Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 59 of 120
Found at i:6754190 original size:32 final size:32
Alignment explanation
Indices: 6754129--6754193 Score: 98
Period size: 30 Copynumber: 2.1 Consensus size: 32
6754119 TATTATAATA
*
6754129 TATTTATATTAATATATTATAATTAATAAAAT
1 TATTAATATTAATATATTATAATTAATAAAAT
6754161 TATTAATATTAA-AT-TTATAATTAATATAAAT
1 TATTAATATTAATATATTATAATTAATA-AAAT
6754192 TA
1 TA
6754194 ACAAATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 12 0.39
31 8 0.26
32 11 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
TATTAATATTAATATATTATAATTAATAAAAT
Found at i:6754201 original size:32 final size:32
Alignment explanation
Indices: 6754134--6754202 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
6754124 TAATATATTT
**
6754134 ATATTAATATATTATAATTAATAAAATTATTA
1 ATATTAATATATTATAATTAATAAAATTACAA
6754166 ATATTAA-AT-TTATAATTAATATAAATTAACAA
1 ATATTAATATATTATAATTAATA-AAATT-ACAA
6754198 ATATT
1 ATATT
6754203 TTTATTTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 12 0.36
31 7 0.21
32 14 0.42
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (32 bp):
ATATTAATATATTATAATTAATAAAATTACAA
Found at i:6754619 original size:13 final size:13
Alignment explanation
Indices: 6754570--6754632 Score: 56
Period size: 13 Copynumber: 4.7 Consensus size: 13
6754560 TTAATTATCG
*
6754570 ATAATAATAGTAT
1 ATAATAATAATAT
*
6754583 ATCAATATTACA-AT
1 AT-AATAATA-ATAT
*
6754597 AATTATAATAATAT
1 -ATAATAATAATAT
6754611 ATAATAATAATAT
1 ATAATAATAATAT
*
6754624 TTAATAATA
1 ATAATAATA
6754633 TTAATTTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
13 23 0.57
14 15 0.38
15 2 0.05
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.40
Consensus pattern (13 bp):
ATAATAATAATAT
Found at i:6754644 original size:19 final size:19
Alignment explanation
Indices: 6754622--6754661 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
6754612 TAATAATAAT
*
6754622 ATTTAA-TAATATTAATTTA
1 ATTTAATTAATAAT-ATTTA
6754641 ATTTAATTAATAATATTTA
1 ATTTAATTAATAATATTTA
6754660 AT
1 AT
6754662 CTTCATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTAATTAATAATATTTA
Found at i:6754772 original size:19 final size:19
Alignment explanation
Indices: 6754750--6754790 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
6754740 ATTATTTTCA
* *
6754750 AAATATTATTAACTATTTT
1 AAATAATATTAACTATTAT
*
6754769 AAATAATATTTACTATTAT
1 AAATAATATTAACTATTAT
6754788 AAA
1 AAA
6754791 CAACAATTAT
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:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATAATATTAACTATTAT
Found at i:6754837 original size:12 final size:12
Alignment explanation
Indices: 6754820--6754856 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
6754810 ATTTCAATTA
6754820 ATATATAGTACT
1 ATATATAGTACT
6754832 ATATATAGTACT
1 ATATATAGTACT
* *
6754844 ATAAATAATACT
1 ATATATAGTACT
6754856 A
1 A
6754857 ATTTATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (12 bp):
ATATATAGTACT
Found at i:6755016 original size:26 final size:24
Alignment explanation
Indices: 6754987--6755054 Score: 64
Period size: 26 Copynumber: 2.7 Consensus size: 24
6754977 TAATTAAACT
6754987 TTAATTAAATATAAATTAAATAATAG
1 TTAATTAAATATAAATTAAAT-A-AG
* * * *
6755013 TTAATTAGATATTAGTTTAATAAG
1 TTAATTAAATATAAATTAAATAAG
*
6755037 TTAATTAATTATATAATT
1 TTAATTAAATATA-AATT
6755055 GTTATATAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
24 12 0.36
25 4 0.12
26 17 0.52
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (24 bp):
TTAATTAAATATAAATTAAATAAG
Found at i:6755231 original size:22 final size:22
Alignment explanation
Indices: 6755197--6755239 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6755187 TATAAACAAT
*
6755197 TATTATTGCATTAATTT-AATAA
1 TATTATAGCATT-ATTTGAATAA
*
6755219 TATTATAGTATTATTTGAATA
1 TATTATAGCATTATTTGAATA
6755240 TAACTAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (22 bp):
TATTATAGCATTATTTGAATAA
Found at i:6755426 original size:12 final size:12
Alignment explanation
Indices: 6755409--6755466 Score: 55
Period size: 12 Copynumber: 4.6 Consensus size: 12
6755399 TGTTATTAAT
6755409 TTATTAAAATAA
1 TTATTAAAATAA
* *
6755421 TAATTAATAAATTGA
1 TTATT-A-AAA-TAA
6755436 TTATTAAAAT-A
1 TTATTAAAATAA
6755447 TTCATTAAAATAA
1 TT-ATTAAAATAA
6755460 TTATTAA
1 TTATTAA
6755467 TATTTATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
11 3 0.08
12 18 0.47
13 7 0.18
14 4 0.11
15 6 0.16
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (12 bp):
TTATTAAAATAA
Found at i:6755454 original size:39 final size:35
Alignment explanation
Indices: 6755380--6755468 Score: 108
Period size: 39 Copynumber: 2.4 Consensus size: 35
6755370 TGTTATTAGT
6755380 AATAATAATATAATAATATTGTTATTAATTTATTAA
1 AATAATAAT-TAATAATATTGTTATTAATTTATTAA
6755416 AATAATAATTAATAA-ATTGATTATTAAAATATTCATTAA
1 AATAATAATTAATAATATTG-TTATT--AAT-TT-ATTAA
*
6755455 AATAATTATTAATA
1 AATAATAATTAATA
6755469 TTTATAATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
34 4 0.09
35 11 0.23
36 9 0.19
37 3 0.06
38 2 0.04
39 18 0.38
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (35 bp):
AATAATAATTAATAATATTGTTATTAATTTATTAA
Found at i:6755465 original size:27 final size:27
Alignment explanation
Indices: 6755409--6755465 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
6755399 TGTTATTAAT
