Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 169 of 190
Found at i:27727323 original size:3 final size:3
Alignment explanation
Indices: 27727315--27727345 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
27727305 TAAATTTTAA
27727315 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
27727346 AATGAAGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:27727438 original size:23 final size:23
Alignment explanation
Indices: 27727408--27727467 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 23
27727398 CATCGTTTAA
** *
27727408 TAAATTATATGATTTAGTTGAAT
1 TAAATTATATGATCCAGTTAAAT
27727431 TAAATTATAATATGATCCAGTTAAAT
1 TAAA-T-T-ATATGATCCAGTTAAAT
27727457 TAAATTATATG
1 TAAATTATATG
27727468 TTCAAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 9 0.29
24 2 0.06
25 2 0.06
26 18 0.58
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.43
Consensus pattern (23 bp):
TAAATTATATGATCCAGTTAAAT
Found at i:27727443 original size:26 final size:26
Alignment explanation
Indices: 27727414--27727465 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
27727404 TTAATAAATT
** *
27727414 ATATGATTTAGTTGAATTAAATTATA
1 ATATGATCCAGTTAAATTAAATTATA
27727440 ATATGATCCAGTTAAATTAAATTATA
1 ATATGATCCAGTTAAATTAAATTATA
27727466 TGTTCAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (26 bp):
ATATGATCCAGTTAAATTAAATTATA
Found at i:27741670 original size:10 final size:11
Alignment explanation
Indices: 27741651--27741680 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
27741641 CTCTTTGTAC
27741651 AGGAAAAAAAA
1 AGGAAAAAAAA
*
27741662 AAGAAAAAAAA
1 AGGAAAAAAAA
27741673 AGGAAAAA
1 AGGAAAAA
27741681 TCTAAGTCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AGGAAAAAAAA
Found at i:27741988 original size:3 final size:3
Alignment explanation
Indices: 27741980--27742013 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
27741970 TTTCTATGTG
27741980 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
27742014 TTGTAAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:27743418 original size:40 final size:40
Alignment explanation
Indices: 27743341--27743418 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
27743331 ATAAAATATA
* *
27743341 AAATATAAAATTATTATTTTATAATTTATATCAATATCTC
1 AAATATAAAATTATTATTTTATAATTAAAATCAATATCTC
*
27743381 AAATATAAAATATATT-TTATTTTAATTAAAATC-ATATC
1 AAATATAAAAT-TATTATT-TTATAATTAAAATCAATATC
27743419 AACTTTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 18 0.55
41 15 0.45
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.46
Consensus pattern (40 bp):
AAATATAAAATTATTATTTTATAATTAAAATCAATATCTC
Found at i:27757409 original size:54 final size:54
Alignment explanation
Indices: 27757312--27757418 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 54
27757302 AAGGAGATTG
* * * * *
27757312 ACTCATCTTTTCAACTTTTTTGCTTTTATGCCACGAACTCAATAGCCATAACTA
1 ACTCATCTTTCCAACTTTTTTGCTTCTATACCACGAACCCAATAGACATAACTA
* * * *
27757366 ACTCGTCTTTCCAATTTTTTTGCTTCTATACCATGGACCCAATAGACATAACT
1 ACTCATCTTTCCAACTTTTTTGCTTCTATACCACGAACCCAATAGACATAACT
27757419 GTCCCATAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.38
Consensus pattern (54 bp):
ACTCATCTTTCCAACTTTTTTGCTTCTATACCACGAACCCAATAGACATAACTA
Found at i:27762724 original size:18 final size:18
Alignment explanation
Indices: 27762697--27762731 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27762687 CATTTATAAG
* *
27762697 TTTTTTTTTTTCATTTTA
1 TTTTTATTTTTAATTTTA
27762715 TTTTTATTTTTAATTTT
1 TTTTTATTTTTAATTTT
27762732 TGATTTGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTATTTTTAATTTTA
Found at i:27762900 original size:3 final size:3
Alignment explanation
Indices: 27762892--27762938 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
27762882 GGATAAACAA
27762892 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
27762939 CAACAACTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:27763055 original size:16 final size:16
Alignment explanation
Indices: 27763036--27763079 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
27763026 ATTTTCGCTC
27763036 AAAAAAATAAATTAAA
1 AAAAAAATAAATTAAA
*
27763052 AAAAAGATAAA-TAAA
1 AAAAAAATAAATTAAA
*
27763067 ATAAAAAAGAAAT
1 A-AAAAAATAAAT
27763080 GATAAATTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.16
Consensus pattern (16 bp):
AAAAAAATAAATTAAA
Found at i:27763398 original size:4 final size:4
Alignment explanation
Indices: 27763389--27763418 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
27763379 TCACAATAAA
27763389 AATT AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AATT AA
27763419 ATCCCTTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
AATT
Found at i:27775986 original size:40 final size:39
Alignment explanation
Indices: 27775831--27775987 Score: 122
Period size: 40 Copynumber: 4.0 Consensus size: 39
27775821 AGATTTTTAA
* *
27775831 TTAAAGTTTCATAGCCTCTGGTTAGAAA-AACTTTTTAACAT
1 TTAAAGTTTCATAGCCTCTGGTCA-AAAGAGC-TTTTAA-AT
* * * *
27775872 TTAAAGTATCATTGCCTTTGGTCAAAAGAGCTTTT--CT
1 TTAAAGTTTCATAGCCTCTGGTCAAAAGAGCTTTTAAAT
* * * * * *
27775909 TTCAAGTTTTATAACTTCTAGTCAAATGAGCCTTTTAAAT
1 TTAAAGTTTCATAGCCTCTGGTCAAAAGAG-CTTTTAAAT
* *
27775949 TTAAAGTTTCATTGCCTCTGGTCAAAAGAGTTATTTAAA
1 TTAAAGTTTCATAGCCTCTGGTCAAAAGAGCT-TTTAAA
27775988 GTTTTATTGC
Statistics
Matches: 87, Mismatches: 24, Indels: 11
0.71 0.20 0.09
Matches are distributed among these distances:
37 22 0.25
38 5 0.06
39 1 0.01
40 37 0.43
41 22 0.25
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (39 bp):
TTAAAGTTTCATAGCCTCTGGTCAAAAGAGCTTTTAAAT
Found at i:27775990 original size:34 final size:34
Alignment explanation
Indices: 27775947--27776074 Score: 121
Period size: 34 Copynumber: 3.7 Consensus size: 34
27775937 AGCCTTTTAA
27775947 ATTTAAAGTTTCATTGCCTCTGGTCAAAAGAGTT
1 ATTTAAAGTTTCATTGCCTCTGGTCAAAAGAGTT
* * * * * *
27775981 ATTTAAAGTTTTATTGCCTTTGATCAGAGGAACTTT
1 ATTTAAAGTTTCATTGCCTCTGGTCAAAAG-A-GTT
* * * *
27776017 CTTTAAAGTTTCATTGCTTCTGGTCAAATGAGCT
1 ATTTAAAGTTTCATTGCCTCTGGTCAAAAGAGTT
* * *
27776051 ATTTAAAGCTTCATAGCCTTTGGT
1 ATTTAAAGTTTCATTGCCTCTGGT
27776075 TAGATGAGCT
Statistics
Matches: 72, Mismatches: 20, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
34 45 0.62
35 2 0.03
36 25 0.35
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (34 bp):
ATTTAAAGTTTCATTGCCTCTGGTCAAAAGAGTT
Found at i:27776082 original size:34 final size:34
Alignment explanation
Indices: 27776018--27776084 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
27776008 AGGAACTTTC
* *
27776018 TTTAAAGTTTCATTGCTTCTGGTCAAATGAGCTA
1 TTTAAAGCTTCATAGCTTCTGGTCAAATGAGCTA
* *
27776052 TTTAAAGCTTCATAGCCTT-TGGTTAGATGAGCT
1 TTTAAAGCTTCATAG-CTTCTGGTCAAATGAGCT
27776085 TTAATTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 25 0.89
35 3 0.11
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.40
Consensus pattern (34 bp):
TTTAAAGCTTCATAGCTTCTGGTCAAATGAGCTA
Found at i:27776548 original size:4 final size:4
Alignment explanation
Indices: 27776530--27776563 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
27776520 ATTATTATTA
*
27776530 TTAT TTA- TTAA TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA
27776564 ATCTTAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:27776558 original size:12 final size:12
Alignment explanation
Indices: 27776483--27776565 Score: 64
Period size: 12 Copynumber: 6.8 Consensus size: 12
27776473 TTTGTCTGAT
27776483 TTTATTTTAACTTA
1 TTTA-TTTAA-TTA
* * *
27776497 TATATATAATTT
1 TTTATTTAATTA
27776509 TTTATATT-ATTA
1 TTTAT-TTAATTA
*
27776521 -TTATTATTATTA
1 TTTATT-TAATTA
27776533 TTTA-TTAATTA
1 TTTATTTAATTA
*
27776544 TTTATTTATTTA
1 TTTATTTAATTA
27776556 TTTATTTAAT
1 TTTATTTAAT
27776566 CTTAAAAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
10 1 0.02
11 14 0.25
12 29 0.53
13 8 0.15
14 3 0.05
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTATTTAATTA
Found at i:27777422 original size:9 final size:9
Alignment explanation
Indices: 27777410--27777476 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 9
27777400 TTTGTAAGGT
27777410 TTTTTTTAA
1 TTTTTTTAA
27777419 TTTTTTTAA
1 TTTTTTTAA
27777428 TTTTTTT-A
1 TTTTTTTAA
* *
27777436 TTTGATTTGA
1 TTT-TTTTAA
*
27777446 TTTTGTTAA
1 TTTTTTTAA
* *
27777455 TTGTTTAAGA
1 TTTTTTTA-A
*
27777465 TTTTTATAA
1 TTTTTTTAA
27777474 TTT
1 TTT
27777477 ATAATTTATA
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
8 4 0.09
9 31 0.69
10 10 0.22
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:27777724 original size:20 final size:21
Alignment explanation
Indices: 27777699--27777743 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
27777689 TTTGCTTAAA
*
27777699 AAATAAATTTAAAAAAA-GAT
1 AAATAAAATTAAAAAAATGAT
27777719 AAATAAAATTAAAAAAATGAT
1 AAATAAAATTAAAAAAATGAT
27777740 AAAT
1 AAAT
27777744 TGTTTAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (21 bp):
AAATAAAATTAAAAAAATGAT
Found at i:27777733 original size:21 final size:20
Alignment explanation
Indices: 27777699--27777743 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
27777689 TTTGCTTAAA
*
27777699 AAATAAATTTAAAAAAAGAT
1 AAATAAATTAAAAAAAAGAT
*
27777719 AAATAAAATTAAAAAAATGAT
1 AAAT-AAATTAAAAAAAAGAT
27777740 AAAT
1 AAAT
27777744 TGTTTAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (20 bp):
AAATAAATTAAAAAAAAGAT
Found at i:27777926 original size:3 final size:3
Alignment explanation
