TAGTACTAAAATTTTGCAG
6626612 TAGTACTAAAATTTTGCA
1 TAGTACTAAAATTTTGCA
6626630 AATAAATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (19 bp):
TAGTACTAAAATTTTGCAG
Found at i:6634155 original size:24 final size:24
Alignment explanation
Indices: 6634123--6634169 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
6634113 CTAAATTTAG
*
6634123 AACACTTTCCTTTC-CTTTCTCTTC
1 AACACTTTCC-ATCACTTTCTCTTC
*
6634147 AACATTTTCCATCACTTTCTCTT
1 AACACTTTCCATCACTTTCTCTT
6634170 ATTTCCCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.17, C:0.34, G:0.00, T:0.49
Consensus pattern (24 bp):
AACACTTTCCATCACTTTCTCTTC
Found at i:6635552 original size:18 final size:18
Alignment explanation
Indices: 6635515--6635552 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
6635505 TTCGTTTTTG
*
6635515 TTTTCTTTTTTGTTGTTT
1 TTTTCTTTTTTGTTGCTT
6635533 TTTTCTTTTTT-TCTGCTT
1 TTTTCTTTTTTGT-TGCTT
6635551 TT
1 TT
6635553 GTTTGTTGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.00, C:0.11, G:0.08, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTTTGTTGCTT
Found at i:6636191 original size:44 final size:44
Alignment explanation
Indices: 6636077--6636208 Score: 140
Period size: 45 Copynumber: 3.0 Consensus size: 44
6636067 CTGTAATTTA
* *
6636077 TAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCAC
1 TAGCTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGATT-AC
* * * * ** *
6636122 TATCTTCAGTCTGCTCCACTACAACTTCAAAGAGATAAGACTT-G
1 TAGCTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGA-TTAC
*
6636166 TGGCTTCAATCTGATCCACTGCAACTTCAGGGAGATAATGATT
1 TAGCTTCAATCTGATCCACTGCAACTTCAGGGAGATAA-GATT
6636209 TTGTTACGGT
Statistics
Matches: 70, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
44 33 0.47
45 35 0.50
46 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (44 bp):
TAGCTTCAATCTGATCCACTGCAACTTCAGGGAGATAAGATTAC
Found at i:6636358 original size:44 final size:42
Alignment explanation
Indices: 6636310--6636426 Score: 105
Period size: 44 Copynumber: 2.8 Consensus size: 42
6636300 TATTAATAGC
*
6636310 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGCAAT
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG--AT
* * * *
6636354 TTCAAACTGC-CTCACTGTAATTTTAGGG-GATAAGGTTTGAT
1 TTCAATCTGCTC-CACTGCAACTTCAGGGAGATAAGGTTTGAT
* * * *
6636395 AT-GATCTGCTCTACTGCAACTTCAGAGAGATA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATA
6636427 GGATCTGTAA
Statistics
Matches: 57, Mismatches: 13, Indels: 9
0.72 0.16 0.11
Matches are distributed among these distances:
40 16 0.28
41 8 0.14
43 12 0.21
44 21 0.37
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (42 bp):
TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGAT
Found at i:6636588 original size:44 final size:44
Alignment explanation
Indices: 6636455--6636632 Score: 142
Period size: 44 Copynumber: 4.0 Consensus size: 44
6636445 TTCAATCTAT
* * * * *
6636455 TCCACTACAACTTCATAGAAATAAGA-TTCGCTATCTTTAGTCTGC
1 TCCACTGCAACTTCAGAGAGATAAGACTT-G-TAGCTTTAATCTGC
* * * * * * *
6636500 TTCTCTGCAACTTTAGAGAGATAAGACTTGCATCTTCAACCTGC
1 TCCACTGCAACTTCAGAGAGATAAGACTTGTAGCTTTAATCTGC
* *
6636544 TCCACTGCAACTTCAGAGAGATAAGATTTGTGGCTTTAATCTGC
1 TCCACTGCAACTTCAGAGAGATAAGACTTGTAGCTTTAATCTGC
* * * * * * *
6636588 TCCATTGTAACTTCAGGGAGATAACACTGGTGGCTTAAATCTGC
1 TCCACTGCAACTTCAGAGAGATAAGACTTGTAGCTTTAATCTGC
6636632 T
1 T
6636633 TCCCTACTAC
Statistics
Matches: 106, Mismatches: 26, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
44 83 0.78
45 21 0.20
46 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (44 bp):
TCCACTGCAACTTCAGAGAGATAAGACTTGTAGCTTTAATCTGC
Found at i:6637058 original size:50 final size:50
Alignment explanation
Indices: 6636990--6637340 Score: 342
Period size: 50 Copynumber: 7.0 Consensus size: 50
6636980 CAATTTGGGA
* * *
6636990 AAGCAAGATTCGTTGTTGTAGCTTTAATATGTTCCACTACACTGCCAGGG
1 AAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACTGCCAGGG
* * * * ** * * * *
6637040 AAGTAAGATTCGTTGTTGTAGCTTTAATCTATTTAACTGCAATGTCGGGG
1 AAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACTGCCAGGG
* * *
6637090 AAGCAAGATTCGCTGTAGTAGCTTCAATCTGTTCCACTACACCGCCAGAG
1 AAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACTGCCAGGG
* * ** * * ***
6637140 AAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTTGGGG
1 AAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACTGCCAGGG
* * *
6637190 AAGCAAGATTCGTTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAAGG
1 AAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACTGCCAGGG
* * * * ** * * ** *
6637240 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATATCGGGG
1 AAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACTGCCAGGG
*
6637290 AAGCAAGATTTGCTGTTGTAGCTTCAATCTGTTCCACTACACTGCCAGGG
1 AAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACTGCCAGGG
6637340 A
1 A
6637341 TATGGGGAAC
Statistics
Matches: 229, Mismatches: 72, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
50 229 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (50 bp):
AAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTACACTGCCAGGG
Found at i:6637129 original size:100 final size:100
Alignment explanation
Indices: 6636909--6637340 Score: 598
Period size: 100 Copynumber: 4.3 Consensus size: 100
6636899 TCGCTACCTT
* * * * * *
6636909 TAGCTTTAATCTGTTCCATTTC-CACGCCAAGGAAATAAGATTCACTATTGTAGCTTCAATCTAT
1 TAGCTTCAATCTGTTCCACTACAC-CGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTAT
* * * *
6636973 TTAACTACAAT-TTGGGAAAGCAAGATTCGTTGTTG
65 TTAACTGCAATGTCGGGGAAGCAAGATTCGCTGTTG
* * * ** *
6637008 TAGCTTTAATATGTTCCACTACACTGCCAGGGAAGTAAGATTCGTTGTTGTAGCTTTAATCTATT
1 TAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATT
*
6637073 TAACTGCAATGTCGGGGAAGCAAGATTCGCTGTAG
66 TAACTGCAATGTCGGGGAAGCAAGATTCGCTGTTG
* *
6637108 TAGCTTCAATCTGTTCCACTACACCGCCAGAGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATT
1 TAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATT
* *
6637173 TAACTGCAATGTTGGGGAAGCAAGATTCGTTGTTG
66 TAACTGCAATGTCGGGGAAGCAAGATTCGCTGTTG
* * *
6637208 TAGCTTCAATCTGTTCCACTACACCGCCAAGGAAGTAAGATTCACTGTTGTAGCTTTAATCTTTT
1 TAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATT
* *
6637273 TAACTGCAATATCGGGGAAGCAAGATTTGCTGTTG
66 TAACTGCAATGTCGGGGAAGCAAGATTCGCTGTTG
*
6637308 TAGCTTCAATCTGTTCCACTACACTGCCAGGGA
1 TAGCTTCAATCTGTTCCACTACACCGCCAGGGA
6637341 TATGGGGAAC
Statistics
Matches: 296, Mismatches: 35, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
99 62 0.21
100 234 0.79
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (100 bp):
TAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATT
TAACTGCAATGTCGGGGAAGCAAGATTCGCTGTTG
Found at i:6643602 original size:14 final size:14
Alignment explanation
Indices: 6643583--6643610 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6643573 CATTCATATC
6643583 TTATTCATACCTAA
1 TTATTCATACCTAA
6643597 TTATTCATACCTAA
1 TTATTCATACCTAA
6643611 CATGTTGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (14 bp):
TTATTCATACCTAA
Found at i:6657122 original size:214 final size:214
Alignment explanation
Indices: 6656753--6657176 Score: 803
Period size: 214 Copynumber: 2.0 Consensus size: 214
6656743 TTTTCTTTCA
6656753 AATTCTTAGTGTACTTTTAACTATTCATAACAACTTAAGGTAGCCATACCTTAGAAAATGAAATT
1 AATTCTTAGTGTACTTTTAACTATTCATAACAACTTAAGGTAGCCATACCTTAGAAAATGAAATT
6656818 GATGAAGTTTTGGTTAATTTTATCATTATTGATACTTTAGAAAACTTAGATTTTAAGAGTTTGGA
66 GATGAAGTTTTGGTTAATTTTATCATTATTGATACTTTAGAAAACTTAGATTTTAAGAGTTTGGA
*
6656883 TTCATGCATATTTGGTGTAGAATAAATCATGGTAAAATCATGTTATAATGTGGTAGAAAGTATTG
131 TTCATGCATATTTGGTGTAGAATAAATCATGGTAAAATCATGCTATAATGTGGTAGAAAGTATTG
6656948 AATCAAGCATGACTTCATC
196 AATCAAGCATGACTTCATC
* * * *
6656967 AATTCTTAGTGTACTTTTAACTGTTCATAATAACTTAAGGTAGCCATACTTTAGAAAGTGAAATT
1 AATTCTTAGTGTACTTTTAACTATTCATAACAACTTAAGGTAGCCATACCTTAGAAAATGAAATT
6657032 GATGAAGTTTTGGTTAATTTTATCATTATTGATACTTTAGAAAACTTAGATTTTAAGAGTTTGGA
66 GATGAAGTTTTGGTTAATTTTATCATTATTGATACTTTAGAAAACTTAGATTTTAAGAGTTTGGA
6657097 TTCATGCATATTTGGTGTAGAATAAATCATGGTAAAATCATGCTATAATGTGGTAGAAAGTATTG
131 TTCATGCATATTTGGTGTAGAATAAATCATGGTAAAATCATGCTATAATGTGGTAGAAAGTATTG