*
6755409 TTATTAAAATAATAATTAATAAATTGA
1 TTATTAAAATAATAATTAAAAAATTGA
* *
6755436 TTATTAAAATATTCATTAAAATAATT-A
1 TTATTAAAATAATAATTAAAA-AATTGA
6755463 TTA
1 TTA
6755466 ATATTTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
TTATTAAAATAATAATTAAAAAATTGA
Found at i:6755503 original size:25 final size:26
Alignment explanation
Indices: 6755475--6755545 Score: 65
Period size: 26 Copynumber: 2.8 Consensus size: 26
6755465 AATATTTATA
*
6755475 ATTTAAATATATAT-AATAATTATTT
1 ATTTAAATATATATAAATAATAATTT
* *
6755500 ATTTTAAT-TATAATAAATTATAATTT
1 ATTTAAATATAT-ATAAATAATAATTT
* * *
6755526 ATTTAATTATAAATGAATAA
1 ATTTAAATATATATAAATAA
6755546 GTTTTAATAT
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
24 3 0.09
25 9 0.26
26 21 0.60
27 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (26 bp):
ATTTAAATATATATAAATAATAATTT
Found at i:6755505 original size:26 final size:26
Alignment explanation
Indices: 6755451--6755537 Score: 65
Period size: 26 Copynumber: 3.4 Consensus size: 26
6755441 AAAATATTCA
* *
6755451 TTAAA-ATAATTATTAA-TATTTATAAT
1 TTAAATATAATAAATAATTATTTAT--T
6755477 TTAAATAT-ATATAATAATTATTTATT
1 TTAAATATAATA-AATAATTATTTATT
* * *
6755503 TTAATTATAATAAATTATAATTTA-T
1 TTAAATATAATAAATAATTATTTATT
*
6755528 TTAATTATAA
1 TTAAATATAA
6755538 ATGAATAAGT
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
25 11 0.21
26 25 0.48
27 9 0.17
28 7 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TTAAATATAATAAATAATTATTTATT
Found at i:6755662 original size:14 final size:14
Alignment explanation
Indices: 6755645--6755702 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
6755635 ATAAATATTG
6755645 TAATATATTATAAT
1 TAATATATTATAAT
*
6755659 TAATAT-TATAAAAT
1 TAATATAT-TATAAT
6755673 TAAT-TATTAATAAT
1 TAATATATT-ATAAT
* *
6755687 T-GTAAATTATAAT
1 TAATATATTATAAT
6755700 TAA
1 TAA
6755703 GACAATTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
13 10 0.29
14 24 0.71
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (14 bp):
TAATATATTATAAT
Found at i:6755735 original size:16 final size:16
Alignment explanation
Indices: 6755710--6755741 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6755700 TAAGACAATT
6755710 TTTAAATTAATTATAA
1 TTTAAATTAATTATAA
*
6755726 TTTAATTTAATTATAA
1 TTTAAATTAATTATAA
6755742 CTTGTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAAATTAATTATAA
Found at i:6755774 original size:25 final size:25
Alignment explanation
Indices: 6755712--6755774 Score: 58
Period size: 25 Copynumber: 2.4 Consensus size: 25
6755702 AGACAATTTT
6755712 TAAATTAATTATAATTTAATTTAATTA
1 TAAATT-A-TATAATTTAATTTAATTA
* *
6755739 TAACTTGTATAA-TT-ATTTATATTA
1 TAAATTATATAATTTAATTTA-ATTA
6755763 TAATATTATATA
1 TAA-ATTATATA
6755775 TTTGAACAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
23 5 0.17
24 9 0.30
25 11 0.37
27 5 0.17
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
TAAATTATATAATTTAATTTAATTA
Found at i:6757074 original size:30 final size:29
Alignment explanation
Indices: 6757040--6757106 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 29
6757030 CTATTTTTAG
6757040 AATAAGTTATATCTATTAGTAATAAATATA
1 AATAAGTTATATCTATTAGTAATAAATA-A
* *
6757070 AATAACTTATATTTATTAGTAATAAATAA
1 AATAAGTTATATCTATTAGTAATAAATAA
6757099 AAT-AGTTA
1 AATAAGTTA
6757107 AATTATATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 4 0.12
29 4 0.12
30 26 0.76
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (29 bp):
AATAAGTTATATCTATTAGTAATAAATAA
Found at i:6757281 original size:17 final size:17
Alignment explanation
Indices: 6757259--6757291 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6757249 TATTGTTATA
*
6757259 GTTATATTAATTATTTT
1 GTTATATAAATTATTTT
6757276 GTTATATAAATTATTT
1 GTTATATAAATTATTT
6757292 ATTAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (17 bp):
GTTATATAAATTATTTT
Found at i:6757921 original size:37 final size:38
Alignment explanation
Indices: 6757879--6757950 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 38
6757869 CTATTAAAGA
**
6757879 TTTGTTTGTCATAAAACAAT-TGTTTTATTAATATAAG
1 TTTGTTTGAAATAAAACAATATGTTTTATTAATATAAG
* *
6757916 TTTGTTTGAAATAAAATAATATTTTTTATTAATAT
1 TTTGTTTGAAATAAAACAATATGTTTTATTAATAT
6757951 TAGAAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 17 0.57
38 13 0.43
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (38 bp):
TTTGTTTGAAATAAAACAATATGTTTTATTAATATAAG
Found at i:6758387 original size:13 final size:13
Alignment explanation
Indices: 6758366--6758407 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
6758356 TAATATATAT
*
6758366 TATATATTAATTA
1 TATAAATTAATTA
6758379 TATAAATTAATTA
1 TATAAATTAATTA
*
6758392 -ATAATATTTATTA
1 TATAA-ATTAATTA
6758405 TAT
1 TAT
6758408 GCTATCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 4 0.16
13 19 0.76
14 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATAAATTAATTA
Found at i:6758617 original size:15 final size:16
Alignment explanation
Indices: 6758597--6758637 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
6758587 ATAATGATTA
6758597 TATTAATTATAATA-T
1 TATTAATTATAATAGT
*
6758612 TATTAAATATAATAGT
1 TATTAATTATAATAGT
6758628 TATTAATTAT
1 TATTAATTAT
6758638 TTTTAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TATTAATTATAATAGT
Found at i:6758754 original size:21 final size:22
Alignment explanation
