Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 91 of 129
Found at i:16261463 original size:3 final size:3
Alignment explanation
Indices: 16261449--16261500 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
16261439 TGAATAAATA
16261449 AAT AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16261496 AAT AA
1 AAT AA
16261501 AAGAAAAAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:16273683 original size:35 final size:35
Alignment explanation
Indices: 16273644--16273711 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
16273634 AGTCCAATAG
*
16273644 GGTTGTAGCTATACCACATTAGCTATCTTGATCAA
1 GGTTGTAGCTATACCACATTAGCTATCTCGATCAA
* * *
16273679 GGTTGTAGTTATACTATATTAGCTATCTCGATC
1 GGTTGTAGCTATACCACATTAGCTATCTCGATC
16273712 TTCAACCCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (35 bp):
GGTTGTAGCTATACCACATTAGCTATCTCGATCAA
Found at i:16274059 original size:23 final size:22
Alignment explanation
Indices: 16274033--16274085 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
16274023 ATTTAGTATT
*
16274033 TAAGATTATAGATTATGATAGAA
1 TAAGATTATAGAATATGATA-AA
* * *
16274056 TAAGATAATATAATATTATAAA
1 TAAGATTATAGAATATGATAAA
16274078 TAAGATTA
1 TAAGATTA
16274086 AATTAAATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (22 bp):
TAAGATTATAGAATATGATAAA
Found at i:16278181 original size:18 final size:19
Alignment explanation
Indices: 16278141--16278182 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
16278131 TTATAATTAT
* *
16278141 TTTTTTAACTTAAACAGTT
1 TTTTTTAACTAAAACAGTG
*
16278160 TTTTTTAA-TAAAAGAGTG
1 TTTTTTAACTAAAACAGTG
16278178 TTTTT
1 TTTTT
16278183 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.55
Consensus pattern (19 bp):
TTTTTTAACTAAAACAGTG
Found at i:16278181 original size:19 final size:19
Alignment explanation
Indices: 16278140--16278182 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
16278130 TTTATAATTA
*
16278140 TTTTTTTAACTTAAACAGT
1 TTTTTTTAACTAAAACAGT
*
16278159 TTTTTTTAA-TAAAAGAGT
1 TTTTTTTAACTAAAACAGT
16278177 GTTTTT
1 -TTTTT
16278183 AGAAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.56
Consensus pattern (19 bp):
TTTTTTTAACTAAAACAGT
Found at i:16279733 original size:11 final size:10
Alignment explanation
Indices: 16279686--16279734 Score: 62
Period size: 10 Copynumber: 4.7 Consensus size: 10
16279676 AATCATCGAC
16279686 AAAAGAAAAAG
1 AAAA-AAAAAG
16279697 AAAAAAAAAG
1 AAAAAAAAAG
16279707 AAAAAAAAAG
1 AAAAAAAAAG
**
16279717 AGAAAATGAAG
1 A-AAAAAAAAG
16279728 AAAAAAA
1 AAAAAAA
16279735 GAGTTCTCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
10 21 0.64
11 12 0.36
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:16279944 original size:14 final size:14
Alignment explanation
Indices: 16279903--16279946 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
16279893 AGTTGGAATT
16279903 AAAAAAAAAGATG-A
1 AAAAAAAAAGA-GCA
*
16279917 AAAAAAGAAG-GCA
1 AAAAAAAAAGAGCA
16279930 AAAAAAAAAGAGCA
1 AAAAAAAAAGAGCA
16279944 AAA
1 AAA
16279947 GAATTTAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 1 0.04
13 10 0.38
14 15 0.58
ACGTcount: A:0.77, C:0.05, G:0.16, T:0.02
Consensus pattern (14 bp):
AAAAAAAAAGAGCA
Found at i:16284372 original size:16 final size:17
Alignment explanation
Indices: 16284336--16284383 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
16284326 GATAGGATCT
*
16284336 AAAAGAAAAAAAAAGTA
1 AAAAGAAAAAAAAAGGA
*
16284353 AAAA-AAAAAAAAAGGG
1 AAAAGAAAAAAAAAGGA
16284369 AAAAGCAAAAAAAAA
1 AAAAG-AAAAAAAAA
16284384 ATGAAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 14 0.52
17 4 0.15
18 9 0.33
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (17 bp):
AAAAGAAAAAAAAAGGA
Found at i:16284389 original size:18 final size:17
Alignment explanation
Indices: 16284336--16284395 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 17
16284326 GATAGGATCT
*
16284336 AAAAGAAAAAAAAAGT-
1 AAAAGAAAAAAAAAATG
*
16284352 AAAA-AAAAAAAAAAGGG
1 AAAAGAAAAAAAAAA-TG
16284369 AAAAGCAAAAAAAAAATG
1 AAAAG-AAAAAAAAAATG
16284387 -AAAGAAAAA
1 AAAAGAAAAA
16284396 GAAATGAGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
15 9 0.24
16 9 0.24
17 8 0.22
18 1 0.03
19 10 0.27
ACGTcount: A:0.82, C:0.02, G:0.13, T:0.03
Consensus pattern (17 bp):
AAAAGAAAAAAAAAATG
Found at i:16284394 original size:16 final size:16
Alignment explanation
Indices: 16284337--16284395 Score: 57
Period size: 15 Copynumber: 3.6 Consensus size: 16
16284327 ATAGGATCTA
*
16284337 AAAGAAAAAAAAAGT-
1 AAAGAAAAAAAAAATG
* *
16284352 AAAAAAAAAAAAAAGGG
1 AAAGAAAAAAAAAA-TG
16284369 AAAAGCAAAAAAAAAATG
1 -AAAG-AAAAAAAAAATG
16284387 AAAGAAAAA
1 AAAGAAAAA
16284396 GAAATGAGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
15 12 0.34
16 5 0.14
17 4 0.11
18 4 0.11
19 10 0.29
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.03
Consensus pattern (16 bp):
AAAGAAAAAAAAAATG
Found at i:16285321 original size:65 final size:65
Alignment explanation
Indices: 16285247--16285397 Score: 196
Period size: 65 Copynumber: 2.3 Consensus size: 65
16285237 ACCTATCCTA
* * * * * **
16285247 CAAAGAAAGATTTAAGCCTAGATGAGCTGGCCT-TCATTGAATGTAAGCTCAGTTTAGCTGGCCT
1 CAAAGAAAGATTTAAGCCTAGATGAACTGACCTCT-AATGAATGTAAGCCCAATTTAGCTAACCT
16285311 T
65 T
* * *
16285312 CAAAAAAAGATTTAAGCCTAGATTAACTGACCTCTAATGAATGTAAGCCCAATTTAGTTAACCTT
1 CAAAGAAAGATTTAAGCCTAGATGAACTGACCTCTAATGAATGTAAGCCCAATTTAGCTAACCTT
16285377 CAAAGAAAGATTTAAGCCTAG
1 CAAAGAAAGATTTAAGCCTAG
16285398 TTTAGCTATC
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
65 73 0.99
66 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (65 bp):
CAAAGAAAGATTTAAGCCTAGATGAACTGACCTCTAATGAATGTAAGCCCAATTTAGCTAACCTT
Found at i:16285393 original size:34 final size:34
Alignment explanation
Indices: 16285247--16285749 Score: 222
Period size: 34 Copynumber: 15.0 Consensus size: 34
16285237 ACCTATCCTA
* *
16285247 CAAAGAAAGATTTAAGCCTAGA-TGAGCTGGCCTT
1 CAAAGAAAGATTTAAGCCCA-ATTTAGCTGGCCTT
** * * *
16285281 CATTG--A-ATGTAAGCTCAGTTTAGCTGGCCTT
1 CAAAGAAAGATTTAAGCCCAATTTAGCTGGCCTT
* * * *
16285312 CAAAAAAAGATTTAAGCCTAGA-TTAACTGACC-T
1 CAAAGAAAGATTTAAGCCCA-ATTTAGCTGGCCTT
* * * **
16285345 CTAATG--A-ATGTAAGCCCAATTTAGTTAACCTT
1 C-AAAGAAAGATTTAAGCCCAATTTAGCTGGCCTT
* * **
16285377 CAAAGAAAGATTTAAGCCTAGTTTAGCTATCCTT
1 CAAAGAAAGATTTAAGCCCAATTTAGCTGGCCTT
* * *
16285411 CGAAGAAAGATTTAAGCCCAGA-TTAGTTGGCCCCTACCC
1 CAAAGAAAGATTTAAGCCCA-ATTTAGCTGG--CCT---T
* * * *
16285450 CTAATGAAATA-TTAAACCCAATTTAGCTGTCCTT
1 C-AAAGAAAGATTTAAGCCCAATTTAGCTGGCCTT
** * *
16285484 CAAAGAAAGATTTAAGCATAGA-TTAGCTGACC-C
1 CAAAGAAAGATTTAAGCCCA-ATTTAGCTGGCCTT
* * *
16285517 CTAATGAAATA-TTAAGCCCAATTTAACTGGCCTT
1 C-AAAGAAAGATTTAAGCCCAATTTAGCTGGCCTT
* * * * **
16285551 TAAAGAAAGATTTAAGCCCAAATTAGTTGACCCC
1 CAAAGAAAGATTTAAGCCCAATTTAGCTGGCCTT
* * * * *
16285585 CAATGAAATA-TTAAGCCTAGTTTAACTGGCCTT
1 CAAAGAAAGATTTAAGCCCAATTTAGCTGGCCTT
* * *
16285618 TAAA-AAA-ATATTAAGCCCAATTTAGCTAGCTTT
1 CAAAGAAAGAT-TTAAGCCCAATTTAGCTGGCCTT
* *
16285651 CATAGAAAGATTTAA-CCCAGA-TTAGCTAGCC-T
1 CAAAGAAAGATTTAAGCCCA-ATTTAGCTGGCCTT
* *
16285683 CTAATGAAATA-TTAAGCCCAATTTAGCTGGCCTT
1 C-AAAGAAAGATTTAAGCCCAATTTAGCTGGCCTT
* *
16285717 CAAAAAAAGATTTAAGCCC-ATATTAGTTGGCCT
1 CAAAGAAAGATTTAAGCCCAAT-TTAGCTGGCCT
16285750 CTAATGAATA
Statistics
Matches: 338, Mismatches: 95, Indels: 72
0.67 0.19 0.14
Matches are distributed among these distances:
30 1 0.00
31 41 0.12
32 15 0.04
33 111 0.33
34 139 0.41
35 3 0.01
36 3 0.01
37 3 0.01
38 1 0.00
39 15 0.04
40 6 0.02
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (34 bp):
CAAAGAAAGATTTAAGCCCAATTTAGCTGGCCTT
Found at i:16285490 original size:73 final size:72
Alignment explanation
Indices: 16285398--16285584 Score: 231
Period size: 67 Copynumber: 2.7 Consensus size: 72
16285388 TTAAGCCTAG
* *
16285398 TTTAGCTATCCTTCGAAGAAAGATTTAAGCCCAGATTAGTTGGCCCCTACCCCTAATGAAATATT
1 TTTAGCTGTCCTTCAAAGAAAGATTTAAGCCCAGATTAGTTGGCCCC-ACCCCTAATGAAATATT
16285463 AAACCCAA
65 AAACCCAA
** *
16285471 TTTAGCTGTCCTTCAAAGAAAGATTTAAGCATAGATTAGCT-G----ACCCCTAATGAAATATTA
1 TTTAGCTGTCCTTCAAAGAAAGATTTAAGCCCAGATTAGTTGGCCCCACCCCTAATGAAATATTA
*
16285531 AGCCCAA
66 AACCCAA
* * * * *
16285538 TTTAACTGGCCTTTAAAGAAAGATTTAAGCCCAAATTAGTTGACCCC
1 TTTAGCTGTCCTTCAAAGAAAGATTTAAGCCCAGATTAGTTGGCCCC
16285585 CAATGAAATA
Statistics
Matches: 95, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
67 58 0.61
72 1 0.01
73 36 0.38
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.28
Consensus pattern (72 bp):
TTTAGCTGTCCTTCAAAGAAAGATTTAAGCCCAGATTAGTTGGCCCCACCCCTAATGAAATATTA
AACCCAA
Found at i:16285556 original size:67 final size:67
Alignment explanation
Indices: 16285446--16285644 Score: 258
Period size: 67 Copynumber: 3.0 Consensus size: 67
16285436 GTTGGCCCCT
* * * * * *
16285446 ACCCCTAATGAAATATTAAACCCAATTTAGCTGTCCTTCAAAGAAAGATTTAAGCATAGATTAGC
1 ACCCCTAATGAAATATTAAGCCCAATTTAACTGGCCTTTAAAGAAAGATTTAAGCACAAATTAGC
16285511 TG
66 TG
* *
16285513 ACCCCTAATGAAATATTAAGCCCAATTTAACTGGCCTTTAAAGAAAGATTTAAGCCCAAATTAGT
1 ACCCCTAATGAAATATTAAGCCCAATTTAACTGGCCTTTAAAGAAAGATTTAAGCACAAATTAGC
16285578 TG
66 TG
* * * * *
16285580 ACCCCCAATGAAATATTAAGCCTAGTTTAACTGGCCTTTAAA-AAA-ATATTAAGCCCAATTTAG
1 ACCCCTAATGAAATATTAAGCCCAATTTAACTGGCCTTTAAAGAAAGAT-TTAAGCACAAATTAG
16285643 CT
65 CT
16285645 AGCTTTCATA
Statistics
Matches: 118, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
65 2 0.02
66 18 0.15
67 98 0.83
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.29
Consensus pattern (67 bp):
ACCCCTAATGAAATATTAAGCCCAATTTAACTGGCCTTTAAAGAAAGATTTAAGCACAAATTAGC
TG
Found at i:16285700 original size:66 final size:67
Alignment explanation
Indices: 16285623--16285834 Score: 252
Period size: 66 Copynumber: 3.2 Consensus size: 67
16285613 GCCTTTAAAA
* * *
16285623 AAATATTAAGCCCAATTTAGCTAGCTTTCATAGAAAGATTTAA-CCCAGATTAGCTAGCCTCTAA
1 AAATATTAAGCCCAATTTAGCTAGCTTTCAAAGAAAGATTTAAGCCCAGATTAGTTGGCCTCTAA
16285687 TG
66 TG
* * * *
16285689 AAATATTAAGCCCAATTTAGCTGGCCTTCAAAAAAAGATTTAAGCCCATATTAGTTGGCCTCTAA
1 AAATATTAAGCCCAATTTAGCTAGCTTTCAAAGAAAGATTTAAGCCCAGATTAGTTGGCCTCTAA
16285754 TG
66 TG
* * * * *
16285756 -AATA-TAAGCCTAGTTTAGCTTACCTTT-AAAGAAAGATTTAAGTCCAGATTAGTTGGCTCCCT
1 AAATATTAAGCCCAATTTAGC-TAGCTTTCAAAGAAAGATTTAAGCCCAGATTAGTTGGC-CTCT
*
16285818 CGATG
64 -AATG
16285823 AAATATTAAGCC
1 AAATATTAAGCC
16285835 TAGTGCATCT
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
65 40 0.33
66 50 0.41
67 23 0.19
68 4 0.03
69 6 0.05
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (67 bp):
AAATATTAAGCCCAATTTAGCTAGCTTTCAAAGAAAGATTTAAGCCCAGATTAGTTGGCCTCTAA
TG
Found at i:16285706 original size:166 final size:165
Alignment explanation
Indices: 16285456--16285772 Score: 460
Period size: 166 Copynumber: 1.9 Consensus size: 165
16285446 ACCCCTAATG
*
16285456 AAATATTAAACCCAATTTAGCTGTCCTTCAAAGAAAGATTTAAGCATAGATTAGCTGACCCCTAA
1 AAATATTAAACCCAATTTAGCTGTCCTTCAAAGAAAGATTTAAGCACAGATTAGCTGACCCCTAA
* *
16285521 TGAAATATTAAGCCCAATTTAACTGGCCTTTAAAGAAAGATTTAAGCCCAAATTAGTTGACCCCC
66 TGAAATATTAAGCCCAATTTAACTGGCCTTCAAAAAAAGATTTAAGCCCAAATTAGTTGACCCCC
16285586 AATGAAATATTAAGCCTAGTTTAACTGGCCTTTAAAA
131 AATG-AATA-TAAGCCTAGTTTAACTGGCCTTTAAAA
* * * * *
16285623 AAATATTAAGCCCAATTTAGCTAG-CTTTCATAGAAAGATTTAA-CCCAGATTAGCT-AGCCTCT
1 AAATATTAAACCCAATTTAGCT-GTCCTTCAAAGAAAGATTTAAGCACAGATTAGCTGA-CCCCT
* * * *
16285685 AATGAAATATTAAGCCCAATTTAGCTGGCCTTCAAAAAAAGATTTAAGCCCATATTAGTTGGCCT
64 AATGAAATATTAAGCCCAATTTAACTGGCCTTCAAAAAAAGATTTAAGCCCAAATTAGTTGACCC
*
16285750 CTAATGAATATAAGCCTAGTTTA
129 CCAATGAATATAAGCCTAGTTTA
16285773 GCTTACCTTT
Statistics
Matches: 135, Mismatches: 13, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