6657162 AATCAAGCATGACTT
196 AATCAAGCATGACTT
6657177 AATTTGGTGG
Statistics
Matches: 205, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
214 205 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (214 bp):
AATTCTTAGTGTACTTTTAACTATTCATAACAACTTAAGGTAGCCATACCTTAGAAAATGAAATT
GATGAAGTTTTGGTTAATTTTATCATTATTGATACTTTAGAAAACTTAGATTTTAAGAGTTTGGA
TTCATGCATATTTGGTGTAGAATAAATCATGGTAAAATCATGCTATAATGTGGTAGAAAGTATTG
AATCAAGCATGACTTCATC
Found at i:6661297 original size:25 final size:24
Alignment explanation
Indices: 6661233--6661301 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
6661223 AGCGTCCCGT
* * *
6661233 TATTAGCTCTCACGAGCATCTTGA
1 TATTGGCTCTCATGAGCTTCTTGA
* *
6661257 TATTGGCTCTCTTGAGCTTTTTGA
1 TATTGGCTCTCATGAGCTTCTTGA
6661281 TATATGGCTCTCATGAGCTTC
1 TAT-TGGCTCTCATGAGCTTC
6661302 CCATTAACAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
24 22 0.59
25 15 0.41
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.41
Consensus pattern (24 bp):
TATTGGCTCTCATGAGCTTCTTGA
Found at i:6661483 original size:24 final size:23
Alignment explanation
Indices: 6661425--6661506 Score: 67
Period size: 24 Copynumber: 3.4 Consensus size: 23
6661415 AGGCTTTTAC
* *
6661425 ATGAGCTTTTCGATTAATGGCTCT
1 ATGAGCTTCTCGA-TATTGGCTCT
* *
6661449 CTGGAGTTTCTCGATATTGGCTCGT
1 AT-GAGCTTCTCGATATTGGCTC-T
*
6661474 ATGAGCTTCTTGAT-TATGGCTCTT
1 ATGAGCTTCTCGATAT-TGGCTC-T
6661498 ATGAGCTTC
1 ATGAGCTTC
6661507 CCGTTATACA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
23 1 0.02
24 35 0.74
25 11 0.23
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.41
Consensus pattern (23 bp):
ATGAGCTTCTCGATATTGGCTCT
Found at i:6661886 original size:19 final size:19
Alignment explanation
Indices: 6661862--6661899 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6661852 TATGGCCAAG
6661862 TTGATTGGATATTTCTTGT
1 TTGATTGGATATTTCTTGT
6661881 TTGATTGGATATTTCTTGT
1 TTGATTGGATATTTCTTGT
6661900 ATACTTACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.05, G:0.21, T:0.58
Consensus pattern (19 bp):
TTGATTGGATATTTCTTGT
Found at i:6662741 original size:73 final size:73
Alignment explanation
Indices: 6662622--6662802 Score: 308
Period size: 73 Copynumber: 2.5 Consensus size: 73
6662612 TTTCAAACAC
* *
6662622 CCTAGAACACGAGCGTGTGGCTTGGCCATGTGACCCCTGCACTTATTTATTGCGAGTCAGTATGC
1 CCTAGCACACGGGCGTGTGGCTTGGCCATGTGACCCCTGCACTTATTTATTGCGAGTCAGTATGC
* *
6662687 TTACATGG
66 TTACACGA
*
6662695 CCTAGCACACGGGCGTGTGGTTTGGCCATGTGACCCCTGCACTTATTTATTGCGAGTCAGTATGC
1 CCTAGCACACGGGCGTGTGGCTTGGCCATGTGACCCCTGCACTTATTTATTGCGAGTCAGTATGC
6662760 TTACACGA
66 TTACACGA
*
6662768 CCTAGCACACGGGCGTGTGGCTTGGCCGTGTGACC
1 CCTAGCACACGGGCGTGTGGCTTGGCCATGTGACC
6662803 TAAGTCAGAG
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 101 1.00
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.27
Consensus pattern (73 bp):
CCTAGCACACGGGCGTGTGGCTTGGCCATGTGACCCCTGCACTTATTTATTGCGAGTCAGTATGC
TTACACGA
Found at i:6664681 original size:27 final size:27
Alignment explanation
Indices: 6664639--6664889 Score: 278
Period size: 27 Copynumber: 9.3 Consensus size: 27
6664629 ATTCGTGGGC
*
6664639 AAATGACAGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
6664666 AAATGA-CTAAAGTACCCTC-AATGGGTA
1 AAATGACCGAAA-TACCCTCGAA-GGGTA
* *
6664693 AAATGATCGAAATACCCTCGATGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
6664720 AAATGACCGAAATACCCT-TAATGGGTA
1 AAATGACCGAAATACCCTCGAA-GGGTA
* ** *
6664747 AATTGACAAAAATACCCTCGAAAGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
**
6664774 AAATGACCGAAATAATCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
6664801 AAATGATCGAAATACCCCTCGAATGGTA
1 AAATGACCGAAATA-CCCTCGAAGGGTA
*
6664829 AAATGACCGAAATACCC-CTAAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
*
6664856 AAATGACCGAAATACCC-CTATAGGGTA
1 AAATGACCGAAATACCCTCGA-AGGGTA
6664883 AAATGAC
1 AAATGAC
6664890 TGTTATACCC
Statistics
Matches: 189, Mismatches: 26, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
26 8 0.04
27 151 0.80
28 30 0.16
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:6665289 original size:28 final size:28
Alignment explanation
Indices: 6665246--6665337 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
6665236 ACTGCATTGT
6665246 ACTGATTACTGTATTGGGCTAAGGCCCAC
1 ACTG-TTACTGTATTGGGCTAAGGCCCAC
*
6665275 ACTGTTATTGTATTGGGCTAAGGCCCACAC
1 ACTGTTACTGTATTGGGCTAAGG-CC-CAC
* *
6665305 ACTATTACTGTAATGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
6665333 ACTGT
1 ACTGT
6665338 ACTACTACTG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
28 25 0.45
29 8 0.14
30 23 0.41
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:6665322 original size:30 final size:30
Alignment explanation
Indices: 6665250--6665334 Score: 129
Period size: 30 Copynumber: 2.9 Consensus size: 30
6665240 CATTGTACTG
6665250 ATTACTGTATTGGGCTAAGG-CC-CACACT
1 ATTACTGTATTGGGCTAAGGCCCACACACT
* *
6665278 GTTATTGTATTGGGCTAAGGCCCACACACT
1 ATTACTGTATTGGGCTAAGGCCCACACACT
*
6665308 ATTACTGTAATGGGCTAAGGCCCACAC
1 ATTACTGTATTGGGCTAAGGCCCACAC
6665335 TGTACTACTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
28 18 0.36
29 2 0.04
30 30 0.60
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (30 bp):
ATTACTGTATTGGGCTAAGGCCCACACACT
Found at i:6684054 original size:84 final size:84
Alignment explanation
Indices: 6683953--6684107 Score: 213
Period size: 84 Copynumber: 1.8 Consensus size: 84
6683943 ATTAAATCCC
* * * *
6683953 GAAACAAAATTATATCAAAATAAAAT-ATGTTAAACGGTGAGAATAAATCCCAAAAAATATTTTA
1 GAAACAAAATAAAATC-AAATAAAATCATATTAAACGGCGAGAATAAATCCCAAAAAATATTTTA
*
6684017 TTTAATTGAATTCTAATTTG
65 ATTAATTGAATTCTAATTTG
* * * *
6684037 GAAACAAAATAAAATCAAATAAAATCTTATTAAACGGCGGGAATAAATCCCGAAATATATTTTAA
1 GAAACAAAATAAAATCAAATAAAATCATATTAAACGGCGAGAATAAATCCCAAAAAATATTTTAA
6684102 TTAATT
66 TTAATT
6684108 TTAATTTCTC
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
83 9 0.15
84 52 0.85
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.31
Consensus pattern (84 bp):
GAAACAAAATAAAATCAAATAAAATCATATTAAACGGCGAGAATAAATCCCAAAAAATATTTTAA
TTAATTGAATTCTAATTTG
Found at i:6684211 original size:87 final size:87
Alignment explanation
Indices: 6684069--6684331 Score: 334
Period size: 86 Copynumber: 3.0 Consensus size: 87
6684059 AATCTTATTA
* *
6684069 AACGGCGGGAATAAATCCCGAAATATATTTTAATTAATTTTAATTTCTCATTTTTGGCAACAAAA
1 AACGGCGGGAATAAATCCCGAAACAAATTTTAATTAATTTTAATTTCTCATTTTTGGCAACAAAA
6684134 TCAAAATGTAATAAATCCGTTG
66 TCAAAATGTAATAAATCCGTTG
* ** * * *
6684156 AACGGTGGGAATAAATCTTGAAA-AAAATTTATTTAATTTTAATTTCTCATTTTTTGCAACAAAA
1 AACGGCGGGAATAAATCCCGAAACAAATTTTAATTAATTTTAATTTCTCATTTTTGGCAACAAAA
6684220 TCAAAATGTAATAAATCCGTTG
66 TCAAAATGTAATAAATCCGTTG
* * * * * * *
6684242 AATGGCAGGAATAAATCCCGAAACAGATTTTAAATTAATTTTAA-TACTCAGTTTTGGAAATAAA
1 AACGGCGGGAATAAATCCCGAAACAAATTTT-AATTAATTTTAATTTCTCATTTTTGGCAACAAA
*
6684306 ATCAAAATTGGAATAAAAT-CGTTG
65 ATCAAAA-TGTAAT-AAATCCGTTG
6684330 AA
1 AA
6684332 TGGTGAGAAT
Statistics
Matches: 151, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
86 77 0.51
87 47 0.31
88 23 0.15
89 4 0.03
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (87 bp):
AACGGCGGGAATAAATCCCGAAACAAATTTTAATTAATTTTAATTTCTCATTTTTGGCAACAAAA
TCAAAATGTAATAAATCCGTTG
Found at i:6684359 original size:88 final size:85
Alignment explanation
Indices: 6684077--6684361 Score: 297
Period size: 86 Copynumber: 3.3 Consensus size: 85
6684067 TAAACGGCGG
* *
6684077 GAATAAATCCCGAAATATATTTTAATTAATTTTAATTTCTCATTTTTGGCAACAAAATCAAAATG
1 GAATAAAT-CCTAAA-AGATTTTAATTAATTTTAATTTCTCATTTTTGGCAACAAAATCAAAATG
* *
6684142 TAATAAATCCGTTGAACGGTGG
64 TAATAAATCCGTTGAATGGTGA
* * * * *
6684164 GAATAAATCTTGAAAAAAATTTATTTAATTTTAATTTCTCATTTTTTGCAACAAAATCAAAATGT
1 GAATAAATCCT-AAAAGATTTTAATTAATTTTAATTTCTCATTTTTGGCAACAAAATCAAAATGT
*
6684229 AATAAATCCGTTGAATGG-CA
65 AATAAATCCGTTGAATGGTGA
* * * * *
6684249 GGAATAAATCCCGAAACAGATTTTAAATTAATTTTAA-TACTCAGTTTTGGAAATAAAATCAAAA
1 -GAATAAAT-CCTAAA-AGATTTT-AATTAATTTTAATTTCTCATTTTTGGCAACAAAATCAAAA
*
6684313 TTGGAATAAAAT-CGTTGAATGGTGA
62 -TGTAAT-AAATCCGTTGAATGGTGA
*
6684338 GAATCAATCCTAAAATGGATTTTA
1 GAATAAATCCTAAAA--GATTTTA