Indices: 27777913--27777962 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
27777903 AAAAATAAAA
27777913 AAT AA- AAT 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
27777960 AAT
1 AAT
27777963 GGATTATTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:27778150 original size:16 final size:16
Alignment explanation
Indices: 27778129--27778164 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
27778119 AAACAATAAA
27778129 TAATCACAATAAAAAT
1 TAATCACAATAAAAAT
* *
27778145 TAATCATAATAGAAAT
1 TAATCACAATAAAAAT
27778161 TAAT
1 TAAT
27778165 TAATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (16 bp):
TAATCACAATAAAAAT
Found at i:27778658 original size:10 final size:10
Alignment explanation
Indices: 27778643--27778695 Score: 60
Period size: 10 Copynumber: 5.7 Consensus size: 10
27778633 ACCTAAAATT
27778643 TTTTAATAAA
1 TTTTAATAAA
*
27778653 TTTTAATTAA
1 TTTTAATAAA
27778663 TTTT--TAAA
1 TTTTAATAAA
*
27778671 TTTTAATTAA
1 TTTTAATAAA
27778681 TTTT-A-AAA
1 TTTTAATAAA
27778689 TTTTAAT
1 TTTTAAT
27778696 TAAAAAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
8 13 0.37
9 2 0.06
10 20 0.57
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:27778660 original size:18 final size:18
Alignment explanation
Indices: 27778639--27778697 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
27778629 ACATACCTAA
27778639 AATT-TTTTAATAAATTTT
1 AATTATTTT-ATAAATTTT
27778657 AATTAATTTT-TAAATTTT
1 AATT-ATTTTATAAATTTT
27778675 AATTAATTTTA-AAATTTT
1 AATT-ATTTTATAAATTTT
27778693 AATTA
1 AATTA
27778698 AAAAAATACA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
17 1 0.03
18 33 0.87
20 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
AATTATTTTATAAATTTT
Found at i:27778698 original size:18 final size:18
Alignment explanation
Indices: 27778650--27778698 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
27778640 ATTTTTTAAT
*
27778650 AAATTTTAATTAATTTTT
1 AAATTTTAATTAATTTTA
27778668 AAATTTTAATTAATTTTA
1 AAATTTTAATTAATTTTA
27778686 AAATTTTAATTAA
1 AAATTTTAATTAA
27778699 AAAAATACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AAATTTTAATTAATTTTA
Found at i:27788578 original size:15 final size:16
Alignment explanation
Indices: 27788548--27788637 Score: 60
Period size: 15 Copynumber: 5.6 Consensus size: 16
27788538 TAACATTGTT
*
27788548 TTATTATATTATATTA
1 TTATTATATAATATTA
27788564 TTATT-TATAATATTA
1 TTATTATATAATATTA
*
27788579 TTATTAGTGCT-ATAGTATA
1 TTATTA-T-ATAATA-T-TA
* * *
27788598 ATATTGTATTATATTA
1 TTATTATATAATATTA
* *
27788614 TTATTAT-TATTATCA
1 TTATTATATAATATTA
27788629 TTATTATAT
1 TTATTATAT
27788638 GGTATGATAT
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
15 26 0.46
16 13 0.23
17 6 0.11
18 6 0.11
19 6 0.11
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (16 bp):
TTATTATATAATATTA
Found at i:27788617 original size:3 final size:3
Alignment explanation
Indices: 27788604--27788670 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
27788594 TATAATATTG
* *
27788604 TAT TA- TAT TAT TAT TAT TAT TAT CAT TAT TA- TAT GGTAT GA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT
*
27788648 TA- TAT T-T TCT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
27788671 TTTTCGTTCC
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.17
3 40 0.77
5 3 0.06
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:27793575 original size:20 final size:21
Alignment explanation
Indices: 27793542--27793581 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
27793532 AATCCAAAAT
* *
27793542 AAAATTTATACTATTTAATAA
1 AAAAATTATACTATTAAATAA
27793563 AAAAATTAT-CTATTAAATA
1 AAAAATTATACTATTAAATA
27793582 TATAAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAATTATACTATTAAATAA
Found at i:27793860 original size:38 final size:39
Alignment explanation
Indices: 27793789--27793862 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
27793779 TGTTAAAAAG
27793789 AACAAATTCAGAGGCAACATCCAAACAATGAAAGTTTTA
1 AACAAATTCAGAGGCAACATCCAAACAATGAAAGTTTTA
*
27793828 AACAAATTCAGAGGCAGCA-CCAAACAATGAAAGTT
1 AACAAATTCAGAGGCAACATCCAAACAATGAAAGTT
27793863 CTAGAGATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
38 16 0.47
39 18 0.53
ACGTcount: A:0.49, C:0.19, G:0.15, T:0.18
Consensus pattern (39 bp):
AACAAATTCAGAGGCAACATCCAAACAATGAAAGTTTTA
Found at i:27794641 original size:70 final size:70
Alignment explanation
Indices: 27794560--27794692 Score: 178
Period size: 70 Copynumber: 1.9 Consensus size: 70
27794550 TTCCTTAGGT
* * * *
27794560 TTTTTCGATTTGATGTTATTTATCTTTTTATAGCTT-GAGTTTTAAATTCTATCTATTTCTATTG
1 TTTTTCAATTTGATGTTATTTATCTTTCTATAACTTAG-GTTTCAAATTCTATCTATTTCTATTG
27794624 CTTGGG
65 CTTGGG
* * * *
27794630 TTTTTCAATTTGATGTTCTTTCTCTTTCTATAACTTAGGTTTCAAATTTTATCTCTTTCTATT
1 TTTTTCAATTTGATGTTATTTATCTTTCTATAACTTAGGTTTCAAATTCTATCTATTTCTATT
27794693 TTAATTTTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
70 53 0.98
71 1 0.02
ACGTcount: A:0.19, C:0.13, G:0.11, T:0.58
Consensus pattern (70 bp):
TTTTTCAATTTGATGTTATTTATCTTTCTATAACTTAGGTTTCAAATTCTATCTATTTCTATTGC
TTGGG
Found at i:27794798 original size:70 final size:70
Alignment explanation
Indices: 27794716--27794867 Score: 187
Period size: 70 Copynumber: 2.2 Consensus size: 70
27794706 TCTTTTTTTT
* * * * * *
27794716 TTGCTTAGGTTTTTCGATTTGATGCTATTTATCTTTTTATAGCTCGAGTTTTAAATTCTATCTAT
1 TTGCTTGGGTTTTTCAATTTGATGCTATTTATCTTTCTATAACTCAAGTTTCAAATTCTATCTAT
27794781 TTCTA
66 TTCTA
* * * * * *
27794786 TTGCTTGGGTTTTTCAATTTGATGTTCTTTCTCTTTCTATAACTTAAGTTTCAAATTTTATCTCT
1 TTGCTTGGGTTTTTCAATTTGATGCTATTTATCTTTCTATAACTCAAGTTTCAAATTCTATCTAT
27794851 TTCTA
66 TTCTA
*
27794856 TTACTTGGGTTT
1 TTGCTTGGGTTT
27794868 ATTTTATTTG
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.18, C:0.14, G:0.12, T:0.55
Consensus pattern (70 bp):
TTGCTTGGGTTTTTCAATTTGATGCTATTTATCTTTCTATAACTCAAGTTTCAAATTCTATCTAT
TTCTA
Found at i:27794803 original size:165 final size:165
Alignment explanation
Indices: 27794531--27794857 Score: 602
Period size: 165 Copynumber: 2.0 Consensus size: 165
27794521 TCTTTCTATG
* *
27794531 ATTTTTTCTGTCTTTTTTTTTCCTTAGGTTTTTTCGATTTGATGTTATTTATCTTTTTATAGCTT
1 ATTTTTTCTGTCTTTTTTTTTCCTTAGGTTTTTTCGATTTGATGCTATTTATCTTTTTATAGCTC
27794596 GAGTTTTAAATTCTATCTATTTCTATTGCTTGGGTTTTTCAATTTGATGTTCTTTCTCTTTCTAT
66 GAGTTTTAAATTCTATCTATTTCTATTGCTTGGGTTTTTCAATTTGATGTTCTTTCTCTTTCTAT
*
27794661 AACTTAGGTTTCAAATTTTATCTCTTTCTATTTTA
131 AACTTAAGTTTCAAATTTTATCTCTTTCTATTTTA
*
27794696 ATTTTTTCTGTCTTTTTTTTTTGCTTAGG-TTTTTCGATTTGATGCTATTTATCTTTTTATAGCT
1 ATTTTTTCTGTC-TTTTTTTTTCCTTAGGTTTTTTCGATTTGATGCTATTTATCTTTTTATAGCT
27794760 CGAGTTTTAAATTCTATCTATTTCTATTGCTTGGGTTTTTCAATTTGATGTTCTTTCTCTTTCTA
65 CGAGTTTTAAATTCTATCTATTTCTATTGCTTGGGTTTTTCAATTTGATGTTCTTTCTCTTTCTA
27794825 TAACTTAAGTTTCAAATTTTATCTCTTTCTATT
130 TAACTTAAGTTTCAAATTTTATCTCTTTCTATT
27794858 ACTTGGGTTT
Statistics
Matches: 157, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
165 142 0.90
166 15 0.10
ACGTcount: A:0.17, C:0.13, G:0.10, T:0.59
Consensus pattern (165 bp):
ATTTTTTCTGTCTTTTTTTTTCCTTAGGTTTTTTCGATTTGATGCTATTTATCTTTTTATAGCTC
GAGTTTTAAATTCTATCTATTTCTATTGCTTGGGTTTTTCAATTTGATGTTCTTTCTCTTTCTAT
AACTTAAGTTTCAAATTTTATCTCTTTCTATTTTA
Found at i:27811708 original size:21 final size:21
Alignment explanation
Indices: 27811663--27811722 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
27811653 TACATTTTTA
27811663 TAATCTAAAAAAATT-AATTAAT
1 TAAT-TAAAAAAATTAAATT-AT
27811685 TAATTAAAAAAATTAAAGTT-T
1 TAATTAAAAAAATTAAA-TTAT
* *
27811706 TAAATCAAAAAATTAAA
1 TAATTAAAAAAATTAAA
27811723 AAAAAAGACA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 26 0.76
22 6 0.18
23 2 0.06
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (21 bp):
TAATTAAAAAAATTAAATTAT
Found at i:27813237 original size:16 final size:16
Alignment explanation
Indices: 27813218--27813286 Score: 84
Period size: 16 Copynumber: 4.2 Consensus size: 16
27813208 TTAGGTTTCT
27813218 AAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
* * *
27813234 AAAATCCCTTAAATTC
1 AAAACCCCTAAAATCC
*
27813250 GAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
*
27813266 AAAACCCTTTAAAATCC
1 AAAACCC-CTAAAATCC
27813283 AAAA
1 AAAA
27813287 TCCCAAACCT
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
16 31 0.72
17 12 0.28
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.19
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:27813333 original size:14 final size:14
Alignment explanation
Indices: 27813316--27813408 Score: 57
Period size: 14 Copynumber: 6.5 Consensus size: 14
27813306 AAATCTGACC
27813316 CCCTAAAATTCAAA
1 CCCTAAAATTCAAA
*
27813330 CCCTTAAA-TCAAAA
1 CCCTAAAATTC-AAA
27813344 CCCT-AAATCTCAAA
1 CCCTAAAAT-TCAAA
*** *
27813358 TTTTAAAA-CCGAAA
1 CCCTAAAATTC-AAA
27813372 CCCTAAAATCTTCAAA
1 CCCTAAAA--TTCAAA
* *
27813388 CTCTAAAATTAAAA
1 CCCTAAAATTCAAA
27813402 CCCTAAA
1 CCCTAAA
27813409 CCTTCCATAC
Statistics
Matches: 59, Mismatches: 12, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
13 6 0.10
14 37 0.63
15 5 0.08
16 10 0.17
17 1 0.02
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.24
Consensus pattern (14 bp):
CCCTAAAATTCAAA
Found at i:27813356 original size:28 final size:29
Alignment explanation
Indices: 27813316--27813408 Score: 93
Period size: 28 Copynumber: 3.2 Consensus size: 29
27813306 AAATCTGACC
*
27813316 CCCTAAAAT-TCAAACCCTTAAATCAAAA
1 CCCTAAAATCTCAAACTCTTAAATCAAAA