164 13 0.10
165 5 0.04
166 78 0.58
167 38 0.28
168 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.30
Consensus pattern (165 bp):
AAATATTAAACCCAATTTAGCTGTCCTTCAAAGAAAGATTTAAGCACAGATTAGCTGACCCCTAA
TGAAATATTAAGCCCAATTTAACTGGCCTTCAAAAAAAGATTTAAGCCCAAATTAGTTGACCCCC
AATGAATATAAGCCTAGTTTAACTGGCCTTTAAAA
Found at i:16285709 original size:33 final size:33
Alignment explanation
Indices: 16285450--16285775 Score: 193
Period size: 33 Copynumber: 9.8 Consensus size: 33
16285440 GCCCCTACCC
* *
16285450 CTAATGAAATATTAAACCCAATTTAGCTGTCCT
1 CTAATGAAATATTAAGCCCAATTTAGCTGGCCT
* * ** * *
16285483 -TCAAAGAAAGATTTAAGCATAGA-TTAGCTGACCC
1 CT-AATGAAATA-TTAAGCCCA-ATTTAGCTGGCCT
*
16285517 CTAATGAAATATTAAGCCCAATTTAACTGGCCT
1 CTAATGAAATATTAAGCCCAATTTAGCTGGCCT
* * * * * * *
16285550 TTAAAGAAAGATTTAAGCCCAAATTAGTTGACCC
1 CTAATGAAATA-TTAAGCCCAATTTAGCTGGCCT
* * * *
16285584 CCAATGAAATATTAAGCCTAGTTTAACTGGCCT
1 CTAATGAAATATTAAGCCCAATTTAGCTGGCCT
* ** *
16285617 TTAAAAAAATATTAAGCCCAATTTAGCTAG-CT
1 CTAATGAAATATTAAGCCCAATTTAGCTGGCCT
* * * *
16285649 TTCATAGAAAGATTTAA-CCCAGA-TTAGCTAGCCT
1 CTAAT-GAAATA-TTAAGCCCA-ATTTAGCTGGCCT
16285683 CTAATGAAATATTAAGCCCAATTTAGCTGGCCT
1 CTAATGAAATATTAAGCCCAATTTAGCTGGCCT
** * *
16285716 -TCAAAAAAAGATTTAAGCCC-ATATTAGTTGGCCT
1 CT-AATGAAATA-TTAAGCCCAAT-TTAGCTGGCCT
* *
16285750 CTAATG-AATA-TAAGCCTAGTTTAGCT
1 CTAATGAAATATTAAGCCCAATTTAGCT
16285776 TACCTTTAAA
Statistics
Matches: 217, Mismatches: 59, Indels: 36
0.70 0.19 0.12
Matches are distributed among these distances:
31 11 0.05
32 14 0.06
33 113 0.52
34 76 0.35
35 3 0.01
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (33 bp):
CTAATGAAATATTAAGCCCAATTTAGCTGGCCT
Found at i:16285722 original size:99 final size:100
Alignment explanation
Indices: 16285523--16285736 Score: 272
Period size: 99 Copynumber: 2.1 Consensus size: 100
16285513 ACCCCTAATG
* *
16285523 AAATATTAAGCCCAATTTAACTGGCCTTTAAAGAAAGATTTAAGCCCAAATTAGTTGACCCCCAA
1 AAATATTAAGCCCAATTTAACTAGCCTTTAAAGAAAGATTTAAGCCCAAATTAGTAGACCCCCAA
* * *
16285588 TGAAATATTAAGCCTAGTTTAACTGGCCTTTAAAA
66 TGAAATATTAAGCCCAATTTAACTGGCCTTCAAAA
* * * * *
16285623 AAATATTAAGCCCAATTTAGCTAG-CTTTCATAGAAAGATTTAA-CCCAGATTAGCTAG-CCTCT
1 AAATATTAAGCCCAATTTAACTAGCCTTT-AAAGAAAGATTTAAGCCCAAATTAG-TAGACCCCC
*
16285685 AATGAAATATTAAGCCCAATTTAGCTGGCCTTCAAAA
64 AATGAAATATTAAGCCCAATTTAACTGGCCTTCAAAA
*
16285722 AAAGATTTAAGCCCA
1 AAATA-TTAAGCCCA
16285737 TATTAGTTGG
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
99 53 0.54
100 46 0.46
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.29
Consensus pattern (100 bp):
AAATATTAAGCCCAATTTAACTAGCCTTTAAAGAAAGATTTAAGCCCAAATTAGTAGACCCCCAA
TGAAATATTAAGCCCAATTTAACTGGCCTTCAAAA
Found at i:16285791 original size:65 final size:67
Alignment explanation
Indices: 16285623--16285834 Score: 243
Period size: 65 Copynumber: 3.2 Consensus size: 67
16285613 GCCTTTAAAA
* * * *
16285623 AAATATTAAGCCCAATTTAGCT-AGCTTTCATAGAAAGATTTAA-CCCAGATTAGCTAGCCTCTA
1 AAATATTAAGCCCAATTTAGCTGA-CCTTCAAAGAAAGATTTAAGCCCAGATTAGTTGGCCTCTA
16285686 ATG
65 ATG
* * *
16285689 AAATATTAAGCCCAATTTAGCTGGCCTTCAAAAAAAGATTTAAGCCCATATTAGTTGGCCTCTAA
1 AAATATTAAGCCCAATTTAGCTGACCTTCAAAGAAAGATTTAAGCCCAGATTAGTTGGCCTCTAA
16285754 TG
66 TG
* * * * * *
16285756 -AATA-TAAGCCTAGTTTAGCTTACCTTTAAAGAAAGATTTAAGTCCAGATTAGTTGGCTCCCTC
1 AAATATTAAGCCCAATTTAGCTGACCTTCAAAGAAAGATTTAAGCCCAGATTAGTTGGC-CTCT-
*
16285819 GATG
64 AATG
16285823 AAATATTAAGCC
1 AAATATTAAGCC
16285835 TAGTGCATCT
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
65 45 0.37
66 45 0.37
67 23 0.19
68 4 0.03
69 6 0.05
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (67 bp):
AAATATTAAGCCCAATTTAGCTGACCTTCAAAGAAAGATTTAAGCCCAGATTAGTTGGCCTCTAA
TG
Found at i:16285928 original size:40 final size:40
Alignment explanation
Indices: 16285884--16286041 Score: 130
Period size: 41 Copynumber: 4.0 Consensus size: 40
16285874 ACATGTGCCT
* *
16285884 TACTTGCATCTACATCACAAAAAAAAGACATTTGCATTTA
1 TACTTGCATCTGCATCACATAAAAAAGACATTTGCATTTA
* *
16285924 TACTTGCATCTGCAT--CATGAAAAAGACACTTGCATTTGCA
1 TACTTGCATCTGCATCACATAAAAAAGACATTTGCATTT--A
* * *
16285964 TCACTTGTATTTGCATCA-ATAAAAAA-ACATTTACATTTATA
1 T-ACTTGCATCTGCATCACATAAAAAAGACATTTGCA-TT-TA
* * *
16286005 TCACTTGCATTTTCAT--CATGAAAAAGACATTTGCATT
1 T-ACTTGCATCTGCATCACATAAAAAAGACATTTGCATT
16286042 CAGCTCTGCA
Statistics
Matches: 96, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
38 19 0.20
40 25 0.26
41 42 0.44
42 9 0.09
43 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.34
Consensus pattern (40 bp):
TACTTGCATCTGCATCACATAAAAAAGACATTTGCATTTA
Found at i:16285947 original size:41 final size:38
Alignment explanation
Indices: 16285905--16286168 Score: 133
Period size: 41 Copynumber: 6.9 Consensus size: 38
16285895 ACATCACAAA
16285905 AAAAAGACATTTGCATTTAT-ACTTGCATCTGCATCATG
1 AAAAAGACATTTGCATTTATCACTTGCATCTGCATCA-G
* * * *
16285943 AAAAAGACACTTGCATTTGCATCACTTGTATTTGCATCAAT
1 AAAAAGACATTTGCATTT--ATCACTTGCATCTGCATC-AG
* * * *
16285984 AAAAAAACATTTACATTTATATCACTTGCATTTTCATCATG
1 AAAAAGACATTTGCA-TT-TATCACTTGCATCTGCATCA-G
16286025 AAAAAGACATTTGCA--T-TCA---GC-TCTGCATCA-
1 AAAAAGACATTTGCATTTATCACTTGCATCTGCATCAG
* * * *
16286055 ATAACAAGACATTTGTATTTGCATCACTTACATTTACATCATG
1 A-AA-AAGACATTTGCATTT--ATCACTTGCATCTGCATCA-G
**
16286098 AAAAAGACATTCACATTTGCATCACTTGCAT-T--AT-A-
1 AAAAAGACATTTGCATTT--ATCACTTGCATCTGCATCAG
* * *
16286133 AGAAAGATATTTGCATTTGCATCACTTGCATTTGCA
1 AAAAAGACATTTGCATTT--ATCACTTGCATCTGCA
16286169 CTTGTATCTA
Statistics
Matches: 177, Mismatches: 26, Indels: 46
0.71 0.10 0.18
Matches are distributed among these distances:
30 1 0.01
31 2 0.01
32 18 0.10
33 2 0.01
34 1 0.01
35 27 0.15
36 4 0.02
37 5 0.03
38 20 0.11
40 5 0.03
41 85 0.48
42 5 0.03
43 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (38 bp):
AAAAAGACATTTGCATTTATCACTTGCATCTGCATCAG
Found at i:16285970 original size:15 final size:15
Alignment explanation
Indices: 16285950--16285981 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16285940 ATGAAAAAGA
16285950 CACTTGCATTTGCAT
1 CACTTGCATTTGCAT
*
16285965 CACTTGTATTTGCAT
1 CACTTGCATTTGCAT
16285980 CA
1 CA
16285982 ATAAAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (15 bp):
CACTTGCATTTGCAT
Found at i:16286365 original size:18 final size:18
Alignment explanation
Indices: 16286344--16286379 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
16286334 ATTAGCATTG
16286344 ACATTTGCATTCACATCA
1 ACATTTGCATTCACATCA
*
16286362 ACATTTGCATTCGCATCA
1 ACATTTGCATTCACATCA
16286380 TTTGATGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (18 bp):
ACATTTGCATTCACATCA
Found at i:16286744 original size:58 final size:58
Alignment explanation
Indices: 16286682--16286791 Score: 202
Period size: 58 Copynumber: 1.9 Consensus size: 58
16286672 AGACGTTTTG
*
16286682 GCAAAGCATTTTAAATTTTCAAAATTTTCAAAGATTTTGAAATCTTTAAGACTTCCAA
1 GCAAAACATTTTAAATTTTCAAAATTTTCAAAGATTTTGAAATCTTTAAGACTTCCAA
*
16286740 GCAAAACATTTTAAATTTTCAATATTTTCAAAGATTTTGAAATCTTTAAGAC
1 GCAAAACATTTTAAATTTTCAAAATTTTCAAAGATTTTGAAATCTTTAAGAC
16286792 CTTTGGACAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (58 bp):
GCAAAACATTTTAAATTTTCAAAATTTTCAAAGATTTTGAAATCTTTAAGACTTCCAA
Found at i:16286814 original size:22 final size:21
Alignment explanation
Indices: 16286784--16286837 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
16286774 TTTTGAAATC
16286784 TTTAAGACCTTTG-GACATAAT
1 TTTAAGACCTTTGTG-CATAAT
16286805 TTCTAAGACCTTTGTGCATAAT
1 TT-TAAGACCTTTGTGCATAAT
16286827 TTTCAAGACCT
1 TTT-AAGACCT
16286838 CCGGGTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 3 0.10
22 26 0.87
23 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.39
Consensus pattern (21 bp):
TTTAAGACCTTTGTGCATAAT
Found at i:16287054 original size:9 final size:9
Alignment explanation
Indices: 16287040--16287074 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
16287030 AAAGTATATT
16287040 AAATTTTCA
1 AAATTTTCA
*
16287049 AAATTTTTA
1 AAATTTTCA
16287058 AAATTTTCA
1 AAATTTTCA
16287067 AAGATTTT
1 AA-ATTTT
16287075 GAAATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 18 0.78
10 5 0.22
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (9 bp):
AAATTTTCA
Found at i:16287178 original size:33 final size:33
Alignment explanation
Indices: 16287139--16287236 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 33
16287129 AATTTTTTTT
** *
16287139 TCAAAGTTTCATCACCTCTAATTGGAGTAGCAC
1 TCAAAGTTTCATGGCCTCTAATTGGAGGAGCAC
* *
16287172 TTAAAGTTTCATGGCCTGTAATT-GAGGGAGCAC
1 TCAAAGTTTCATGGCCTCTAATTGGA-GGAGCAC
16287205 TCAAAGTTTCATGGCCTCTAATTGGAGGAGCA
1 TCAAAGTTTCATGGCCTCTAATTGGAGGAGCA
16287237 TTTATAGATT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
32 2 0.04
33 52 0.93
34 2 0.04
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (33 bp):
TCAAAGTTTCATGGCCTCTAATTGGAGGAGCAC
Found at i:16287391 original size:120 final size:121
Alignment explanation
Indices: 16287174--16287436 Score: 377
Period size: 120 Copynumber: 2.2 Consensus size: 121
16287164 AGTAGCACTT
* * * *
16287174 AAAGTTTCATGGCCTGTAATTGAGGGAGCACTCAAAGTTTCATGGCCTCTAATTGGAGGAGCATT
1 AAAGTTTCATGGCCTCTGATTGAGGGAGCACTCAAAGTTTCATCGCCTCTAATTGGAGAAGCATT
* * * **
16287239 TATAGATTTTCAGATTTGTAAGACTTTCGGGCATAATCTTTAATCATTTTAAATTC
66 TAAAGATTTTCAGATTTATAAGACCTTCGGGCATAATCTCCAATCATTTTAAATTC
* * *
16287295 AAA-TTTCATGGCCTCTGATT-AGAGGAGCACTCACAGTTTCATCGCCTCTGATTGGCGAAGCAT
1 AAAGTTTCATGGCCTCTGATTGAG-GGAGCACTCAAAGTTTCATCGCCTCTAATTGGAGAAGCAT
* *
16287358 TTAAAGATTTTGAGATTTATAAGACCTTCGGGCATAATCTCCACTCATTTTAAATTC
65 TTAAAGATTTTCAGATTTATAAGACCTTCGGGCATAATCTCCAATCATTTTAAATTC
16287415 AAAGTTTCATGGCCTCTGATTG
1 AAAGTTTCATGGCCTCTGATTG
16287437 GCGAAGCATT
Statistics
Matches: 125, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
119 2 0.02
120 103 0.82
121 20 0.16
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (121 bp):
AAAGTTTCATGGCCTCTGATTGAGGGAGCACTCAAAGTTTCATCGCCTCTAATTGGAGAAGCATT
TAAAGATTTTCAGATTTATAAGACCTTCGGGCATAATCTCCAATCATTTTAAATTC
Found at i:16287478 original size:88 final size:88
Alignment explanation
Indices: 16287329--16287519 Score: 355
Period size: 88 Copynumber: 2.2 Consensus size: 88
16287319 GAGCACTCAC
*
16287329 AGTTTCATCGCCTCTGATTGGCGAAGCATTTAAAGATTTTGAGATTTATAAGACCTTCGGGCATA
1 AGTTTCATGGCCTCTGATTGGCGAAGCATTTAAAGATTTTGAGATTTATAAGACCTTCGGGCATA
16287394 ATCTCCACTCATTTTAAATTCAA
66 ATCTCCACTCATTTTAAATTCAA
* *
16287417 AGTTTCATGGCCTCTGATTGGCGAAGCATTTAAAGATTTTGAGATTTGTAAGACTTTCGGGCATA
1 AGTTTCATGGCCTCTGATTGGCGAAGCATTTAAAGATTTTGAGATTTATAAGACCTTCGGGCATA
16287482 ATCTCCACTCATTTTAAATTCAA
66 ATCTCCACTCATTTTAAATTCAA
16287505 AGTTTCATGGCCTCT
1 AGTTTCATGGCCTCT
16287520 AATTAGAGGA
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 100 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (88 bp):
AGTTTCATGGCCTCTGATTGGCGAAGCATTTAAAGATTTTGAGATTTATAAGACCTTCGGGCATA
ATCTCCACTCATTTTAAATTCAA
Found at i:16287607 original size:209 final size:208
Alignment explanation
Indices: 16287205--16287655 Score: 713
Period size: 209 Copynumber: 2.2 Consensus size: 208
16287195 GAGGGAGCAC
* *
16287205 TCAAAGTTTCATGGCCTCTAATTGGAGGAGCATTTATAGATTTTCAGATTTGTAAGACTTTCGGG
1 TCAAAGTTTCATGGCCTCTGATTGGAGGAGCATTTAAAGATTTTCAGATTTGTAAGACTTTCGGG
** * *
16287270 CATAATCTTTAATCATTTTAAATTCAAATTTCATGGCCTCTGATTAGAGGAGCACTCACAGTTTC
66 CATAATCTCCAATCATTTTAAATTCAAATTTCATGGCCTCTAATTAGAGGAGCACTCAAAGTTTC
* * *
16287335 ATCGCCTCTGATTGGCGAAGCATTTAAAGATTTTGAGATTTATAAGACCTTCGGGCATAATCTCC
131 ATCGCCTCTAATTGGCGAAGCATTTAAAGATTTTGAGATTGATAAGACCTTCGGCCATAATCTCC
*
16287400 ACTCATTTTAAAT
196 AATCATTTTAAAT
* * *