6684362 TTTTACTCAT
Statistics
Matches: 165, Mismatches: 23, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
86 76 0.46
87 45 0.27
88 39 0.24
89 5 0.03
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.35
Consensus pattern (85 bp):
GAATAAATCCTAAAAGATTTTAATTAATTTTAATTTCTCATTTTTGGCAACAAAATCAAAATGTA
ATAAATCCGTTGAATGGTGA
Found at i:6684591 original size:79 final size:79
Alignment explanation
Indices: 6684293--6684596 Score: 389
Period size: 79 Copynumber: 3.8 Consensus size: 79
6684283 TAATACTCAG
* * * * * *
6684293 TTTTGGAAATAAAATCAAAA-TTGGAATAAAATCGTTGAATGG-TGAGAATCAATCCTAAAATGG
1 TTTTGGAAATAAAA-CAAAATTTGGAATAAAATCGTTGAACGGCAGA-AACCAATCCCAAAACGA
6684356 ATTTTATTTTACTCA-T
64 ATTTTATTTTACT-AGT
* * * * * *
6684372 TTTTGGCAATAAAACAAAATTTGGAATAAAATCGTTGAACAGCAAAAATCAATCCCTAAACAAAT
1 TTTTGGAAATAAAACAAAATTTGGAATAAAATCGTTGAACGGCAGAAACCAATCCCAAAACGAAT
*
6684437 TTTATTTTACTTGT
66 TTTATTTTACTAGT
* * * *
6684451 TTTTGGAAATAAAACAAAATTTGGAATAAAATCGGTGAACGGCAGAAACCAATTCCGAAACGGAT
1 TTTTGGAAATAAAACAAAATTTGGAATAAAATCGTTGAACGGCAGAAACCAATCCCAAAACGAAT
6684516 TTTATTTTACTAGT
66 TTTATTTTACTAGT
* *
6684530 TTTTGGAAATAAAACAAAATTTGGAATAAAATCGTTGAACGGTAGGAACCAATCCCAAAACGAAT
1 TTTTGGAAATAAAACAAAATTTGGAATAAAATCGTTGAACGGCAGAAACCAATCCCAAAACGAAT
6684595 TT
66 TT
6684597 CGTTTACCTT
Statistics
Matches: 195, Mismatches: 27, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
78 5 0.03
79 189 0.97
80 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (79 bp):
TTTTGGAAATAAAACAAAATTTGGAATAAAATCGTTGAACGGCAGAAACCAATCCCAAAACGAAT
TTTATTTTACTAGT
Found at i:6684680 original size:89 final size:86
Alignment explanation
Indices: 6684531--6684701 Score: 207
Period size: 89 Copynumber: 2.0 Consensus size: 86
6684521 TTTACTAGTT
* * * * *
6684531 TTTGGAAATAAAACAAAATTTGGAATAAAATCGTTGAACGGTAGGAACCAATCCCAAAACGAATT
1 TTTGGAAATAAAAAAAAATATGAAATAAAATCGTTGAACGGGAGGAACAAATCCCAAAACGAATT
*
6684596 TCGTTTACCTTTAATTTCCCG
66 TCATTTACCTTTAATTTCCCG
* * * *
6684617 TTTGGAAATAAAATAAAAATAATGAAATAAAATCCGTTGAACGGGGGGAATAAATCCCGAAACGG
1 TTTGGAAATAAAA-AAAAAT-ATGAAATAAAAT-CGTTGAACGGGAGGAACAAATCCCAAAACGA
* *
6684682 ATTTTATTTACTTTTAATTT
63 ATTTCATTTACCTTTAATTT
6684702 TAAAACAAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
86 13 0.19
87 5 0.07
88 10 0.14
89 42 0.60
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (86 bp):
TTTGGAAATAAAAAAAAATATGAAATAAAATCGTTGAACGGGAGGAACAAATCCCAAAACGAATT
TCATTTACCTTTAATTTCCCG
Found at i:6687277 original size:69 final size:69
Alignment explanation
Indices: 6687181--6687352 Score: 186
Period size: 69 Copynumber: 2.5 Consensus size: 69
6687171 ACGAAAGAAT
* * *
6687181 TTGCGCCCAGTGCTAGTCAGATAAACCGATAG-ATGTGTGCCTAGCACTAGTCAGATAAACTGAC
1 TTGCACCCAGCGCTAGTCAGATAAACCGA-AGAATGTGTGCCCAGCACTAGTCAGATAAACTGAC
6687245 GGAGG
65 GGAGG
* * * * *
6687250 TTGCACCCAGCGCTAGTCGGTTCAACCGACGAATGTGTGCCCAGCACTAGTCAGATAAACTGATG
1 TTGCACCCAGCGCTAGTCAGATAAACCGAAGAATGTGTGCCCAGCACTAGTCAGATAAACTGACG
* *
6687315 AAAG
66 GAGG
** * *
6687319 TTGGGCCCAGTGCTAGTC-GAATAAACCGACGAAT
1 TTGCACCCAGCGCTAGTCAG-ATAAACCGAAGAAT
6687353 AATTAGTGAG
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
68 2 0.02
69 84 0.98
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (69 bp):
TTGCACCCAGCGCTAGTCAGATAAACCGAAGAATGTGTGCCCAGCACTAGTCAGATAAACTGACG
GAGG
Found at i:6687328 original size:35 final size:35
Alignment explanation
Indices: 6687193--6687351 Score: 110
Period size: 35 Copynumber: 4.6 Consensus size: 35
6687183 GCGCCCAGTG
* * *
6687193 CTAGTCAGATAAACCGA-TAGA-TGTGTGCCTAGCA
1 CTAGTCAGATAAACCGACGAAAGT-TGTGCCCAGCA
* * * ** *
6687227 CTAGTCAGATAAACTGACGGAGGTTGCACCCAGCG
1 CTAGTCAGATAAACCGACGAAAGTTGTGCCCAGCA
* * * *
6687262 CTAGTCGGTTCAACCGACGAATG-TGTGCCCAGCA
1 CTAGTCAGATAAACCGACGAAAGTTGTGCCCAGCA
* * * **
6687296 CTAGTCAGATAAACTGATGAAAGTTGGGCCCAGTG
1 CTAGTCAGATAAACCGACGAAAGTTGTGCCCAGCA
6687331 CTAGTC-GAATAAACCGACGAA
1 CTAGTCAG-ATAAACCGACGAA
6687352 TAATTAGTGA
Statistics
Matches: 92, Mismatches: 29, Indels: 7
0.72 0.23 0.05
Matches are distributed among these distances:
34 42 0.46
35 49 0.53
36 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (35 bp):
CTAGTCAGATAAACCGACGAAAGTTGTGCCCAGCA
Found at i:6692157 original size:2 final size:2
Alignment explanation
Indices: 6692150--6692180 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6692140 ATATCACTTT
6692150 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 T
6692181 TATTCTCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6695783 original size:23 final size:23
Alignment explanation
Indices: 6695757--6695800 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6695747 CCTAGGCGCA
*
6695757 TGTAATATACCAAAAATTACTAC
1 TGTAATACACCAAAAATTACTAC
* *
6695780 TGTAATACCCCGAAAATTACT
1 TGTAATACACCAAAAATTACT
6695801 GCAGTAAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (23 bp):
TGTAATACACCAAAAATTACTAC
Found at i:6706330 original size:19 final size:19
Alignment explanation
Indices: 6706306--6706343 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6706296 ATAGAGATAA
6706306 CTCCATTTAAGATCATTTG
1 CTCCATTTAAGATCATTTG
*
6706325 CTCCATTTGAGATCATTTG
1 CTCCATTTAAGATCATTTG
6706344 TTTAATGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (19 bp):
CTCCATTTAAGATCATTTG
Found at i:6708678 original size:84 final size:83
Alignment explanation
Indices: 6708566--6709008 Score: 629
Period size: 84 Copynumber: 5.2 Consensus size: 83
6708556 TACGTTTTTG
* *
6708566 TTTGGAAACAAAA-AAATATCGAATAAAATCTTGTTCAACGGCGGGAATAAATCCCGAAACAGAT
1 TTTGGAAACAAAATAAA-ATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGAT
6708630 TTTATTTAATTCAATTC-ACA
65 TTTATTTAATT-AATTCTA-A
* ** *
6708650 TTTGTAAACAAAATAAAATCAAATAAAATCTTGTTAAACGATGGGAATAAATCCCAAAACAGATT
1 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATT
* *
6708715 TTATGTAATTCAATTCAAA
66 TTATTTAATT-AATTCTAA
* *
6708734 TTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACGGCAGGAATAAATCCCGAAACAGATT
1 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATT
6708799 TTATTTAATTATATTCTAA
66 TTATTTAATTA-ATTCTAA
* *
6708818 TTTGGAAACAAAATAAAATCAAAAAAAATCTTGTTAAACGGCAGGAATAAATCCCGAAACAGATT
1 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATT
6708883 TTATTTAATTATATTCTAA
66 TTATTTAATTA-ATTCTAA
* *
6708902 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAATGGCGGGAATAAATTCCGAAACAGATT
1 TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATT
*
6708967 TTATTTAATTTAATTTCTCATT
66 TTATTTAA-TTAA-TTCT-A-A
*
6708989 TTTGGCAACAAAATTAAAAT
1 TTTGGAAACAAAA-TAAAAT
6709009 GTAATAAATC
Statistics
Matches: 328, Mismatches: 23, Indels: 12
0.90 0.06 0.03
Matches are distributed among these distances:
83 1 0.00
84 297 0.91
85 11 0.03
86 1 0.00
87 12 0.04
88 6 0.02
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.31
Consensus pattern (83 bp):
TTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATT
TTATTTAATTAATTCTAA
Found at i:6708789 original size:168 final size:167
Alignment explanation
Indices: 6708498--6709008 Score: 647
Period size: 168 Copynumber: 3.0 Consensus size: 167
6708488 TTATATCATT
* * * * *
6708498 AAATCAAATTAAAAT-TTGTTAAACGATGAGAATAAATCCCAAAATAGA-ATTA-GTTGATTACG
1 AAATCAAA-TAAAATCTTGTTAAACGATGGGAATAAATCCCAAAACAGATTTTATG-TAATTACA
* ** * *
6708560 TTTTTGTTTGGAAACAAAA-AAATATCGAATAAAATCTTGTTCAACGGCGGGAATAAATCCCGAA
64 TTCTAATTTGGAAACAAAATAAA-ATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAA
*
6708624 ACAGATTTTATTTAATTCAATTC-ACATTTGTAAACAAAATA
128 ACAGATTTTATTTAATT-AATTCTA-ATTTGGAAACAAAATA
6708665 AAATCAAATAAAATCTTGTTAAACGATGGGAATAAATCCCAAAACAGATTTTATGTAATT-CAAT
1 AAATCAAATAAAATCTTGTTAAACGATGGGAATAAATCCCAAAACAGATTTTATGTAATTAC-AT
* * *
6708729 TCAAATTTGGAAACAAAATAAAATCAAATAAAATCTTATTAAACGGCAGGAATAAATCCCGAAAC
65 TCTAATTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAAC
6708794 AGATTTTATTTAATTATATTCTAATTTGGAAACAAAATA
130 AGATTTTATTTAATTA-ATTCTAATTTGGAAACAAAATA
* *** * * *
6708833 AAATCAAAAAAAATCTTGTTAAACGGCAGGAATAAATCCCGAAACAGATTTTATTTAATTATATT
1 AAATCAAATAAAATCTTGTTAAACGATGGGAATAAATCCCAAAACAGATTTTATGTAATTACATT
* *