* * *
27813344 CCCT-AAATCTCAAA-TTTTAAAACCGAAA
1 CCCTAAAATCTCAAACTCTT-AAATCAAAA
* *
27813372 CCCTAAAATCTTCAAACTCTAAAATTAAAA
1 CCCTAAAATC-TCAAACTCTTAAATCAAAA
27813402 CCCTAAA
1 CCCTAAA
27813409 CCTTCCATAC
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
27 6 0.12
28 20 0.39
29 5 0.10
30 18 0.35
31 2 0.04
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.24
Consensus pattern (29 bp):
CCCTAAAATCTCAAACTCTTAAATCAAAA
Found at i:27813440 original size:30 final size:28
Alignment explanation
Indices: 27813360--27813468 Score: 85
Period size: 29 Copynumber: 3.7 Consensus size: 28
27813350 ATCTCAAATT
*
27813360 TTAAAACCGAAACCCTAAAATCTTCAAAC
1 TTAAAACC-AAACCCTAAAACCTTCAAAC
** *
27813389 TCTAAAATTAAAACCCT-AAACCTTCCATACC
1 T-TAAAA-CCAAACCCTAAAACCTT-CA-AAC
*
27813420 TTAAAACCAAACCCTAAAACCCTTAAAAC
1 TTAAAACCAAACCCTAAAA-CCTTCAAAC
**
27813449 TTAAATTCAAACCCTTAAAA
1 TTAAAACCAAACCC-TAAAA
27813469 TCTGAATCTT
Statistics
Matches: 63, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
29 28 0.44
30 28 0.44
31 7 0.11
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.23
Consensus pattern (28 bp):
TTAAAACCAAACCCTAAAACCTTCAAAC
Found at i:27813922 original size:25 final size:23
Alignment explanation
Indices: 27813894--27813939 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
27813884 CTGTTTGATG
*
27813894 ATAAAATATTTTATAATAAAAAAAA
1 ATAAAACATTTTA-AA-AAAAAAAA
*
27813919 ATAATACATTTTAAAAAAAAA
1 ATAAAACATTTTAAAAAAAAA
27813940 TTTGTGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 2 0.11
25 11 0.58
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
ATAAAACATTTTAAAAAAAAAAA
Found at i:27814631 original size:5 final size:5
Alignment explanation
Indices: 27814623--27814647 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
27814613 TTTATTTGAT
27814623 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
27814648 TTTTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:27821368 original size:33 final size:32
Alignment explanation
Indices: 27821316--27821796 Score: 404
Period size: 32 Copynumber: 14.8 Consensus size: 32
27821306 CTAAAAAAAA
* * *
27821316 ATCAATTAAATTTAAGCCCAGTTTATCTGGTC
1 ATCAATGAACTTTAAGCCCAGTTTATCTGGCC
* **
27821348 ATCAGTGAAGCTTTAAGCCCAGTTTATCTAACC
1 ATCAATGAA-CTTTAAGCCCAGTTTATCTGGCC
* * * * *
27821381 CTCAAATAAAATTTAATCCCAGTTTATCTAGCC
1 ATC-AATGAACTTTAAGCCCAGTTTATCTGGCC
* *
27821414 TTTAATG-ACATTTAAGCCCAGTTTATCTGGCC
1 ATCAATGAAC-TTTAAGCCCAGTTTATCTGGCC
* * *
27821446 -TCAAATAAAATTTAAGCACAGTTTATCTGGCC
1 ATC-AATGAACTTTAAGCCCAGTTTATCTGGCC
*
27821478 ATCAATGAAGCTTTAAGCCCAGTTTATCTGACC
1 ATCAATGAA-CTTTAAGCCCAGTTTATCTGGCC
* * * * * *
27821511 CTCAAATAAAATTTAA-TCAAATTTATCTGGCC
1 ATC-AATGAACTTTAAGCCCAGTTTATCTGGCC
*
27821543 ATCAATGAAATTTAAGCCCAGTTTATCTGGCC
1 ATCAATGAACTTTAAGCCCAGTTTATCTGGCC
* *
27821575 -TCAAATG-ACTTTTAAGCCTAATTTATCTGGCC
1 ATC-AATGAAC-TTTAAGCCCAGTTTATCTGGCC
*
27821607 ATAAATG-ACATTTAAGCCCAGTTTTATCTGGCC
1 ATCAATGAAC-TTTAAGCCCAG-TTTATCTGGCC
*
27821640 ATCAATGAAGTTTTAAGCCCAGTTTATCTGGCC
1 ATCAATGAA-CTTTAAGCCCAGTTTATCTGGCC
* *
27821673 ATTAATGAAGTTTTAAGCCCAGTTTATCTGGCC
1 ATCAATGAA-CTTTAAGCCCAGTTTATCTGGCC
**
27821706 ATCAATG-ACATTTAAGCCCAGTTTATCTAACC
1 ATCAATGAAC-TTTAAGCCCAGTTTATCTGGCC
** *
27821738 -TCAAATGAGGTTTTAAACCCAGTTTAAT-TGGCC
1 ATC-AATGA-ACTTTAAGCCCAGTTT-ATCTGGCC
* * * *
27821771 TTCAATAAAATTCAAGCCCAGTTTAT
1 ATCAATGAACTTTAAGCCCAGTTTAT
27821797 TTGACCTTAA
Statistics
Matches: 366, Mismatches: 62, Indels: 43
0.78 0.13 0.09
Matches are distributed among these distances:
31 20 0.05
32 162 0.44
33 159 0.43
34 25 0.07
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (32 bp):
ATCAATGAACTTTAAGCCCAGTTTATCTGGCC
Found at i:27821493 original size:65 final size:65
Alignment explanation
Indices: 27821323--27821796 Score: 484
Period size: 65 Copynumber: 7.3 Consensus size: 65
27821313 AAAATCAATT
* * **
27821323 AAATTTAAGCCCAGTTTATCTGGTCATCAGTGAAGCTTTAAGCCCAGTTTATCTAACCCTCAAAT
1 AAATTTAAGCCCAGTTTATCTGGCCATCAATGAAGCTTTAAGCCCAGTTTATCT-GGCCTCAAAT
27821388 A
65 A
* * * *
27821389 AAATTTAATCCCAGTTTATCTAGCCTTTAATG-A-CATTTAAGCCCAGTTTATCTGGCCTCAAAT
1 AAATTTAAGCCCAGTTTATCTGGCCATCAATGAAGC-TTTAAGCCCAGTTTATCTGGCCTCAAAT
27821452 A
65 A
* *
27821453 AAATTTAAGCACAGTTTATCTGGCCATCAATGAAGCTTTAAGCCCAGTTTATCTGACCCTCAAAT
1 AAATTTAAGCCCAGTTTATCTGGCCATCAATGAAGCTTTAAGCCCAGTTTATCTG-GCCTCAAAT
27821518 A
65 A
* * * * *
27821519 AAATTTAA-TCAAATTTATCTGGCCATCAATGAA-ATTTAAGCCCAGTTTATCTGGCCTCAAATG
1 AAATTTAAGCCCAGTTTATCTGGCCATCAATGAAGCTTTAAGCCCAGTTTATCTGGCCTCAAATA
** * * *
27821582 ACTTTTAAGCCTAATTTATCTGGCCATAAATG-A-CATTTAAGCCCAGTTTTATCTGGCCATC-A
1 AAATTTAAGCCCAGTTTATCTGGCCATCAATGAAGC-TTTAAGCCCAG-TTTATCTGGCC-TCAA
27821644 ATGA
63 AT-A
** * *
27821648 AGTTTTAAGCCCAGTTTATCTGGCCATTAATGAAGTTTTAAGCCCAGTTTATCTGGCCATC-AAT
1 AAATTTAAGCCCAGTTTATCTGGCCATCAATGAAGCTTTAAGCCCAGTTTATCTGGCC-TCAAAT
*
27821712 G
65 A
* ** * * *
27821713 ACATTTAAGCCCAGTTTATCTAACC-TCAAATGAGGTTTTAAACCCAGTTTAAT-TGGCCTTC-A
1 AAATTTAAGCCCAGTTTATCTGGCCATC-AATGAAGCTTTAAGCCCAGTTT-ATCTGGCC-TCAA
27821775 ATA
63 ATA
*
27821778 AAATTCAAGCCCAGTTTAT
1 AAATTTAAGCCCAGTTTAT
27821797 TTGACCTTAA
Statistics
Matches: 350, Mismatches: 45, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
63 15 0.04
64 88 0.25
65 142 0.41
66 93 0.27
67 12 0.03
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.34
Consensus pattern (65 bp):
AAATTTAAGCCCAGTTTATCTGGCCATCAATGAAGCTTTAAGCCCAGTTTATCTGGCCTCAAATA
Found at i:27821493 original size:97 final size:98
Alignment explanation
Indices: 27821325--27821733 Score: 424
Period size: 97 Copynumber: 4.2 Consensus size: 98
27821315 AATCAATTAA
* * ** ** *
27821325 ATTTAAGCCCAGTTTATCTGGTCATCAGTGAAGCTTTAAGCCCAGTTTATCTAACCCTCAAAT-A
1 ATTTAAGCCCAGTTTATCTGG-CCTCAATGAAAATTTAAGCCCAGTTTATCTGGCCATCAAATGA
** * * *
27821389 AAATTTAATCCCAGTTTATCTAGCCTTTAATGAC
65 AGCTTTAAGCCCAGTTTATCTAGCCATAAATGAC
*
27821423 ATTTAAGCCCAGTTTATCTGGCCTCAAAT-AAAATTTAAGCACAGTTTATCTGGCCATC-AATGA
1 ATTTAAGCCCAGTTTATCTGGCCTC-AATGAAAATTTAAGCCCAGTTTATCTGGCCATCAAATGA
* * *
27821486 AGCTTTAAGCCCAGTTTATCT-GACCCTCAAATAAA
65 AGCTTTAAGCCCAGTTTATCTAG-CCAT-AAATGAC
* * *
27821521 ATTTAA-TCAAATTTATCTGGCCATCAATG-AAATTTAAGCCCAGTTTATCTGGCC-TCAAATG-
1 ATTTAAGCCCAGTTTATCTGGCC-TCAATGAAAATTTAAGCCCAGTTTATCTGGCCATCAAATGA
* * *
27821582 A-CTTTTAAGCCTAATTTATCTGGCCATAAATGAC
65 AGC-TTTAAGCCCAGTTTATCTAGCCATAAATGAC
** *
27821616 ATTTAAGCCCAGTTTTATCTGGCCATCAATGAAGTTTTAAGCCCAGTTTATCTGGCCAT-TAATG
1 ATTTAAGCCCAG-TTTATCTGGCC-TCAATGAAAATTTAAGCCCAGTTTATCTGGCCATCAAATG
* * *
27821680 AAGTTTTAAGCCCAGTTTATCTGGCCATCAATGAC
64 AAGCTTTAAGCCCAGTTTATCTAGCCATAAATGAC
27821715 ATTTAAGCCCAGTTTATCT
1 ATTTAAGCCCAGTTTATCT
27821734 AACCTCAAAT
Statistics
Matches: 262, Mismatches: 34, Indels: 30
0.80 0.10 0.09
Matches are distributed among these distances:
95 12 0.05
96 28 0.11
97 111 0.42
98 69 0.26
99 42 0.16
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (98 bp):
ATTTAAGCCCAGTTTATCTGGCCTCAATGAAAATTTAAGCCCAGTTTATCTGGCCATCAAATGAA
GCTTTAAGCCCAGTTTATCTAGCCATAAATGAC
Found at i:27822485 original size:37 final size:37
Alignment explanation
Indices: 27822418--27822490 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
27822408 TGTTGTCTCA
* * * *
27822418 ATTGATTCTTTATTTTTTGATTCGCAGTGTTATCCCG
1 ATTGATTCTTTACTTCTCGACTCGCAGTGTTATCCCG
* *
27822455 ATTGATTCTTTACTTCTCGACTCGCGGTGTTGTCCC
1 ATTGATTCTTTACTTCTCGACTCGCAGTGTTATCCC
27822491 AATCGTTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (37 bp):
ATTGATTCTTTACTTCTCGACTCGCAGTGTTATCCCG
Found at i:27824289 original size:16 final size:16
Alignment explanation
Indices: 27824270--27824365 Score: 104
Period size: 16 Copynumber: 6.0 Consensus size: 16
27824260 CTAAGTTTCT
27824270 AAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
* *
27824286 AAAA-TCTTAAAATCC
1 AAAACCCCTAAAATCC
* *
27824301 AAAACTCTTAAAATCC
1 AAAACCCCTAAAATCC
* * *
27824317 AAAATCCCTTAAATTC
1 AAAACCCCTAAAATCC
*
27824333 GAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
27824349 AAAACCTCCTAAAATCC
1 AAAACC-CCTAAAATCC
27824366 GAAATCTTAA
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
15 13 0.20
16 43 0.65
17 10 0.15
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.21
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:27824298 original size:15 final size:15
Alignment explanation
Indices: 27824278--27824376 Score: 90
Period size: 15 Copynumber: 6.3 Consensus size: 15
27824268 CTAAAACCCC
27824278 TAAAATCCAAAATCT
1 TAAAATCCAAAATCT
27824293 TAAAATCCAAAACTCT
1 TAAAATCCAAAA-TCT
27824309 TAAAATCCAAAATCCCT
1 TAAAATCCAAAAT--CT
* * ** *
27824326 TAAATTCGAAACCCC
1 TAAAATCCAAAATCT
*
27824341 TAAAATCCAAAACCTCC
1 TAAAATCCAAAA--TCT
*
27824358 TAAAATCCGAAATCT
1 TAAAATCCAAAATCT
27824373 TAAA
1 TAAA
27824377 CCTTTAACTC
Statistics
Matches: 68, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
15 29 0.43
16 15 0.22
17 24 0.35
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.23
Consensus pattern (15 bp):
TAAAATCCAAAATCT
Found at i:27824471 original size:30 final size:29
Alignment explanation
Indices: 27824382--27824523 Score: 112
Period size: 30 Copynumber: 4.9 Consensus size: 29
27824372 TTAAACCTTT
*
27824382 AACTCTTAAATCAAAACCCCCTAAAA-TTCA
1 AACTCTAAAATCAAAA--CCCTAAAACTTCA
* * *
27824412 AACCCTTAAATCAAAACCC-CAAACTTCA
1 AACTCTAAAATCAAAACCCTAAAACTTCA
* * *
27824440 AATTTTAAAATCGAAACCCTAAAATCTTCA