16287413 TCAAAGTTTCATGGCCTCTGATTGGCGAAGCATTTAAAGATTTTGAGATTTGTAAGACTTTCGGG
1 TCAAAGTTTCATGGCCTCTGATTGGAGGAGCATTTAAAGATTTTCAGATTTGTAAGACTTTCGGG
*
16287478 CATAATCTCCACTCATTTTAAATTCAAAGTTTCATGGCCTCTAATTAGAGGAGCACTCAAAGTTT
66 CATAATCTCCAATCATTTTAAATTCAAA-TTTCATGGCCTCTAATTAGAGGAGCACTCAAAGTTT
* * * *
16287543 CATGGCCTCTAATTGGTGAAGCATTTAAAGATTTTGAGATTGGTAAGACCTTCGGCCCTAATCTC
130 CATCGCCTCTAATTGGCGAAGCATTTAAAGATTTTGAGATTGATAAGACCTTCGGCCATAATCTC
16287608 CAATCATTTTAAAT
195 CAATCATTTTAAAT
* *
16287622 TGAAAGTTCCATGGCCTCTGATTGGAGGAGCATT
1 TCAAAGTTTCATGGCCTCTGATTGGAGGAGCATT
16287656 CAAAAGTTTT
Statistics
Matches: 220, Mismatches: 22, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
208 85 0.39
209 135 0.61
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (208 bp):
TCAAAGTTTCATGGCCTCTGATTGGAGGAGCATTTAAAGATTTTCAGATTTGTAAGACTTTCGGG
CATAATCTCCAATCATTTTAAATTCAAATTTCATGGCCTCTAATTAGAGGAGCACTCAAAGTTTC
ATCGCCTCTAATTGGCGAAGCATTTAAAGATTTTGAGATTGATAAGACCTTCGGCCATAATCTCC
AATCATTTTAAAT
Found at i:16287628 original size:121 final size:121
Alignment explanation
Indices: 16287413--16287664 Score: 387
Period size: 121 Copynumber: 2.1 Consensus size: 121
16287403 CATTTTAAAT
* * * *
16287413 TCAAAGTTTCATGGCCTCTGATTGGCGAAGCATTTAAAGATTTTGAGATTTGTAAGACTTTCGGG
1 TCAAAGTTTCATGGCCTCTAATTGGCGAAGCATTTAAAGATTTTGAGATTGGTAAGACCTTCGGC
* *
16287478 CATAATCTCCACTCATTTTAAATTCAAAGTTTCATGGCCTCTAATTAGAGGAGCAC
66 CATAATCTCCAATCATTTTAAATTCAAAGTTCCATGGCCTCTAATTAGAGGAGCAC
*
16287534 TCAAAGTTTCATGGCCTCTAATTGGTGAAGCATTTAAAGATTTTGAGATTGGTAAGACCTTCGGC
1 TCAAAGTTTCATGGCCTCTAATTGGCGAAGCATTTAAAGATTTTGAGATTGGTAAGACCTTCGGC
* * * * *
16287599 CCTAATCTCCAATCATTTTAAATTGAAAGTTCCATGGCCTCTGATTGGAGGAGCAT
66 CATAATCTCCAATCATTTTAAATTCAAAGTTCCATGGCCTCTAATTAGAGGAGCAC
16287655 TCAAAAGTTT
1 TC-AAAGTTT
16287665 TGTGATTCGT
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
121 111 0.94
122 7 0.06
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (121 bp):
TCAAAGTTTCATGGCCTCTAATTGGCGAAGCATTTAAAGATTTTGAGATTGGTAAGACCTTCGGC
CATAATCTCCAATCATTTTAAATTCAAAGTTCCATGGCCTCTAATTAGAGGAGCAC
Found at i:16287721 original size:67 final size:67
Alignment explanation
Indices: 16287612--16287877 Score: 352
Period size: 69 Copynumber: 3.9 Consensus size: 67
16287602 AATCTCCAAT
* * * *
16287612 CATTTTAAATTGAAAGTTCCATGGCCTCTGATTGGAGGAGCATTCAAAAGTTTTGTGATTCGTAA
1 CATTTTAAATTCAAAGTTTCATGGCCTCTGATTGGAGAAGCATTCAAAAGTTTTGTGATTCATAA
16287677 AA
66 AA
* * *
16287679 CATTTTAAATTCAAAATTTCATGGCCTCTGATAGGAGAAGCATTCAAAAGTTTTTTGATTCATAA
1 CATTTTAAATTCAAAGTTTCATGGCCTCTGATTGGAGAAGCATTCAAAAGTTTTGTGATTCATAA
16287744 AA
66 AA
* * * *
16287746 AATTTTAAATATTCAAAGTTTCATGGCCTTTGATTGGAGGAGCATTCAAAAATTTTGTGATTCAT
1 CATTTT-AA-ATTCAAAGTTTCATGGCCTCTGATTGGAGAAGCATTCAAAAGTTTTGTGATTCAT
16287811 AAAA
64 AAAA
* * * *
16287815 CATTTTAAATCTTTAAAGTTTCATGGCCTCTGGTTGGAAAAGCATTCAAAAAGTTTTGAGATT
1 CATTTTAAA--TTCAAAGTTTCATGGCCTCTGATTGGAGAAGCATTC-AAAAGTTTTGTGATT
16287878 TAATCTCTAA
Statistics
Matches: 172, Mismatches: 22, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
67 66 0.38
68 4 0.02
69 89 0.52
70 13 0.08
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.36
Consensus pattern (67 bp):
CATTTTAAATTCAAAGTTTCATGGCCTCTGATTGGAGAAGCATTCAAAAGTTTTGTGATTCATAA
AA
Found at i:16293128 original size:28 final size:28
Alignment explanation
Indices: 16293096--16293152 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
16293086 TAAAACACAA
16293096 CTGTATTTTACTCCTACAAGCAAAGTTG
1 CTGTATTTTACTCCTACAAGCAAAGTTG
* *
16293124 CTGTATTTTACTCTTACAAGCGAAGTTG
1 CTGTATTTTACTCCTACAAGCAAAGTTG
16293152 C
1 C
16293153 AAGCTTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (28 bp):
CTGTATTTTACTCCTACAAGCAAAGTTG
Found at i:16298925 original size:20 final size:18
Alignment explanation
Indices: 16298900--16298969 Score: 76
Period size: 18 Copynumber: 3.9 Consensus size: 18
16298890 ATCGATGAAG
16298900 TAAGAAAAAGAATGAAAAAA
1 TAAGAAAAAG--TGAAAAAA
16298920 TAAGAAAAAGTGAAAAAA
1 TAAGAAAAAGTGAAAAAA
*
16298938 TAAGAAACA-TGAAGAAAA
1 TAAGAAAAAGTGAA-AAAA
16298956 T--GAAAAA-TGAAAAA
1 TAAGAAAAAGTGAAAAA
16298970 TGAAAAAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.06
16 9 0.19
17 4 0.09
18 21 0.45
20 10 0.21
ACGTcount: A:0.71, C:0.01, G:0.16, T:0.11
Consensus pattern (18 bp):
TAAGAAAAAGTGAAAAAA
Found at i:16298935 original size:18 final size:17
Alignment explanation
Indices: 16298910--16298969 Score: 79
Period size: 18 Copynumber: 3.5 Consensus size: 17
16298900 TAAGAAAAAG
16298910 AATGAAAAAATAAGAAA
1 AATGAAAAAATAAGAAA
16298927 AAGTGAAAAAATAAGAAA
1 AA-TGAAAAAATAAGAAA
*
16298945 CATGAAGAAAAT--GAAA
1 AATGAA-AAAATAAGAAA
16298961 AATGAAAAA
1 AATGAAAAA
16298970 TGAAAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
15 3 0.08
16 9 0.23
17 6 0.15
18 21 0.54
ACGTcount: A:0.72, C:0.02, G:0.15, T:0.12
Consensus pattern (17 bp):
AATGAAAAAATAAGAAA
Found at i:16298968 original size:6 final size:7
Alignment explanation
Indices: 16298952--16298986 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
16298942 AAACATGAAG
16298952 AAAATGA
1 AAAATGA
16298959 AAAATGA
1 AAAATGA
16298966 AAAATGA
1 AAAATGA
*
16298973 AAAA-AA
1 AAAATGA
16298979 AAAATGA
1 AAAATGA
16298986 A
1 A
16298987 GCCTTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (7 bp):
AAAATGA
Found at i:16300833 original size:34 final size:34
Alignment explanation
Indices: 16300789--16300869 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
16300779 TTATGTTTTT
*
16300789 CGAACTTGAAAATTCTTATGAATCTAAGTTCTTG
1 CGAACCTGAAAATTCTTATGAATCTAAGTTCTTG
* * *
16300823 CGAACCTGAAAATTCTTGTGAATTTGAGTTCTTG
1 CGAACCTGAAAATTCTTATGAATCTAAGTTCTTG
* *
16300857 TGAATCT-AAAATT
1 CGAACCTGAAAATT
16300870 TTGAGAATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 6 0.15
34 35 0.85
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (34 bp):
CGAACCTGAAAATTCTTATGAATCTAAGTTCTTG
Found at i:16300918 original size:16 final size:16
Alignment explanation
Indices: 16300832--16300935 Score: 61
Period size: 16 Copynumber: 6.5 Consensus size: 16
16300822 GCGAACCTGA
*
16300832 AAATTCTTGTGAATTT
1 AAATTCTTGTGAACTT
* * *
16300848 GAGTTCTTGTGAATCTA
1 AAATTCTTGTGAA-CTT
* *
16300865 AAATT-TTGAGAA-TC
1 AAATTCTTGTGAACTT
* * *
16300879 AAATTCTTATAAAATT
1 AAATTCTTGTGAACTT
16300895 GAAA-TCTTGTGAACTT
1 -AAATTCTTGTGAACTT
* *
16300911 AAATTCTTGCGAAGCTA
1 AAATTCTTGTGAA-CTT
16300928 AAATTCTT
1 AAATTCTT
16300936 ACGAATCTTT
Statistics
Matches: 65, Mismatches: 17, Indels: 11
0.70 0.18 0.12
Matches are distributed among these distances:
14 6 0.09
15 7 0.11
16 35 0.54
17 17 0.26
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (16 bp):
AAATTCTTGTGAACTT
Found at i:16300968 original size:35 final size:36
Alignment explanation
Indices: 16300927--16301014 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 36
16300917 TTGCGAAGCT
**
16300927 AAAATTCTTACGAATCTTTAATTCTTT-TGAATATG
1 AAAATTCTTACGAATCTAAAATTCTTTGTGAATATG
* * * *
16300962 AAAATTCTTACAAAACTAAAATTTTTTGTGAATCTG
1 AAAATTCTTACGAATCTAAAATTCTTTGTGAATATG
*
16300998 AAAGTT-TTACGAATCTA
1 AAAATTCTTACGAATCTA
16301015 TGAACCTTGC
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
35 31 0.72
36 12 0.28
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (36 bp):
AAAATTCTTACGAATCTAAAATTCTTTGTGAATATG
Found at i:16301029 original size:17 final size:17
Alignment explanation
Indices: 16301004--16301051 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
16300994 TCTGAAAGTT
* *
16301004 TTACGAATCTATGAACC
1 TTACAAATCTTTGAACC
*
16301021 TTGCAAATCTTTG-A-C
1 TTACAAATCTTTGAACC
16301036 TTACAAATCTTTGAAC
1 TTACAAATCTTTGAAC
16301052 TTCGAAATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 13 0.52
16 2 0.08
17 10 0.40
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.35
Consensus pattern (17 bp):
TTACAAATCTTTGAACC
Found at i:16305478 original size:18 final size:17
Alignment explanation
Indices: 16305457--16305490 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
16305447 CTGTAAGACT
16305457 AAAAAGAAAAGTAAAAAA
1 AAAAAGAAAAG-AAAAAA
16305475 AAAAAGAAAAGAAAAA
1 AAAAAGAAAAGAAAAA
16305491 TGTTCTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAGAAAAAA
Found at i:16320193 original size:32 final size:30
Alignment explanation
Indices: 16320121--16320193 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 30
16320111 AATTTGGTCT
* *
16320121 TTATG-TTGATGTATTTGTGATGATTGATT
1 TTATGTTTAATGTATTTGTGATGATTGATC
16320150 TTCATGTTTTAATGTATTTGTGATGATTGGGATC
1 TT-ATG-TTTAATGTATTTGTGATGATT--GATC
16320184 TTATGTTTAA
1 TTATGTTTAA
16320194 ATGTTTTTCC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
29 2 0.05
30 3 0.08
32 24 0.65
33 3 0.08
34 5 0.14
ACGTcount: A:0.22, C:0.03, G:0.22, T:0.53
Consensus pattern (30 bp):
TTATGTTTAATGTATTTGTGATGATTGATC
Found at i:16320197 original size:33 final size:32
Alignment explanation
Indices: 16320129--16320197 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 32
16320119 CTTTATGTTG
* *
16320129 ATGTATTTGTGATGATTGATTTTCATGTTTTA
1 ATGTATTTGTGATGATTGATCTTCATGTTTAA
16320161 ATGTATTTGTGATGATTGGGATCTT-ATGTTTAA
1 ATGTATTTGTGATGATT--GATCTTCATGTTTAA
16320194 ATGT
1 ATGT
16320198 TTTTCCATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 17 0.52
33 11 0.33
34 5 0.15
ACGTcount: A:0.23, C:0.03, G:0.22, T:0.52
Consensus pattern (32 bp):
ATGTATTTGTGATGATTGATCTTCATGTTTAA
Found at i:16320676 original size:59 final size:57
Alignment explanation
Indices: 16320613--16320795 Score: 187
Period size: 59 Copynumber: 3.1 Consensus size: 57
16320603 AAAGTCAAAC
* *
16320613 CCCAAAATTAAACCCTAAAGTCTAAAGTCAAAATTTAAAACCTAAAGTCGAAC-CTTAAA
1 CCCAAAATTAAACCC-AAAGTCTAAAGTCAAAACTT-AAACCCAAAGTC-AACTCTTAAA
* * *
16320672 CCCAAAATTAAACCCCAAA-TCTCAAAGTTAAACCTTAAACCCAAAGTCAACTTTTAAA
1 CCCAAAATTAAA-CCCAAAGTCT-AAAGTCAAAACTTAAACCCAAAGTCAACTCTTAAA
*
16320730 CCCTAAAATTAAACACC-AAGTCCTAAAGTC-AAACTCTAAACACAAAGTCAACTGC-TAAA
1 CCC-AAAATTAAAC-CCAAAGT-CTAAAGTCAAAACT-TAAACCCAAAGTCAACT-CTTAAA
16320789 CCCAAAA
1 CCCAAAA
16320796 AATCAAATTG
Statistics
Matches: 106, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
57 3 0.03
58 33 0.31
59 65 0.61
60 5 0.05
ACGTcount: A:0.48, C:0.26, G:0.05, T:0.20
Consensus pattern (57 bp):
CCCAAAATTAAACCCAAAGTCTAAAGTCAAAACTTAAACCCAAAGTCAACTCTTAAA
Found at i:16320685 original size:19 final size:19
Alignment explanation
Indices: 16320663--16320743 Score: 65
Period size: 19 Copynumber: 4.2 Consensus size: 19
16320653 CCTAAAGTCG
16320663 AACCTTAAACCCAAAATTA
1 AACCTTAAACCCAAAATTA
** * *
16320682 AACCCCAAATCTCAAAGTTA
1 AACCTTAAA-CCCAAAATTA
* *
16320702 AACCTTAAACCC-AAAGTC
1 AACCTTAAACCCAAAATTA
*
16320720 AACTTTTAAACCCTAAAATTA
1 AAC-CTTAAACCC-AAAATTA
16320741 AAC
1 AAC
16320744 ACCAAGTCCT
Statistics
Matches: 45, Mismatches: 13, Indels: 6
0.70 0.20 0.09
Matches are distributed among these distances:
18 6 0.13
19 17 0.38
20 15 0.33
21 7 0.16
ACGTcount: A:0.48, C:0.27, G:0.02, T:0.22
Consensus pattern (19 bp):
AACCTTAAACCCAAAATTA
Found at i:16320778 original size:19 final size:19
Alignment explanation
Indices: 16320754--16320794 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
16320744 ACCAAGTCCT
16320754 AAAGTCAAACT-CTAAACAC
1 AAAGTC-AACTGCTAAACAC
*
16320773 AAAGTCAACTGCTAAACCC
1 AAAGTCAACTGCTAAACAC
16320792 AAA
1 AAA
16320795 AAATCAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.51, C:0.27, G:0.07, T:0.15
Consensus pattern (19 bp):
AAAGTCAACTGCTAAACAC
Found at i:16323215 original size:7 final size:7
Alignment explanation
Indices: 16323203--16323228 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
16323193 AGTTCAAAAA
16323203 AAAAATG
1 AAAAATG