Indices: 6758703--6758757 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
6758693 TTATTCACAT
6758703 TATAA-TATT-AATTATATAAA
1 TATAATTATTAAATTATATAAA
6758723 TATAATTATTAAATT-TATAAA
1 TATAATTATTAAATTATATAAA
*
6758744 -ATTATTAATTAAAT
1 TATAATT-ATTAAAT
6758758 CGTCAATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 10 0.32
21 17 0.55
22 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TATAATTATTAAATTATATAAA
Found at i:6758946 original size:11 final size:11
Alignment explanation
Indices: 6758930--6758963 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
6758920 TAATAATTGT
6758930 TATTAATATAA
1 TATTAATATAA
*
6758941 TATTAATATTA
1 TATTAATATAA
*
6758952 TAATAATATAA
1 TATTAATATAA
6758963 T
1 T
6758964 TATAAAGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TATTAATATAA
Found at i:6759595 original size:21 final size:20
Alignment explanation
Indices: 6759563--6759608 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
6759553 ATTTTATTTG
6759563 ATTATTATTTAAAAATAATA
1 ATTATTATTTAAAAATAATA
* *
6759583 ATTATTAATTTAATAATACTA
1 ATTATT-ATTTAAAAATAATA
6759604 ATTAT
1 ATTAT
6759609 GATAGTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTATTATTTAAAAATAATA
Found at i:6760517 original size:23 final size:24
Alignment explanation
Indices: 6760480--6760526 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
6760470 AGATTAAATT
* * *
6760480 ATAATAATTATATT-ATTTATTTA
1 ATAATAAATAAATTAATATATTTA
6760503 ATAATAAATAAATTAATATATTTA
1 ATAATAAATAAATTAATATATTTA
6760527 TTATAATCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
ATAATAAATAAATTAATATATTTA
Found at i:6761345 original size:180 final size:182
Alignment explanation
Indices: 6761128--6761526 Score: 430
Period size: 182 Copynumber: 2.2 Consensus size: 182
6761118 GATTCAAATA
6761128 AAAATAATACTAATTTAATAATATTTTGAAAATTAATAAGTAAG-AGATTT-AAAAAATAAATGT
1 AAAATAATACTAATTTAATAATATTTTGAAAATTAATAAG-AAGAAGATTTGAAAAAATAAATGT
* * ** * *
6761191 ATTTGCTG-ATTAGTTTAAATAGTTAAGATTATTAGAATAATTATCTA-TTACAAATCATTCTAA
65 ATTTACCGAACAAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTA-AAATCATTCTAA
* * * * *
6761254 ACTTTTGTTTAATCATAAAATAATTGTTTCAGTTCATACAAGCTTATTCGAAAG
129 ACTTTTGTTTAATCATAAAACAATTGTTTCAGTTCACAAAAGCTTATCCAAAAG
* * * * * *
6761308 AAAATAATACTAATTTATTAA-CTTTTGAAAGATTAATAAGCAGAATATTTGAAAAACTAAATTT
1 AAAATAATACTAATTTAATAATATTTTGAAA-ATTAATAAGAAGAAGATTTGAAAAAATAAATGT
* * * * * *
6761372 GTTTACCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATTTATTTAAAATCATTGTGAA
65 ATTTACCGAACAAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTAAAATCATTCTAAA
* ** * * *
6761437 TTTTTGTTTTGTCATAAAACAATTGTTTTAGTTCACAAAAGTTTATCCAAAAT
130 CTTTTGTTTAATCATAAAACAATTGTTTCAGTTCACAAAAGCTTATCCAAAAG
* ** *
6761490 AAAATAATACTACTTTTCTTAATGTTTTGAAAATTAA
1 AAAATAATACTA-ATTTAATAATATTTTGAAAATTAA
6761527 GAGATTTAAA
Statistics
Matches: 180, Mismatches: 32, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
179 10 0.06
180 34 0.19
181 16 0.09
182 97 0.54
183 15 0.08
184 8 0.04
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (182 bp):
AAAATAATACTAATTTAATAATATTTTGAAAATTAATAAGAAGAAGATTTGAAAAAATAAATGTA
TTTACCGAACAAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTAAAATCATTCTAAAC
TTTTGTTTAATCATAAAACAATTGTTTCAGTTCACAAAAGCTTATCCAAAAG
Found at i:6761454 original size:182 final size:179
Alignment explanation
Indices: 6760902--6761526 Score: 548
Period size: 179 Copynumber: 3.5 Consensus size: 179
6760892 TTTAAAATTA
* * * * *
6760902 TTTTGACATAAAACAATTGTTTCAGTTAATAAAAACTTA-TCTGAAATAAAATAATGCTACTTTA
1 TTTTGTCATAAAACAATTGTTTCAGTTCATAAAAGCTTATTC-GAAATAAAATAATACTAATTTA
* * ** * *
6760966 TTAATATTTCAAAAATTAATAAGCAAGAGATTTAAAAACTAAAGCTATTTTTCAAAGTAG-TAAT
65 TTAAT-TTT-GAAAATTAATAAGCAAGAGATTTAAAAACTAAATCTATTTACCGAACTAGTTAA-
* * * * * * *
6761030 AACAGTT-TGACTATTTGAACAAATATTAATCTCAAATCATTATG-ATCTTTG
127 AATAGTTATGACTATTTGAATAATTATTTATTTAAAATCATTATGAATTTTTG
** * *
6761081 TTTTGTCATAAAACAATTGTTT-TTTATCATATAAGCTGATTC-AAATAAAAATAATACTAATTT
1 TTTTGTCATAAAACAATTGTTTCAGT-TCATAAAAGCTTATTCGAAAT-AAAATAATACTAATTT
* * * * * * * *
6761144 AATAATATTTTGAAAATTAATAAGTAAGAGATTTAAAAAATAAATGTATTTGCTG-ATTAGTTTA
64 -ATTA-ATTTTGAAAATTAATAAGCAAGAGATTTAAAAACTAAATCTATTTACCGAACTAGTTAA
* * * * * * *
6761208 AATAGTTAAGATTATTAGAATAATTATCTA-TTACAAATCATTCTAAACTTTTG
127 AATAGTTATGACTATTTGAATAATTATTTATTTA-AAATCATTATGAATTTTTG
** * * *
6761261 TTTAATCATAAAATAATTGTTTCAGTTCATACAAGCTTATTCGAAAGAAAATAATACTAATTTAT
1 TTTTGTCATAAAACAATTGTTTCAGTTCATAAAAGCTTATTCGAAATAAAATAATACTAATTTAT
* * * * *
6761326 TAACTTTTGAAAGATTAATAAGC-AGAATATTTGAAAAACTAAATTTGTTTACCGAACAAGTTCA
66 TAA-TTTTGAAA-ATTAATAAGCAAG-AGATTT-AAAAACTAAATCTATTTACCGAACTAGTTAA
*
6761390 AATAGTTATGACTATTTGAATAATTATTTATTTAAAATCATTGTGAATTTTTG
127 AATAGTTATGACTATTTGAATAATTATTTATTTAAAATCATTATGAATTTTTG
* * * * * * *
6761443 TTTTGTCATAAAACAATTGTTTTAGTTCACAAAAGTTTATCCAAAATAAAATAATACTACTTTTC
1 TTTTGTCATAAAACAATTGTTTCAGTTCATAAAAGCTTATTCGAAATAAAATAATACTA-ATTTA
6761508 TTAATGTTTTGAAAATTAA
65 TTAA--TTTTGAAAATTAA
6761527 GAGATTTAAA
Statistics
Matches: 353, Mismatches: 74, Indels: 34
0.77 0.16 0.07
Matches are distributed among these distances:
178 17 0.05
179 118 0.33
180 76 0.22
181 22 0.06
182 97 0.27
183 15 0.04
184 8 0.02
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (179 bp):