1 AACTCTAAAATCAAAACCCTAAAA-CTTCA
* *
27824470 AACTCTAAAATCAAAACCTTAAACCTTTCA
1 AACTCTAAAATCAAAACCCTAAAAC-TTCA
* *
27824500 TAC-CTTAAAA-CCAAACCCTAAAAC
1 AACTC-TAAAATCAAAACCCTAAAAC
27824524 CCTCAAAACT
Statistics
Matches: 90, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
27 3 0.03
28 21 0.23
29 16 0.18
30 50 0.56
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (29 bp):
AACTCTAAAATCAAAACCCTAAAACTTCA
Found at i:27824535 original size:29 final size:29
Alignment explanation
Indices: 27824435--27824552 Score: 85
Period size: 30 Copynumber: 4.0 Consensus size: 29
27824425 AAACCCCAAA
** * *
27824435 CTTCAAATTTTAAAATCGAAACCCTAAAAT
1 CTTCAAAACTTAAAA-CCAAACCCTAAAAC
* * *
27824465 CTTC-AAACTCTAAAATCAAAACCTTAAAC
1 CTTCAAAACT-TAAAACCAAACCCTAAAAC
* *
27824494 CTTTCATACCTTAAAACCAAACCCTAAAAC
1 C-TTCAAAACTTAAAACCAAACCCTAAAAC
* **
27824524 CCTCAAAACTTAAATTCAAACCCTTAAAA
1 CTTCAAAACTTAAAACCAAACCC-TAAAA
27824553 TCTGAATCTT
Statistics
Matches: 67, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
29 30 0.45
30 34 0.51
31 3 0.04
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.25
Consensus pattern (29 bp):
CTTCAAAACTTAAAACCAAACCCTAAAAC
Found at i:27827344 original size:17 final size:18
Alignment explanation
Indices: 27827319--27827353 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
27827309 TGTTTCGTGG
27827319 TTATCTTTTT-TTTTTTA
1 TTATCTTTTTATTTTTTA
*
27827336 TTATTTTTTTATTTTTTA
1 TTATCTTTTTATTTTTTA
27827354 AAAAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (18 bp):
TTATCTTTTTATTTTTTA
Found at i:27828227 original size:3 final size:3
Alignment explanation
Indices: 27828219--27828288 Score: 124
Period size: 3 Copynumber: 23.7 Consensus size: 3
27828209 GGCATTTTCC
27828219 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
27828266 AAT AAT AAT AGT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
27828289 AACACTTCCT
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 62 0.97
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:27831421 original size:10 final size:10
Alignment explanation
Indices: 27831406--27831448 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
27831396 AATTTAATTT
27831406 AAAAAAATAA
1 AAAAAAATAA
*
27831416 AAAAAAAGTTA
1 AAAAAAA-TAA
*
27831427 AACAAAATAA
1 AAAAAAATAA
*
27831437 AATAAAATAA
1 AAAAAAATAA
27831447 AA
1 AA
27831449 CAAGGCCAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 20 0.71
11 8 0.29
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:27831749 original size:41 final size:41
Alignment explanation
Indices: 27831672--27831801 Score: 206
Period size: 41 Copynumber: 3.1 Consensus size: 41
27831662 AATAAGCAAA
*
27831672 GCTCCTCTAAATAGAGGCAACAGAACTTTGAGAAAACAAATG
1 GCTCCTCTGAATAGAGGCAAC-GAACTTTGAGAAAACAAATG
*
27831714 GCTCCTCTGAATAAAGGCAACGAACTTTGAGAAAACAAATG
1 GCTCCTCTGAATAGAGGCAACGAACTTTGAGAAAACAAATG
* * *
27831755 GCTCATCTGAATAGAGGCAACAAATTTTGAGAAAACAAATG
1 GCTCCTCTGAATAGAGGCAACGAACTTTGAGAAAACAAATG
27831796 GCTCCT
1 GCTCCT
27831802 ACGAACTTTG
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 62 0.77
42 19 0.23
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (41 bp):
GCTCCTCTGAATAGAGGCAACGAACTTTGAGAAAACAAATG
Found at i:27831818 original size:69 final size:69
Alignment explanation
Indices: 27831733--27831870 Score: 231
Period size: 69 Copynumber: 2.0 Consensus size: 69
27831723 AATAAAGGCA
* *
27831733 ACGAACTTTGAGAAAACAAATGGCTCATCTGAATAGAGGCAACAAATTTTGAGAAAACAAATGGC
1 ACGAACTTTGAGAAAACAAATGGCTCATATGAATAGAGGCAACAAACTTTGAGAAAACAAATGGC
27831798 TCCT
66 TCCT
* * *
27831802 ACGAACTTTGAGAAAACAAATGGCTCCTATGAATAGAGGCAACGAACTTTGAGAAAATAAATGGC
1 ACGAACTTTGAGAAAACAAATGGCTCATATGAATAGAGGCAACAAACTTTGAGAAAACAAATGGC
27831867 TCCT
66 TCCT
27831871 CTAAATAGAG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (69 bp):
ACGAACTTTGAGAAAACAAATGGCTCATATGAATAGAGGCAACAAACTTTGAGAAAACAAATGGC
TCCT
Found at i:27831849 original size:41 final size:41
Alignment explanation
Indices: 27831802--27831949 Score: 199
Period size: 41 Copynumber: 3.6 Consensus size: 41
27831792 AATGGCTCCT
*
27831802 ACGAACTTTGAGAAAACAAATGGCTCCTATGAATAGAGGCA
1 ACGAACTTTGAGAAAATAAATGGCTCCTATGAATAGAGGCA
* *
27831843 ACGAACTTTGAGAAAATAAATGGCTCCTCTAAATAGAGGCA
1 ACGAACTTTGAGAAAATAAATGGCTCCTATGAATAGAGGCA
* * * *
27831884 ACGGATTTTGAAAAAATAAATGGCTCCTTTGAATAGAGGCA
1 ACGAACTTTGAGAAAATAAATGGCTCCTATGAATAGAGGCA
* * *
27831925 ATGGACTTTAAGAAAA-AAATGGCTC
1 ACGAACTTTGAGAAAATAAATGGCTC
27831950 TTCGACAATC
Statistics
Matches: 95, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 9 0.09
41 86 0.91
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (41 bp):
ACGAACTTTGAGAAAATAAATGGCTCCTATGAATAGAGGCA
Found at i:27831892 original size:110 final size:110
Alignment explanation
Indices: 27831694--27831911 Score: 355
Period size: 110 Copynumber: 2.0 Consensus size: 110
27831684 AGAGGCAACA
*
27831694 GAACTTTGAGAAAACAAATGGCTCCTCTGAATAAAGGCAACGAACTTTGAGAAAACAAATGGCTC
1 GAACTTTGAGAAAACAAATGGCTCCTATGAATAAAGGCAACGAACTTTGAGAAAACAAATGGCTC
* *
27831759 ATCTGAATAGAGGCAACAAATTTTGAGAAAACAAATGGCTCCTAC
66 ATCTAAATAGAGGCAACAAATTTTGAAAAAACAAATGGCTCCTAC
* *
27831804 GAACTTTGAGAAAACAAATGGCTCCTATGAATAGAGGCAACGAACTTTGAGAAAATAAATGGCTC
1 GAACTTTGAGAAAACAAATGGCTCCTATGAATAAAGGCAACGAACTTTGAGAAAACAAATGGCTC
* ** *
27831869 CTCTAAATAGAGGCAACGGATTTTGAAAAAATAAATGGCTCCT
66 ATCTAAATAGAGGCAACAAATTTTGAAAAAACAAATGGCTCCT
27831912 TTGAATAGAG
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
110 99 1.00
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (110 bp):
GAACTTTGAGAAAACAAATGGCTCCTATGAATAAAGGCAACGAACTTTGAGAAAACAAATGGCTC
ATCTAAATAGAGGCAACAAATTTTGAAAAAACAAATGGCTCCTAC
Found at i:27844638 original size:3 final size:3
Alignment explanation
Indices: 27844587--27844618 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
27844577 CAAGGAAACA
27844587 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
27844619 AATCAATCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:27855925 original size:50 final size:50
Alignment explanation
Indices: 27855850--27855950 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
27855840 GGTAGGAGTA
*
27855850 CACGTCCCATTTGTTTACTGTTATGCAACCTATTGAAATAATTGCATCTT
1 CACGTCCCATTTGTTTACTGTTATGCAACCTATTGAAATAACTGCATCTT
27855900 CACGTCCCATTTGTTTACTGTTATGCAACCTATTGAAATAACTGCATCTT
1 CACGTCCCATTTGTTTACTGTTATGCAACCTATTGAAATAACTGCATCTT
27855950 C
1 C
27855951 TTTTAGTTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.39
Consensus pattern (50 bp):
CACGTCCCATTTGTTTACTGTTATGCAACCTATTGAAATAACTGCATCTT
Found at i:27861543 original size:126 final size:123
Alignment explanation
Indices: 27861373--27861626 Score: 300
Period size: 126 Copynumber: 2.0 Consensus size: 123
27861363 TTTTTGATAG
* * *
27861373 AAAAACACTTTTAATAATCCATAAAAAAAATGAAACGGATTCTTAAAGGCGATTTTGG-CCAAAA
1 AAAAACACATTCAATAATCCATAAAAAAAATGAAACAGATTCTTAAAGGCG-TTTTGGCCCAAAA
* *
27861437 GCGCCTTCAATAA-TCTAATCAATAAATTTCATAA-GAGATTATTGAAGGCGGTTTTAGTAA
65 -CGCCTTCAATAATTCCAAT-AATAAATTT-ATAAGGAGATTATTGAAGGCGATTTTAGTAA
*
27861497 AAAAACACATTCAATAATCCA-AACAAAAAAGTTGAAACAGATTCTTAAAGGTGTTTTGGCCCAA
1 AAAAACACATTCAATAATCCATAA-AAAAAA--TGAAACAGATTCTTAAAGGCGTTTTGGCCCAA
* * * * * *
27861561 AATGCCTTTAATAATTCCCATAATAAATTTTTAAGTGAGATTATTGAAGGTGATTTTGGTAA
63 AACGCCTTCAATAATTCCAATAATAAATTTATAAG-GAGATTATTGAAGGCGATTTTAGTAA
27861623 AAAA
1 AAAA
27861627 TGCCTTCAAT
Statistics
Matches: 111, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
123 2 0.02
124 28 0.25
125 25 0.23
126 56 0.50
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (123 bp):
AAAAACACATTCAATAATCCATAAAAAAAATGAAACAGATTCTTAAAGGCGTTTTGGCCCAAAAC
GCCTTCAATAATTCCAATAATAAATTTATAAGGAGATTATTGAAGGCGATTTTAGTAA
Found at i:27864966 original size:25 final size:25
Alignment explanation
Indices: 27864938--27865066 Score: 96
Period size: 25 Copynumber: 4.9 Consensus size: 25
27864928 CAGCAATGTG
*
27864938 TTCATAAATACCATTTAGCAAACCA
1 TTCATAAATACCATTCAGCAAACCA
* * * * *
27864963 TTCAAAAACATCATTCAGTAAACTA
1 TTCATAAATACCATTCAGCAAACCA
* *
27864988 TTCAAAAACACCATTCAGCAAACCAA
1 TTCATAAATACCATTCAGCAAACC-A
* *
27865014 TATCATACAATACCATTCAACAAAACAA
1 T-TCATA-AATACCATTCAGC-AAACCA
* *
27865042 TATCATACAATATCATTTAGCAAAC
1 T-TCATA-AATACCATTCAGCAAAC
27865067 TATAATATTT
Statistics
Matches: 84, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
25 40 0.48
26 2 0.02
27 8 0.10
28 30 0.36
29 4 0.05
ACGTcount: A:0.48, C:0.24, G:0.03, T:0.25
Consensus pattern (25 bp):
TTCATAAATACCATTCAGCAAACCA
Found at i:27865030 original size:28 final size:28
Alignment explanation
Indices: 27864997--27865066 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
27864987 ATTCAAAAAC
27864997 ACCATTCAGCAAACCAATATCATACAAT
1 ACCATTCAGCAAACCAATATCATACAAT
* *
27865025 ACCATTCAACAAAACAATATCATACAAT
1 ACCATTCAGCAAACCAATATCATACAAT
* *
27865053 ATCATTTAGCAAAC
1 ACCATTCAGCAAAC
27865067 TATAATATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.49, C:0.26, G:0.03, T:0.23
Consensus pattern (28 bp):
ACCATTCAGCAAACCAATATCATACAAT
Found at i:27866272 original size:52 final size:53
Alignment explanation
Indices: 27866151--27866274 Score: 139
Period size: 52 Copynumber: 2.4 Consensus size: 53
27866141 AATAATCTCA
* * ** * *
27866151 AATAATTTTTT-TTAAAAATTATTGAACGTATTTTTTCTTAAAAAATGCCTTC
1 AATAATTTTTTCTTAAAAATTATTGAACGCATATGATCGTAAAAAATACCTTC
* *
27866203 AATAATTTTGTAC--AAAAATTATTGAAGGCATATGAT-GTAAAAAATACCTTC