16323210 AAAAATG
1 AAAAATG
16323217 AAAAATG
1 AAAAATG
16323224 AAAAA
1 AAAAA
16323229 AAGAAAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:16323830 original size:26 final size:28
Alignment explanation
Indices: 16323781--16323842 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 28
16323771 AATATTTAAC
* * *
16323781 AAATAATAAATTGCTCAGTAAAAATAAGT
1 AAATAATAAATT-CTCAATAAAAAGAAAT
16323810 AAATAATAAATT-TCAAT-AAAAGAAAT
1 AAATAATAAATTCTCAATAAAAAGAAAT
16323836 AAATAAT
1 AAATAAT
16323843 TTAAAATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 14 0.47
27 4 0.13
29 12 0.40
ACGTcount: A:0.61, C:0.05, G:0.06, T:0.27
Consensus pattern (28 bp):
AAATAATAAATTCTCAATAAAAAGAAAT
Found at i:16323870 original size:15 final size:16
Alignment explanation
Indices: 16323844--16323874 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
16323834 ATAAATAATT
16323844 TAAAATATAAAATAAA
1 TAAAATATAAAATAAA
16323860 TAAAA-ATAAAATAAA
1 TAAAATATAAAATAAA
16323875 ATAGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
TAAAATATAAAATAAA
Found at i:16323886 original size:22 final size:22
Alignment explanation
Indices: 16323825--16323887 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 22
16323815 ATAAATTTCA
*
16323825 ATAAAAGAAATAAATAATTTAAAAT
1 ATAAAAGAAA-AAA-AA-ATAAAAT
* *
16323850 ATAAAATAAATAAAAATAAAAT
1 ATAAAAGAAAAAAAAATAAAAT
16323872 A-AAATAGAAAAAAAAA
1 ATAAA-AGAAAAAAAAA
16323888 CCTACAATCG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 3 0.09
22 16 0.50
23 2 0.06
24 2 0.06
25 9 0.28
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (22 bp):
ATAAAAGAAAAAAAAATAAAAT
Found at i:16324745 original size:3 final size:3
Alignment explanation
Indices: 16324737--16324906 Score: 76
Period size: 3 Copynumber: 59.3 Consensus size: 3
16324727 TGTGAAAATA
* * * * *
16324737 AAT AAT AAT TAT AAT AAT -AT ATT ACAT TAT AA- AAT GAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
** * * * * *
16324781 AAT AGC AGT AAT AAT AGT GAG AAT AAA AAT AGA- AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* *
16324825 AAT -AT AAT -AT AAT AAT AAT -AT ACT -AT ACT ATAT AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* *
16324866 -AT AAT AAT -AT AAT AAT AAAT AAT AAT -AC AAG AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT A
16324907 GTAACAGTAA
Statistics
Matches: 122, Mismatches: 29, Indels: 32
0.67 0.16 0.17
Matches are distributed among these distances:
2 21 0.17
3 94 0.77
4 7 0.06
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16324828 original size:5 final size:5
Alignment explanation
Indices: 16324818--16324889 Score: 69
Period size: 5 Copynumber: 14.2 Consensus size: 5
16324808 AATAGAAATA
* *
16324818 ATAAT ATAAT ATAAT ATAAT AATAAT ATACT ATACTAT ATAAT AAAAT
1 ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATA--AT ATAAT ATAAT
16324866 AT-A- ATAAT ATAAT AATAA- ATAAT A
1 ATAAT ATAAT ATAAT -ATAAT ATAAT A
16324890 ATACAAGAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
3 2 0.04
4 6 0.11
5 35 0.62
6 9 0.16
7 4 0.07
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (5 bp):
ATAAT
Found at i:16324840 original size:21 final size:22
Alignment explanation
Indices: 16324814--16324906 Score: 101
Period size: 21 Copynumber: 4.5 Consensus size: 22
16324804 TAAAAATAGA
16324814 AATAATAATATAATATA-ATAT
1 AATAATAATATAATATACATAT
*
16324835 AATAATAATATACTATACTATAT
1 AATAATAATATAATATAC-ATAT
16324858 AATAA-AATAT-A-ATA-ATAT
1 AATAATAATATAATATACATAT
*
16324876 AATAATAA-ATAATAATACA-AG
1 AATAATAATATAAT-ATACATAT
16324897 AATAATAATA
1 AATAATAATA
16324907 GTAACAGTAA
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
18 11 0.18
19 3 0.05
20 3 0.05
21 28 0.46
22 7 0.11
23 9 0.15
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.33
Consensus pattern (22 bp):
AATAATAATATAATATACATAT
Found at i:16326148 original size:14 final size:14
Alignment explanation
Indices: 16326110--16326149 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
16326100 AACTTGAACT
16326110 CTTTTTTTTTGTTCA
1 CTTTTTTTTT-TTCA
*
16326125 CTTTTTTTTTTTTA
1 CTTTTTTTTTTTCA
16326139 CTTTTTTTTTT
1 CTTTTTTTTTT
16326150 AGCTTAAGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.05, C:0.10, G:0.03, T:0.82
Consensus pattern (14 bp):
CTTTTTTTTTTTCA
Found at i:16334579 original size:26 final size:25
Alignment explanation
Indices: 16334550--16334644 Score: 101
Period size: 26 Copynumber: 3.8 Consensus size: 25
16334540 TTGCTTAGTA
16334550 AAAATAAATAAATAAT-AAAAGTTAAT
1 AAAATAAATAAA-AATCAAAA-TTAAT
*
16334576 AAAATAAATAAAAAATTCAAAATAAAT
1 AAAATAAAT-AAAAA-TCAAAATTAAT
*
16334603 -AAATAAATAAAATTCAAAA-T-AT
1 AAAATAAATAAAAATCAAAATTAAT
16334625 AAAATAAATAAAAAT-AAAAT
1 AAAATAAATAAAAATCAAAAT
16334645 AAAATGGAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
22 6 0.10
23 13 0.22
24 6 0.10
25 4 0.07
26 19 0.32
27 8 0.13
28 4 0.07
ACGTcount: A:0.73, C:0.02, G:0.01, T:0.24
Consensus pattern (25 bp):
AAAATAAATAAAAATCAAAATTAAT
Found at i:16334580 original size:22 final size:23
Alignment explanation
Indices: 16334552--16334647 Score: 103
Period size: 22 Copynumber: 4.3 Consensus size: 23
16334542 GCTTAGTAAA
16334552 AATAAATAAATAATAAAAGTT-AA
1 AATAAATAAATAATAAAA-TTCAA
*
16334575 TA-AAATAAATAA-AAAATTCAA
1 AATAAATAAATAATAAAATTCAA
16334596 AATAAATAAATAAATAAAATTCAA
1 AATAAATAAAT-AATAAAATTCAA
* *
16334620 AATATA-AAATAAATAAAAAT-AA
1 AATAAATAAAT-AATAAAATTCAA
16334642 AATAAA
1 AATAAA
16334648 ATGGAAAAAC
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
20 2 0.03
21 7 0.11
22 25 0.39
23 16 0.25
24 14 0.22
ACGTcount: A:0.73, C:0.02, G:0.01, T:0.24
Consensus pattern (23 bp):
AATAAATAAATAATAAAATTCAA
Found at i:16334636 original size:4 final size:4
Alignment explanation
Indices: 16334551--16334613 Score: 51
Period size: 4 Copynumber: 15.8 Consensus size: 4
16334541 TGCTTAGTAA
* **
16334551 AAAT AAAT AAAT -AAT AAAAGT TAAT AAAAT AAAT AAA- AAAT TCA- AAAT
1 AAAT AAAT AAAT AAAT -AAA-T AAAT -AAAT AAAT AAAT AAAT AAAT AAAT
16334599 AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAA
16334614 ATTCAAAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
3 7 0.15
4 32 0.68
5 7 0.15
6 1 0.02
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:16335501 original size:3 final size:3
Alignment explanation
Indices: 16335493--16335728 Score: 91
Period size: 3 Copynumber: 81.3 Consensus size: 3
16335483 AGTAAAAATA
* ** * * * * * *
16335493 AAT AAT AAT AAT AAT AAT AAT AAT TAT TGT TAT TAT TAT TAT TAT TAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** * * *
16335541 AAT TAT AAT AAT AAT AAT TGT AAT GAT AA- AAT AAT ATAT TAT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * * * * * * *
16335586 -AT AA- AAT GAC AAT AAT AAT AAT AAT AGT AAT AGT AGT GAG AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
16335632 AAT AGA- AAT AAT AAT -AT AAC AAT -AT ACT -AT ACT -AT ACT ATAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
*
16335674 AAT AA- AAT AAT -AT AAT -AT AAT AAT AAAT AAT AAT -AC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
*
16335716 AAT AAT AGT AAT A
1 AAT AAT AAT AAT A
16335729 GTAACAAAAC
Statistics
Matches: 175, Mismatches: 42, Indels: 32
0.70 0.17 0.13
Matches are distributed among these distances:
2 19 0.11
3 148 0.85
4 8 0.05
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:16342755 original size:34 final size:33
Alignment explanation
Indices: 16342717--16342797 Score: 83
Period size: 33 Copynumber: 2.4 Consensus size: 33
16342707 AGTCACTCTG
*
16342717 ATTTTTTAACTTGTAGTTTAGT-CTCAACCATTTT
1 ATTTTTTAACTTGTAG-TTAGTCCT-AACCATTTC
* ** *
16342751 ATTTTTTGACTTACAGTTAGTCCTAATCATTTC
1 ATTTTTTAACTTGTAGTTAGTCCTAACCATTTC
*
16342784 ATTTTCTAACTTGT
1 ATTTTTTAACTTGT
16342798 GGTTCAATCT
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
33 22 0.59
34 15 0.41
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.52
Consensus pattern (33 bp):
ATTTTTTAACTTGTAGTTAGTCCTAACCATTTC
Found at i:16342820 original size:34 final size:34
Alignment explanation
Indices: 16342776--16342867 Score: 100
Period size: 34 Copynumber: 2.7 Consensus size: 34
16342766 GTTAGTCCTA
*
16342776 ATCATTTCATTTTCTAACTTGTGGTTCA-ATCTC-
1 ATCACTTCATTTTCTAACTTGTGGTTCACA-CTCG
*
16342809 ATTCACTTCATTTATC-AACTTATGGTTCACACTCG
1 A-TCACTTCATTT-TCTAACTTGTGGTTCACACTCG
* *
16342844 ATCACTCCAATTTCTAACTTGTGG
1 ATCACTTCATTTTCTAACTTGTGG
16342868 CTCAGTCATA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
33 3 0.06
34 42 0.86
35 4 0.08
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (34 bp):
ATCACTTCATTTTCTAACTTGTGGTTCACACTCG
Found at i:16343339 original size:33 final size:33
Alignment explanation
Indices: 16343081--16343346 Score: 176
Period size: 33 Copynumber: 8.1 Consensus size: 33
16343071 AATCACCTCA
* * * *
16343081 TTTTAGACTTCGATTTAGTCTAAGTCA-TTCAT
1 TTTTAGACTTTGGTTCAGTCCAAGTCATTTCAT
* * * * * **
16343113 TTTTAAACTTCGGTTTAGTCCAGGTCAATAAAT
1 TTTTAGACTTTGGTTCAGTCCAAGTCATTTCAT
* * *
16343146 TTTTAGACTTTGATTCAGTCCAAGCCATTTAAT
1 TTTTAGACTTTGGTTCAGTCCAAGTCATTTCAT
* * *
16343179 TTTTGGACTTTGGTTCAAT-CAAGCCATTTCAT
1 TTTTAGACTTTGGTTCAGTCCAAGTCATTTCAT
* * * * * *
16343211 CTTTAGGCTTTCGTTCAATCTAGGTCATTTCAT
1 TTTTAGACTTTGGTTCAGTCCAAGTCATTTCAT
* * * * *
16343244 TTTCAAACTTTGGTACAGTCTAAGTCATTTCAC
1 TTTTAGACTTTGGTTCAGTCCAAGTCATTTCAT
* ** * * **
16343277 TTTTGGACTTCAGTTTAGTCAAAACCATTTCAT
1 TTTTAGACTTTGGTTCAGTCCAAGTCATTTCAT
* * *
16343310 TTTTAGACTTTGGTTCAATCCATGTCATTTCAG
1 TTTTAGACTTTGGTTCAGTCCAAGTCATTTCAT
16343343 TTTT
1 TTTT
16343347 GAATTTGAAT
Statistics
Matches: 177, Mismatches: 55, Indels: 3
0.75 0.23 0.01
Matches are distributed among these distances:
32 50 0.28
33 127 0.72
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (33 bp):
TTTTAGACTTTGGTTCAGTCCAAGTCATTTCAT
Found at i:16345796 original size:20 final size:20
Alignment explanation
Indices: 16345768--16345823 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
16345758 ACCCCAAATT
** *
16345768 AAACCTTAAAGTCCAAAGTC
1 AAACCTTAAAACCCAAAGCC
*
16345788 AAACTTTAAAACCCAAAGCC
1 AAACCTTAAAACCCAAAGCC
*
16345808 AAACCCT-AAACCCAAA
1 AAACCTTAAAACCCAAA
16345824 ATTAAACCTC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 9 0.30
20 21 0.70
ACGTcount: A:0.50, C:0.30, G:0.05, T:0.14
Consensus pattern (20 bp):
AAACCTTAAAACCCAAAGCC
Found at i:16345819 original size:59 final size:58
Alignment explanation
Indices: 16345756--16345979 Score: 204
Period size: 59 Copynumber: 3.8 Consensus size: 58
16345746 CCCCAAGGTC
* * *
16345756 AAACCCC-AAATTAAACCTTAAAGTCCAAAGTCAAACTTTAAAACCCAAAGCCAAACCCT
1 AAACCCCAAAATTAAACCTCAAA-TCCAAAGTCAAACCTT-AAACCCAAAGTCAAACCCT
* * **
16345815 AAA-CCCAAAATTAAACCTCAAAT-CATTAAGTTAAACCTTAAACCTAAAGTCAAGTCCT
1 AAACCCCAAAATTAAACCTCAAATCCA--AAGTCAAACCTTAAACCCAAAGTCAAACCCT
* * * * *
16345873 AAACCCCAAAATAAAACCCCAAATCCTAAAGTCAAGCCCTAAACACAAAGTC-AACTCCT
1 AAACCCCAAAATTAAACCTCAAATCC-AAAGTCAAACCTTAAACCCAAAGTCAAAC-CCT
* * *
16345932 AAACCCCAAAATTGAACCCTAAAACTCCAAAGTCAAACCCTAAGACCC
1 AAACCCCAAAATT-AAACCTCAAA-TCCAAAGTCAAACCTTAA-ACCC
16345980 TAAAACTTAT
Statistics
Matches: 133, Mismatches: 22, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
57 2 0.02
58 23 0.17
59 79 0.59
60 22 0.17
61 7 0.05
ACGTcount: A:0.47, C:0.31, G:0.05, T:0.17
Consensus pattern (58 bp):
AAACCCCAAAATTAAACCTCAAATCCAAAGTCAAACCTTAAACCCAAAGTCAAACCCT
Found at i:16347857 original size:17 final size:17
Alignment explanation
Indices: 16347810--16347858 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
16347800 AGCATGAATT
* *
16347810 AAATTGAAAATAAAATA
1 AAATTGAAATTAAAAGA
*
16347827 AAATTTGAATTTAAAAGA
1 AAA-TTGAAATTAAAAGA