6708898 CTAATTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAATGGCGGGAATAAATTCCGAAACA
66 CTAATTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACA
* *
6708963 GATTTTATTTAATTTAATTTCTCATTTTTGGCAACAAAATTA
131 GATTTTATTTAA-TTAA-TTCT-A-ATTTGGAAACAAAA-TA
6709005 AAAT
1 AAAT
6709009 GTAATAAATC
Statistics
Matches: 303, Mismatches: 28, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
166 6 0.02
167 41 0.14
168 225 0.74
169 12 0.04
170 1 0.00
171 12 0.04
172 6 0.02
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.31
Consensus pattern (167 bp):
AAATCAAATAAAATCTTGTTAAACGATGGGAATAAATCCCAAAACAGATTTTATGTAATTACATT
CTAATTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACA
GATTTTATTTAATTAATTCTAATTTGGAAACAAAATA
Found at i:6709102 original size:79 final size:77
Alignment explanation
Indices: 6709014--6709269 Score: 280
Period size: 79 Copynumber: 3.2 Consensus size: 77
6709004 AAAATGTAAT
* *
6709014 AAATCCATTGAACGGCAGGAATTAAAT-TTGAAATGAATTTTATTTTACTCGTTTTTGGAAATAA
1 AAAT-CATTGAACGGC-GGAA-TCAATCTCGAAA-GAATTTTATTTTACTCGTTTTTGGAAATAA
* *
6709078 AACAAAATTTAGAATA
62 AACAAAATGTGGAATA
* * * *
6709094 AAATCATTGAACGGCGAGAATCAATCCCAAAACGGATTTTATTTTACTCGTTTTTGAAAAATAAA
1 AAATCATTGAACGGCG-GAATCAATCTCGAAA-GAATTTTATTTTACTCGTTTTTG-GAAATAAA
*
6709159 ACAAAATGTGGAACA
63 ACAAAATGTGGAATA
** * * *
6709174 AAATTGTTGAACGGTGGGAATCAATCTGGAAACAGATTTTATTTTACTCGTTTTTGGAAATAAAA
1 AAATCATTGAACGG-CGGAATCAATCTCGAAAGA-ATTTTATTTTACTCGTTTTTGGAAATAAAA
6709239 CAAAATGTGGAATA
64 CAAAATGTGGAATA
* *
6709253 AAATCGTTAAACGGCGG
1 AAATCATTGAACGGCGG
6709270 GAGCCACTCT
Statistics
Matches: 148, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
78 7 0.05
79 72 0.49
80 68 0.46
81 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (77 bp):
AAATCATTGAACGGCGGAATCAATCTCGAAAGAATTTTATTTTACTCGTTTTTGGAAATAAAACA
AAATGTGGAATA
Found at i:6709187 original size:80 final size:79
Alignment explanation
Indices: 6709050--6709268 Score: 312
Period size: 80 Copynumber: 2.8 Consensus size: 79
6709040 TTTGAAATGA
* * *
6709050 ATTTTATTTTACTCGTTTTTGGAAATAAAACAAAATTTAGAATAAAATCATTGAACGGCGAGAAT
1 ATTTTATTTTACTCGTTTTTGGAAATAAAACAAAATGTGGAATAAAATCGTTGAACGGCGAGAAT
*
6709115 CAATCCCAAAACGG
66 CAATCCCAAAACAG
* * * * *
6709129 ATTTTATTTTACTCGTTTTTGAAAAATAAAACAAAATGTGGAACAAAATTGTTGAACGGTGGGAA
1 ATTTTATTTTACTCGTTTTTG-GAAATAAAACAAAATGTGGAATAAAATCGTTGAACGGCGAGAA
***
6709194 TCAATCTGGAAACAG
65 TCAATCCCAAAACAG
*
6709209 ATTTTATTTTACTCGTTTTTGGAAATAAAACAAAATGTGGAATAAAATCGTTAAACGGCG
1 ATTTTATTTTACTCGTTTTTGGAAATAAAACAAAATGTGGAATAAAATCGTTGAACGGCG
6709269 GGAGCCACTC
Statistics
Matches: 122, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
79 55 0.45
80 67 0.55
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.32
Consensus pattern (79 bp):
ATTTTATTTTACTCGTTTTTGGAAATAAAACAAAATGTGGAATAAAATCGTTGAACGGCGAGAAT
CAATCCCAAAACAG
Found at i:6709291 original size:79 final size:79
Alignment explanation
Indices: 6709050--6709296 Score: 325
Period size: 79 Copynumber: 3.1 Consensus size: 79
6709040 TTTGAAATGA
* * * *
6709050 ATTTTATTTTACTCGTTTTTGGAAATAAAACAAAATTTAGAATAAAATCATTGAACGGCGAGAAT
1 ATTTTATTTTACTCGTTTTTGGAAATAAAACAAAATGTGGAATAAAATCGTTGAACGGCGGGAAT
*
6709115 CAATCCCA-AAACGG
66 CAAT-CTAGAAACGG
* * * *
6709129 ATTTTATTTTACTCGTTTTTGAAAAATAAAACAAAATGTGGAACAAAATTGTTGAACGGTGGGAA
1 ATTTTATTTTACTCGTTTTTG-GAAATAAAACAAAATGTGGAATAAAATCGTTGAACGGCGGGAA
* *
6709194 TCAATCTGGAAACAG
65 TCAATCTAGAAACGG
* **
6709209 ATTTTATTTTACTCGTTTTTGGAAATAAAACAAAATGTGGAATAAAATCGTTAAACGGCGGGAGC
1 ATTTTATTTTACTCGTTTTTGGAAATAAAACAAAATGTGGAATAAAATCGTTGAACGGCGGGAAT
* *
6709274 CACTCTAGAAATGG
66 CAATCTAGAAACGG
6709288 ATTTTATTT
1 ATTTTATTT
6709297 ACCTTTAATT
Statistics
Matches: 144, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
79 78 0.54
80 66 0.46
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (79 bp):
ATTTTATTTTACTCGTTTTTGGAAATAAAACAAAATGTGGAATAAAATCGTTGAACGGCGGGAAT
CAATCTAGAAACGG
Found at i:6709586 original size:18 final size:18
Alignment explanation
Indices: 6709546--6709585 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
6709536 ATTTATTTAA
* *
6709546 TTTTTAAAAGAAAATGGT
1 TTTTTAAAAAAAAATAGT
6709564 TTTTTAAAAAAAAATA-T
1 TTTTTAAAAAAAAATAGT
6709581 TTTTT
1 TTTTT
6709586 TCTTCGCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (18 bp):
TTTTTAAAAAAAAATAGT
Found at i:6711275 original size:31 final size:31
Alignment explanation
Indices: 6711239--6711319 Score: 105
Period size: 31 Copynumber: 2.6 Consensus size: 31
6711229 AACATCCCAA
6711239 TGACTTAAATGTAAACTTTTGAATAAG-TCAG
1 TGACTTAAATGTAAACTTTTGAAT-AGTTCAG
* *
6711270 TGACTTAAATGAAAAATTTTGAATAGTTCAG
1 TGACTTAAATGTAAACTTTTGAATAGTTCAG
6711301 TGAC-TAAATTGT-AACTTTT
1 TGACTTAAA-TGTAAACTTTT
6711320 TTTAGTTAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
30 12 0.27
31 32 0.73
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (31 bp):
TGACTTAAATGTAAACTTTTGAATAGTTCAG
Found at i:6714188 original size:17 final size:16
Alignment explanation
Indices: 6714151--6714203 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
6714141 ACATTCTAGA
*
6714151 AAATTTGTAATAAATTTT
1 AAATTTCTAA-AAA-TTT
*
6714169 AAATTTTTAAAAATTAT
1 AAATTTCTAAAAATT-T
6714186 AAA-TTCTAAAAATTT
1 AAATTTCTAAAAATTT
6714201 AAA
1 AAA
6714204 ATAATAGATC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 4 0.12
16 12 0.38
17 7 0.22
18 9 0.28
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (16 bp):
AAATTTCTAAAAATTT
Found at i:6715415 original size:12 final size:12
Alignment explanation
Indices: 6715398--6715424 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6715388 ATTGTTGGAA
6715398 TTGCGTATTAGC
1 TTGCGTATTAGC
6715410 TTGCGTATTAGC
1 TTGCGTATTAGC
6715422 TTG
1 TTG
6715425 ATTGGCATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.15, G:0.26, T:0.44
Consensus pattern (12 bp):
TTGCGTATTAGC
Found at i:6715763 original size:11 final size:11
Alignment explanation
Indices: 6715749--6715773 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6715739 AATTACAATT
6715749 AATCAAATCAC
1 AATCAAATCAC
6715760 AATCAAATCAC
1 AATCAAATCAC
6715771 AAT
1 AAT
6715774 AAACAGAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (11 bp):
AATCAAATCAC
Found at i:6716763 original size:70 final size:70
Alignment explanation
Indices: 6716650--6716955 Score: 373
Period size: 70 Copynumber: 4.4 Consensus size: 70
6716640 GTAATAATCT
* * * * *
6716650 TTTTGCGCCCATCACTAGTTGGATAGACCAACGAATAGTGTGCCCAGCACTAGTCAAATAATTGA
1 TTTTGCGCCCAACGCTAGTCGGATAAACCAACGAATAGTGTGCCCAGCACTAGTCAAATAATCGA
6716715 CAATG
66 CAATG
* * *
6716720 TTTTGGGCCCAGCGCTAGTCGGATAAACCGACGAATAGTGTGCCCTA-CACTAGT-AGAATAATC
1 TTTTGCGCCCAACGCTAGTCGGATAAACCAACGAATAGTGTGCCC-AGCACTAGTCA-AATAATC
6716783 GACAATG
64 GACAATG
* * ** * * * *
6716790 TCTTGCGCTCAGTGCTAGTTGGATAAACCAACGAATAGTGTGCCTAGCACTAGCCGAATAATCGA
1 TTTTGCGCCCAACGCTAGTCGGATAAACCAACGAATAGTGTGCCCAGCACTAGTCAAATAATCGA
6716855 CAATG
66 CAATG
** * * * *
6716860 TTTTATGCCCAACGCTAATCGGATAAACCAACGAATAGTGTGCCTAGCACTAGTCGAATAACCGA
1 TTTTGCGCCCAACGCTAGTCGGATAAACCAACGAATAGTGTGCCCAGCACTAGTCAAATAATCGA
6716925 CAATG
66 CAATG
*
6716930 TTTTGCACCCAACGCTAGTCGGATAA
1 TTTTGCGCCCAACGCTAGTCGGATAA
6716956 TCAAAAATAT
Statistics
Matches: 202, Mismatches: 30, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
69 2 0.01
70 199 0.99
71 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (70 bp):
TTTTGCGCCCAACGCTAGTCGGATAAACCAACGAATAGTGTGCCCAGCACTAGTCAAATAATCGA
CAATG
Found at i:6716773 original size:35 final size:34
Alignment explanation
Indices: 6716734--6716925 Score: 83
Period size: 35 Copynumber: 5.5 Consensus size: 34
6716724 GGGCCCAGCG
*
6716734 CTAGTCGGATAAACCGACGAATAGTGTGCCCTACA
1 CTAGTCGAAT-AACCGACGAATAGTGTGCCCTACA
* * * *
6716769 CTAGTAGAATAATCGAC-AAT-GTCTTGCGCT-CA
1 CTAGTCGAATAACCGACGAATAGT-GTGCCCTACA
* * *
6716801 GTGCTAGTTGGATAAACCAACGAATAGTGTG-CCTAGCA
1 ---CTAGTCGAAT-AACCGACGAATAGTGTGCCCTA-CA
* * * * *
6716839 CTAGCCGAATAATCGAC-AAT-GTTTTATGCCCAACG
1 CTAGTCGAATAACCGACGAATAG---TGTGCCCTACA
* * *
6716874 CTAATCGGATAAACCAACGAATAGTGTG-CCTAGCA
1 CTAGTCGAAT-AACCGACGAATAGTGTGCCCTA-CA
6716909 CTAGTCGAATAACCGAC
1 CTAGTCGAATAACCGAC
6716926 AATGTTTTGC