1 AATAATTTT-TTCTTAAAAATTATTGAACGCATATGATCGTAAAAAATACCTTC
27866254 AATAATTTTTTCTTAAAAATT
1 AATAATTTTTTCTTAAAAATT
27866275 GGAGTGAATT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
50 2 0.03
51 22 0.37
52 34 0.58
53 1 0.02
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (53 bp):
AATAATTTTTTCTTAAAAATTATTGAACGCATATGATCGTAAAAAATACCTTC
Found at i:27874317 original size:34 final size:34
Alignment explanation
Indices: 27874261--27874331 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 34
27874251 CCACTAAAAG
* * *
27874261 TAGCGGTGTTCTAATAAAAAAAACATCGCTAAAT
1 TAGCAGTGTTCCAATAAAAAAAACACCGCTAAAT
* * **
27874295 TAGCAGTGTTCCAATCATAAAAATGCCGCTAAAT
1 TAGCAGTGTTCCAATAAAAAAAACACCGCTAAAT
27874329 TAG
1 TAG
27874332 AGACATTTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (34 bp):
TAGCAGTGTTCCAATAAAAAAAACACCGCTAAAT
Found at i:27878654 original size:47 final size:47
Alignment explanation
Indices: 27878585--27878678 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
27878575 ATGAAAACTT
27878585 TCCAATTTATGCAGAAACGTGTTGCAGACTA-GGTTTTCTCATAAATC
1 TCCAATTTATGCAGAAACGTGTTGCAGACTAGGGTTTT-TCATAAATC
27878632 TCCAATTTATGCAGAAACGTGTTGCAGACTAGGGTTTTTCATAAATC
1 TCCAATTTATGCAGAAACGTGTTGCAGACTAGGGTTTTTCATAAATC
27878679 ATGAAGTACT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 40 0.87
48 6 0.13
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (47 bp):
TCCAATTTATGCAGAAACGTGTTGCAGACTAGGGTTTTTCATAAATC
Found at i:27879260 original size:2 final size:2
Alignment explanation
Indices: 27879253--27879281 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27879243 TGTAAAGCAA
27879253 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
27879282 TTTCAATTTA
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:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27879509 original size:33 final size:30
Alignment explanation
Indices: 27879467--27879526 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
27879457 GGGTATCACG
27879467 TGGTATTTTAATTTTTTTTAATTTTATTTTGTT
1 TGGTATTTTAA---TTTTTAATTTTATTTTGTT
*
27879500 TGGTTTTTTAATTTTTAATTTTATTTT
1 TGGTATTTTAATTTTTAATTTTATTTT
27879527 AATAGATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 16 0.62
33 10 0.38
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.73
Consensus pattern (30 bp):
TGGTATTTTAATTTTTAATTTTATTTTGTT
Found at i:27880569 original size:15 final size:16
Alignment explanation
Indices: 27880530--27880574 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
27880520 TTTGATTTTC
*
27880530 TTGTCTTTTTGGTTGTTT
1 TTGTCTTTTT--TTCTTT
27880548 TTGTCTTTTTTTCTTT
1 TTGTCTTTTTTTCTTT
27880564 TT-TCTTTTTTT
1 TTGTCTTTTTTT
27880575 TAAATAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 9 0.35
16 7 0.27
18 10 0.38
ACGTcount: A:0.00, C:0.09, G:0.11, T:0.80
Consensus pattern (16 bp):
TTGTCTTTTTTTCTTT
Found at i:27880805 original size:2 final size:2
Alignment explanation
Indices: 27880763--27880793 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
27880753 CCATCGTAAG
27880763 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
27880794 AAAGATATAT
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:27880862 original size:42 final size:43
Alignment explanation
Indices: 27880766--27880866 Score: 102
Period size: 44 Copynumber: 2.3 Consensus size: 43
27880756 TCGTAAGATA
* * *
27880766 TATATATATATATATATATATATATATAAAAGATATATATTATT
1 TATATA-ATTTATTTATATATATATATAAAAGAAATATATTATT
*
27880810 TATTTAATTTAATTTATATAT-TATATAAATA-AAAT-TATTATT
1 TATATAATTT-ATTTATATATATATATAAA-AGAAATATATTATT
27880852 TA-ATATATTTATTTA
1 TATATA-ATTTATTTA
27880867 ATGAAATATT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
41 7 0.14
42 13 0.27
43 14 0.29
44 15 0.31
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (43 bp):
TATATAATTTATTTATATATATATATAAAAGAAATATATTATT
Found at i:27881842 original size:18 final size:16
Alignment explanation
Indices: 27881819--27881853 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
27881809 TTCAACAAAA
27881819 ATAAATATTTGATATATT
1 ATAAATA-TT-ATATATT
27881837 ATAAATATTATATATT
1 ATAAATATTATATATT
27881853 A
1 A
27881854 CCAATCAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 2 0.12
18 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
ATAAATATTATATATT
Found at i:27882838 original size:2 final size:2
Alignment explanation
Indices: 27882831--27882872 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
27882821 ACTTAAGTAC
27882831 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27882873 CTTGGCCAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27883868 original size:18 final size:18
Alignment explanation
Indices: 27883847--27883896 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
27883837 TATTCTTCAC
27883847 TTCTCAATATTTCTTTTT
1 TTCTCAATATTTCTTTTT
* * *
27883865 TTCTTATTATTTC-TATT
1 TTCTCAATATTTCTTTTT
27883882 TTCTCAA-ATTT-TTTT
1 TTCTCAATATTTCTTTT
27883897 AACAATTTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
16 6 0.24
17 8 0.32
18 11 0.44
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.68
Consensus pattern (18 bp):
TTCTCAATATTTCTTTTT
Found at i:27886018 original size:24 final size:24
Alignment explanation
Indices: 27885991--27886040 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
27885981 ATTAATTAAT
*
27885991 TTATTTATTTATTTAGGTTTTATC
1 TTATTTATCTATTTAGGTTTTATC
* * *
27886015 TTATTTATCTGTTTTGTTTTTATC
1 TTATTTATCTATTTAGGTTTTATC
27886039 TT
1 TT
27886041 TTTTTTGTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.16, C:0.06, G:0.08, T:0.70
Consensus pattern (24 bp):
TTATTTATCTATTTAGGTTTTATC
Found at i:27886022 original size:4 final size:4
Alignment explanation
Indices: 27885929--27886005 Score: 66
Period size: 4 Copynumber: 19.5 Consensus size: 4
27885919 TATGTTTTTA
* * ** * *
27885929 TATT TATC TATT TA-T TATT TATT CATT TGCT TATT TATC TACT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
* * *
27885976 TAAT TATT AATT AATT TATT TATT TATT TA
1 TATT TATT TATT TATT TATT TATT TATT TA
27886006 GGTTTTATCT
Statistics
Matches: 56, Mismatches: 16, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
3 3 0.05
4 53 0.95
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (4 bp):
TATT
Found at i:27886788 original size:7 final size:7
Alignment explanation
Indices: 27886771--27886809 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
27886761 CCGCTGAGCC
27886771 ATTTCTTT
1 ATTT-TTT
27886779 ATTTTTT
1 ATTTTTT
27886786 ATTTTTT
1 ATTTTTT
27886793 A--TTTT
1 ATTTTTT
27886798 ATTTTTT
1 ATTTTTT
27886805 ATTTT
1 ATTTT
27886810 ATTCTCAAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.17
7 20 0.69
8 4 0.14
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (7 bp):
ATTTTTT
Found at i:27886799 original size:12 final size:12
Alignment explanation
Indices: 27886782--27886812 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
27886772 TTTCTTTATT
27886782 TTTTATTTTTTA
1 TTTTATTTTTTA
27886794 TTTTATTTTTTA
1 TTTTATTTTTTA
27886806 TTTTATT
1 TTTTATT
27886813 CTCAAGCCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:27886977 original size:25 final size:25
Alignment explanation
Indices: 27886949--27886996 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
27886939 ATTATTATCC
*
27886949 AATGATAAAATTTTTA-AAAATTTCA
1 AATGAT-AAATTTCTATAAAATTTCA
27886974 AATGATAAATTTCTATAAAATTT
1 AATGATAAATTTCTATAAAATTT
27886997 TTAGGTGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (25 bp):
AATGATAAATTTCTATAAAATTTCA
Found at i:27887238 original size:195 final size:194
Alignment explanation
Indices: 27886903--27887256 Score: 453
Period size: 195 Copynumber: 1.8 Consensus size: 194
27886893 AAGTTTAGGG
* * ** *
27886903 AAAATAATAAAAACTATAAAATTTTTGGAATTAAATATTATTATCCAATGATAAAATTTTTAAAA
1 AAAATAATAAAAACTACAAAAATTTTGGAATTAAATAAAATTATCCAATGATAAAATTCTTAAAA
* * * * *
27886968 ATTTCAAATGATAAATTTCTATAAAATTTTTAGGTGAAAAATTTTATCTAAATTTATCCTAAATA
66 ATTTCAAATGATAAATTTCTAAAAAATCTCTAGATGAAAAATTTTATCTAAATTTATCCCAAATA
* *
27887033 GTGGAATAATTTAAAT-AAAGTTTCAATAACAATAATTAATATTTATTTTCAAACAAAAAAACTA
131 GCGAAATAATTTAAATGAAA-TTTCAATAACAATAATTAATATTTATTTTCAAACAAAAAAACTA
* * * *
27887097 AAAATAA-AAAAATTAACAAAAATTTTGGAATTAAATACAAATTATCCAATGATGAGATTCTTAG
1 AAAATAATAAAAACT-ACAAAAATTTTGGAATTAAATA-AAATTATCCAATGATAAAATTCTTAA
* * * *
27887161 AAATTTCAAATGGTAAATTTCTTAAAAAATCTCTAGATGAGAAA-TTTCTCTAAATTTGTCCCAA
64 AAATTTCAAATGATAAATTTC-TAAAAAATCTCTAGATGAAAAATTTTATCTAAATTTATCCCAA
* *
27887225 ATTGCGAAATAATTTAGATGAAATTTCAATAA
128 ATAGCGAAATAATTTAAATGAAATTTCAATAA
27887257 AAGCAATTGT
Statistics
Matches: 134, Mismatches: 22, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
193 6 0.04
194 27 0.20
195 81 0.60
196 20 0.15
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (194 bp):
AAAATAATAAAAACTACAAAAATTTTGGAATTAAATAAAATTATCCAATGATAAAATTCTTAAAA
ATTTCAAATGATAAATTTCTAAAAAATCTCTAGATGAAAAATTTTATCTAAATTTATCCCAAATA
GCGAAATAATTTAAATGAAATTTCAATAACAATAATTAATATTTATTTTCAAACAAAAAAACTA
Found at i:27898081 original size:58 final size:57
Alignment explanation
Indices: 27897956--27898232 Score: 247
Period size: 58 Copynumber: 4.7 Consensus size: 57
27897946 TTTTATGCAG
* * * * *
27897956 GAAAAATTGATACTTTCA-ATTTT-TTCCAAAATATCTTTT-AGAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCACCTTTTCCTCAAAAATATCTTTTGA-AAAC-TTATTTTCAA
* *