16347845 AAATTGAAATTAAA
1 AAATTGAAATTAAA
16347859 CTTTGCATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (17 bp):
AAATTGAAATTAAAAGA
Found at i:16358604 original size:23 final size:23
Alignment explanation
Indices: 16358552--16358604 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
16358542 AGAAAGCTTG
*
16358552 AATTAAATTGAAAACAAAATAGA
1 AATTGAATTGAAAACAAAATAGA
* * *
16358575 ACA-TGAATTTAAAAGAAAATTGA
1 A-ATTGAATTGAAAACAAAATAGA
16358598 AATTGAA
1 AATTGAA
16358605 CTTTGCATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
22 1 0.04
23 22 0.92
24 1 0.04
ACGTcount: A:0.60, C:0.04, G:0.11, T:0.25
Consensus pattern (23 bp):
AATTGAATTGAAAACAAAATAGA
Found at i:16369028 original size:14 final size:13
Alignment explanation
Indices: 16369009--16369042 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
16368999 TTAAAGAACT
16369009 AAAAAACTAAAAGA
1 AAAAAACT-AAAGA
16369023 AAAAAACTAAAGA
1 AAAAAACTAAAGA
16369036 AAGAAAA
1 AA-AAAA
16369043 AAGGAGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.79, C:0.06, G:0.09, T:0.06
Consensus pattern (13 bp):
AAAAAACTAAAGA
Found at i:16373762 original size:30 final size:29
Alignment explanation
Indices: 16373728--16373788 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
16373718 TTAAAGGTTC
*
16373728 AATTGAGTCGAAATAAAA-GATTAATAGCTT
1 AATTGA-TCGAAATAAAATG-TTAAAAGCTT
* *
16373758 AATTGATTGCAATAAAATGTTAAAAGCTT
1 AATTGATCGAAATAAAATGTTAAAAGCTT
16373787 AA
1 AA
16373789 ATAATTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.31
Consensus pattern (29 bp):
AATTGATCGAAATAAAATGTTAAAAGCTT
Found at i:16373939 original size:18 final size:17
Alignment explanation
Indices: 16373891--16373939 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
16373881 AAAAATTTTA
* *
16373891 ATATTGAAAAATAAAAT
1 ATATTTAAAATTAAAAT
**
16373908 ATATTTAATCTTAAAAGT
1 ATATTTAAAATTAAAA-T
16373926 ATATTTAAAATTAA
1 ATATTTAAAATTAA
16373940 TTTTAGAGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (17 bp):
ATATTTAAAATTAAAAT
Found at i:16377021 original size:2 final size:2
Alignment explanation
Indices: 16377014--16377045 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
16377004 GAGGATTTAC
16377014 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
16377046 TTATATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:16377067 original size:2 final size:2
Alignment explanation
Indices: 16377062--16377090 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16377052 ATATGTATAT
16377062 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
16377091 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:16377347 original size:20 final size:20
Alignment explanation
Indices: 16377322--16377372 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
16377312 TCCTCGTATA
*
16377322 TATATATATGTATGTATGTG
1 TATATATATATATGTATGTG
*
16377342 TATATATATATATGTGTGTG
1 TATATATATATATGTATGTG
* *
16377362 TGTGTATATAT
1 TATATATATAT
16377373 CTACAATCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (20 bp):
TATATATATATATGTATGTG
Found at i:16377349 original size:24 final size:24
Alignment explanation
Indices: 16377317--16377372 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
16377307 ATCTCTCCTC
16377317 GTATATATATATATGTATGTATGT
1 GTATATATATATATGTATGTATGT
* *
16377341 GTATATATATATATGTGTGTGTGT
1 GTATATATATATATGTATGTATGT
16377365 GTATATAT
1 GTATATAT
16377373 CTACAATCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (24 bp):
GTATATATATATATGTATGTATGT
Found at i:16378659 original size:2 final size:2
Alignment explanation
Indices: 16378652--16378683 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
16378642 AATTAGTCCT
16378652 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
16378684 GGATAAGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16380891 original size:2 final size:2
Alignment explanation
Indices: 16380884--16380914 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16380874 CTCTATTTAA
16380884 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16380915 CATTATTTAC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16383647 original size:320 final size:315
Alignment explanation
Indices: 16383189--16384122 Score: 1009
Period size: 320 Copynumber: 2.9 Consensus size: 315
16383179 CATTTTGGCC
* * *
16383189 TTTCACACATATCAA-TCAT-GAAACCAAATTCAATTATT-TGGACAAGTTTAATATCATGTATT
1 TTTCACACATATCAACT-ATGGAAACCAAGTTCAATCATTCT-GAAAAGTTTAATATCATGTATT
* * * *
16383251 GAAGCCATCAAGACTGTTAAAACAAAATAATAACAGCAACTTTGTATTTTTGCCTTTTAACGACA
64 GAAGCCATCAA-ACTGTTAAAATAGAATAATAACAGCAAATTTGTATTTTTGCC-TTTAACGGC-
*
16383316 AAAAAAGTCCTAAACAAAGGTAAACAATAACTTTTTCACATATATCAATCGTGAAACCAAGTTCA
126 AAAAAAGTCCTAAA-AAAGGTAAACAATAACTTTTTCACACATATCAA-CGTGAAACCAAGTTCA
* * * * *
16383381 ATCATTTGAAAAGTTTAATATAATCTTTTGAAGCTATCCAAACTTTTAAAACAGAACAATAATAA
189 ATCATTTGAAAAGTTTAATATCATATATTGAAGCTATCCAAACTATTAAAATAGAACAATAATAA
* * * *
16383446 CAAAATTGTATTTTTACGTTTTAACAGCATGAAAAATCCTAAACAAAGGTAAATGGCAACTT
254 CAAATTTGTATTTTTACCTTTTAACAGCATAAAAAATCCTAAACAAAGGTAAACGGCAACTT
* * *
16383508 TTTCACATATATCAACTGTGGAAACTAAGTTCAATCATTCAT-AAAAGTTTAATATCATGTATTG
1 TTTCACACATATCAACTATGGAAACCAAGTTCAATCATTC-TGAAAAGTTTAATATCATGTATTG
* *
16383572 AAGCCATCCAAAGTGTTAAAATAGAATAATAGCAGCAAATTTGTATTTTTGCCTTTAAACGGCAA
65 AAGCCAT-CAAACTGTTAAAATAGAATAATAACAGCAAATTTGTATTTTTGCCTTT-AACGGCAA
* * ** * *
16383637 AAATAGTCCTAAATAGGCGTAAATGACAACTTTTTCTCACATATCAACTGTAGAAACCAAGTTCA
128 AAA-AGTCCTAAAAAAG-GTAAACAATAACTTTTTCACACATATCAAC-GT-GAAACCAAGTTCA
** * *
16383702 ATCATTCAAACAAGTTTAATATCATGTATTGAAGCTATCCAAACTATTAAAATAGAATAATAATA
189 ATCATTTGAA-AAGTTTAATATCATATATTGAAGCTATCCAAACTATTAAAATAGAACAATAATA
* * * * * * ** *
16383767 TCAAATTTGCATTTTT-CCTTTTAACGGCATAAAAAATCCTAAATAGATGTAAACGTTAGCTT
253 ACAAATTTGTATTTTTACCTTTTAACAGCATAAAAAATCCTAAACAAAGGTAAACGGCAACTT
* * * *
16383829 TTTCACACATATCAACTATGGATACCAAGTTCAATTATTCTGACAAGTTTGATATCAT-TCATTG
1 TTTCACACATATCAACTATGGAAACCAAGTTCAATCATTCTGAAAAGTTTAATATCATGT-ATTG
* * * * * * *
16383893 AAGCTATGCAAACTATTAAAATAGAACAATAACAACAAATTTGTATTTTTACCTATTAATGGCAT
65 AAGCCAT-CAAACTGTTAAAATAGAATAATAACAGCAAATTTGTATTTTTGCCT-TTAACGGCAA
* * * * *
16383958 AAAAGTCCTAAATAGATGTAAACAATAAATTTTTCATACATATCAACCGTGAAAACTAAGTTCAA
128 AAAAGTCCTAAA-AAAGGTAAACAATAACTTTTTCACACATATCAA-CGTG-AAACCAAGTTCAA
* * * ** *
16384023 TAATTTGGATAAGTTAAATATCATATATTGAAATTATCAAAACTATTAAAATAGAACAATAACT-
190 TCATTT-GAAAAGTTTAATATCATATATTGAAGCTATCCAAACTATTAAAATAGAACAATAA-TA
*** *
16384087 GTTAATTTGTATTTTTACCTTTTAACAGCACAAAAA
253 ACAAATTTGTATTTTTACCTTTTAACAGCATAAAAA
16384123 GATATAATAG
Statistics
Matches: 511, Mismatches: 84, Indels: 38
0.81 0.13 0.06
Matches are distributed among these distances:
319 27 0.05
320 232 0.45
321 188 0.37
322 64 0.13
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (315 bp):
TTTCACACATATCAACTATGGAAACCAAGTTCAATCATTCTGAAAAGTTTAATATCATGTATTGA
AGCCATCAAACTGTTAAAATAGAATAATAACAGCAAATTTGTATTTTTGCCTTTAACGGCAAAAA
AGTCCTAAAAAAGGTAAACAATAACTTTTTCACACATATCAACGTGAAACCAAGTTCAATCATTT
GAAAAGTTTAATATCATATATTGAAGCTATCCAAACTATTAAAATAGAACAATAATAACAAATTT
GTATTTTTACCTTTTAACAGCATAAAAAATCCTAAACAAAGGTAAACGGCAACTT
Found at i:16383877 original size:160 final size:160
Alignment explanation
Indices: 16383189--16384122 Score: 902
Period size: 160 Copynumber: 5.8 Consensus size: 160
16383179 CATTTTGGCC
* * *
16383189 TTTCACACATATCAA-TCAT-GAAACCAAATTCAATTATTTGGACAAGTTTAATATCATGTATTG
1 TTTCACACATATCAACT-GTGGAAACCAAGTTCAATCATTT-GACAAGTTTAATATCATGTATTG
* * * * * * * * *
16383252 AAGCCAT-CAAGACTGTTAAAACAAAATAATAACAGCAACTTTGTATTTTTGCCTTTTAACGACA
64 AAGCTATCCAA-ACTATTAAAATAGAACAATAACAACAAATTTGTATTTTTACCTTTTAACGGCA
* * *
16383316 -AAAAAAGTCCTAAACAAAGGTAAACAATAACTT
128 TAAAAAA-TCCTAAATAGAGGTAAACGATAACTT
* * * * *
16383349 TTTCACATATATCAA-TCGT-GAAACCAAGTTCAATCATTTGAAAAGTTTAATATAATCTTTTGA
1 TTTCACACATATCAACT-GTGGAAACCAAGTTCAATCATTTGACAAGTTTAATATCATGTATTGA
* * * * * * *
16383412 AGCTATCCAAACTTTTAAAACAGAACAATAATAACAAAATTGTATTTTTACGTTTTAACAGCATG
65 AGCTATCCAAACTATTAAAATAGAACAATAACAACAAATTTGTATTTTTACCTTTTAACGGCATA
* * * **
16383477 AAAAATCCTAAACAAAGGTAAATGGCAACTT
130 AAAAATCCTAAATAGAGGTAAACGATAACTT
* * *
16383508 TTTCACATATATCAACTGTGGAAACTAAGTTCAATCATTCAT-AAAAGTTTAATATCATGTATTG
1 TTTCACACATATCAACTGTGGAAACCAAGTTCAATCATT--TGACAAGTTTAATATCATGTATTG
* * * * * * * *
16383572 AAGCCATCCAAAGTGTTAAAATAGAATAATAGCAGCAAATTTGTATTTTTGCCTTTAAACGGCA-
64 AAGCTATCCAAACTATTAAAATAGAACAATAACAACAAATTTGTATTTTTACCTTTTAACGGCAT
* * *
16383636 AAAATAGTCCTAAATAG-GCGTAAATGACAACTT
129 AAAA-AATCCTAAATAGAG-GTAAACGATAACTT
* * **
16383669 TTTCTCACATATCAACTGTAGAAACCAAGTTCAATCATTCAAACAAGTTTAATATCATGTATTGA
1 TTTCACACATATCAACTGTGGAAACCAAGTTCAATCATT-TGACAAGTTTAATATCATGTATTGA
* * * *
16383734 AGCTATCCAAACTATTAAAATAGAATAATAATATCAAATTTGCATTTTT-CCTTTTAACGGCATA
65 AGCTATCCAAACTATTAAAATAGAACAATAACAACAAATTTGTATTTTTACCTTTTAACGGCATA
* * *
16383798 AAAAATCCTAAATAGATGTAAACGTTAGCTT
130 AAAAATCCTAAATAGAGGTAAACGATAACTT
* * * *
16383829 TTTCACACATATCAACTATGGATACCAAGTTCAATTATTCTGACAAGTTTGATATCAT-TCATTG
1 TTTCACACATATCAACTGTGGAAACCAAGTTCAATCATT-TGACAAGTTTAATATCATGT-ATTG
* * *
16383893 AAGCTATGCAAACTATTAAAATAGAACAATAACAACAAATTTGTATTTTTACCTATTAATGGCAT
64 AAGCTATCCAAACTATTAAAATAGAACAATAACAACAAATTTGTATTTTTACCTTTTAACGGCAT
* * * *
16383958 -AAAAGTCCTAAATAGATGTAAACAATAAATT
129 AAAAAATCCTAAATAGAGGTAAACGATAACTT
* * * * * * * *
16383989 TTTCATACATATCAACCGTGAAAACTAAGTTCAATAATTTGGATAAGTTAAATATCATATATTGA
1 TTTCACACATATCAACTGTGGAAACCAAGTTCAATCATTT-GACAAGTTTAATATCATGTATTGA
** * **** * *
16384054 AATTATCAAAACTATTAAAATAGAACAATAACTGTTAATTTGTATTTTTACCTTTTAACAGCACA
65 AGCTATCCAAACTATTAAAATAGAACAATAACAACAAATTTGTATTTTTACCTTTTAACGGCATA
16384119 AAAA
130 AAAA
16384123 GATATAATAG
Statistics
Matches: 648, Mismatches: 110, Indels: 31
0.82 0.14 0.04
Matches are distributed among these distances:
159 108 0.17
160 327 0.50
161 212 0.33
162 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (160 bp):
TTTCACACATATCAACTGTGGAAACCAAGTTCAATCATTTGACAAGTTTAATATCATGTATTGAA
GCTATCCAAACTATTAAAATAGAACAATAACAACAAATTTGTATTTTTACCTTTTAACGGCATAA
AAAATCCTAAATAGAGGTAAACGATAACTT
Found at i:16384164 original size:481 final size:481
Alignment explanation
Indices: 16383192--16384207 Score: 1048
Period size: 481 Copynumber: 2.1 Consensus size: 481
16383182 TTTGGCCTTT
* * ***
16383192 CACACATATCAATC-ATGAAA-CCAAATTCAATTATTTGGACAAGTTTAATATCATGTATTGAAG
1 CACACATATCAA-CAATGAAAGCCAAGTTCAATCATTCAAACAAGTTTAATATCATGTATTGAAG
* * *
16383255 CCATCAAGACTGTTAAAACAAAATAATAACAGCAACTTTGTATTTTTGCCTTTTAACGACAAAAA
65 CCATCAAGACTATTAAAACAAAATAATAACAGCAAATTTGCATTTTTGCCTTTTAACGACAAAAA
*
16383320 AAGTCCTAAACAAAGGTAAACAATAACTTTTTCACATATATCAATCGTGAAACCAAGTTCAATCA
130 AAGTCCTAAACAAAGGTAAACAATAACTTTTTCACACATATCAATCGTGAAACCAAGTTCAATCA
* * *
16383385 TTTGAAAAGTTTAATATAATCTTTTGAAGCTATCCAAACTTTTAAAACAGAACAATAATAACAAA
195 TTTGAAAAGTTTAATATAATCTATTGAAGCTATCCAAACTATTAAAACAGAACAATAACAACAAA
* * *** *
16383450 ATTGTATTTTTACGTTTTAACAGCATGAAAAATCCTAAACAAAGGTAAATGGCAACTTTTTCACA
260 ATTGTATTTTTACCTATTAACAGCATGAAAAATCCTAAACAAAGGTAAACAACAAATTTTTCACA
* * * * * * * *
16383515 TATATCAACTGTGGAAACTAAGTTCAATCATTCATAAAAGTTTAATATCATGTATTGAAGCCATC
325 CATATCAACCGTGAAAACTAAGTTCAATAATTCAGAAAAGTTAAATATCATATATTGAAACCATC
* * * * * * *
16383580 CAAAGTGTTAAAATAGAATAATAGCAGCAAATTTGTATTTTTGCCTTTAAACGGCAAAAATAGTC
390 AAAACTATTAAAATAGAACAATAACAGCAAATTTGTATTTTTACCTTTAAACAGCAAAAATAGTC
* * * * ***
16383645 CTAAATAGGCGTAAATGACAACTTTTT
455 ATAAATAGACATAAATGACAAATTCGA
* **
16383672 CTCACATATCAACTGTAGAAA-CCAAGTTCAATCATTCAAACAAGTTTAATATCATGTATTGAAG
1 CACACATATCAACAAT-GAAAGCCAAGTTCAATCATTCAAACAAGTTTAATATCATGTATTGAAG