TTTTGTCATAAAACAATTGTTTCAGTTCATAAAAGCTTATTCGAAATAAAATAATACTAATTTAT
TAATTTTGAAAATTAATAAGCAAGAGATTTAAAAACTAAATCTATTTACCGAACTAGTTAAAATA
GTTATGACTATTTGAATAATTATTTATTTAAAATCATTATGAATTTTTG
Found at i:6761709 original size:10 final size:10
Alignment explanation
Indices: 6761705--6761747 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
6761695 TTAAATTATT
6761705 TTAAAA-TAA
1 TTAAAATTAA
6761714 TTAAAATTAA
1 TTAAAATTAA
6761724 TTAAAATTAA
1 TTAAAATTAA
* *
6761734 TTGAATTTAA
1 TTAAAATTAA
6761744 TTAA
1 TTAA
6761748 TTATTTTGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
9 6 0.20
10 24 0.80
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (10 bp):
TTAAAATTAA
Found at i:6764092 original size:22 final size:22
Alignment explanation
Indices: 6764065--6764115 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
6764055 TTTATGAATC
*
6764065 TATAATTA-TAATTATGATTATT
1 TATAATTAGTAA-TATGATTATA
*
6764087 TATAATTAGTAATATTATTATA
1 TATAATTAGTAATATGATTATA
6764109 TA-AATTA
1 TATAATTA
6764116 ATTAATGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 5 0.19
22 18 0.69
23 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (22 bp):
TATAATTAGTAATATGATTATA
Found at i:6764284 original size:11 final size:12
Alignment explanation
Indices: 6764263--6764346 Score: 63
Period size: 12 Copynumber: 7.2 Consensus size: 12
6764253 ATATATATTG
6764263 TTATATTTATAA
1 TTATATTTATAA
6764275 TTAT-TTTATAA
1 TTATATTTATAA
* *
6764286 ATA-ATATATAA
1 TTATATTTATAA
* *
6764297 TATACATATATAA
1 T-TATATTTATAA
6764310 -TATA--TATAGA
1 TTATATTTATA-A
6764320 -TATATTTATAA
1 TTATATTTATAA
6764331 TTATATTTATATA
1 TTATATTTATA-A
6764344 TTA
1 TTA
6764347 AATATAAATT
Statistics
Matches: 60, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
9 4 0.07
10 5 0.08
11 19 0.32
12 20 0.33
13 12 0.20
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (12 bp):
TTATATTTATAA
Found at i:6764307 original size:13 final size:12
Alignment explanation
Indices: 6764281--6764317 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
6764271 ATAATTATTT
6764281 TATAA-ATAATA
1 TATAATATAATA
6764292 TATAATATACATA
1 TATAATATA-ATA
6764305 TATAATAT-ATA
1 TATAATATAATA
6764316 TA
1 TA
6764318 GATATATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.42
12 3 0.12
13 11 0.46
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (12 bp):
TATAATATAATA
Found at i:6764307 original size:15 final size:17
Alignment explanation
Indices: 6764291--6764324 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6764281 TATAAATAAT
6764291 ATATAATATACATATATA
1 ATAT-ATATACATATATA
*
6764309 ATATATATAGATATAT
1 ATATATATACATATAT
6764325 TTATAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (17 bp):
ATATATATACATATATA
Found at i:6764391 original size:19 final size:19
Alignment explanation
Indices: 6764339--6764394 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
6764329 AATTATATTT
*
6764339 ATATATTAAATA-TAAATTA
1 ATATATTAAGTATTAAA-TA
*
6764358 ATA-ATATATGT-TTAAATA
1 ATATAT-TAAGTATTAAATA
6764376 ATATATTAAGTATTAAATA
1 ATATATTAAGTATTAAATA
6764395 TAATAATACT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
18 11 0.37
19 19 0.63
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (19 bp):
ATATATTAAGTATTAAATA
Found at i:6764543 original size:27 final size:30
Alignment explanation
Indices: 6764485--6764554 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 30
6764475 TTAATTAAAG
*
6764485 ATAATCATTATTAGTAATTATTAGGATAATT
1 ATAAT-ATTATTAGTAATTATTAGAATAATT
*
6764516 ATAATATTATTAGT-ATTA-TA-AATTATT
1 ATAATATTATTAGTAATTATTAGAATAATT
6764543 A-AATTATTATTA
1 ATAA-TATTATTA
6764555 AGATAATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
26 2 0.06
27 14 0.39
28 2 0.06
29 4 0.11
30 9 0.25
31 5 0.14
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (30 bp):
ATAATATTATTAGTAATTATTAGAATAATT
Found at i:6764560 original size:24 final size:24
Alignment explanation
Indices: 6764501--6764568 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
6764491 ATTATTAGTA
*
6764501 ATTATTAGGAT-AATTATAATATT
1 ATTATTAAGATAAATTATAATATT
* **
6764524 ATTAGTATTATAAATTATTAA-ATT
1 ATTATTAAGATAAATTA-TAATATT
*
6764548 ATTATTAAGAT-AATAATAATA
1 ATTATTAAGATAAATTATAATA
6764569 ATGTTGTAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
22 3 0.09
23 13 0.37
24 16 0.46
25 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (24 bp):
ATTATTAAGATAAATTATAATATT
Found at i:6764591 original size:47 final size:47
Alignment explanation
Indices: 6764501--6764591 Score: 105
Period size: 47 Copynumber: 1.9 Consensus size: 47
6764491 ATTATTAGTA
* * * *
6764501 ATTATTAGGATAATTATAATATTATTAGTATTATAAATTATTAAATT
1 ATTATTAAGATAATAATAATAATATTAGTATTATAAATAATTAAATT
*
6764548 ATTATTAAGATAATAATAATAATGTT-GTAATTA-ATAATAATTAA
1 ATTATTAAGATAATAATAATAATATTAGT-ATTATA-AATAATTAA
6764592 GATAATAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
46 3 0.08
47 34 0.92
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (47 bp):
ATTATTAAGATAATAATAATAATATTAGTATTATAAATAATTAAATT
Found at i:6764600 original size:18 final size:18
Alignment explanation
Indices: 6764551--6764601 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
6764541 TTAAATTATT
6764551 ATTAAGATAATAATAATA
1 ATTAAGATAATAATAATA
*
6764569 ATGT-TG-TAATTAATAATA
1 AT-TAAGATAA-TAATAATA
6764587 ATTAAGATAATAATA