27898012 GAAAAATTGATACTTTCACCTTTTCCTCAAAAATCAACTTTTGAAAACTTATTTTTAA
1 GAAAAATTGATACTTTCACCTTTTCCTCAAAAAT-ATCTTTTGAAAACTTATTTTCAA
* * *
27898070 GAAAAATTGATACTTTCAACTTTTTCCT-AAAAATATTTTTTAGAAAGCTTATTTTCAA
1 GAAAAATTGATACTTTC-ACCTTTTCCTCAAAAATATCTTTT-GAAAACTTATTTTCAA
* * * *
27898128 GTAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTTGAAAAAAAACTTATTTTCAA
1 GAAAAATTGATACTTTCACCTTTTCCTCAAAAA---TATCTTTTG----AAAACTTATTTTCAA
* * * * *
27898192 GGAAAATTGACACTTTCAACTTTTCCTTAAAAATATTTTTT
1 GAAAAATTGATACTTTCACCTTTTCCTCAAAAATATCTTTT
27898233 TTGAATTTTA
Statistics
Matches: 186, Mismatches: 21, Indels: 23
0.81 0.09 0.10
Matches are distributed among these distances:
56 18 0.10
57 17 0.09
58 72 0.39
59 19 0.10
60 2 0.01
61 14 0.08
64 44 0.24
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (57 bp):
GAAAAATTGATACTTTCACCTTTTCCTCAAAAATATCTTTTGAAAACTTATTTTCAA
Found at i:27898134 original size:116 final size:118
Alignment explanation
Indices: 27897956--27898232 Score: 341
Period size: 116 Copynumber: 2.3 Consensus size: 118
27897946 TTTTATGCAG
* * *
27897956 GAAAAATTGATACTTTCAATTTTTTCC--AAAATATCTTTTAGAAACTTTAATTTCGAGAAAAAT
1 GAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTAGAAACTTTAATTTCAAGAAAAAT
* *
27898019 TGATACTTTCACCTTTTCCTCAAAAA-TCAACTTTTG-AAAACTTATTTTTAA
66 TGATACTTTCAACTTTTCCTCAAAAATTCAACTTTTGAAAAACTTATTTTCAA
* *
27898070 GAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTAGAAAGC-TTATTTTCAAGTAAAA
1 GAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTAGAAA-CTTTAATTTCAAGAAAAA
****
27898134 TTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTTGAAAAAAAACTTATTTTCAA
65 TTGATACTTTCAACTTTTCCTCAAAAA-TTCAACTTTTG---AAAAACTTATTTTCAA
* *
27898192 GGAAAATTGACACTTTCAAC-TTTTCCTTAAAAATATTTTTT
1 GAAAAATTGATACTTTCAACTTTTTCC-TAAAAATATTTTTT
27898233 TTGAATTTTA
Statistics
Matches: 140, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
114 26 0.19
116 55 0.39
117 1 0.01
118 6 0.04
121 6 0.04
122 46 0.33
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (118 bp):
GAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTAGAAACTTTAATTTCAAGAAAAAT
TGATACTTTCAACTTTTCCTCAAAAATTCAACTTTTGAAAAACTTATTTTCAA
Found at i:27899152 original size:20 final size:20
Alignment explanation
Indices: 27899101--27899224 Score: 140
Period size: 20 Copynumber: 6.0 Consensus size: 20
27899091 TAAAAAGTGT
* *
27899101 TAATAGATAATTAAAAGAAAA
1 TAATAGATAAATAAAA-ATAA
*
27899122 TAATTAGATAAATAAAAATAT
1 TAA-TAGATAAATAAAAATAA
*
27899143 TAACAGATAAATAAAAATAA
1 TAATAGATAAATAAAAATAA
* *
27899163 TAATAGATAAATTATAATAA
1 TAATAGATAAATAAAAATAA
*
27899183 TAATAGATAAATAATAATATA
1 TAATAGATAAATAAAAATA-A
*
27899204 TAAATAGATAAATAATAATAA
1 T-AATAGATAAATAAAAATAA
27899225 ATACATATAT
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
20 50 0.55
21 11 0.12
22 30 0.33
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.29
Consensus pattern (20 bp):
TAATAGATAAATAAAAATAA
Found at i:27899156 original size:4 final size:4
Alignment explanation
Indices: 27899149--27899409 Score: 85
Period size: 4 Copynumber: 67.2 Consensus size: 4
27899139 ATATTAACAG
* * *
27899149 ATAA ATAA AAATA AT-A ATAG ATAA ATTATA AT-A AT-A ATAG ATAA AT-A
1 ATAA ATAA ATA-A ATAA ATAA ATAA A-TA-A ATAA ATAA ATAA ATAA ATAA
* * * * *
27899196 AT-A ATAT ATAA ATAG ATAA AT-A AT-A ATAA ATAC ATAT ATATA A-CA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA-A ATAA
* * * * * *
27899241 ATAT ATAA ATAG CTAA GT-A AT-A ATAA ATAT AT-A TTAA CATAAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA -AT-AA ATAA
* *
27899288 ATAA ATAA ATAT ATTA ATAA ATAGTA AT-A ATAA ATAA ATAA AT-A ATAA
1 ATAA ATAA ATAA ATAA ATAA ATA--A ATAA ATAA ATAA ATAA ATAA ATAA
* * *
27899336 ATAAA AAAA ATACA A-AA ATAT ATAT ATAAA ATAA AT-- ATAA ATATA
1 AT-AA ATAA ATA-A ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATA-A
* *
27899381 A-AA ATAT AT-A ATAC A-AA ATAA A-AA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
27899410 ACGGGCATAT
Statistics
Matches: 191, Mismatches: 38, Indels: 56
0.67 0.13 0.20
Matches are distributed among these distances:
2 2 0.01
3 46 0.24
4 117 0.61
5 19 0.10
6 7 0.04
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (4 bp):
ATAA
Found at i:27899166 original size:3 final size:3
Alignment explanation
Indices: 27899152--27899224 Score: 56
Period size: 3 Copynumber: 21.7 Consensus size: 3
27899142 TTAACAGATA
* *
27899152 AAT AAA AAT AAT AAT AGAT AAAT TAT AAT AAT AAT AGAT AAAT AAT AAT
1 AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT A-AT -AAT AAT AAT
27899201 ATAT AAAT AGAT AAAT AAT AAT AA
1 A-AT -AAT A-AT -AAT AAT AAT AA
27899225 ATACATATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
3 38 0.66
4 16 0.28
5 4 0.07
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:27899174 original size:14 final size:13
Alignment explanation
Indices: 27899149--27899408 Score: 99
Period size: 14 Copynumber: 18.8 Consensus size: 13
27899139 ATATTAACAG
*
27899149 ATAAATAAAAATA
1 ATAAATAATAATA
27899162 AT-AATAGATAA-A
1 ATAAATA-ATAATA
*
27899174 TTATAATAATAATA
1 ATA-AATAATAATA
27899188 GATAAATAATAATA
1 -ATAAATAATAATA
27899202 TATAAATAGATAAATA
1 -ATAAATA-AT-AATA
27899218 AT-AATAAATACAT-
1 ATAAAT-AATA-ATA
* *
27899231 ATATATAACAATA
1 ATAAATAATAATA
*
27899244 TATAAATAGCTAAGTA
1 -ATAAATA-ATAA-TA
27899260 AT-AATAAATATATA
1 ATAAAT-AATA-ATA
*
27899274 TTAACATAA-AATAA
1 ATAA-ATAATAAT-A
27899288 ATAAATAAATATATTA
1 ATAAAT-AATA-A-TA
*
27899304 ATAAATAGTAATA
1 ATAAATAATAATA
27899317 ATAAATAAATAAATA
1 ATAAAT-AAT-AATA
* *
27899332 ATAAATAAAAAAA
1 ATAAATAATAATA
*
27899345 ATACAAAAAT-ATA
1 ATA-AATAATAATA
27899358 TATATAA-AATAA-A
1 -ATA-AATAATAATA
*
27899371 TATAAAT-ATAAAA
1 -ATAAATAATAATA
* *
27899384 ATATATAATACAAA
1 ATAAATAATA-ATA
*
27899398 ATAAAAAATAA
1 ATAAATAATAA
27899409 AACGGGCATA
Statistics
Matches: 192, Mismatches: 23, Indels: 64
0.69 0.08 0.23
Matches are distributed among these distances:
12 19 0.10
13 48 0.25
14 78 0.41
15 30 0.16
16 16 0.08
17 1 0.01
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (13 bp):
ATAAATAATAATA
Found at i:27899209 original size:25 final size:25
Alignment explanation
Indices: 27899161--27899401 Score: 84
Period size: 22 Copynumber: 10.2 Consensus size: 25
27899151 AAATAAAAAT
27899161 AATAATAGATAAAT--T-ATA-AT-
1 AATAATAGATAAATAATAATATATA
27899181 AATAATAGATAAATAATAATATAT-
1 AATAATAGATAAATAATAATATATA
*
27899205 -A-AATAGATAAATAATAATAAATA
1 AATAATAGATAAATAATAATATATA
* *
27899228 CAT-ATATATAACAATATATAA-ATAGCTA
1 AATAATAGAT-A-AATA-ATAATATA--TA
*
27899256 AGTAATA-ATAAAT-AT-ATAT-TA
1 AATAATAGATAAATAATAATATATA
*
27899277 ACATAA-A-ATAAATAAATAAATATATT
1 A-ATAATAGATAAAT-AAT-AATATATA
*
27899303 AATAAATAG-T-AATAATAAATAAATA
1 AAT-AATAGATAAATAAT-AATATATA
* * * *
27899328 AATAATAAATAAA-AAAAATACAAA
1 AATAATAGATAAATAATAATATATA
*
27899352 AAT-ATATATATAA-AATAA-ATATA
1 AATAATAGATA-AATAATAATATATA
*
27899375 AAT-ATA-A-AAATATATAATACA-A
1 AATAATAGATAAATA-ATAATATATA
27899397 AATAA
1 AATAA
27899402 AAAATAAAAC
Statistics
Matches: 173, Mismatches: 18, Indels: 57
0.70 0.07 0.23
Matches are distributed among these distances:
20 16 0.09
21 12 0.07
22 33 0.19
23 25 0.14
24 31 0.18
25 23 0.13
26 18 0.10
27 7 0.04
28 5 0.03
29 3 0.02
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (25 bp):
AATAATAGATAAATAATAATATATA
Found at i:27899224 original size:42 final size:41
Alignment explanation
Indices: 27899101--27899339 Score: 165
Period size: 42 Copynumber: 5.9 Consensus size: 41
27899091 TAAAAAGTGT
* * * * * *
27899101 TAATAGATAATTAAAAGAAAATAATTAGATAAATAAAAATAT
1 TAATAGATAAATAATA-ATAATAAATAGATAAATAATAATAA
* * *
27899143 TAACAGATAAATAAAAATAAT-AATAGATAAATTATAATAA
1 TAATAGATAAATAATAATAATAAATAGATAAATAATAATAA
27899183 TAATAGATAAATAATAATATATAAATAGATAAATAATAATAAA
1 TAATAGATAAATAATAATA-ATAAATAGATAAATAATAAT-AA
* * * *
27899226 TACAT--ATATATAACAATATATAAATAGCTAAGTAATAATAA
1 TA-ATAGATAAATAATAATA-ATAAATAGATAAATAATAATAA
* * * * *
27899267 -ATATATATTAA-CATAA-AATAAATAAATAAAT-ATATTAA
1 TA-ATAGATAAATAATAATAATAAATAGATAAATAATAATAA
27899305 TAAATAG-T-AATAATAAATAAATAAATA-ATAAATAA
1 T-AATAGATAAATAAT-AAT-AATAAATAGATAAATAA
27899340 AAAAAATACA
Statistics
Matches: 159, Mismatches: 25, Indels: 27
0.75 0.12 0.13
Matches are distributed among these distances:
37 2 0.01
38 9 0.06
39 16 0.10
40 43 0.27
41 20 0.13
42 63 0.40
43 4 0.03
44 2 0.01
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (41 bp):
TAATAGATAAATAATAATAATAAATAGATAAATAATAATAA
Found at i:27899308 original size:20 final size:20
Alignment explanation
Indices: 27899129--27899409 Score: 127
Period size: 20 Copynumber: 14.4 Consensus size: 20
27899119 AAATAATTAG
* * * *
27899129 ATAAATAAAAATATTAACAG
1 ATAAATAAATATAATAATAA
* *
27899149 ATAAATAAAAATAATAATAG
1 ATAAATAAATATAATAATAA
27899169 ATAAAT---TATAATAAT-A
1 ATAAATAAATATAATAATAA
*
27899185 ATAGATAAATAATAATATATAA
1 ATAAATAAAT-ATAATA-ATAA
*
27899207 ATAGAT-AA-ATAATAATAA
1 ATAAATAAATATAATAATAA
* * * *
27899225 ATACATATATATAACAATAT
1 ATAAATAAATATAATAATAA
**
27899245 ATAAATAGCTAAGTAATAATAA
1 ATAAATAAAT-A-TAATAATAA
* *
27899267 ATATATATTAACATAA-AATAA
1 ATA-A-ATAAATATAATAATAA
*
27899288 ATAAATAAATATATTAATAA
1 ATAAATAAATATAATAATAA
27899308 ATAGTAAT-AATA-AATAAATAA
1 ATA--AATAAATATAAT-AATAA
27899329 AT-AATAAATA-AA-AA-AA
1 ATAAATAAATATAATAATAA
*
27899345 ATACAA-AAATAT-AT-ATAT
1 ATA-AATAAATATAATAATAA
27899363 A-AAATAAATATAA-ATATAA