* * * * * *
16383736 CTATCCAA-ACTATTAAAATAGAATAATAATATCAAATTTGCATTTTT-CCTTTTAACGGCATAA
65 CCAT-CAAGACTATTAAAACAAAATAATAACAGCAAATTTGCATTTTTGCCTTTTAACGACA-AA
* * * ** * * *
16383799 AAAA-TCCTAAATAGATGTAAACGTTAGCTTTTTCACACATATCAA-CTATGGATACCAAGTTCA
128 AAAAGTCCTAAACAAAGGTAAACAATAACTTTTTCACACATATCAATC-GT-GAAACCAAGTTCA
* * * * * *
16383862 ATTATTCTGACAAGTTTGATATCAT-TCATTGAAGCTATGCAAACTATTAAAATAGAACAATAAC
191 ATCATT-TGAAAAGTTTAATATAATCT-ATTGAAGCTATCCAAACTATTAAAACAGAACAATAAC
* ** * * * * *
16383926 AACAAATTTGTATTTTTACCTATTAATGGCAT-AAAAGTCCTAAATAGATGTAAACAATAAATTT
254 AACAAAATTGTATTTTTACCTATTAACAGCATGAAAAATCCTAAACAAAGGTAAACAACAAATTT
* ** *
16383990 TTCATACATATCAACCGTGAAAACTAAGTTCAATAATTTGGATAAGTTAAATATCATATATTGAA
319 TTCACACATATCAACCGTGAAAACTAAGTTCAATAATTCAGAAAAGTTAAATATCATATATTGAA
** * ** *
16384055 ATTATCAAAACTATTAAAATAGAACAATAACTGTTAATTTGTATTTTTACCTTTTAACAGCACAA
384 ACCATCAAAACTATTAAAATAGAACAATAACAGCAAATTTGTATTTTTACCTTTAAACAGCA-AA
* *
16384120 AA-AG--ATATAATAGACATAAATTATAAATTACGA
448 AATAGTCATA-AATAGACATAAATGACAAATT-CGA
* * * ** *
16384153 CACATATATCAACAATGAAAGCTAAGTTCATTCATTCGGATAAGTTTAATATCAT
1 CACACATATCAACAATGAAAGCCAAGTTCAATCATTCAAACAAGTTTAATATCAT
16384208 AAACTTACTA
Statistics
Matches: 433, Mismatches: 91, Indels: 23
0.79 0.17 0.04
Matches are distributed among these distances:
479 4 0.01
480 79 0.18
481 269 0.62
482 81 0.19
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.32
Consensus pattern (481 bp):
CACACATATCAACAATGAAAGCCAAGTTCAATCATTCAAACAAGTTTAATATCATGTATTGAAGC
CATCAAGACTATTAAAACAAAATAATAACAGCAAATTTGCATTTTTGCCTTTTAACGACAAAAAA
AGTCCTAAACAAAGGTAAACAATAACTTTTTCACACATATCAATCGTGAAACCAAGTTCAATCAT
TTGAAAAGTTTAATATAATCTATTGAAGCTATCCAAACTATTAAAACAGAACAATAACAACAAAA
TTGTATTTTTACCTATTAACAGCATGAAAAATCCTAAACAAAGGTAAACAACAAATTTTTCACAC
ATATCAACCGTGAAAACTAAGTTCAATAATTCAGAAAAGTTAAATATCATATATTGAAACCATCA
AAACTATTAAAATAGAACAATAACAGCAAATTTGTATTTTTACCTTTAAACAGCAAAAATAGTCA
TAAATAGACATAAATGACAAATTCGA
Found at i:16385340 original size:13 final size:13
Alignment explanation
Indices: 16385305--16385341 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
16385295 ATAAAAGTGA
*
16385305 ATATATAAAAAAC
1 ATATATAAAGAAC
*
16385318 ATATGTAAAGAAC
1 ATATATAAAGAAC
16385331 ATATATAAAGA
1 ATATATAAAGA
16385342 CATTGAGAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.62, C:0.05, G:0.08, T:0.24
Consensus pattern (13 bp):
ATATATAAAGAAC
Found at i:16390364 original size:61 final size:61
Alignment explanation
Indices: 16390299--16390511 Score: 170
Period size: 61 Copynumber: 3.5 Consensus size: 61
16390289 ATTGAAGACT
* *
16390299 TTTTTGGTAAAAAACGCATTT-AATAATCCCCTCTATTTTTATCAGGGGATTATTCAAGGTA
1 TTTTTGCTAAAAAACGC-TTTCAATAATCCCCTCTATTTTTATCAGGGGATTATTCAAGGCA
* * * * * *
16390360 TTTTTTGCCAAAAACAC-C-ATCAATAATCCCCT-TAAATATTGA-CAAGGAGATTATTAAAGGC
1 -TTTTTGCTAAAAA-ACGCTTTCAATAATCCCCTCT--ATTTTTATC-AGGGGATTATTCAAGGC
*
16390421 G
61 A
* * * *
16390422 TTTTTGACT-AAAAACACTTTCAATAATCCTCTCTATTTTTATTAGAGGATTATTCAAGGCA
1 TTTTTG-CTAAAAAACGCTTTCAATAATCCCCTCTATTTTTATCAGGGGATTATTCAAGGCA
* *
16390483 TTTTCTG-TCAAAAATGCTTTCAATAATCC
1 TTTT-TGCTAAAAAACGCTTTCAATAATCC
16390512 TGTTAAATTT
Statistics
Matches: 118, Mismatches: 21, Indels: 25
0.72 0.13 0.15
Matches are distributed among these distances:
60 5 0.04
61 64 0.54
62 46 0.39
63 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (61 bp):
TTTTTGCTAAAAAACGCTTTCAATAATCCCCTCTATTTTTATCAGGGGATTATTCAAGGCA
Found at i:16390413 original size:123 final size:123
Alignment explanation
Indices: 16390286--16390541 Score: 318
Period size: 123 Copynumber: 2.1 Consensus size: 123
16390276 TTTTTTTAAA
* * * * *
16390286 ATTATTGAAGACTTTTTTG-GTAAAAAACGCATTT-AATAATCCCCTCTATTTTTATCAGGGGAT
1 ATTATTAAAGACGTTTTTGACT-AAAAACAC-TTTCAATAATCCCCTCTATTTTTATCAGAGGAT
* *
16390349 TATTCAAGGTATTTTTTGCCAAAAACACCATCAATAATCCCCTTAAATATTGACAAGGAG
64 TATTCAAGGCATTTTCTGCCAAAAACACCATCAATAATCCCCTTAAATATTGACAAGGAG
* * *
16390409 ATTATTAAAGGCGTTTTTGACTAAAAACACTTTCAATAATCCTCTCTATTTTTATTAGAGGATTA
1 ATTATTAAAGACGTTTTTGACTAAAAACACTTTCAATAATCCCCTCTATTTTTATCAGAGGATTA
* ** ** ** *
16390474 TTCAAGGCATTTTCTGTCAAAAATGCTTTCAATAATCCTGTTAAATTTTGACAAGGAG
66 TTCAAGGCATTTTCTGCCAAAAACACCATCAATAATCCCCTTAAATATTGACAAGGAG
16390532 ATTATTAAAG
1 ATTATTAAAG
16390542 GTATTTTTTT
Statistics
Matches: 113, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
122 3 0.03
123 109 0.96
124 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (123 bp):
ATTATTAAAGACGTTTTTGACTAAAAACACTTTCAATAATCCCCTCTATTTTTATCAGAGGATTA
TTCAAGGCATTTTCTGCCAAAAACACCATCAATAATCCCCTTAAATATTGACAAGGAG
Found at i:16390542 original size:123 final size:123
Alignment explanation
Indices: 16390320--16390542 Score: 329
Period size: 123 Copynumber: 1.8 Consensus size: 123
16390310 AAACGCATTT
* * *
16390320 AATAATCCCCTCTATTTTTATCAGGGGATTATTCAAGGTATTTTTTGCCAAAAACACCATCAATA
1 AATAATCCCCTCTATTTTTATCAGAGGATTATTCAAGGCATTTTCTGCCAAAAACACCATCAATA
16390385 ATCCCCTTAAATATTGACAAGGAGATTATTAAAGGCGTTTTTGACTAAAAACACTTTC
66 ATCCCCTTAAATATTGACAAGGAGATTATTAAAGGCGTTTTTGACTAAAAACACTTTC
* * * ** **
16390443 AATAATCCTCTCTATTTTTATTAGAGGATTATTCAAGGCATTTTCTGTCAAAAATGCTTTCAATA
1 AATAATCCCCTCTATTTTTATCAGAGGATTATTCAAGGCATTTTCTGCCAAAAACACCATCAATA
** *
16390508 ATCCTGTTAAATTTTGACAAGGAGATTATTAAAGG
66 ATCCCCTTAAATATTGACAAGGAGATTATTAAAGG
16390543 TATTTTTTTA
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
123 87 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (123 bp):
AATAATCCCCTCTATTTTTATCAGAGGATTATTCAAGGCATTTTCTGCCAAAAACACCATCAATA
ATCCCCTTAAATATTGACAAGGAGATTATTAAAGGCGTTTTTGACTAAAAACACTTTC
Found at i:16390599 original size:63 final size:63
Alignment explanation
Indices: 16390493--16390613 Score: 156
Period size: 63 Copynumber: 1.9 Consensus size: 63
16390483 TTTTCTGTCA
* * *
16390493 AAAATGCTTTCAATAATCCTGTTAAATTTTGACAAGGAGATTATTAAAGGTATTTTTTTACCT
1 AAAATGCCTTCAATAATCCTGTTAAATTTTGACAAAGAAATTATTAAAGGTATTTTTTTACCT
* * *
16390556 AAAATGCCTTCAATAATTCCT-TTAAATTTTTTA-AAAGAAATTATTGAAGGTGTTTTTT
1 AAAATGCCTTCAATAA-TCCTGTTAAA-TTTTGACAAAGAAATTATTAAAGGTATTTTTT
16390614 ACAAAAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
63 41 0.82
64 9 0.18
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.43
Consensus pattern (63 bp):
AAAATGCCTTCAATAATCCTGTTAAATTTTGACAAAGAAATTATTAAAGGTATTTTTTTACCT
Found at i:16391010 original size:49 final size:46
Alignment explanation
Indices: 16390915--16391032 Score: 128
Period size: 47 Copynumber: 2.5 Consensus size: 46
16390905 TTGAAGACGT
*
16390915 TTTTTGGCATAAAATGCCTTGAATTTTTTACAATAATATTTAAGGCA
1 TTTTTGGCA-AAAATGCCTTGAATTTTTTACAATAATATTCAAGGCA
* * ** *
16390962 TTTTTGGCAGAAAATGCTTTTAATTTTTTTTAGTGAAATATTCAAGGCA
1 TTTTTGGCA-AAAATGCCTTGAATTTTTTACAAT--AATATTCAAGGCA
*
16391011 TTTCTAGGCAAAAATGCCTTGA
1 TTT-TTGGCAAAAATGCCTTGA
16391033 CTAATCCTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
47 28 0.48
49 25 0.43
50 5 0.09
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (46 bp):
TTTTTGGCAAAAATGCCTTGAATTTTTTACAATAATATTCAAGGCA
Found at i:16391064 original size:222 final size:223
Alignment explanation
Indices: 16390749--16391164 Score: 543
Period size: 222 Copynumber: 1.9 Consensus size: 223
16390739 TACCAAAAAA
* * *
16390749 AAAATGCCTTCAATTTTTTGTAATGGAATATTTAAGGCATTTTCTAAGCAAAAATGCCTTGAGTA
1 AAAATGCCTTCAATTTTTTGTAATGAAATATTCAAGGCATTTTCTAAGCAAAAATGCCTTGACTA
* * * *
16390814 ATCCCAAATAAAAAAATCATGATTTATTGAAGG-TATTTTTTTTTATAGAAAATGCCTTGAATAA
66 ATCCCAAATAAAAAAATCATGATTTATTGAAGGTTATTTTTTTTTACAGAAAACGCATCGAATAA
* * * * * *
16390878 TCTTTTTTAAAAAAGTGGACGAGATTATTGAAGACGT-TTTTTGGCATAAAATGCCTTGAATTTT
131 TCCTTTCTAAAAAAGTGGACAAGATTATT-AA-AAGTGTTTTTAGCAGAAAATGCCTTGAATTTT
16390942 TTACAATAATATTTAAGGCATTTTTGGCAG
194 TTACAATAATATTTAAGGCATTTTTGGCAG
* * * * *
16390972 AAAATGCTTTTAATTTTTTTTAGTGAAATATTCAAGGCA-TTTCTAGGCAAAAATGCCTTGACTA
1 AAAATGCCTTCAATTTTTTGTAATGAAATATTCAAGGCATTTTCTAAGCAAAAATGCCTTGACTA
* * *
16391036 ATCCTAATTAAAAAAATCAT-AGTTTATTGAAGGTTTTTTTTTTTTTTTACAGAAAACGCATCGA
66 ATCCCAAATAAAAAAATCATGA-TTTATTGAAGG---TTATTTTTTTTTACAGAAAACGCATCGA
* *
16391100 ATAATCCTTTCTAAAAAATTGGACAAGATTATTAAAAGTGTTTTTAGTAGAAAATGCCTTGAATT
127 ATAATCCTTTCTAAAAAAGTGGACAAGATTATTAAAAGTGTTTTTAGCAGAAAATGCCTTGAATT
16391165 ATCCTTGATA
Statistics
Matches: 164, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
221 1 0.01
222 52 0.32
223 33 0.20
224 3 0.02
225 24 0.15
226 51 0.31
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (223 bp):
AAAATGCCTTCAATTTTTTGTAATGAAATATTCAAGGCATTTTCTAAGCAAAAATGCCTTGACTA
ATCCCAAATAAAAAAATCATGATTTATTGAAGGTTATTTTTTTTTACAGAAAACGCATCGAATAA
TCCTTTCTAAAAAAGTGGACAAGATTATTAAAAGTGTTTTTAGCAGAAAATGCCTTGAATTTTTT
ACAATAATATTTAAGGCATTTTTGGCAG
Found at i:16391253 original size:63 final size:63
Alignment explanation
Indices: 16391174--16391296 Score: 169
Period size: 63 Copynumber: 2.0 Consensus size: 63
16391164 TATCCTTGAT
* *
16391174 AAAAATGGAGGAGATTATTCAAGGCATTTTT-GCAAAAAAAATA-CCTTTAATAATTTTTTAAA
1 AAAAATGGAGGAGATTATTCAAGGCATTTTTAGCAAAAAAAA-AGCCTTCAATAATCTTTTAAA
* * *
16391236 AAAAATTGGAGGGGATTATTGAAGGCATTTTTAGTAAAAAAAAAGCCTTCAATAATCTTTT
1 AAAAA-TGGAGGAGATTATTCAAGGCATTTTTAGCAAAAAAAAAGCCTTCAATAATCTTTT
16391297 CGTCGAAATT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
62 5 0.09
63 25 0.47
64 23 0.43
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.33
Consensus pattern (63 bp):
AAAAATGGAGGAGATTATTCAAGGCATTTTTAGCAAAAAAAAAGCCTTCAATAATCTTTTAAA
Found at i:16391317 original size:64 final size:63
Alignment explanation
Indices: 16391174--16391348 Score: 158
Period size: 64 Copynumber: 2.8 Consensus size: 63
16391164 TATCCTTGAT
* * * *
16391174 AAAAA-TGGAGGAGATTATTCAAGGCATTTTTGCAAAAAAAATACCTTTAATAATTTTTTAAA
1 AAAAATTGAAGGAGATTATTGAAGGCATTTTTGCAAAAAAAATACCTTCAATAATCTTTTAAA
* * * ***
16391236 AAAAATTGGAGGGGATTATTGAAGGCATTTTTAGTAAAAAAAA-AGCCTTCAATAATCTTTTCGT
1 AAAAATTGAAGGAGATTATTGAAGGCATTTTT-GCAAAAAAAATA-CCTTCAATAATCTTTTAAA
** * * * * *
16391300 CGAAATTTAAGGAGATTATTGAAAGCGTTTTTG-ACAGAAAATACCTTCA
1 AAAAATTGAAGGAGATTATTGAAGGCATTTTTGCAAAAAAAATACCTTCA
16391349 CTGATGATTT
Statistics
Matches: 92, Mismatches: 17, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
62 17 0.18
63 27 0.29
64 48 0.52
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.33
Consensus pattern (63 bp):
AAAAATTGAAGGAGATTATTGAAGGCATTTTTGCAAAAAAAATACCTTCAATAATCTTTTAAA
Found at i:16391752 original size:28 final size:28
Alignment explanation
Indices: 16391720--16391789 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
16391710 AAATATTATC
16391720 GTTTGCTGAATGGTATTGTATGATATTG
1 GTTTGCTGAATGGTATTGTATGATATTG
*
16391748 GTTTGCTGAATGGTATTGTATGATTTTG
1 GTTTGCTGAATGGTATTGTATGATATTG
*
16391776 GTTTGCGGAATGGT
1 GTTTGCTGAATGGT
16391790 TTGCTAAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
GTTTGCTGAATGGTATTGTATGATATTG
Found at i:16391791 original size:12 final size:12
Alignment explanation
Indices: 16391774--16391826 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
16391764 TGTATGATTT
*
16391774 TGGTTTGCGGAA
1 TGGTTTGCTGAA
*
16391786 TGGTTTGCTAAA
1 TGGTTTGCTGAA
*
16391798 TGTTGTTT-CCGAA
1 TG--GTTTGCTGAA
16391811 TGGTTTGCTGAA
1 TGGTTTGCTGAA
16391823 TGGT
1 TGGT
16391827 GTTTTTGAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
11 4 0.12
12 20 0.61
13 5 0.15
14 4 0.12
ACGTcount: A:0.17, C:0.09, G:0.32, T:0.42
Consensus pattern (12 bp):
TGGTTTGCTGAA
Found at i:16391814 original size:25 final size:25
Alignment explanation
Indices: 16391783--16391830 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
16391773 TTGGTTTGCG
*
16391783 GAATGGTTTGCTAAATGTTGTTTCC