1 ATTAAGATAATAATA
6764602 TAGTTTATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
17 4 0.15
18 19 0.70
19 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (18 bp):
ATTAAGATAATAATAATA
Found at i:6765149 original size:24 final size:24
Alignment explanation
Indices: 6765104--6765150 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
6765094 TTGTCTTATT
* *
6765104 ATTTAATTATTTTGTTATTATAAC
1 ATTTAAATATTTTATTATTATAAC
6765128 ATTTAAATATTATTATTA-TATAA
1 ATTTAAATATT-TTATTATTATAA
6765151 ATAAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
ATTTAAATATTTTATTATTATAAC
Found at i:6765899 original size:14 final size:14
Alignment explanation
Indices: 6765858--6765909 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
6765848 ATATATAAAT
6765858 TAATTATTAT-TAA
1 TAATTATTATATAA
* *
6765871 TAATAAATAATATAA
1 TAAT-TATTATATAA
6765886 TAATTATTATATAA
1 TAATTATTATATAA
*
6765900 TTATTATTAT
1 TAATTATTAT
6765910 TAAATAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
13 4 0.12
14 21 0.66
15 7 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATTATTATATAA
Found at i:6765939 original size:22 final size:23
Alignment explanation
Indices: 6765902--6765946 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
6765892 TTATATAATT
6765902 ATTATTATTAAATAATAATACTA
1 ATTATTATTAAATAATAATACTA
* *
6765925 ATTA-TATTAACTAATATTACTA
1 ATTATTATTAAATAATAATACTA
6765947 CTATTATAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTATTATTAAATAATAATACTA
Found at i:6766035 original size:28 final size:28
Alignment explanation
Indices: 6765985--6766070 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 28
6765975 TTAATATAAC
*
6765985 TTTA-AAT-AAATATTTATTTATTAATTA
1 TTTATAATAAAATATTTA-ATATTAATTA
**
6766012 TTTAT-ATAATCTATTTAATGATT-ATATA
1 TTTATAATAAAATATTTAAT-ATTAAT-TA
6766040 TTTATAATAAAATATTTAATATTAAATTA
1 TTTATAATAAAATATTTAATATT-AATTA
6766069 TT
1 TT
6766071 GCAATTGTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
27 9 0.19
28 20 0.43
29 16 0.34
30 2 0.04
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (28 bp):
TTTATAATAAAATATTTAATATTAATTA
Found at i:6766296 original size:23 final size:23
Alignment explanation
Indices: 6766268--6766330 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
6766258 CCATTTTGTA
6766268 TAATTATAATTAAATATAATAAC
1 TAATTATAATTAAATATAATAAC
*
6766291 TAATTATAATT-ACTATAATAAC
1 TAATTATAATTAAATATAATAAC
*
6766313 TGATTAGTAATTAAATAT
1 TAATTA-TAATTAAATAT
6766331 TTGAATAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
22 15 0.43
23 16 0.46
24 4 0.11
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (23 bp):
TAATTATAATTAAATATAATAAC
Found at i:6767004 original size:16 final size:17
Alignment explanation
Indices: 6766985--6767031 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
6766975 TTATTCATAA
6766985 AACTAATTA-TAATTAT
1 AACTAATTATTAATTAT
6767001 AACTAATTATTAATTA-
1 AACTAATTATTAATTAT
6767017 AA-T-ATT-TTAATTAT
1 AACTAATTATTAATTAT
6767031 A
1 A
6767032 TTATTAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.24
14 4 0.14
15 1 0.03
16 11 0.38
17 6 0.21
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
AACTAATTATTAATTAT
Found at i:6767077 original size:29 final size:30
Alignment explanation
Indices: 6767017--6767088 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
6767007 TTATTAATTA
*
6767017 AATATTTTAATTATATTATTAATAAATCAT
1 AATATATTAATTATATTATTAATAAATCAT
* *
6767047 AATATATTATATTATA-T-TTAATAAGTTAT
1 AATATATTA-ATTATATTATTAATAAATCAT
6767076 AATATA--AATTATA
1 AATATATTAATTATA
6767089 AATCATTATA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
26 6 0.16
27 1 0.03
29 16 0.42
30 9 0.24
31 6 0.16
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (30 bp):
AATATATTAATTATATTATTAATAAATCAT
Found at i:6767209 original size:27 final size:26
Alignment explanation
Indices: 6767171--6767221 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
6767161 AATTGTTACT
6767171 TATAATTTATATTGA-ACTATAAATTA
1 TATAATTTATATT-ATACTATAAATTA
6767197 TATAATATTATATTATACTATAAAT
1 TATAAT-TTATATTATACTATAAAT
6767222 CAAATATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (26 bp):
TATAATTTATATTATACTATAAATTA
Found at i:6767363 original size:15 final size:17
Alignment explanation
Indices: 6767325--6767371 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
6767315 TATTATCAAA
*
6767325 TAATAATATTAAT-TAT
1 TAATATTATTAATATAT
6767341 TAATATTATTAATAT-T
1 TAATATTATTAATATAT
*
6767357 TAA-ATTAATAATATA
1 TAATATTATTAATATA
6767372 ATTTATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 10 0.37
16 16 0.59
17 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATTATTAATATAT
Found at i:6767549 original size:20 final size:22
Alignment explanation
Indices: 6767526--6767567 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6767516 GTTTATTGAA
6767526 TAGATT-AATAAAT-TAATAAT
1 TAGATTAAATAAATATAATAAT
*
6767546 TAGATTAAATAATTATAATAAT
1 TAGATTAAATAAATATAATAAT
6767568 ATTTATTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 6 0.32
22 7 0.37
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (22 bp):
TAGATTAAATAAATATAATAAT
Found at i:6768518 original size:22 final size:22
Alignment explanation
Indices: 6768490--6768534 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
6768480 CATTTAACTA
* *
6768490 ATATATATTAATTATTAGTAAT