1 ATAAATAAATATAATA-ATAA
*
27899382 A-AATATATAATACAA-AATAA
1 ATAA-ATA-AATATAATAATAA
27899402 A-AAATAAA
1 ATAAATAAA
27899410 ACGGGCATAT
Statistics
Matches: 208, Mismatches: 25, Indels: 58
0.71 0.09 0.20
Matches are distributed among these distances:
16 11 0.05
17 24 0.12
18 19 0.09
19 30 0.14
20 66 0.32
21 31 0.15
22 23 0.11
23 2 0.01
24 2 0.01
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (20 bp):
ATAAATAAATATAATAATAA
Found at i:27899366 original size:13 final size:13
Alignment explanation
Indices: 27899262--27899409 Score: 76
Period size: 13 Copynumber: 11.5 Consensus size: 13
27899252 GCTAAGTAAT
27899262 AATAAATATATATTA
1 AATAAATATATA--A
*
27899277 ACATAAA-ATAAATA
1 A-ATAAATATATA-A
*
27899291 AATAAATATAT-T
1 AATAAATATATAA
*
27899303 AATAAATAGTA-AT
1 AATAAATA-TATAA
*
27899316 AATAAATAAAT-A
1 AATAAATATATAA
*
27899328 AAT-AATAAATAA
1 AATAAATATATAA
* *
27899340 AAAAAATACA-AA
1 AATAAATATATAA
*
27899352 AATATATATATAA
1 AATAAATATATAA
27899365 AATAAATATA-AA
1 AATAAATATATAA
* * *
27899377 TATAAAAATATAT
1 AATAAATATATAA
* *
27899390 AATACAAAATAAAA
1 AATA-AATATATAA
27899404 AATAAA
1 AATAAA
27899410 ACGGGCATAT
Statistics
Matches: 106, Mismatches: 17, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
11 7 0.07
12 34 0.32
13 38 0.36
14 17 0.16
15 5 0.05
16 5 0.05
ACGTcount: A:0.70, C:0.02, G:0.01, T:0.28
Consensus pattern (13 bp):
AATAAATATATAA
Found at i:27900013 original size:35 final size:36
Alignment explanation
Indices: 27899936--27900031 Score: 140
Period size: 35 Copynumber: 2.7 Consensus size: 36
27899926 TGCCAAAAAC
* *
27899936 ATCATGCAATAAAATATCAAATCATACCATACAATAA
1 ATCATGTAAT-AAATATAAAATCATACCATACAATAA
* *
27899973 ATCATGTAATAAATATAAAAT-ATACTATGCAATAA
1 ATCATGTAATAAATATAAAATCATACCATACAATAA
27900008 ATCATGTAATAAATATAAAATCAT
1 ATCATGTAATAAATATAAAATCAT
27900032 GTAAAAAATG
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
35 33 0.61
36 12 0.22
37 9 0.17
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.29
Consensus pattern (36 bp):
ATCATGTAATAAATATAAAATCATACCATACAATAA
Found at i:27900030 original size:19 final size:19
Alignment explanation
Indices: 27899971--27900040 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 19
27899961 ACCATACAAT
27899971 AAATCATGTAATAAATATA
1 AAATCATGTAATAAATATA
* **
27899990 AAAT-ATACT-ATGCA-AT-
1 AAATCAT-GTAATAAATATA
27900006 AAATCATGTAATAAATATA
1 AAATCATGTAATAAATATA
*
27900025 AAATCATGTAAAAAAT
1 AAATCATGTAATAAAT
27900041 GATCATGCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
16 5 0.13
17 7 0.18
18 7 0.18
19 20 0.51
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.30
Consensus pattern (19 bp):
AAATCATGTAATAAATATA
Found at i:27900131 original size:20 final size:20
Alignment explanation
Indices: 27900066--27900149 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
27900056 AACTGATAAA
*
27900066 TATATTAATAATCATGCAAT
1 TATATTAATAATCATACAAT
* * * *
27900086 TA-ATGAACTACA-CAAATAAA
1 TATATTAA-TA-ATCATACAAT
27900106 TATATTAATAATCATACAAT
1 TATATTAATAATCATACAAT
* * *
27900126 TATATTAGTAAACATGCAAT
1 TATATTAATAATCATACAAT
27900146 TATA
1 TATA
27900150 AACAATCATG
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
19 5 0.10
20 38 0.79
21 5 0.10
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.35
Consensus pattern (20 bp):
TATATTAATAATCATACAAT
Found at i:27900257 original size:18 final size:18
Alignment explanation
Indices: 27900188--27900251 Score: 92
Period size: 18 Copynumber: 3.6 Consensus size: 18
27900178 TGCAATTATA
27900188 AATCATGCAAATAATAAT
1 AATCATGCAAATAATAAT
* * *
27900206 AAACCTACAAATAATAAT
1 AATCATGCAAATAATAAT
27900224 AATCATGCAAATAATAAT
1 AATCATGCAAATAATAAT
*
27900242 AATTATGCAA
1 AATCATGCAA
27900252 TAAATATACA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.27
Consensus pattern (18 bp):
AATCATGCAAATAATAAT
Found at i:27900266 original size:22 final size:23
Alignment explanation
Indices: 27900239--27900282 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
27900229 TGCAAATAAT
*
27900239 AATAATTATGCAA-TAAATATAC
1 AATAATCATGCAATTAAATATAC
*
27900261 AATAATCATGTAATTAAATATA
1 AATAATCATGCAATTAAATATA
27900283 TAATGTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.34
Consensus pattern (23 bp):
AATAATCATGCAATTAAATATAC
Found at i:27900290 original size:17 final size:16
Alignment explanation
Indices: 27900261--27900301 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
27900251 ATAAATATAC
* *
27900261 AATAATCATGTAATTA
1 AATAATAATGTAAATA
27900277 AATATATAATGTAAATA
1 AATA-ATAATGTAAATA
27900294 AATAATAA
1 AATAATAA
27900302 AATTTTACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (16 bp):
AATAATAATGTAAATA
Found at i:27900409 original size:17 final size:17
Alignment explanation
Indices: 27900387--27900433 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
27900377 ATAAAAGAAT
27900387 AAAACAAAAATAAAATA
1 AAAACAAAAATAAAATA
27900404 AAAACAAAAATAAAATA
1 AAAACAAAAATAAAATA
* *
27900421 GAAA-TAAAATAAA
1 AAAACAAAAATAAA
27900434 GACAATTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 8 0.29
17 20 0.71
ACGTcount: A:0.81, C:0.04, G:0.02, T:0.13
Consensus pattern (17 bp):
AAAACAAAAATAAAATA
Found at i:27900425 original size:28 final size:28
Alignment explanation
Indices: 27900384--27900438 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
27900374 AGAATAAAAG
27900384 AATAAAACAAAAATAAAATAAAAACAAA
1 AATAAAACAAAAATAAAATAAAAACAAA
* * *
27900412 AATAAAATAGAAATAAAATAAAGACAA
1 AATAAAACAAAAATAAAATAAAAACAA
27900439 TTCAAAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.78, C:0.05, G:0.04, T:0.13
Consensus pattern (28 bp):
AATAAAACAAAAATAAAATAAAAACAAA
Found at i:27900838 original size:20 final size:19
Alignment explanation
Indices: 27900813--27900900 Score: 58
Period size: 20 Copynumber: 4.4 Consensus size: 19
27900803 GTAGATCTCA
27900813 CTAGAAACTTCAAACAAAGC
1 CTAGAAACTTCAAACAAA-C
27900833 CTAGAAAACTTCCAAATTC-AAC
1 CTAG-AAACTT-CAAA--CAAAC
27900855 CTA-AAACTTCAAA-AAATTC
1 CTAGAAACTTCAAACAAA--C
*
27900874 CTAGAAA-TTCAATCTAAAAC
1 CTAGAAACTTCAAAC--AAAC
27900894 CTAGAAA
1 CTAGAAA
27900901 ATTCCATAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 22
0.71 0.01 0.28
Matches are distributed among these distances:
17 2 0.04
19 13 0.23
20 21 0.38
21 6 0.11
22 11 0.20
23 2 0.04
24 1 0.02
ACGTcount: A:0.50, C:0.23, G:0.06, T:0.22
Consensus pattern (19 bp):
CTAGAAACTTCAAACAAAC
Found at i:27901626 original size:13 final size:12
Alignment explanation
Indices: 27901603--27901650 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
27901593 TGACTTTGAC
27901603 CAAAAATAAAAT
1 CAAAAATAAAAT
27901615 CAAAAATCAAAAT
1 CAAAAAT-AAAAT
*
27901628 CAAAATTAAAAT
1 CAAAAATAAAAT
* *
27901640 TAAAATTAAAA
1 CAAAAATAAAA
27901651 CTGAAATCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
12 22 0.67
13 11 0.33
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (12 bp):
CAAAAATAAAAT
Found at i:27901638 original size:18 final size:18
Alignment explanation
Indices: 27901617--27901661 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
27901607 AATAAAATCA
*
27901617 AAAATCAAAATCAAAATT
1 AAAATCAAAATCAAAACT
* *
27901635 AAAATTAAAATTAAAACT
1 AAAATCAAAATCAAAACT
*
27901653 GAAATCAAA
1 AAAATCAAA
27901662 TAAAAATTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.67, C:0.09, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAATCAAAATCAAAACT
Found at i:27904416 original size:43 final size:43
Alignment explanation
Indices: 27904369--27904451 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 43
27904359 TCTTGATAAT
* *
27904369 TCAAGTGTGACTATG-TTAGTCAATTGGCTTAGCTGTGATGGTA
1 TCAAGTGTGACTA-GATTAGTCAATTAGCTTAGCTGAGATGGTA
*
27904412 TCAAGTGTGACTAGATTAGTCATTTAGCTTAGCTGAGATG
1 TCAAGTGTGACTAGATTAGTCAATTAGCTTAGCTGAGATG
27904452 CTACTAGTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.36
Consensus pattern (43 bp):
TCAAGTGTGACTAGATTAGTCAATTAGCTTAGCTGAGATGGTA
Found at i:27904527 original size:13 final size:13
Alignment explanation
Indices: 27904511--27904535 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27904501 CTCAAAATAA
27904511 TCCTAACTACTTG
1 TCCTAACTACTTG
27904524 TCCTAACTACTT
1 TCCTAACTACTT
27904536 ATTGATAACT
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:0.24, C:0.32, G:0.04, T:0.40
Consensus pattern (13 bp):
TCCTAACTACTTG
Found at i:27904567 original size:10 final size:9
Alignment explanation
Indices: 27904555--27904598 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 9
27904545 TATAATTTTT
27904555 AATAAATAA
1 AATAAATAA
27904564 TAATAAATAA
1 -AATAAATAA
27904574 AGATATAACTAA
1 A-ATA-AA-TAA
27904586 AATAAATAA
1 AATAAATAA
27904595 AATA
1 AATA
27904599 TACATAGCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 8 0.26
10 14 0.45
11 5 0.16
12 4 0.13
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (9 bp):
AATAAATAA
Found at i:27904589 original size:21 final size:21
Alignment explanation
Indices: 27904556--27904600 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
27904546 ATAATTTTTA
27904556 ATAAATAATAATAAATAAAGAT
1 ATAAATAATAATAAATAAA-AT
*
27904578 ATAACTAA-AATAAATAAAAT
1 ATAAATAATAATAAATAAAAT
27904598 ATA
1 ATA
27904601 CATAGCATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 10 0.45
22 7 0.32
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (21 bp):
ATAAATAATAATAAATAAAAT
Found at i:27908049 original size:3 final size:3