1 GAATGGTTTGCTAAATGGTGTTTCC
*
16391808 GAATGGTTTGCTGAATGGTGTTT
1 GAATGGTTTGCTAAATGGTGTTT
16391831 TTGAACACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.19, C:0.08, G:0.29, T:0.44
Consensus pattern (25 bp):
GAATGGTTTGCTAAATGGTGTTTCC
Found at i:16395257 original size:63 final size:62
Alignment explanation
Indices: 16395096--16395543 Score: 367
Period size: 63 Copynumber: 7.1 Consensus size: 62
16395086 ATTTTTTATG
* * * * *
16395096 GGATTATTGAAGGCATTTTTAGCCAGAAAACGCCTTGAATAAT-CCTTTATAAA-ATGTTGAAT
1 GGATTATTGAAGGCATTTTTGGCCA-AAAACGCCTTCAATAATCCCTTCA-AAATTTTTTGAAT
* * * * * * *
16395158 GAGGTTATTAAAGGCGTTTCTGGCTAAAAACACCTTCAATAATCCCCTTCAAAATTTTTTGTAT
1 G-GATTATTGAAGGCATTTTTGGCCAAAAACGCCTTCAATAAT-CCCTTCAAAATTTTTTGAAT
* * *
16395222 GGATTATTGAATGCATTTTTGGTCAAAAACGCCTTCAATAATTCAC-TCAATAAATTTTTATG-A
1 GGATTATTGAAGGCATTTTTGGCCAAAAACGCCTTCAATAA-TCCCTTC-A-AAATTTTT-TGAA
*
16395285 G
62 T
** * * * *
16395286 GGATTATTGAAGGCATTTTTGATC-AAAATGCCTCCAATAATCCCTTTC-AAATTTTTTCAAA
1 GGATTATTGAAGGCATTTTTGGCCAAAAACGCCTTCAATAATCCC-TTCAAAATTTTTTGAAT
* * * *
16395347 GGATTATTGAAGGCATTTTTGGTCAGAAATGCCTTCAATAAT-CCTATCAGTAATTTTTATG-A-
1 GGATTATTGAAGGCATTTTTGGCCAAAAACGCCTTCAATAATCCCT-TCA-AAATTTTT-TGAAT
* * *
16395409 GGAATTATTGAAGGTATTTTTGGCCAAAAACACCTTCAATAATCCTTTCAAAATTTTTT-ATAT
1 GG-ATTATTGAAGGCATTTTTGGCCAAAAACGCCTTCAATAATCCCTTCAAAATTTTTTGA-AT
* * * * * *
16395472 GGATTATTGAAGGCATTTTTGACCAAAAATGCATTTAATATTCTCTTTCCAAAATTTTTTGAAT
1 GGATTATTGAAGGCATTTTTGGCCAAAAACGCCTTCAATAATC-CCTT-CAAAATTTTTTGAAT
16395536 GGATTATT
1 GGATTATT
16395544 AAAAGTGTTT
Statistics
Matches: 314, Mismatches: 48, Indels: 46
0.77 0.12 0.11
Matches are distributed among these distances:
60 2 0.01
61 37 0.12
62 80 0.25
63 122 0.39
64 70 0.22
65 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (62 bp):
GGATTATTGAAGGCATTTTTGGCCAAAAACGCCTTCAATAATCCCTTCAAAATTTTTTGAAT
Found at i:16395388 original size:62 final size:61
Alignment explanation
Indices: 16395086--16395643 Score: 347
Period size: 63 Copynumber: 8.9 Consensus size: 61
16395076 TAAACAAAAT
** * * * *
16395086 ATTTTTTATGGGATTATTGAAGGCATTTTTAGCCAGAAAACGCCTTGAATAAT-CCTTTATAA
1 ATTTTTTAAAGGATTATTGAAGGCATTTTTGGCCA-AAAATGCCTTCAATAATCCCTTT-CAA
* * * * * * * ** *
16395148 AATGTTGAATGAGG-TTATTAAAGGCGTTTCTGGCTAAAAACACCTTCAATAATCCCCTTCAAA
1 ATTTTTTAA--AGGATTATTGAAGGCATTTTTGGCCAAAAATGCCTTCAATAATCCCTTTC-AA
* * * * * **
16395211 ATTTTTTGTATGGATTATTGAATGCATTTTTGGTCAAAAACGCCTTCAATAATTCACTCAAT-AA
1 ATTTTTT-AAAGGATTATTGAAGGCATTTTTGGCCAAAAATGCCTTCAATAA-TC-C-CTTTCAA
* * ** *
16395275 ATTTTTATGAGGGATTATTGAAGGCATTTTTGATC-AAAATGCCTCCAATAATCCCTTTCAA
1 ATTTTT-TAAAGGATTATTGAAGGCATTTTTGGCCAAAAATGCCTTCAATAATCCCTTTCAA
* * *
16395336 ATTTTTTCAAAGGATTATTGAAGGCATTTTTGGTCAGAAATGCCTTCAATAAT-CCTATCAGTA
1 ATTTTTT-AAAGGATTATTGAAGGCATTTTTGGCCAAAAATGCCTTCAATAATCCCTTTCA--A
* * **
16395399 A-TTTTTATGAGGAATTATTGAAGGTATTTTTGGCCAAAAACACCTTCAATAAT-CCTTTCAAA
1 ATTTTTTA-AAGG-ATTATTGAAGGCATTTTTGGCCAAAAATGCCTTCAATAATCCCTTTC-AA
* * * * * *
16395461 ATTTTTTATATGGATTATTGAAGGCATTTTTGACCAAAAATGCATTTAATATTCTCTTTCCAAA
1 ATTTTTTA-AAGGATTATTGAAGGCATTTTTGGCCAAAAATGCCTTCAATAATCCCTTT-C-AA
* * * ** * * * * *
16395525 ATTTTTTGAATGGATTATTAAAAGTGTTTTTTGCCAGAAAATACCTTGAATAACCCCATTCAA
1 ATTTTTT-AAAGGATTATTGAAGGCATTTTTGGCCA-AAAATGCCTTCAATAATCCCTTTCAA
* * ** * * *
16395588 TTTTTTTATAGTCTTATTCAAGGTATTTTTTGGCCAAAAATACCTTCAATAATCCC
1 ATTTTTTAAAGGATTATTGAAGGCA-TTTTTGGCCAAAAATGCCTTCAATAATCCC
16395644 CTCACAATGT
Statistics
Matches: 389, Mismatches: 83, Indels: 48
0.75 0.16 0.09
Matches are distributed among these distances:
60 3 0.01
61 40 0.10
62 111 0.29
63 144 0.37
64 70 0.18
65 19 0.05
66 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (61 bp):
ATTTTTTAAAGGATTATTGAAGGCATTTTTGGCCAAAAATGCCTTCAATAATCCCTTTCAA
Found at i:16395502 original size:125 final size:124
Alignment explanation
Indices: 16395080--16395690 Score: 497
Period size: 125 Copynumber: 4.9 Consensus size: 124
16395070 TATAATTAAA
* * *
16395080 CAAAATATTTTT-TATGGGATTATTGAAGGCATTTTTAGCCAGAAAACGCCTTGAATAATCCTTT
1 CAAAAT-TTTTTATAT-GGATTATTGAAGGCATTTTTGGCCA-AAAATGCCTTCAATAATCC--T
** * * * * *
16395144 AT-AAAATGTTGAATGAGG-TTATTAAAGGCGTTTCTGGCTAAAAACACCTTCAATAATCCCCTT
61 ATCAAAAT-TTTTATGAGGATTATTGAAGGTGTTTTTGGCCAAAAACACCTTCAATAATCCCTTT
* * * * *
16395207 CAAAATTTTTTGTATGGATTATTGAATGCATTTTTGGTCAAAAACGCCTTCAATAATTC-ACTCA
1 CAAAATTTTTTATATGGATTATTGAAGGCATTTTTGGCCAAAAATGCCTTCAATAATCCTA-TC-
** ** ** *
16395271 ATAAATTTTTATGAGGGATTATTGAAGGCATTTTTGATC-AAAATGCCTCCAATAATCCCTTT
64 A-AAATTTTTATGA-GGATTATTGAAGGTGTTTTTGGCCAAAAACACCTTCAATAATCCCTTT
* * *
16395333 C-AAATTTTTTCA-AAGGATTATTGAAGGCATTTTTGGTCAGAAATGCCTTCAATAATCCTATCA
1 CAAAATTTTTT-ATATGGATTATTGAAGGCATTTTTGGCCAAAAATGCCTTCAATAATCCTATCA
* *
16395396 GTAATTTTTATGAGGAATTATTGAAGGTATTTTTGGCCAAAAACACCTTCAATAAT-CCTTT
65 -AAATTTTTATGAGG-ATTATTGAAGGTGTTTTTGGCCAAAAACACCTTCAATAATCCCTTT
* * * * *
16395457 CAAAATTTTTTATATGGATTATTGAAGGCATTTTTGACCAAAAATGCATTTAATATTCTCTTTCC
1 CAAAATTTTTTATATGGATTATTGAAGGCATTTTTGGCCAAAAATGCCTTCAATAATC-CTAT-C
* * * * * * *
16395522 AAAATTTTT-TGAATGGATTATTAAAAGTGTTTTTTGCCAGAAAATACCTTGAATAACCCCATT
64 AAAATTTTTATG-A-GGATTATTGAAGGTGTTTTTGGCCA-AAAACACCTTCAATAATCCCTTT
* ** * * * **
16395585 C-AATTTTTTTATA-GTCTTATTCAAGGTATTTTTTGGCCAAAAATACCTTCAATAATCCCCTCA
1 CAAAATTTTTTATATGGATTATTGAAGGCA-TTTTTGGCCAAAAATGCCTTCAATAATCCTATCA
* * * * *
16395648 CAATGTTTTAGGGGGAGTATTGAAGGTGTTTTTAGCCAAAAAC
65 AAAT-TTTTATGAGGATTATTGAAGGTGTTTTTGGCCAAAAAC
16395691 GTTTTAAATA
Statistics
Matches: 394, Mismatches: 68, Indels: 47
0.77 0.13 0.09
Matches are distributed among these distances:
122 1 0.00
123 3 0.01
124 42 0.11
125 165 0.42
126 101 0.26
127 77 0.20
128 5 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (124 bp):
CAAAATTTTTTATATGGATTATTGAAGGCATTTTTGGCCAAAAATGCCTTCAATAATCCTATCAA
AATTTTTATGAGGATTATTGAAGGTGTTTTTGGCCAAAAACACCTTCAATAATCCCTTT
Found at i:16396066 original size:62 final size:63
Alignment explanation
Indices: 16396000--16396167 Score: 189
Period size: 64 Copynumber: 2.7 Consensus size: 63
16395990 AAATGTCTTT
* *
16396000 AATAATCACCT-TTATTTTTTATAAGGGGATTATTCAAGGCATTGTCTGTCAAAAACGCCTTC
1 AATAATCACCTATAATTTTTTATAAGGGGATTATTCAAGGCATTGTCTGCCAAAAACGCCTTC
* * * * * * * *
16396062 AATAATCCCCTATACATTTGTTATGAGGGAATTATTTAAGACATTTTCTGCCAAAAATGCCTTC
1 AATAATCACCTATA-ATTTTTTATAAGGGGATTATTCAAGGCATTGTCTGCCAAAAACGCCTTC
** *
16396126 AATAATCA-CTCCAATTTTTTA-AAGAGGATTATTCAAGGCATT
1 AATAATCACCTATAATTTTTTATAAGGGGATTATTCAAGGCATT
16396168 TTAGTCAATA
Statistics
Matches: 85, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
61 16 0.19
62 17 0.20
63 4 0.05
64 48 0.56
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.36
Consensus pattern (63 bp):
AATAATCACCTATAATTTTTTATAAGGGGATTATTCAAGGCATTGTCTGCCAAAAACGCCTTC
Found at i:16396124 original size:64 final size:62
Alignment explanation
Indices: 16395979--16396169 Score: 172
Period size: 64 Copynumber: 3.0 Consensus size: 62
16395969 ATGAAAAGCA
* * * * * *
16395979 TTTCTGACAGAAAATGTCTTTAATAATCACCTTTATTTTTTATAAGGGGATTATTCAAGGCAT
1 TTTCTGACA-AAAATGCCTTCAATAATCACCTTCATTTGTTATAAGGGAATTATTCAAGACAT
* * * * * *
16396042 TGTCTGTCAAAAACGCCTTCAATAATCCCCTATACATTTGTTATGAGGGAATTATTTAAGACAT
1 TTTCTGACAAAAATGCCTTCAATAATCACCT-T-CATTTGTTATAAGGGAATTATTCAAGACAT
* * * *
16396106 TTTCTGCCAAAAATGCCTTCAATAATCA-CTCCAATTTTTTA-AAGAGG-ATTATTCAAGGCAT
1 TTTCTGACAAAAATGCCTTCAATAATCACCTTC-ATTTGTTATAAG-GGAATTATTCAAGACAT
16396167 TTT
1 TTT
16396170 AGTCAATAAA
Statistics
Matches: 103, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
61 18 0.17
62 27 0.26
63 10 0.10
64 48 0.47
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (62 bp):
TTTCTGACAAAAATGCCTTCAATAATCACCTTCATTTGTTATAAGGGAATTATTCAAGACAT
Found at i:16396589 original size:29 final size:28
Alignment explanation
Indices: 16396541--16396602 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
16396531 ATAGTGAATG
* *
16396541 TTCAATTTGATACTTAAATTTTAAAATTT
1 TTCAATATGATACTTAAATTAT-AAATTT
* *
16396570 TTCAATATGATATTTGAATTATAAATTT
1 TTCAATATGATACTTAAATTATAAATTT
*
16396598 GTCAA
1 TTCAA
16396603 CTAAAACGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 10 0.36
29 18 0.64
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (28 bp):
TTCAATATGATACTTAAATTATAAATTT
Found at i:16399242 original size:25 final size:23
Alignment explanation
Indices: 16399202--16399252 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 23
16399192 ATTCACTAGG
*
16399202 TTTGTTATTTATTATGTTGTTAT
1 TTTGTTATTTATTATGGTGTTAT
16399225 TTTGTTATGCTTATTATGGTGTTAT
1 TTTGTTAT--TTATTATGGTGTTAT
16399250 TTT
1 TTT
16399253 CATATTTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 8 0.32
25 17 0.68
ACGTcount: A:0.16, C:0.02, G:0.16, T:0.67
Consensus pattern (23 bp):
TTTGTTATTTATTATGGTGTTAT
Found at i:16401109 original size:11 final size:11
Alignment explanation
Indices: 16401093--16401127 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
16401083 CAATGAAAAT
16401093 AGAAAAGGAAA
1 AGAAAAGGAAA
*
16401104 AGAAAAAGAAA
1 AGAAAAGGAAA
*
16401115 AGAAAAGGGAA
1 AGAAAAGGAAA
16401126 AG
1 AG
16401128 TTTAAAAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (11 bp):
AGAAAAGGAAA
Found at i:16401368 original size:13 final size:13
Alignment explanation
Indices: 16401352--16401376 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16401342 TTCAATTTTA
16401352 ATCGAATTAATTG
1 ATCGAATTAATTG
16401365 ATCGAATTAATT
1 ATCGAATTAATT
16401377 TAATTTGATT
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:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (13 bp):
ATCGAATTAATTG
Found at i:16401577 original size:25 final size:26
Alignment explanation
Indices: 16401543--16401596 Score: 92
Period size: 25 Copynumber: 2.1 Consensus size: 26
16401533 AAACAGGCCA
*
16401543 TTTTATTTTTATGAATTATAAAAGTT
1 TTTTATTTTTATAAATTATAAAAGTT
16401569 TTTTA-TTTTATAAATTATAAAAGTT
1 TTTTATTTTTATAAATTATAAAAGTT
16401594 TTT
1 TTT
16401597 AACTTAATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 22 0.81
26 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (26 bp):
TTTTATTTTTATAAATTATAAAAGTT
Found at i:16401779 original size:36 final size:35
Alignment explanation
Indices: 16401720--16401791 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 35
16401710 ATTCGATTAA
16401720 TTTTAAAATTAATCAAATTCAATTTAATTAATTAAAT
1 TTTTAAAATTAAT-AAATTCAATTTAATTAA-TAAAT
*
16401757 TTTTAAAATTAAT-AATTACAATTTGATTAATAAAT
1 TTTTAAAATTAATAAATT-CAATTTAATTAATAAAT
16401792 AATAAATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
35 9 0.27
36 11 0.33
37 13 0.39
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (35 bp):
TTTTAAAATTAATAAATTCAATTTAATTAATAAAT
Found at i:16406798 original size:18 final size:18
Alignment explanation
Indices: 16406775--16406814 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
16406765 TATTTAATAT
16406775 TTTAATTTATAATATTA-A
1 TTTAATTTA-AATATTATA
*
16406793 TTTAATTTAATTATTATA
1 TTTAATTTAAATATTATA
16406811 TTTA
1 TTTA
16406815 TATACAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTAATTTAAATATTATA
Found at i:16406823 original size:24 final size:22
Alignment explanation
Indices: 16406796--16406839 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
16406786 ATATTAATTT
*
16406796 AATTTAATTATTATATTTATATAC
1 AATTTAAATA-TA-ATTTATATAC
16406820 AATTTAAATATAATTTATAT
1 AATTTAAATATAATTTATAT
16406840 TAAAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 2 0.11
24 9 0.47
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
AATTTAAATATAATTTATATAC
Found at i:16406865 original size:17 final size:19
Alignment explanation