1 ATATATAATAATTATTAATAAT
6768512 ATATATAATAATTATTAATAAT
1 ATATATAATAATTATTAATAAT
6768534 A
1 A
6768535 ATTGAGATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
ATATATAATAATTATTAATAAT
Found at i:6768774 original size:19 final size:19
Alignment explanation
Indices: 6768742--6768785 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
6768732 TATTAATACG
*
6768742 ATAATAATAAATATTTATT
1 ATAATAATAAATATATATT
* *
6768761 ATAATTATATATATATATT
1 ATAATAATAAATATATATT
*
6768780 AAAATA
1 ATAATA
6768786 GATTTAAAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATAATAATAAATATATATT
Found at i:6769715 original size:14 final size:15
Alignment explanation
Indices: 6769675--6769722 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
6769665 ATTTAATTAT
*
6769675 AAAATTAGTAAT-TA
1 AAAATTACTAATATA
*
6769689 AATATTACTAATATA
1 AAAATTACTAATATA
6769704 AAAATTA-TAATATTA
1 AAAATTACTAATA-TA
6769719 AAAA
1 AAAA
6769723 AAAATTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 15 0.52
15 14 0.48
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (15 bp):
AAAATTACTAATATA
Found at i:6769955 original size:19 final size:20
Alignment explanation
Indices: 6769919--6769960 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
6769909 AATATAAAAT
* *
6769919 TATTATAATATTAGTAATAA
1 TATTATAATACTAATAATAA
6769939 TATT-TAATACTAATAATAA
1 TATTATAATACTAATAATAA
6769958 TAT
1 TAT
6769961 CATTATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
TATTATAATACTAATAATAA
Found at i:6770041 original size:24 final size:24
Alignment explanation
Indices: 6770014--6770062 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6770004 GAATATTACT
* *
6770014 ATTAGTATTATTATAATTTTTAAA
1 ATTAGTATTAATATAATATTTAAA
* *
6770038 ATTATTTTTAATATAATATTTAAA
1 ATTAGTATTAATATAATATTTAAA
6770062 A
1 A
6770063 ATAATTAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
ATTAGTATTAATATAATATTTAAA
Found at i:6770046 original size:12 final size:12
Alignment explanation
Indices: 6770026--6770068 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
6770016 TAGTATTATT
6770026 ATAATTTTTAAA
1 ATAATTTTTAAA
* *
6770038 ATTATTTTTAAT
1 ATAATTTTTAAA
*
6770050 ATAATATTTAAAA
1 ATAAT-TTTTAAA
6770063 ATAATT
1 ATAATT
6770069 AGAAAGAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
ATAATTTTTAAA
Found at i:6770100 original size:22 final size:23
Alignment explanation
Indices: 6770019--6770100 Score: 64
Period size: 22 Copynumber: 3.7 Consensus size: 23
6770009 TTACTATTAG
* *
6770019 TATTATT-A-TAATTTTTAAAAT
1 TATTATTAATTAATATTTAAAAA
*
6770040 TATTTTTAATATAATATTTAAAAA
1 TATTATTAAT-TAATATTTAAAAA
* **
6770064 TAATTA-GAAAGAATA-TTAAAAA
1 T-ATTATTAATTAATATTTAAAAA
6770086 TATTATTAATTAATA
1 TATTATTAATTAATA
6770101 ATAATTAATT
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
21 10 0.22
22 15 0.33
23 4 0.09
24 14 0.30
25 3 0.07
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
TATTATTAATTAATATTTAAAAA
Found at i:6770238 original size:14 final size:13
Alignment explanation
Indices: 6770209--6770318 Score: 61
Period size: 13 Copynumber: 8.6 Consensus size: 13
6770199 TAATACTGCC
6770209 TAATTAATTATAA
1 TAATTAATTATAA
*
6770222 TAATTAGTTACTAA
1 TAATTAATTA-TAA
6770236 TAATT-ATTA-AA
1 TAATTAATTATAA
* *
6770247 TTATTTA-TA-AA
1 TAATTAATTATAA
* *
6770258 TTATTAATTTATTA
1 TAATTAA-TTATAA
* *
6770272 TATTTAA-TATAT
1 TAATTAATTATAA
*
6770284 TAATCAAATATATAA
1 TAAT-TAAT-TATAA
*
6770299 TATTTAATTAT-A
1 TAATTAATTATAA
6770311 TAATTAAT
1 TAATTAAT
6770319 AAATTATTTA
Statistics
Matches: 74, Mismatches: 15, Indels: 17
0.70 0.14 0.16
Matches are distributed among these distances:
11 16 0.22
12 15 0.20
13 19 0.26
14 17 0.23
15 7 0.09
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (13 bp):
TAATTAATTATAA
Found at i:6770862 original size:35 final size:33
Alignment explanation
Indices: 6770798--6770866 Score: 86
Period size: 32 Copynumber: 2.0 Consensus size: 33
6770788 AATTTTATTA
* *
6770798 ATTTATTATTACTATTAAATAAGTTAATTAATT
1 ATTTATTATTAATATTAAACAAGTTAATTAATT
6770831 ATTT-TTATTAATATTAATACAAGTTCAAATTAATT
1 ATTTATTATTAATATTAA-ACAAGTT--AATTAATT
6770866 A
1 A
6770867 AATACAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 12 0.39
33 10 0.32
35 9 0.29
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.49
Consensus pattern (33 bp):
ATTTATTATTAATATTAAACAAGTTAATTAATT
Found at i:6770946 original size:14 final size:15
Alignment explanation
Indices: 6770927--6770960 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6770917 CCCAAAAAAT
6770927 TTTTTGCT-TTTCTG
1 TTTTTGCTGTTTCTG
*
6770941 TTTTTGCTGTTTTTG
1 TTTTTGCTGTTTCTG
6770956 TTTTT
1 TTTTT
6770961 TTCGTTCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.00, C:0.09, G:0.15, T:0.76
Consensus pattern (15 bp):
TTTTTGCTGTTTCTG
Found at i:6771202 original size:6 final size:6
Alignment explanation
Indices: 6771185--6771237 Score: 61
Period size: 6 Copynumber: 8.7 Consensus size: 6
6771175 TCCTATTATC
* * * *
6771185 TAAAAA TGAAAA GAAAAA TCAAAA TAAAAA TAAAAA TAAAATA AAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA-A TAAAAA
6771234 TAAA
1 TAAA
6771238 GCCCATAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
6 33 0.87
7 5 0.13
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (6 bp):
TAAAAA
Found at i:6771544 original size:43 final size:40