Statistics
Matches: 110, Mismatches: 30, Indels: 35
0.63 0.17 0.20
Matches are distributed among these distances:
32 5 0.05
33 11 0.10
34 20 0.18
35 46 0.42
36 15 0.14
37 8 0.07
38 5 0.05
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (34 bp):
CTAGTCGAATAACCGACGAATAGTGTGCCCTACA
Found at i:6716947 original size:140 final size:140
Alignment explanation
Indices: 6716650--6716955 Score: 416
Period size: 140 Copynumber: 2.2 Consensus size: 140
6716640 GTAATAATCT
* * * * *
6716650 TTTTGCGCCCATCACTAGTTGGATAGACCAACGAATAGTGTGCCCAGCACTAGTCAAATAATTGA
1 TTTTGCGCCCAACGCTAGTTGGATAAACCAACGAATAGTGTGCCCAGCACTAGCCAAATAATCGA
* * * *
6716715 CAATGTTTTGGGCCCAGCGCTAGTCGGATAAACCGACGAATAGTGTGCCCTACACTAGTAGAATA
66 CAATGTTTTAGGCCCAACGCTAATCGGATAAACCAACGAATAGTGTGCCCTACACTAGTAGAATA
*
6716780 ATCGACAATG
131 ACCGACAATG
* * ** * *
6716790 TCTTGCGCTCAGTGCTAGTTGGATAAACCAACGAATAGTGTGCCTAGCACTAGCCGAATAATCGA
1 TTTTGCGCCCAACGCTAGTTGGATAAACCAACGAATAGTGTGCCCAGCACTAGCCAAATAATCGA
* *
6716855 CAATGTTTTATGCCCAACGCTAATCGGATAAACCAACGAATAGTGTG-CCTAGCACTAGTCGAAT
66 CAATGTTTTAGGCCCAACGCTAATCGGATAAACCAACGAATAGTGTGCCCTA-CACTAGTAGAAT
6716919 AACCGACAATG
130 AACCGACAATG
* *
6716930 TTTTGCACCCAACGCTAGTCGGATAA
1 TTTTGCGCCCAACGCTAGTTGGATAA
6716956 TCAAAAATAT
Statistics
Matches: 142, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
139 4 0.03
140 138 0.97
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (140 bp):
TTTTGCGCCCAACGCTAGTTGGATAAACCAACGAATAGTGTGCCCAGCACTAGCCAAATAATCGA
CAATGTTTTAGGCCCAACGCTAATCGGATAAACCAACGAATAGTGTGCCCTACACTAGTAGAATA
ACCGACAATG
Found at i:6719409 original size:12 final size:12
Alignment explanation
Indices: 6719388--6719510 Score: 77
Period size: 12 Copynumber: 9.8 Consensus size: 12
6719378 AAAAACGAAA
*
6719388 TGATTAAAAACT
1 TGATGAAAAACT
* *
6719400 TGATGGAAAATT
1 TGATGAAAAACT
*
6719412 TTATGAAAAGACT
1 TGATGAAAA-ACT
6719425 TGATGAAAAACT
1 TGATGAAAAACT
* *
6719437 TTA-AAAAGAACT
1 TGATGAAA-AACT
* *
6719449 TGCTGCAAAACT
1 TGATGAAAAACT
*
6719461 TGATAAAAAACT
1 TGATGAAAAACT
*
6719473 TGGTAATTAAAAACT
1 T-G--ATGAAAAACT
*
6719488 TGATAAAAGAACT
1 TGATGAAA-AACT
*
6719501 AGATGAAAAA
1 TGATGAAAAA
6719511 TACTTGAAGA
Statistics
Matches: 84, Mismatches: 20, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
11 3 0.04
12 47 0.56
13 23 0.27
14 1 0.01
15 10 0.12
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (12 bp):
TGATGAAAAACT
Found at i:6719449 original size:24 final size:25
Alignment explanation
Indices: 6719388--6719510 Score: 101
Period size: 25 Copynumber: 4.9 Consensus size: 25
6719378 AAAAACGAAA
* * *
6719388 TGATTAAA-AACTTGATGGAAAATT
1 TGATAAAAGAACTTGATGAAAAACT
*
6719412 TTATGAAAAG-ACTTGATGAAAAACT
1 TGAT-AAAAGAACTTGATGAAAAACT
* * *
6719437 TTA-AAAAGAACTTGCTGCAAAACT
1 TGATAAAAGAACTTGATGAAAAACT
*
6719461 TGATAAAA-AACTTGGTAATTAAAAACT
1 TGATAAAAGAACTT-G--ATGAAAAACT
*
6719488 TGATAAAAGAACTAGATGAAAAA
1 TGATAAAAGAACTTGATGAAAAA
6719511 TACTTGAAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
23 5 0.06
24 23 0.29
25 31 0.39
27 16 0.20
28 4 0.05
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (25 bp):
TGATAAAAGAACTTGATGAAAAACT
Found at i:6719528 original size:18 final size:18
Alignment explanation
Indices: 6719505--6719542 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
6719495 AGAACTAGAT
*
6719505 GAAAAATACTTGAA-GAAA
1 GAAAAACACTT-AATGAAA
6719523 GAAAAACACTTAATGAAA
1 GAAAAACACTTAATGAAA
6719541 GA
1 GA
6719543 CTTAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.61, C:0.08, G:0.16, T:0.16
Consensus pattern (18 bp):
GAAAAACACTTAATGAAA
Found at i:6724736 original size:24 final size:24
Alignment explanation
Indices: 6724709--6724826 Score: 94
Period size: 25 Copynumber: 4.7 Consensus size: 24
6724699 CGAAATAATT
* *
6724709 AAAAACTTGATGGAAAATTTTATGA
1 AAAAACTTGATGAAAAACTTTAT-A
*
6724734 AAAGACTTGATGAAAAACTTTA-A
1 AAAAACTTGATGAAAAACTTTATA
* * *
6724757 AAAGAACTTGCTGCAAAACTTGATA
1 AAA-AACTTGATGAAAAACTTTATA
* *
6724782 AAAAACTTGGTAATTAAAAACTTGATA
1 AAAAACTT-G--ATGAAAAACTTTATA
*
6724809 AAAGAACTAGATGAAAAA
1 AAA-AACTTGATGAAAAA
6724827 TACTTGAAGA
Statistics
Matches: 75, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
23 4 0.05
24 20 0.27
25 31 0.41
27 16 0.21
28 4 0.05
ACGTcount: A:0.52, C:0.08, G:0.14, T:0.25
Consensus pattern (24 bp):
AAAAACTTGATGAAAAACTTTATA
Found at i:6724786 original size:12 final size:12
Alignment explanation
Indices: 6724709--6724833 Score: 63
Period size: 12 Copynumber: 9.8 Consensus size: 12
6724699 CGAAATAATT
*
6724709 AAAAACTTGATG
1 AAAAACTTGATA
* * *
6724721 GAAAATTTTATGA
1 AAAAACTTGAT-A
* *
6724734 AAAGACTTGATG
1 AAAAACTTGATA
*
6724746 AAAAACTTTA-A
1 AAAAACTTGATA
* *
6724757 AAAGAACTTGCTG
1 AAA-AACTTGATA
*
6724770 CAAAACTTGATA
1 AAAAACTTGATA
*
6724782 AAAAACTTGGTAATT
1 AAAAACTT-G--ATA
6724797 AAAAACTTGATA
1 AAAAACTTGATA
*
6724809 AAAGAACTAGATGA
1 AAA-AACTTGAT-A
6724823 AAAATACTTGA
1 AAAA-ACTTGA
6724834 AGAAAGAAAA
Statistics
Matches: 81, Mismatches: 23, Indels: 16
0.68 0.19 0.13
Matches are distributed among these distances:
11 3 0.04
12 40 0.49
13 18 0.22
14 10 0.12
15 10 0.12
ACGTcount: A:0.50, C:0.09, G:0.14, T:0.26
Consensus pattern (12 bp):
AAAAACTTGATA
Found at i:6724844 original size:18 final size:18
Alignment explanation
Indices: 6724821--6724858 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
6724811 AGAACTAGAT
*
6724821 GAAAAATACTTGAA-GAAA
1 GAAAAACACTT-AATGAAA
6724839 GAAAAACACTTAATGAAA
1 GAAAAACACTTAATGAAA
6724857 GA
1 GA
6724859 CTTAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.61, C:0.08, G:0.16, T:0.16
Consensus pattern (18 bp):
GAAAAACACTTAATGAAA
Found at i:6728292 original size:12 final size:12
Alignment explanation
Indices: 6728275--6728304 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
6728265 TCAGTAAGTT
6728275 ACACGGCCTAGC
1 ACACGGCCTAGC
6728287 ACACGGCCTAGC
1 ACACGGCCTAGC
6728299 ACACGG
1 ACACGG
6728305 GCGTGTGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.40, G:0.27, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:6744688 original size:23 final size:22
Alignment explanation
Indices: 6744660--6744705 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
6744650 TAACATCATG
6744660 TTAATGATTATAATATTATAATA
1 TTAATGATTATAA-ATTATAATA
*
6744683 TTAATGATTATAAATTTTAATA
1 TTAATGATTATAAATTATAATA
6744705 T
1 T
6744706 GTTATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
TTAATGATTATAAATTATAATA
Found at i:6744718 original size:16 final size:17
Alignment explanation
Indices: 6744674--6744719 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
6744664 TGATTATAAT
6744674 ATTATAATATT-A-ATG
1 ATTATAATATTAATATG
*
6744689 ATTATAAATTTTAATATG
1 ATTAT-AATATTAATATG
6744707 -TTATAATATTAAT
1 ATTATAATATTAAT
6744720 GATTTTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 5 0.19
16 13 0.50
17 5 0.19
18 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (17 bp):
ATTATAATATTAATATG
Found at i:6746797 original size:63 final size:63
Alignment explanation
Indices: 6746707--6746831 Score: 169
Period size: 63 Copynumber: 2.0 Consensus size: 63
6746697 TGACAAGCGT
* * * *
6746707 GTAACTTACTGTTTATGAATCAGAGTCACACGGGCCAGGGAAACAGGTCTGTGTCCAGGCCAA
1 GTAACTCACTATTTATGAAACAGAGTCACACGGGCCAGAGAAACAGGTCTGTGTCCAGGCCAA
* * * * *
6746770 GTAACTCACTATTTGTGAAACAGAGTCACATGGGTCAGAGACACAGGTGTGTGTCCAGGCCA
1 GTAACTCACTATTTATGAAACAGAGTCACACGGGCCAGAGAAACAGGTCTGTGTCCAGGCCA
6746832 TGTGAGAGAT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (63 bp):
GTAACTCACTATTTATGAAACAGAGTCACACGGGCCAGAGAAACAGGTCTGTGTCCAGGCCAA
Found at i:6748715 original size:61 final size:60
Alignment explanation
Indices: 6748582--6749198 Score: 403
Period size: 61 Copynumber: 10.1 Consensus size: 60
6748572 CAACAATATA
* * * * * *
6748582 TATATTCATATACGAATCAAATTCCGCAATGTATAATCATATAAAAATCAATTCGGCAAT
1 TATATCCATATACAAATCAATTTCAGCAATGTATAATCATATACAAATTAATTCGGCAAT
* * ** * *
6748642 GTATAACTATATATGAATCAAGTTCGGCAATGTATAATCATATACAAATTAATTCGGCAACT
1 -TATATCCATATACAAATCAATTTCAGCAATGTATAATCATATACAAATTAATTCGGCAA-T
* * * * *
6748704 TATATCCATATACAATTCAATTTCAACAATGTATAACCATATACAAATTAATTTCAGCAAAG