Indices: 16406824--16406879 Score: 61
Period size: 17 Copynumber: 3.3 Consensus size: 19
16406814 ATATACAATT
16406824 TAAATATAAT-TTATATTA
1 TAAATATAATATTATATTA
16406842 -AAA-ATAATATT-T-TTA
1 TAAATATAATATTATATTA
*
16406857 TAAATATAATATTAAATTA
1 TAAATATAATATTATATTA
16406876 -AAAT
1 TAAAT
16406880 TATTAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
15 3 0.09
16 9 0.28
17 13 0.41
18 4 0.12
19 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAATATAATATTATATTA
Found at i:16407231 original size:3 final size:3
Alignment explanation
Indices: 16407223--16407254 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
16407213 TCTACCTGAC
*
16407223 TTA TTA TTA GTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
16407255 GATGTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:16408090 original size:8 final size:8
Alignment explanation
Indices: 16408077--16408327 Score: 68
Period size: 9 Copynumber: 29.6 Consensus size: 8
16408067 CTTTTTTTAA
16408077 AATTTTTT
1 AATTTTTT
*
16408085 ATTTTTTT
1 AATTTTTT
*
16408093 AATTTTTC
1 AATTTTTT
**
16408101 AAAATTTT
1 AATTTTTT
*
16408109 -CTTTTTT
1 AATTTTTT
*
16408116 -TTTTTTT
1 AATTTTTT
*
16408123 AA-TTTTC
1 AATTTTTT
*
16408130 AGTTTTTT
1 AATTTTTT
16408138 AATTTTTT
1 AATTTTTT
*
16408146 -ATTTTTG
1 AATTTTTT
*
16408153 GATTTTTT
1 AATTTTTT
16408161 CAAATTTTTT
1 --AATTTTTT
*
16408171 -CTTCCTTTT
1 AATT--TTTT
16408180 AATTTTTTT
1 AA-TTTTTT
* **
16408189 AAAATTTAC
1 -AATTTTTT
16408198 AGATTTTTT
1 A-ATTTTTT
**
16408207 ATATTTTAGA
1 A-ATTTT-TT
*
16408217 AATTTTTC
1 AATTTTTT
16408225 AATTTTTTT
1 AA-TTTTTT
16408234 GAATTTTTT
1 -AATTTTTT
*
16408243 GAATTTTTG
1 -AATTTTTT
16408252 AATTTTTT
1 AATTTTTT
*
16408260 GAA-TTTTC
1 -AATTTTTT
16408268 ATATTTTTT
1 A-ATTTTTT
16408277 GAATCTCTTTTTT
1 -AA----TTTTTT
*
16408290 AAATTTTCAT
1 -AATTTT-TT
16408300 AA-TTTTT
1 AATTTTTT
16408307 -ATTTTTT
1 AATTTTTT
16408314 AGATTTTTT
1 A-ATTTTTT
16408323 AATTT
1 AATTT
16408328 CTTTTTGAAT
Statistics
Matches: 178, Mismatches: 39, Indels: 52
0.66 0.14 0.19
Matches are distributed among these distances:
6 1 0.01
7 30 0.17
8 57 0.32
9 66 0.37
10 14 0.08
11 2 0.01
13 8 0.04
ACGTcount: A:0.24, C:0.05, G:0.04, T:0.67
Consensus pattern (8 bp):
AATTTTTT
Found at i:16408098 original size:26 final size:27
Alignment explanation
Indices: 16408069--16408119 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
16408059 TTTTTGGACT
*
16408069 TTTTTTAAAATTTT-TTATTTTTTTAA
1 TTTTTCAAAATTTTCTTATTTTTTTAA
*
16408095 TTTTTCAAAATTTTCTTTTTTTTTT
1 TTTTTCAAAATTTTCTTATTTTTTT
16408120 TTTAATTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (27 bp):
TTTTTCAAAATTTTCTTATTTTTTTAA
Found at i:16408144 original size:30 final size:31
Alignment explanation
Indices: 16408077--16408169 Score: 82
Period size: 30 Copynumber: 3.0 Consensus size: 31
16408067 CTTTTTTTAA
16408077 AATTTTTTATTTTTTTAATTTTTCAAAATTTT
1 AATTTTTT-TTTTTTTAATTTTTCAAAATTTT
* ***
16408109 -CTTTTTTTTTTTTTAA-TTTTCAGTTTTTT
1 AATTTTTTTTTTTTTAATTTTTCAAAATTTT
** * *
16408138 AATTTTTTATTTTTGGATTTTTTCAAATTTTT
1 AATTTTTT-TTTTTTTAATTTTTCAAAATTTT
16408170 TCTTCCTTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
29 10 0.21
30 15 0.31
31 12 0.25
32 11 0.23
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.72
Consensus pattern (31 bp):
AATTTTTTTTTTTTTAATTTTTCAAAATTTT
Found at i:16408231 original size:9 final size:9
Alignment explanation
Indices: 16408228--16408266 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
16408218 ATTTTTCAAT
16408228 TTTTTTGAA
1 TTTTTTGAA
16408237 TTTTTTGAA
1 TTTTTTGAA
16408246 -TTTTTGAA
1 TTTTTTGAA
16408254 TTTTTTGAA
1 TTTTTTGAA
16408263 TTTT
1 TTTT
16408267 CATATTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 8 0.28
9 21 0.72
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (9 bp):
TTTTTTGAA
Found at i:16408231 original size:27 final size:27
Alignment explanation
Indices: 16408210--16408266 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
16408200 ATTTTTTATA
16408210 TTTTAGAAATTTTTCAATTTTTTTGAAT
1 TTTTAG-AATTTTTCAATTTTTTTGAAT
* *
16408238 TTTTTGAATTTTTGAA-TTTTTTGAAT
1 TTTTAGAATTTTTCAATTTTTTTGAAT
16408264 TTT
1 TTT
16408267 CATATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 13 0.48
27 9 0.33
28 5 0.19
ACGTcount: A:0.25, C:0.02, G:0.09, T:0.65
Consensus pattern (27 bp):
TTTTAGAATTTTTCAATTTTTTTGAAT
Found at i:16408232 original size:19 final size:19
Alignment explanation
Indices: 16408210--16408250 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
16408200 ATTTTTTATA
16408210 TTTTAGAAATTTTTCAATT
1 TTTTAGAAATTTTTCAATT
* * *
16408229 TTTTTGAATTTTTTGAATT
1 TTTTAGAAATTTTTCAATT
16408248 TTT
1 TTT
16408251 GAATTTTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.66
Consensus pattern (19 bp):
TTTTAGAAATTTTTCAATT
Found at i:16408240 original size:17 final size:16
Alignment explanation
Indices: 16408230--16408280 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 16
16408220 TTTTCAATTT
*
16408230 TTTTGAATTTTTTGAA
1 TTTTCAATTTTTTGAA
*
16408246 TTTTTGAATTTTTTGAA
1 -TTTTCAATTTTTTGAA
16408263 TTTTCATATTTTTTGAA
1 TTTTCA-ATTTTTTGAA
16408280 T
1 T
16408281 CTCTTTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 5 0.16
17 27 0.84
ACGTcount: A:0.24, C:0.02, G:0.10, T:0.65
Consensus pattern (16 bp):
TTTTCAATTTTTTGAA
Found at i:16411585 original size:9 final size:9
Alignment explanation
Indices: 16411571--16411596 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
16411561 GGTACGTGCC
16411571 ATCTCAATT
1 ATCTCAATT
16411580 ATCTCAATT
1 ATCTCAATT
16411589 ATCTCAAT
1 ATCTCAAT
16411597 CAATGAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (9 bp):
ATCTCAATT
Found at i:16413291 original size:21 final size:20
Alignment explanation
Indices: 16413238--16413291 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
16413228 AAATTTAAGT
*
16413238 TCAAA-GTCAAAATAAAAAA
1 TCAAAGGTCAAAGTAAAAAA
* *
16413257 TCAAAGGTCAAAAGTCAAAAG
1 TCAAAGGTC-AAAGTAAAAAA
16413278 TCAAAGGGTCAAAG
1 TCAAA-GGTCAAAG
16413292 GGATGCAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 5 0.17
20 3 0.10
21 17 0.59
22 4 0.14
ACGTcount: A:0.56, C:0.13, G:0.17, T:0.15
Consensus pattern (20 bp):
TCAAAGGTCAAAGTAAAAAA
Found at i:16415351 original size:20 final size:19
Alignment explanation
Indices: 16415306--16415343 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
16415296 AATTCATTAA
*
16415306 ATTTCTTTTTTAGAACAAT
1 ATTTCTTTTTTAGAAAAAT
16415325 ATTTTCTTTTTTA-AAAAAT
1 A-TTTCTTTTTTAGAAAAAT
16415344 TCATTTCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.55
Consensus pattern (19 bp):
ATTTCTTTTTTAGAAAAAT
Found at i:16419022 original size:23 final size:23
Alignment explanation
Indices: 16418994--16419046 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
16418984 ATATGGATCA
16418994 CTTAAATACTAACATTTAAGTAG
1 CTTAAATACTAACATTTAAGTAG
16419017 CTTAAATACTAACATTTAAGTAG
1 CTTAAATACTAACATTTAAGTAG
16419040 CTTAAAT
1 CTTAAAT
16419047 CCCATCAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (23 bp):
CTTAAATACTAACATTTAAGTAG
Found at i:16426434 original size:3 final size:3
Alignment explanation
Indices: 16426428--16426480 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
16426418 ATATTTTCTT
16426428 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16426476 TTA TT
1 TTA TT
16426481 CTTTGTTGAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:16443875 original size:114 final size:114
Alignment explanation
Indices: 16443739--16444033 Score: 333
Period size: 114 Copynumber: 2.6 Consensus size: 114
16443729 ATGAAAATTT
16443739 TATTTTTTAAAATTTAATAAAAATGACGTTTTTAAAATA-AAAATACAATCTTTGTTAAAAAGAT
1 TATTTTTTAAAATTTAATAAAAATGACGTTTTTAAAATAGAAAATACAATCTTTGTTAAAAAGAT
* * ** * *
16443803 TATATTTTTAAGA-TAAAAGCATAATTTTTTGTTGTAAATATGAAAAAAAA
66 GATATTTTTAAAATTAAAAAAATAATTTTTT-TT-AAAACATGAAAAAAAA
* * * * * * * *
16443853 TATTTTTTAGAATTTAATAAAAATGACATTTTTAAGATAGAAAACATAATTTTTATTGAAAAGAT
1 TATTTTTTAAAATTTAATAAAAATGACGTTTTTAAAATAGAAAATACAATCTTTGTTAAAAAGAT
* * *
16443918 GATGTTTTTAAAATTAAAAAAATAGTTTTTTTTAAAACATGAAAAAATA
66 GATATTTTTAAAATTAAAAAAATAATTTTTTTTAAAACATGAAAAAAAA
* * * * * * * *
16443967 TATTTTTTAAAATTCAACAAACATAATGTTTCTAAAATAGAAAATGCAATCTTTGTTAAAAATAT
1 TATTTTTTAAAATTTAATAAAAATGACGTTTTTAAAATAGAAAATACAATCTTTGTTAAAAAGAT
16444032 GA
66 GA
16444034 AAAAAAAAAT
Statistics
Matches: 146, Mismatches: 33, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
114 100 0.68
115 32 0.22
116 14 0.10
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (114 bp):
TATTTTTTAAAATTTAATAAAAATGACGTTTTTAAAATAGAAAATACAATCTTTGTTAAAAAGAT
GATATTTTTAAAATTAAAAAAATAATTTTTTTTAAAACATGAAAAAAAA
Found at i:16443949 original size:24 final size:23
Alignment explanation
Indices: 16443922--16443980 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
16443912 AAAGATGATG
*
16443922 TTTTTAAAATTAAAAAAATAGTTT
1 TTTTTAAAATTAAAAAAATA-TAT
* *
16443946 TTTTTAAAACATGAAAAAATATAT
1 TTTTTAAAA-TTAAAAAAATATAT
16443970 TTTTTAAAATT
1 TTTTTAAAATT
16443981 CAACAAACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 1 0.03
24 20 0.67
25 9 0.30
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (23 bp):
TTTTTAAAATTAAAAAAATATAT
Found at i:16444089 original size:190 final size:186
Alignment explanation
Indices: 16443838--16444219 Score: 443
Period size: 190 Copynumber: 2.0 Consensus size: 186
16443828 TTTTTGTTGT
* *
16443838 AAATATGAAAAAAAATATTTTTTAGAATTTAATAAAAATGACATTTTTAAGATAGAAAACATAAT
1 AAATATGAAAAAAAATATTTTTTAAAATTCAATAAAAATGACATTTTTAAGATAGAAAACATAAT
* * ** * * *
16443903 TTTTATTGAAAAGATGATGTTTTTAAAATTAAAAAAATAGTTTTT-TTTAAAACATGA-AAAAAT
66 CTTTATTGAAAAAACAATGTTTTTAAAA-TAAAAAAATAATTTTTGTTGAAAACAT-ATAAAAAC
* *
16443966 ATATTTTTTAAAATTCAACAAACATAATGTTTCTAAAATAGAAAATGC-AATCTTTGTTAA
129 AT-TTTTTTAAAATTCAACAAAAATAATATTTCTAAAATA-AAAAT-CTAATCTTTGTTAA
16444026 AAATATGAAAAAAAAAATATAATTTTTAAAATTCAATAAAAA-GACATTTTTAA-AGTA-AAAAC
1 AAATATG--AAAAAAAATAT--TTTTTAAAATTCAATAAAAATGACATTTTTAAGA-TAGAAAAC
* * **
16444088 ATAATCTTTATTGAAAAAACAATTTTTTTAAGATAAAAACGTAATTTTTGTTGAAAACATATAAA
61 ATAATCTTTATTGAAAAAACAATGTTTTTAAAATAAAAAAATAATTTTTGTTGAAAACATATAAA
* * * ** *
16444153 AACATTTTTTTAGAATTCAATAAAAATGATATTTCTATGATAAAAATCTAATTTTTGTTAA
126 AACATTTTTTTAAAATTCAACAAAAATAATATTTCTAAAATAAAAATCTAATCTTTGTTAA
16444214 AAATAT
1 AAATAT
16444220 AATTTTTTAA
Statistics
Matches: 165, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
187 1 0.01
188 29 0.18
189 44 0.27
190 60 0.36
191 13 0.08
192 18 0.11
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.37
Consensus pattern (186 bp):
AAATATGAAAAAAAATATTTTTTAAAATTCAATAAAAATGACATTTTTAAGATAGAAAACATAAT
CTTTATTGAAAAAACAATGTTTTTAAAATAAAAAAATAATTTTTGTTGAAAACATATAAAAACAT
TTTTTTAAAATTCAACAAAAATAATATTTCTAAAATAAAAATCTAATCTTTGTTAA
Found at i:16444106 original size:78 final size:77
Alignment explanation
Indices: 16443959--16444105 Score: 174
Period size: 78 Copynumber: 1.9 Consensus size: 77
16443949 TTAAAACATG
* * * * *
16443959 AAAAAATATATTTTTTAAAATTCAACAAACATAATGTTTCTAAAATAGAAAATGCAATCTTTGTT
1 AAAAAATATAATTTTTAAAATTCAACAAAAAGAATGTTTCTAAAATAAAAAAT-CAATCTTTATT
16444024 AAAAATATGAAAA
65 AAAAATATGAAAA
* *
16444037 AAAAAATATAATTTTTAAAATTCAATAAAAAGACAT-TTT-TAAAGTAAAAACAT-AATCTTTAT
1 AAAAAATATAATTTTTAAAATTCAACAAAAAGA-ATGTTTCTAAAATAAAAA-ATCAATCTTTAT
16444099 TGAAAAA
64 T-AAAAA
16444106 ACAATTTTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
76 9 0.15
77 14 0.24
78 34 0.58
79 2 0.03
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.33
Consensus pattern (77 bp):
AAAAAATATAATTTTTAAAATTCAACAAAAAGAATGTTTCTAAAATAAAAAATCAATCTTTATTA
AAAATATGAAAA
Done.