Alignment explanation
Indices: 6771492--6771580 Score: 124
Period size: 43 Copynumber: 2.1 Consensus size: 40
6771482 AAAAGTAAAC
* *
6771492 AAGGCTCCTCTAAACAAGGGCTCAACAACTTTGAGAAAAATA
1 AAGGCTCCTCTAAACAAAGGCACAACAACTTT-A-AAAAATA
*
6771534 AATGGCTCCTCTAAACAAAGGCACAATAACTTTAAAAAATA
1 AA-GGCTCCTCTAAACAAAGGCACAACAACTTTAAAAAATA
6771575 AAGGCT
1 AAGGCT
6771581 TATTGACAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 4 0.09
41 9 0.21
42 3 0.07
43 27 0.63
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (40 bp):
AAGGCTCCTCTAAACAAAGGCACAACAACTTTAAAAAATA
Found at i:6771901 original size:22 final size:22
Alignment explanation
Indices: 6771877--6772074 Score: 141
Period size: 22 Copynumber: 8.9 Consensus size: 22
6771867 GGTTTCACAT
* *
6771877 CTCAAAAGTTCTCATTTGAAAT
1 CTCAAAAATTCTCATTTGAAAA
* *
6771899 CTCAAAAATCCTGATTTGAAAA
1 CTCAAAAATTCTCATTTGAAAA
6771921 CTCAAAAATTCTCATTTGAAAA
1 CTCAAAAATTCTCATTTGAAAA
* * **
6771943 CTTAAAGATTCTCATTTGAGGATTT
1 CTCAAAAATTCTCATTTGA--A-AA
* * * *
6771968 CTTAAAGATTTTCATTT-AAGA
1 CTCAAAAATTCTCATTTGAAAA
* *
6771989 CTCAGAGATTCTCATTT-AAAA
1 CTCAAAAATTCTCATTTGAAAA
* **
6772010 CTCAAAGATTCTCATTTGAGGATTT
1 CTCAAAAATTCTCATTTGA--A-AA
* *
6772035 CTTAAAAATTCTCATTT-AATA
1 CTCAAAAATTCTCATTTGAAAA
*
6772056 CTCAAAGATTCTCATTTGA
1 CTCAAAAATTCTCATTTGA
6772075 GGATTTCTTA
Statistics
Matches: 143, Mismatches: 25, Indels: 16
0.78 0.14 0.09
Matches are distributed among these distances:
21 49 0.34
22 59 0.41
24 4 0.03
25 31 0.22
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (22 bp):
CTCAAAAATTCTCATTTGAAAA
Found at i:6771997 original size:21 final size:21
Alignment explanation
Indices: 6771971--6772072 Score: 96
Period size: 21 Copynumber: 4.7 Consensus size: 21
6771961 AGGATTTCTT
* *
6771971 AAAGATTTTCATTTAAGACTC
1 AAAGATTCTCATTTAAAACTC
*
6771992 AGAGATTCTCATTTAAAACTC
1 AAAGATTCTCATTTAAAACTC
** *
6772013 AAAGATTCTCATTTGAGGATTTCTT
1 AAAGATTCTCATTT-A--A-AACTC
* *
6772038 AAAAATTCTCATTTAATACTC
1 AAAGATTCTCATTTAAAACTC
6772059 AAAGATTCTCATTT
1 AAAGATTCTCATTT
6772073 GAGGATTTCT
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
21 47 0.71
22 2 0.03
24 2 0.03
25 15 0.23
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (21 bp):
AAAGATTCTCATTTAAAACTC
Found at i:6772021 original size:67 final size:68
Alignment explanation
Indices: 6771902--6772074 Score: 249
Period size: 67 Copynumber: 2.5 Consensus size: 68
6771892 TTGAAATCTC
* * * * *
6771902 AAAAATCCTGATTTGAAAACTCAAAAATTCTCATTTGAAAACTTAAAGATTCTCATTTGAGGATT
1 AAAAATTCTCATTT-AAGACTCAAAGATTCTCATTTGAAAACTCAAAGATTCTCATTTGAGGATT
6771967 TCTT
65 TCTT
* * *
6771971 AAAGATTTTCATTTAAGACTCAGAGATTCTCATTT-AAAACTCAAAGATTCTCATTTGAGGATTT
1 AAAAATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAACTCAAAGATTCTCATTTGAGGATTT
6772035 CTT
66 CTT
*
6772038 AAAAATTCTCATTTAATACTCAAAGATTCTCATTTGA
1 AAAAATTCTCATTTAAGACTCAAAGATTCTCATTTGA
6772075 GGATTTCTTA
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
67 62 0.68
68 19 0.21
69 10 0.11
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (68 bp):
AAAAATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAACTCAAAGATTCTCATTTGAGGATTT
CTT
Found at i:6772046 original size:46 final size:46
Alignment explanation
Indices: 6771996--6772121 Score: 191
Period size: 46 Copynumber: 2.8 Consensus size: 46
6771986 AGACTCAGAG
6771996 ATTCTCATTTAAAACTCAAAGATTCTCATTTGAGGATTTCTTAAAA
1 ATTCTCATTTAAAACTCAAAGATTCTCATTTGAGGATTTCTTAAAA
* *
6772042 ATTCTCATTTAATACTCAAAGATTCTCATTTGAGGATTTCTTAAAG
1 ATTCTCATTTAAAACTCAAAGATTCTCATTTGAGGATTTCTTAAAA
* * * *
6772088 ATTCTCA-TTAAGACTAAAAAATTCTAATTTGAGG
1 ATTCTCATTTAAAACTCAAAGATTCTCATTTGAGG
6772122 GTTCACAATT
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
45 23 0.31
46 51 0.69
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (46 bp):
ATTCTCATTTAAAACTCAAAGATTCTCATTTGAGGATTTCTTAAAA
Found at i:6772964 original size:62 final size:63
Alignment explanation
Indices: 6772572--6773013 Score: 303
Period size: 63 Copynumber: 7.0 Consensus size: 63
6772562 TCAGAACAAG
* * * ** ** * *
6772572 TTTATCCTTC-ATCATTTGGTGACCACTCACAAGCTTTTTTGCATTAGCCATTTCAGAAA-AAAT
1 TTTAT-CTTCTATCACTTGGTCACCACTCATAAGCTTTTCAGCACCAACCATTCCA-AAACAAAT
* * * * * * * *
6772635 TTCATCCTTC-ATCATTTGGTCACTACTCACAGGCTTTTTAGCACCAACCATTTCAAAATAAAT
1 TTTAT-CTTCTATCACTTGGTCACCACTCATAAGCTTTTCAGCACCAACCATTCCAAAACAAAT
* * * * * *
6772698 TCTATCTTCTATCACTTGGTCACTACTCTTAAGCTTCTCAGCACTAGCCATTCCAAAACAAAT
1 TTTATCTTCTATCACTTGGTCACCACTCATAAGCTTTTCAGCACCAACCATTCCAAAACAAAT
* * * * * * * * * *
6772761 TTTATTTTCTATCACTTGATCAACACTTATAGGCTTCTCAGCACTAGCCATTCTAGAACAAAT
1 TTTATCTTCTATCACTTGGTCACCACTCATAAGCTTTTCAGCACCAACCATTCCAAAACAAAT
* * * * ** * *
6772824 TTTATCCTT-TATTATTTGGTCACCACT--TACAGGTTTATTAGCA-TTAGCAGTTTC-AAACAA
1 TTTAT-CTTCTATCACTTGGTCACCACTCATA-AGCTTT-TCAGCACCAACCA-TTCCAAAACAA
6772884 AT
62 AT
*
6772886 TTTATCTTTTATCACTTGGTCACCACTCATAAGCTTTTCAGCACCAACCATTCCAAAACAAA-
1 TTTATCTTCTATCACTTGGTCACCACTCATAAGCTTTTCAGCACCAACCATTCCAAAACAAAT
* * * * *
6772948 TTTGTCTTCTACCACTTGGTCACCATTCAT-AGGTTTCTCAGCA-CAAGCCATTCCAGAACAAAT
1 TTTATCTTCTATCACTTGGTCACCACTCATAAGCTTT-TCAGCACCAA-CCATTCCAAAACAAAT
6773011 TTT
1 TTT
6773014 GTCCATTGCC
Statistics
Matches: 306, Mismatches: 59, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
61 13 0.04
62 95 0.31