1 TATATCCATATACAAATCAATTTCAGCAATGTATAATCATATACAAATTAA-TTCGGC-AAT
* ** * * **
6748766 TATAAT-CATATACAAATCAATTT-GGCAACT-TATCTTCATATACAAATCAATTTTGTTAAT
1 TAT-ATCCATATACAAATCAATTTCAGCAA-TGTATAATCATATACAAATTAA-TTCGGCAAT
* * * * * *
6748826 GTATAACCATATACAAATAAATTTCAGCAACGTACAACCATATACAAATTAATTCAGCAACT
1 -TATATCCATATACAAATCAATTTCAGCAATGTATAATCATATACAAATTAATTCGGCAA-T
* **
6748888 TATATCCATATACAAATTAA-TTCAGCAACT-TAT-ATCCATATAC-AATTCAATTTCAACAAT
1 TATATCCATATACAAATCAATTTCAGCAA-TGTATAAT-CATATACAAATT-AA-TTCGGCAAT
* * ** * **
6748948 GTATAACCATATACAAATTAATTTCAAAAATGTATAATTATATATGAATTAATTCGGCAACT
1 -TATATCCATATACAAATCAATTTCAGCAATGTATAATCATATACAAATTAATTCGGCAA-T
* * * * * *
6749010 TATCTTCATATACAAATCAATTTC-GATAATGTATAATCATATCCAAATAAATTTCAGCAAT
1 TATATCCATATACAAATCAATTTCAG-CAATGTATAATCATATACAAATTAA-TTCGGCAAT
* * * * ***
6749071 GTACAACCATATACGAATTAA-TTCAGCAACT-TAT-ATCCATATAC-AATTCAATGTTAACAAC
1 -TATATCCATATACAAATCAATTTCAGCAA-TGTATAAT-CATATACAAATT-AAT-TCGGCAA-
*
6749132 G
60 T
* * * * *
6749133 TATAACCATATACAAATTAATTTCAGCAATGTATAATTATATACGAATTAATTCAGCAAT
1 TATATCCATATACAAATCAATTTCAGCAATGTATAATCATATACAAATTAATTCGGCAAT
6749193 ATATAT
1 -TATAT
6749199 ATCTATAACT
Statistics
Matches: 434, Mismatches: 88, Indels: 68
0.74 0.15 0.12
Matches are distributed among these distances:
59 5 0.01
60 29 0.07
61 278 0.64
62 106 0.24
63 16 0.04
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (60 bp):
TATATCCATATACAAATCAATTTCAGCAATGTATAATCATATACAAATTAATTCGGCAAT
Found at i:6748922 original size:24 final size:27
Alignment explanation
Indices: 6748678--6748920 Score: 96
Period size: 31 Copynumber: 8.1 Consensus size: 27
6748668 GCAATGTATA
*
6748678 ATCATATACAAATTAATTCGGCAACTTAT
1 ATCATATACAAATTAATTCAGCAAC-T-T
*
6748707 ATCCATATAC-AATTCAATTTCAACAA-TGT
1 AT-CATATACAAATT-AA-TTCAGCAACT-T
*
6748736 ATAACCATATACAAATTAATTTCAGCAAAGTAT
1 AT---CATATACAAATTAA-TTCAGC-AACT-T
* **
6748769 AATCATATACAAATCAATTTGGCAACTT
1 -ATCATATACAAATTAATTCAGCAACTT
* ** *
6748797 ATCTTCATATACAAATCAATTTTGTTAA-TGT
1 A---TCATATACAAATTAATTCAG-CAACT-T
* *
6748828 ATAACCATATACAAATAAATTTCAGCAACGTACA
1 AT---CATATACAAATTAA-TTCAGCAAC-T--T
*
6748862 ACCATATACAAATTAATTCAGCAACTTAT
1 ATCATATACAAATTAATTCAGCAAC-T-T
6748891 ATCCATATACAAATTAATTCAGCAACTT
1 AT-CATATACAAATTAATTCAGCAACTT
6748919 AT
1 AT
6748921 ATCCATATAC
Statistics
Matches: 169, Mismatches: 23, Indels: 45
0.71 0.10 0.19
Matches are distributed among these distances:
27 1 0.01
28 5 0.03
29 15 0.09
30 66 0.39
31 67 0.40
32 9 0.05
33 3 0.02
34 3 0.02
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (27 bp):
ATCATATACAAATTAATTCAGCAACTT
Found at i:6748955 original size:214 final size:215
Alignment explanation
Indices: 6748680--6749221 Score: 774
Period size: 214 Copynumber: 2.5 Consensus size: 215
6748670 AATGTATAAT
*
6748680 CATATACAAATTAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATA
1 CATATACAAATTAATTCAGCAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATA
*
6748745 TACAAATTAATTTCAGCAAA-GTATAATCATATACAAATCAATTTGGCAACTTATCTTCATATAC
66 TACAAATTAATTTCAGCAAATGTATAATCATATACAAATCAATTCGGCAACTTATCTTCATATAC
* *
6748809 AAATCAATTTTGTTAATGTATAACCATATACAAATAAATTTCAGCAACGTACAACCATATACAAA
131 AAATCAATTTCGATAATGTATAACCATATACAAATAAATTTCAGCAACGTACAACCATATACAAA
6748874 TTAATTCAGCAACTTATATC
196 TTAATTCAGCAACTTATATC
6748894 CATATACAAATTAATTCAGCAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATA
1 CATATACAAATTAATTCAGCAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATA
* * ** *
6748959 TACAAATTAATTTCA-AAAATGTATAATTATATATGAATTAATTCGGCAACTTATCTTCATATAC
66 TACAAATTAATTTCAGCAAATGTATAATCATATACAAATCAATTCGGCAACTTATCTTCATATAC
* * * *
6749023 AAATCAATTTCGATAATGTATAATCATATCCAAATAAATTTCAGCAATGTACAACCATATACGAA
131 AAATCAATTTCGATAATGTATAACCATATACAAATAAATTTCAGCAACGTACAACCATATACAAA
6749088 TTAATTCAGCAACTTATATC
196 TTAATTCAGCAACTTATATC
* * * * * **
6749108 CATATAC-AATTCAATGTTAACAACGTATAACCATATACAAATT-AATTTCAGCAATGTATAATT
1 CATATACAAATT-AAT-TCAGCAACTTATATCCATATAC-AATTCAATTTCAACAATGTATAACC
* * *
6749171 ATATACGAATTAA-TTCAGC-AATATATATATC-TATAACTAATCAAATTCGGC
63 ATATACAAATTAATTTCAGCAAATGTATA-ATCATAT-ACAAATC-AATTCGGC
6749222 CACGTATATA
Statistics
Matches: 293, Mismatches: 27, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
213 7 0.02
214 221 0.75
215 53 0.18
216 12 0.04
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (215 bp):
CATATACAAATTAATTCAGCAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATA
TACAAATTAATTTCAGCAAATGTATAATCATATACAAATCAATTCGGCAACTTATCTTCATATAC
AAATCAATTTCGATAATGTATAACCATATACAAATAAATTTCAGCAACGTACAACCATATACAAA
TTAATTCAGCAACTTATATC
Found at i:6749023 original size:92 final size:92
Alignment explanation
Indices: 6748609--6749191 Score: 454
Period size: 92 Copynumber: 6.3 Consensus size: 92
6748599 CAAATTCCGC
** * * * * ** * ** *
6748609 AATGTATAATCATATAAAAATCAATTCGGCAA-TGTATAACTATATATGAATCAAGTTCGGCAAT
1 AATGTATAATCATATACGAATTAATTCAGCAACT-TATATCCATATACAAATCAATTTCAACAAC
* *
6748673 GTATAATCATATACAAATTAA-TTCGGCA
65 GTATAACCATATACAAATTAATTTCAG-A
* * * * *
6748701 ACT-TAT-ATCCATATAC-AATTCAATTTCAACAA-TGTATAACCATATACAAATTAATTTCAGC
1 AATGTATAAT-CATATACGAATT-AA-TTCAGCAACT-TATATCCATATACAAATCAATTTCAAC
* * * *
6748762 AAAGTATAATCATATACAAATCAATTT-GGCA
62 AACGTATAACCATATACAAATTAATTTCAG-A
* ** * * ** * * * *
6748793 ACT-TATCTTCATATACAAATCAATTTTGTTAA-TGTATAACCATATACAAATAAATTTCAGCAA
1 AATGTATAATCATATACGAATTAATTCAG-CAACT-TATATCCATATACAAATCAATTTCAACAA
*
6748856 CGTACAACCATATACAAATTAA-TTCAGCA
64 CGTATAACCATATACAAATTAATTTCAG-A
* * * *
6748885 ACT-TAT-ATCCATATACAAATTAATTCAGCAACTTATATCCATATACAATTCAATTTCAACAAT
1 AATGTATAAT-CATATACGAATTAATTCAGCAACTTATATCCATATACAAATCAATTTCAACAAC
*
6748948 GTATAACCATATACAAATTAATTTCAAA
65 GTATAACCATATACAAATTAATTTCAGA
* * * * * * * *
6748976 AATGTATAATTATATATGAATTAATTCGGCAACTTATCTTCATATACAAATCAATTTCGATAATG
1 AATGTATAATCATATACGAATTAATTCAGCAACTTATATCCATATACAAATCAATTTCAACAACG
* * * *
6749041 TATAATCATATCCAAATAAATTTCAGC
66 TATAACCATATACAAATTAATTTCAGA
* * *
6749068 AATGTACAACCATATACGAATTAATTCAGCAACTTATATCCATATACAATTCAATGTT-AACAAC
1 AATGTATAATCATATACGAATTAATTCAGCAACTTATATCCATATACAAATCAAT-TTCAACAAC
*
6749132 GTATAACCATATACAAATTAATTTCAGC
65 GTATAACCATATACAAATTAATTTCAGA
*
6749160 AATGTATAATTATATACGAATTAATTCAGCAA
1 AATGTATAATCATATACGAATTAATTCAGCAA
6749192 TATATATATC
Statistics
Matches: 408, Mismatches: 69, Indels: 28
0.81 0.14 0.06
Matches are distributed among these distances:
90 5 0.01
91 66 0.16
92 327 0.80
93 10 0.02
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (92 bp):
AATGTATAATCATATACGAATTAATTCAGCAACTTATATCCATATACAAATCAATTTCAACAACG
TATAACCATATACAAATTAATTTCAGA
Found at i:6749108 original size:184 final size:183
Alignment explanation
Indices: 6748833--6749191 Score: 526
Period size: 184 Copynumber: 2.0 Consensus size: 183
6748823 AATGTATAAC
* * *
6748833 CATATACAAATAAATTTCAGCAACGTACAACCATATACAAATTAATTCAGCAACTTATATCCATA
1 CATATACAAATAAATTTCAGCAACGTACAACCATATACAAATAAATTCAGCAACTTACAACCATA
*
6748898 TACAAATTAATTCAGCAACTTATATCCATATACAATTCAAT-TTCAACAATGTATAACCATATAC
66 TACAAATTAATTCAGCAACTTATATCCATATACAATTCAATGTT-AACAACGTATAACCATATAC
* *
6748962 AAATTAATTTCAAAAATGTATAATTATATATGAATTAATTCGGCAACTTATCTT
130 AAATTAATTTCAAAAATGTATAATTATATACGAATTAATTCAGCAACTTATCTT
* * * * * *
6749016 CATATACAAATCAATTTC-GATAATGTATAATCATATCCAAATAAATTTCAGCAA-TGTACAACC
1 CATATACAAATAAATTTCAG-CAACGTACAACCATATACAAATAAA-TTCAGCAACT-TACAACC
*
6749079 ATATACGAATTAATTCAGCAACTTATATCCATATACAATTCAATGTTAACAACGTATAACCATAT
63 ATATACAAATTAATTCAGCAACTTATATCCATATACAATTCAATGTTAACAACGTATAACCATAT
**
6749144 ACAAATTAATTTCAGCAATGTATAATTATATACGAATTAATTCAGCAA
128 ACAAATTAATTTCAAAAATGTATAATTATATACGAATTAATTCAGCAA
6749192 TATATATATC
Statistics
Matches: 157, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
182 1 0.01
183 37 0.24
184 117 0.75
185 2 0.01
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (183 bp):
CATATACAAATAAATTTCAGCAACGTACAACCATATACAAATAAATTCAGCAACTTACAACCATA
TACAAATTAATTCAGCAACTTATATCCATATACAATTCAATGTTAACAACGTATAACCATATACA
AATTAATTTCAAAAATGTATAATTATATACGAATTAATTCAGCAACTTATCTT
Found at i:6749198 original size:92 final size:91