Alignment explanation
Indices: 27908034--27908066 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
27908024 CTTTAAGGTG
*
27908034 AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27908067 TTAAAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:27908253 original size:14 final size:15
Alignment explanation
Indices: 27908229--27908259 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
27908219 CTAAAATAAT
27908229 AAATATAATAAACAA
1 AAATATAATAAACAA
27908244 AAAT-TAATAAACAA
1 AAATATAATAAACAA
27908258 AA
1 AA
27908260 TTTTTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.19
Consensus pattern (15 bp):
AAATATAATAAACAA
Found at i:27909326 original size:2 final size:2
Alignment explanation
Indices: 27909319--27909349 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
27909309 TTATTGGCAA
27909319 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
27909350 ACTTCTCATT
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:27910418 original size:8 final size:8
Alignment explanation
Indices: 27910407--27910443 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
27910397 TATTTTATTA
27910407 TAATTTTT
1 TAATTTTT
27910415 TAATTTTT
1 TAATTTTT
27910423 TAATTTTT
1 TAATTTTT
27910431 TAATTTTT
1 TAATTTTT
27910439 TAATT
1 TAATT
27910444 ATAATAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
TAATTTTT
Found at i:27911075 original size:12 final size:12
Alignment explanation
Indices: 27911038--27911086 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
27911028 ATATTTAATA
*
27911038 TATTTTATTTAT
1 TATTTTATTTTT
* *
27911050 AATTTTATGATTT
1 TATTTTAT-TTTT
27911063 TATTTTATTTTT
1 TATTTTATTTTT
*
27911075 TAATTTATTTTT
1 TATTTTATTTTT
27911087 AAAGTAATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
12 21 0.70
13 9 0.30
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (12 bp):
TATTTTATTTTT
Found at i:27911080 original size:13 final size:13
Alignment explanation
Indices: 27911015--27911086 Score: 51
Period size: 12 Copynumber: 5.6 Consensus size: 13
27911005 TTAATACTAC
*
27911015 TTATTTTTCAATT
1 TTATTTTTTAATT
* **
27911028 ATATTTAATATATT
1 TTATTTTTTA-ATT
*
27911042 TTA-TTTATAATT
1 TTATTTTTTAATT
*
27911054 TTATGATTTT-ATT
1 TTAT-TTTTTAATT
27911067 TTATTTTTTAA-T
1 TTATTTTTTAATT
27911079 TTATTTTT
1 TTATTTTT
27911087 AAAGTAATTA
Statistics
Matches: 46, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
12 19 0.41
13 19 0.41
14 8 0.17
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (13 bp):
TTATTTTTTAATT
Found at i:27911751 original size:18 final size:18
Alignment explanation
Indices: 27911728--27911767 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
27911718 GGTCGAGCTT
27911728 GAAAAAATTTTAAAGCCC
1 GAAAAAATTTTAAAGCCC
27911746 GAAAAAATTTTAAAGCCC
1 GAAAAAATTTTAAAGCCC
27911764 GAAA
1 GAAA
27911768 TATTGGGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.20
Consensus pattern (18 bp):
GAAAAAATTTTAAAGCCC
Found at i:27912450 original size:20 final size:20
Alignment explanation
Indices: 27912413--27912451 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27912403 ATTATGCAAA
* *
27912413 TTAAGCAATTATAGAGAAAC
1 TTAAGCAAATAAAGAGAAAC
*
27912433 TTAAGCAAATAAATAGAAA
1 TTAAGCAAATAAAGAGAAA
27912452 AAATAAGTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.56, C:0.08, G:0.13, T:0.23
Consensus pattern (20 bp):
TTAAGCAAATAAAGAGAAAC
Found at i:27913637 original size:5 final size:5
Alignment explanation
Indices: 27913627--27913655 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
27913617 ATTAATAACA
27913627 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
27913656 ACACTAACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:27914433 original size:16 final size:16
Alignment explanation
Indices: 27914412--27914444 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27914402 CTATAATTAT
27914412 TATTAAA-ATTAAAAAA
1 TATTAAATA-TAAAAAA
27914428 TATTAAATATAAAAAA
1 TATTAAATATAAAAAA
27914444 T
1 T
27914445 TTTCAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TATTAAATATAAAAAA
Found at i:27914504 original size:117 final size:118
Alignment explanation
Indices: 27914286--27914507 Score: 286
Period size: 117 Copynumber: 1.9 Consensus size: 118
27914276 CAATATTTTA
* **** *
27914286 ATAATATTATTAAATTTTAAAAAATATCAAATATAATTTTTTTTCAAAAACAAATGTAAATCTTA
1 ATAATATTATTAAATATTAAAAAATATCAAATATAAAAAATTTTCAAAAACAAATATAAATCTTA
* * * * *
27914351 ATACACATTAAACTCAAATTTAATATAAAATTAACATAAAATTTTTCATTTCT
66 ATACACATCAAACCCAAACTTAACATAAAATCAACATAAAATTTTTCATTTCT
*
27914404 ATAATTATTATTAAA-ATTAAAAAATATTAAATATAAAAAATTTTC-AAAACAAATATAAATCTT
1 ATAA-TATTATTAAATATTAAAAAATATCAAATATAAAAAATTTTCAAAAACAAATATAAATCTT
* * *
27914467 ATTATACATCAAACCCAAACTTACCATAAAATCAACATAAA
65 AATACACATCAAACCCAAACTTAACATAAAATCAACATAAA
27914508 TCTTACACAT
Statistics
Matches: 88, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
117 50 0.57
118 28 0.32
119 10 0.11
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (118 bp):
ATAATATTATTAAATATTAAAAAATATCAAATATAAAAAATTTTCAAAAACAAATATAAATCTTA
ATACACATCAAACCCAAACTTAACATAAAATCAACATAAAATTTTTCATTTCT
Found at i:27914597 original size:17 final size:18
Alignment explanation
Indices: 27914575--27914618 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
27914565 TCAACAATAC
27914575 TCAACAAATA-AAAAAAA
1 TCAACAAATACAAAAAAA
27914592 TCAAC-AATACTAAAAAAA
1 TCAACAAATAC-AAAAAAA
27914610 TCCAACAAA
1 T-CAACAAA
27914619 AATTAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.17
17 5 0.22
18 8 0.35
19 4 0.17
20 2 0.09
ACGTcount: A:0.68, C:0.18, G:0.00, T:0.14
Consensus pattern (18 bp):
TCAACAAATACAAAAAAA
Found at i:27916041 original size:18 final size:19
Alignment explanation
Indices: 27915994--27916040 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
27915984 AAAATATTAT
*
27915994 TTTAAAAATAT-TTGTTTA
1 TTTAATAATATATTGTTTA
27916012 TTTAATAATATATTG-TT-
1 TTTAATAATATATTGTTTA
27916029 TTT-ATAATATAT
1 TTTAATAATATAT
27916041 AATAAGAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 9 0.33
17 3 0.11
18 12 0.44
19 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (19 bp):
TTTAATAATATATTGTTTA
Found at i:27918693 original size:5 final size:5
Alignment explanation
Indices: 27918683--27918707 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
27918673 CCAAAATTCA
27918683 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
27918708 TATAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:27923427 original size:14 final size:15
Alignment explanation
Indices: 27923399--27923441 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
27923389 TAAAATATAA
27923399 AAAATATATTTAAAT
1 AAAATATATTTAAAT
27923414 AAAATATA-TTAAAT
1 AAAATATATTTAAAT
*
27923428 AAATATACATTTAA
1 AAA-ATATATTTAA
27923442 CGTATGATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 9 0.36
15 12 0.48
16 4 0.16
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAATATATTTAAAT
Found at i:27923431 original size:13 final size:13
Alignment explanation
Indices: 27923388--27923434 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
27923378 CTAAATATGT
27923388 ATAAA-ATA-TAA
1 ATAAATATATTAA
27923399 A-AAATATATTTAA
1 ATAAATATA-TTAA
27923412 ATAAAATATATTAA
1 AT-AAATATATTAA
27923426 ATAAATATA
1 ATAAATATA
27923435 CATTTAACGT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 3 0.10
11 4 0.13
13 11 0.35
14 6 0.19
15 7 0.23
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
ATAAATATATTAA
Found at i:27923652 original size:13 final size:12
Alignment explanation
Indices: 27923634--27923671 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
27923624 AATTATTTTA
27923634 AATATTTAATTAT
1 AATATTT-ATTAT
27923647 AATATTTATT-T
1 AATATTTATTAT
*
27923658 AATAATTATTAT
1 AATATTTATTAT
27923670 AA
1 AA
27923672 AATTATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 10 0.43
12 6 0.26
13 7 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
AATATTTATTAT
Found at i:27923706 original size:28 final size:27
Alignment explanation
Indices: 27923640--27923706 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 27
27923630 TTTAAATATT
*
27923640 TAATTATAATA-TTTATTTAATAATTA
1 TAATAATAATATTTTATTTAATAATTA
*
27923666 TTATAA-AATTATTTTATATTAATAA-TA
1 TAATAATAA-TATTTTAT-TTAATAATTA
27923693 TAAATAATAATATT
1 T-AATAATAATATT
27923707 AATACGATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
25 2 0.06
26 6 0.18
27 8 0.24
28 15 0.45
29 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TAATAATAATATTTTATTTAATAATTA
Found at i:27923930 original size:17 final size:16
Alignment explanation
Indices: 27923903--27923946 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
27923893 AATAGTTGAG
*
27923903 TTTAATTATTTATTCA
1 TTTATTTATTTATTCA
*
27923919 TTTATGTTATTTATTGA
1 TTTAT-TTATTTATTCA
27923936 TTTATTTATTT
1 TTTATTTATTT
27923947 GTTTTTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (16 bp):
TTTATTTATTTATTCA
Found at i:27923932 original size:4 final size:4
Alignment explanation
Indices: 27923903--27923946 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
27923893 AATAGTTGAG
* * *
27923903 TTTA ATTA TTTA TTCA TTTA TGTTA TTTA TTGA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTT
27923947 GTTTTTCTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
4 29 0.88
5 4 0.12
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (4 bp):
TTTA
Done.