Alignment explanation
Indices: 6748673--6749191 Score: 466
Period size: 92 Copynumber: 5.6 Consensus size: 91
6748663 GTTCGGCAAT
* * *
6748673 GTATAATCATATACAAATTAA-TTCGGCAACTTATATCCATATAC-AATTCAATTTCAACAA-TG
1 GTATAACCATATACAAATTAATTTCAGCAACTTATAT-CATATACGAATT-AA-TTCAGCAACT-
* * *
6748735 TATAACCATATACAAATT-AATTTCAGCAAA
62 TATATCCATATAC-AATTCAATTTCAACAAC
* * * * * * ** *
6748765 GTATAATCATATACAAATCAATTT-GGCAACTTATCTTCATATACAAATCAATTTTGTTAA-TGT
1 GTATAACCATATACAAATTAATTTCAGCAACTTAT-ATCATATACGAATTAATTCAG-CAACT-T
* * * *
6748828 ATAACCATATACAAATAAATTTCAGCAAC
63 ATATCCATATACAATTCAATTTCAACAAC
* *
6748857 GTACAACCATATACAAATTAA-TTCAGCAACTTATATCCATATACAAATTAATTCAGCAACTTAT
1 GTATAACCATATACAAATTAATTTCAGCAACTTATAT-CATATACGAATTAATTCAGCAACTTAT
*
6748921 ATCCATATACAATTCAATTTCAACAAT
65 ATCCATATACAATTCAATTTCAACAAC
* * * * *
6748948 GTATAACCATATACAAATTAATTTCA-AAAATGTATAATTATATATGAATTAATTCGGCAACTTA
1 GTATAACCATATACAAATTAATTTCAGCAACT-TAT-ATCATATACGAATTAATTCAGCAACTTA
* * * * * *
6749012 TCTTCATATACAAATCAATTTCGATAAT
64 TATCCATATACAATTCAATTTCAACAAC
* * * * *
6749040 GTATAATCATATCCAAATAAATTTCAGCAA-TGTACAACCATATACGAATTAATTCAGCAACTTA
1 GTATAACCATATACAAATTAATTTCAGCAACT-TA-TATCATATACGAATTAATTCAGCAACTTA
6749104 TATCCATATACAATTCAATGTT-AACAAC
64 TATCCATATACAATTCAAT-TTCAACAAC
*
6749132 GTATAACCATATACAAATTAATTTCAGCAA-TGTATAATTATATACGAATTAATTCAGCAA
1 GTATAACCATATACAAATTAATTTCAGCAACT-TAT-ATCATATACGAATTAATTCAGCAA
6749192 TATATATATC
Statistics
Matches: 356, Mismatches: 56, Indels: 30
0.81 0.13 0.07
Matches are distributed among these distances:
91 58 0.16
92 286 0.80
93 12 0.03
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (91 bp):
GTATAACCATATACAAATTAATTTCAGCAACTTATATCATATACGAATTAATTCAGCAACTTATA
TCCATATACAATTCAATTTCAACAAC
Found at i:6761652 original size:17 final size:16
Alignment explanation
Indices: 6761622--6761657 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
6761612 CCGTATACAA
6761622 TTTTTTTTCAATTTTT
1 TTTTTTTTCAATTTTT
*
6761638 TTTTCTTTTCGATTTTT
1 TTTT-TTTTCAATTTTT
6761655 TTT
1 TTT
6761658 CTTCGAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTTTTTCAATTTTT
Found at i:6761653 original size:15 final size:16
Alignment explanation
Indices: 6761635--6761674 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
6761625 TTTTTCAATT
6761635 TTTTTTTCTTTTCG-A
1 TTTTTTTCTTTTCGAA
*
6761650 TTTTTTT-TCTTCGAA
1 TTTTTTTCTTTTCGAA
6761665 TTTTTTTCTT
1 TTTTTTTCTT
6761675 CGAAACTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 5 0.24
15 15 0.71
16 1 0.05
ACGTcount: A:0.07, C:0.12, G:0.05, T:0.75
Consensus pattern (16 bp):
TTTTTTTCTTTTCGAA
Found at i:6761672 original size:14 final size:14
Alignment explanation
Indices: 6761635--6761678 Score: 61
Period size: 14 Copynumber: 3.0 Consensus size: 14
6761625 TTTTTCAATT
*
6761635 TTTTTTTCTTTTCGAT
1 TTTTTTTC--TTCGAA
6761651 TTTTTTTCTTCGAA
1 TTTTTTTCTTCGAA
6761665 TTTTTTTCTTCGAA
1 TTTTTTTCTTCGAA
6761679 ACTACAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 19 0.70
16 8 0.30
ACGTcount: A:0.11, C:0.14, G:0.07, T:0.68
Consensus pattern (14 bp):
TTTTTTTCTTCGAA
Found at i:6766325 original size:50 final size:50
Alignment explanation
Indices: 6766250--6766387 Score: 170
Period size: 50 Copynumber: 2.8 Consensus size: 50
6766240 TTTCTTGTAC
* * *
6766250 TGCCAATGCCATATCCCAGATATGGTCTTACAAGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAAGGGACTTCTCATATCGG
* * ** * *
6766300 TGCCCATGTCATGTCCCAGACATGGTCTTACGGGGGACTTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAAGGGACTTCTCATATCGG
*
6766350 TGCCAATGCCATG-CCTCAGACATGGTCTTACATGGGAC
1 TGCCAATGCCATGTCC-CAGACATGGTCTTACAAGGGAC
6766388 CTCTTTACCC
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 2 0.03
50 72 0.97
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAAGGGACTTCTCATATCGG
Found at i:6772030 original size:21 final size:20
Alignment explanation
Indices: 6772014--6772082 Score: 77
Period size: 21 Copynumber: 3.4 Consensus size: 20
6772004 GATGTTTATA
6772014 TGAATCGATTGTTTGTTGTTT
1 TGAATCGATTGTTTGTT-TTT
* * *
6772035 TAAATCAATTTTTTGTTTCTT
1 TGAATCGATTGTTTGTTT-TT
6772056 TGAATCGATTGTTT-TTTGTT
1 TGAATCGATTGTTTGTTT-TT
6772076 TGAATCG
1 TGAATCG
6772083 GTTCATTATT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
20 13 0.32
21 27 0.68
ACGTcount: A:0.19, C:0.07, G:0.17, T:0.57
Consensus pattern (20 bp):
TGAATCGATTGTTTGTTTTT
Found at i:6772079 original size:20 final size:20
Alignment explanation
Indices: 6772014--6772105 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
6772004 GATGTTTATA
*
6772014 TGAATCGATTGTTTGTTGTTT
1 TGAATCGATTGTTTTTTG-TT
* * * *
6772035 TAAATCAATTTTTTGTTTCTT
1 TGAATCGATTGTTT-TTTGTT
6772056 TGAATCGATTGTTTTTTGTT
1 TGAATCGATTGTTTTTTGTT
* ** *
6772076 TGAATCGGTTCATTATTGTT
1 TGAATCGATTGTTTTTTGTT
*
6772096 TAAATCGATT
1 TGAATCGATT
6772106 CAAACTCCAA
Statistics
Matches: 55, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
20 29 0.53
21 24 0.44
22 2 0.04
ACGTcount: A:0.21, C:0.08, G:0.16, T:0.55
Consensus pattern (20 bp):
TGAATCGATTGTTTTTTGTT
Found at i:6774940 original size:4 final size:4
Alignment explanation
Indices: 6774933--6774958 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
6774923 TAAATAAAAC
6774933 TCTT TCTT TCTT TCTT TCTT TCTT TC
1 TCTT TCTT TCTT TCTT TCTT TCTT TC
6774959 CAATCAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TCTT
Found at i:6775003 original size:13 final size:13
Alignment explanation
Indices: 6774968--6774996 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
6774958 CCAATCAATG
6774968 GTAATTAATTATT
1 GTAATTAATTATT
6774981 GTAATTAATTATT
1 GTAATTAATTATT
6774994 GTA
1 GTA
6774997 TGTAATTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (13 bp):
GTAATTAATTATT
Found at i:6781304 original size:20 final size:21
Alignment explanation
Indices: 6781279--6781321 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
6781269 TTAAAAATAT
*
6781279 TAATTTTGTT-AAATAGTAAA
1 TAATTTTGTTAAAACAGTAAA
*
6781299 TAATTTTTTTAAAACAGTAAA
1 TAATTTTGTTAAAACAGTAAA
6781320 TA
1 TA
6781322 TTAACTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (21 bp):
TAATTTTGTTAAAACAGTAAA
Found at i:6781388 original size:29 final size:29
Alignment explanation
Indices: 6781355--6781410 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
6781345 TATTTAATTT
*
6781355 TTTAATAGTATAAGG-ACTAAATTAATCTA
1 TTTAATAATA-AAGGAACTAAATTAATCTA
*
6781384 TTTAATAATAAAGGAACTAATTTAATC
1 TTTAATAATAAAGGAACTAAATTAATC
6781411 AGGACCCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (29 bp):
TTTAATAATAAAGGAACTAAATTAATCTA
Found at i:6784626 original size:29 final size:29
Alignment explanation
Indices: 6784567--6784625 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
6784557 ATCAATCCTT
6784567 AATCCTTGCATTCAAATGTTATAAAATAA
1 AATCCTTGCATTCAAATGTTATAAAATAA
6784596 AATCCTTGCATTCAAATGTTAT-AAATAA
1 AATCCTTGCATTCAAATGTTATAAAATAA
6784624 AA
1 AA
6784626 ACAAAAAGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.34
Consensus pattern (29 bp):
AATCCTTGCATTCAAATGTTATAAAATAA
Found at i:6788199 original size:42 final size:42
Alignment explanation
Indices: 6788070--6788381 Score: 213
Period size: 43 Copynumber: 7.4 Consensus size: 42
6788060 CTCGGTGGAT
** * *
6788070 TCAGCACTTAGCAACCAC-CATAAATTTAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACTTTTAAATTCAATGATACGGGGAA
* * * * * *
6788111 TCAACACATAGCAACCCCTTTCACAATT-AAGGATTCGGTGGAA
1 TCAGCACTTAGCAACCACTTTTA-AATTCAATGATACGG-GGAA
* *
6788154 TCAGCACTTAGCAACCACTTTTATATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACTTTTAAATTCAATGATACGGGGAA
* * * ** *
6788196 TCAGCACTTAGCAACCCCATTCACAATT-AAAAATACGGTGGAT
1 TCAGCACTTAGCAACCACTTTTA-AATTCAATGATACGG-GGAA
* * *
6788239 TCAGCACATAGCAACCA-TCTTTATATTCAACGATACGGGGAA
1 TCAGCACTTAGCAACCACT-TTTAAATTCAATGATACGGGGAA
* * * ** *
6788281 TCAACATTTAGCAACC-CATTTCACAATT-AAAAATACGGTGGGA
1 TCAGCACTTAGCAACCAC-TTTTA-AATTCAATGATACGG-GGAA
* * * * * *
6788324 TCAGCACTTAGCAACCACCTTTAGAGTCAATAATTCAGGGAA
1 TCAGCACTTAGCAACCACTTTTAAATTCAATGATACGGGGAA
6788366 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
6788382 CTTCGGGGAA
Statistics
Matches: 206, Mismatches: 51, Indels: 27
0.73 0.18 0.10
Matches are distributed among these distances:
41 15 0.07
42 93 0.45
43 97 0.47
44 1 0.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACTTTTAAATTCAATGATACGGGGAA
Found at i:6788212 original size:85 final size:85
Alignment explanation
Indices: 6788062--6788382 Score: 385
Period size: 85 Copynumber: 3.8 Consensus size: 85
6788052 ATCTGTTACT
* ** * * * *
6788062 CGGTGGATTCAGCACTTAGCAACCAC-CATAAATTTAGTGATACGGGGAATCAACACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACTTTTATATTCAATGATACGGGGAATCAACACTTAGCAAC
** *
6788126 CCCTTTCACAATTAAGGATT
66 CCCTTTCACAATTAAAAATA
* *
6788146 CGGTGGAATCAGCACTTAGCAACCACTTTTATATTCAGTGATACGGGGAATCAGCACTTAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACTTTTATATTCAATGATACGGGGAATCAACACTTAGCAAC
*
6788211 CCCATTCACAATTAAAAATA
66 CCCTTTCACAATTAAAAATA
* * * *
6788231 CGGTGGATTCAGCACATAGCAACCA-TCTTTATATTCAACGATACGGGGAATCAACATTTAGCAA
1 CGGTGGAATCAGCACTTAGCAACCACT-TTTATATTCAATGATACGGGGAATCAACACTTAGCAA
*
6788295 CCCATTTCACAATTAAAAATA
65 CCCCTTTCACAATTAAAAATA
* * * * * * * *
6788316 CGGTGGGATCAGCACTTAGCAACCACCTTTAGAGTCAATAATTCAGGGAATCAGCACTTAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACTTTTATATTCAATGATACGGGGAATCAACACTTAGCAAC
6788381 CC
66 CC
6788383 TTCGGGGAAT
Statistics
Matches: 203, Mismatches: 31, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
84 26 0.13
85 177 0.87
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (85 bp):
CGGTGGAATCAGCACTTAGCAACCACTTTTATATTCAATGATACGGGGAATCAACACTTAGCAAC
CCCTTTCACAATTAAAAATA
Found at i:6788367 original size:170 final size:169
Alignment explanation
Indices: 6788062--6788382 Score: 444
Period size: 170 Copynumber: 1.9 Consensus size: 169
6788052 ATCTGTTACT
* * **
6788062 CGGTGGATTCAGCACTTAGCAACCACCATAAATTTAGTGATACGGGGAATCAACACATAGCAACC
1 CGGTGGATTCAGCACATAGCAACCACCATAAATTCAACGATACGGGGAATCAACACATAGCAACC
* ** * * * * * * *
6788127 CCTTTCACAATTAAGGATTCGGTGGAATCAGCACTTAGCAACCACTTTTATATTCAGTGATACGG
66 CATTTCACAATTAAAAATACGGTGGAATCAGCACTTAGCAACCACCTTTAGAGTCAATAATACAG
6788192 GGAATCAGCACTTAGCAACCCCATTCACAATTAAAAATA
131 GGAATCAGCACTTAGCAACCCCATTCACAATTAAAAATA
** * **
6788231 CGGTGGATTCAGCACATAGCAACCATCTTTATATTCAACGATACGGGGAATCAACATTTAGCAAC
1 CGGTGGATTCAGCACATAGCAACCA-CCATAAATTCAACGATACGGGGAATCAACACATAGCAAC
* *
6788296 CCATTTCACAATTAAAAATACGGTGGGATCAGCACTTAGCAACCACCTTTAGAGTCAATAATTCA
65 CCATTTCACAATTAAAAATACGGTGGAATCAGCACTTAGCAACCACCTTTAGAGTCAATAATACA
6788361 GGGAATCAGCACTTAGCAACCC
130 GGGAATCAGCACTTAGCAACCC
6788383 TTCGGGGAAT
Statistics
Matches: 130, Mismatches: 21, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
169 24 0.18
170 106 0.82
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (169 bp):
CGGTGGATTCAGCACATAGCAACCACCATAAATTCAACGATACGGGGAATCAACACATAGCAACC
CATTTCACAATTAAAAATACGGTGGAATCAGCACTTAGCAACCACCTTTAGAGTCAATAATACAG
GGAATCAGCACTTAGCAACCCCATTCACAATTAAAAATA
Found at i:6792089 original size:19 final size:20
Alignment explanation
Indices: 6792065--6792104 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
6792055 ACCAAAACGA
6792065 AGTAAG-TTGT-ATAAAGCTT
1 AGTAAGTTTGTAATAAA-CTT
6792084 AGTAAGTTTGTAATAAACTT
1 AGTAAGTTTGTAATAAACTT
6792104 A
1 A
6792105 AACTTACCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 8 0.42
21 5 0.26
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (20 bp):
AGTAAGTTTGTAATAAACTT
Found at i:6792359 original size:2 final size:2
Alignment explanation
Indices: 6792352--6792392 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
6792342 ATCCCTTTTC
6792352 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6792393 CCATATAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6797831 original size:21 final size:21
Alignment explanation
Indices: 6797792--6797832 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6797782 TTTTTCCGAA
*
6797792 TTGAGTCAAGTGAAATGAAAT
1 TTGAGTCAAGTCAAATGAAAT
* *
6797813 TTGAGTCGAGTCAAGTGAAA
1 TTGAGTCAAGTCAAATGAAA
6797833 GTGTTCAAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.27
Consensus pattern (21 bp):
TTGAGTCAAGTCAAATGAAAT
Found at i:6798698 original size:16 final size:17
Alignment explanation
Indices: 6798677--6798710 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6798667 ACAAAATTAT
*
6798677 TAGTAA-AAGGTTAATA
1 TAGTAATAAGGTAAATA
6798693 TAGTAATAAGGTAAATA
1 TAGTAATAAGGTAAATA
6798710 T
1 T
6798711 TAACTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
TAGTAATAAGGTAAATA
Found at i:6812182 original size:38 final size:37
Alignment explanation
Indices: 6812139--6812243 Score: 138
Period size: 39 Copynumber: 2.7 Consensus size: 37
6812129 CAAAAATTAT
6812139 TTTAAAAATTAAAATAAGTATTTTAAAAATATTTTAAAA
1 TTTAAAAATTAAAA-AAGTATTTTAAAAA-ATTTTAAAA
* ***
6812178 TTAAAAAATTTTGAAAGTATTTTAAAAAATTTTAAAA
1 TTTAAAAATTAAAAAAGTATTTTAAAAAATTTTAAAA
6812215 TTTAAAAATTTAATAAAAGTATTTTAAAA
1 TTTAAAAA-TTAA-AAAAGTATTTTAAAA
6812244 TTAAAAAATA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
37 16 0.29
38 16 0.29
39 24 0.43
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (37 bp):
TTTAAAAATTAAAAAAGTATTTTAAAAAATTTTAAAA
Found at i:6812211 original size:10 final size:10
Alignment explanation
Indices: 6812158--6812214 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
6812148 TAAAATAAGT
6812158 ATTTTAAAAA
1 ATTTTAAAAA
6812168 TATTTT--AAA
1 -ATTTTAAAAA
6812177 A--TTAAAAA
1 ATTTTAAAAA
**
6812185 ATTTTGAAAGT
1 ATTTT-AAAAA
6812196 ATTTTAAAAA
1 ATTTTAAAAA
6812206 ATTTTAAAA
1 ATTTTAAAA
6812215 TTTAAAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
6 2 0.05
8 5 0.14
9 3 0.08
10 14 0.38
11 13 0.35
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:6812222 original size:37 final size:39
Alignment explanation
Indices: 6812154--6812243 Score: 139
Period size: 37 Copynumber: 2.3 Consensus size: 39
6812144 AAATTAAAAT
*
6812154 AAGTATTTTAAAAATATTTTAAAATTAAAAAATTT-TGA
1 AAGTATTTTAAAAATATTTTAAAATTAAAAAATTTATAA
*
6812192 AAGTATTTTAAAAA-ATTTTAAAATTTAAAAATTTAATAA
1 AAGTATTTTAAAAATATTTTAAAATTAAAAAATTT-ATAA
6812231 AAGTATTTTAAAA
1 AAGTATTTTAAAA
6812244 TTAAAAAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
37 19 0.40
38 14 0.29
39 15 0.31
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (39 bp):
AAGTATTTTAAAAATATTTTAAAATTAAAAAATTTATAA
Found at i:6812245 original size:37 final size:38
Alignment explanation
Indices: 6812139--6812243 Score: 128
Period size: 37 Copynumber: 2.8 Consensus size: 38
6812129 CAAAAATTAT
6812139 TTTAAAAA-TTAA-AATAAGTATTTTAAAAATATTTTAAAA
1 TTTAAAAATTTAATAA-AAGTATTTT-AAAA-ATTTTAAAA
* *
6812178 TTAAAAAATTT--TGAAAGTATTTTAAAAAATTTTAAAA
1 TTTAAAAATTTAATAAAAGTATTTT-AAAAATTTTAAAA
6812215 TTTAAAAATTTAATAAAAGTATTTTAAAA
1 TTTAAAAATTTAATAAAAGTATTTTAAAA
6812244 TTAAAAAATA
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
37 19 0.33
38 18 0.31
39 19 0.33
40 2 0.03
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (38 bp):
TTTAAAAATTTAATAAAAGTATTTTAAAAATTTTAAAA
Found at i:6812252 original size:37 final size:37
Alignment explanation
Indices: 6812139--6812271 Score: 125
Period size: 39 Copynumber: 3.6 Consensus size: 37
6812129 CAAAAATTAT
6812139 TTTAAAAATTAA-AATAAGTATTTTAAAAATATTTTAAAA
1 TTTAAAAATTAATAA-AAGTATTTT-AAAA-ATTTTAAAA
* * *
6812178 TTAAAAAATT-TTGAAAGTATTTTAAAAAATTTTAAAA
1 TTTAAAAATTAATAAAAGTATTTT-AAAAATTTTAAAA
6812215 TTTAAAAATTTAATAAAAGTATTTT-AAAA--TTAAAA
1 TTTAAAAA-TTAATAAAAGTATTTTAAAAATTTTAAAA
** *
6812250 AATAAAAA-TAATAAAAATATTT
1 TTTAAAAATTAATAAAAGTATTT
6812272 ATTATATTCG
Statistics
Matches: 82, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
33 13 0.16
35 12 0.15
37 20 0.24
38 16 0.20
39 21 0.26
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (37 bp):
TTTAAAAATTAATAAAAGTATTTTAAAAATTTTAAAA
Found at i:6816930 original size:2 final size:2
Alignment explanation
Indices: 6816921--6816978 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
6816911 AAAATGAGAA
6816921 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6816962 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
6816979 AAACTTTCAG
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.