63 194 0.63
64 4 0.01
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (63 bp):
TTTATCTTCTATCACTTGGTCACCACTCATAAGCTTTTCAGCACCAACCATTCCAAAACAAAT
Found at i:6773814 original size:15 final size:15
Alignment explanation
Indices: 6773796--6773828 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
6773786 CATTTTTTTC
6773796 TTTTT-TCTTTTCAT
1 TTTTTCTCTTTTCAT
6773810 TTTTTCTCTTTTCAT
1 TTTTTCTCTTTTCAT
6773825 TTTT
1 TTTT
6773829 CATCCATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTCTCTTTTCAT
Found at i:6773827 original size:21 final size:21
Alignment explanation
Indices: 6773783--6773827 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
6773773 TTTCCCATTC
*
6773783 TTTCATTTTTTTCTTTTTTCT
1 TTTCATTTTTTTCTCTTTTCT
6773804 TTTCA-TTTTTTCTCTTTTCAT
1 TTTCATTTTTTTCTCTTTTC-T
6773825 TTT
1 TTT
6773828 TCATCCATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTCATTTTTTTCTCTTTTCT
Found at i:6774209 original size:24 final size:24
Alignment explanation
Indices: 6774173--6774218 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
6774163 ATGTATGACA
*
6774173 TTCATTTCTCTTTCCTTTCTTTCT
1 TTCATTTCTCTTTCCTTCCTTTCT
*
6774197 TTCATTT-TGCTTTTCTTCCTTT
1 TTCATTTCT-CTTTCCTTCCTTT
6774219 TGCTTTCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.05
24 18 0.95
ACGTcount: A:0.04, C:0.26, G:0.02, T:0.67
Consensus pattern (24 bp):
TTCATTTCTCTTTCCTTCCTTTCT
Found at i:6776103 original size:24 final size:22
Alignment explanation
Indices: 6776074--6776130 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 22
6776064 AGATATTATA
6776074 TTAATTATCTAATATAATTATAAT
1 TTAATTATCTAA-ATAATT-TAAT
*
6776098 TTAATTATTTAAATAATTTAAT
1 TTAATTATCTAAATAATTTAAT
6776120 TAATAATTATC
1 T--TAATTATC
6776131 AAAGGGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 5 0.17
23 6 0.21
24 18 0.62
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAATTATCTAAATAATTTAAT
Found at i:6776283 original size:12 final size:12
Alignment explanation
Indices: 6776266--6776415 Score: 95
Period size: 12 Copynumber: 12.6 Consensus size: 12
6776256 AATTAATATT
*
6776266 TATTAATTATAC
1 TATTAATTATAA
*
6776278 TATTAATTATTA
1 TATTAATTATAA
*
6776290 TATTTAATTATAT
1 TA-TTAATTATAA
*
6776303 TAATTATTTATAA
1 T-ATTAATTATAA
6776316 TA-TAATTA-AA
1 TATTAATTATAA
6776326 CTATTAGA-TA-AA
1 -TATTA-ATTATAA
6776338 TATTAA-TATAAA
1 TATTAATTAT-AA
6776350 TATTAATTAT-A
1 TATTAATTATAA
6776361 TATTAA-TATTAA
1 TATTAATTA-TAA
**
6776373 -ACAAATTATTAAA
1 TATTAATTA-T-AA
6776386 TATTAA-TATAAA
1 TATTAATTAT-AA
6776398 TATTAATTAT-A
1 TATTAATTATAA
6776409 TATTAAT
1 TATTAAT
6776416 ATTAAACAAA
Statistics
Matches: 113, Mismatches: 11, Indels: 29
0.74 0.07 0.19
Matches are distributed among these distances:
10 7 0.06
11 31 0.27
12 42 0.37
13 29 0.26
14 4 0.04
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (12 bp):
TATTAATTATAA
Found at i:6776284 original size:22 final size:25
Alignment explanation
Indices: 6776257--6776331 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 25
6776247 TATTAAAATA
6776257 ATTAA-TATT-TA-TTAATTATACT
1 ATTAATTATTATATTTAATTATACT
6776279 ATTAATTATTATATTTAA-T-TA-T
1 ATTAATTATTATATTTAATTATACT
* *
6776301 ATTAATTATTTATAATATAATTAAACT
1 ATTAATTA-TTAT-ATTTAATTATACT
6776328 ATTA
1 ATTA
6776332 GATAAATATT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
22 14 0.33
23 10 0.23
24 8 0.19
25 5 0.12
26 1 0.02
27 5 0.12
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTAATTATTATATTTAATTATACT
Found at i:6776308 original size:26 final size:26
Alignment explanation
Indices: 6776255--6776318 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
6776245 AATATTAAAA
6776255 TAATTAA-TATT-TA-TTAATTATAC
1 TAATTAATTATTATATTTAATTATAC
*
6776278 T-ATTAATTATTATATTTAATTATAT
1 TAATTAATTATTATATTTAATTATAC
* *
6776303 TAATTATTTATAATAT
1 TAATTAATTATTATAT
6776319 AATTAAACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 5 0.15
23 5 0.15
24 2 0.06
25 10 0.29
26 12 0.35
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
TAATTAATTATTATATTTAATTATAC
Found at i:6776323 original size:19 final size:21
Alignment explanation
Indices: 6776247--6776417 Score: 80
Period size: 19 Copynumber: 8.4 Consensus size: 21
6776237 ATTGATAAAA
*
6776247 TATTAAAATA-ATTAA-TATT
1 TATTAATATATATTAATTATT
6776266 TATTAATTATACTATTAATTATT
1 TATTAA-TATA-TATTAATTATT
6776289 ATATTTAAT-TATATTAATTATT
1 -TA-TTAATATATATTAATTATT
*
6776311 TA-TAATATA-ATTAA--A-C
1 TATTAATATATATTAATTATT
* **
6776327 TATTAGATAAATATTAATATAAA
1 TATTA-ATATATATTAAT-TATT
6776350 TATTAATTATATATTAA-TATT
1 TATTAA-TATATATTAATTATT
* ** *
6776371 AAACAA-AT-TATTAAATA-T
1 TATTAATATATATTAATTATT
* * *
6776389 TAAT-ATAAATATTAATTATA
1 TATTAATATATATTAATTATT
6776409 TATTAATAT
1 TATTAATAT
6776418 TAAACAAATT
Statistics
Matches: 115, Mismatches: 17, Indels: 38
0.68 0.10 0.22
Matches are distributed among these distances:
16 2 0.02
17 4 0.03
18 14 0.12
19 32 0.28
20 8 0.07
21 10 0.09
22 18 0.16
23 20 0.17
24 3 0.03
25 4 0.03
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (21 bp):
TATTAATATATATTAATTATT
Found at i:6776373 original size:48 final size:48
Alignment explanation
Indices: 6776299--6776441 Score: 216
Period size: 48 Copynumber: 2.9 Consensus size: 48
6776289 ATATTTAATT
* * * *
6776299 ATATTAATTATTTATAATATAATTAAAC-TATTAGATAAATATTAATATAA
1 ATATTAATTATATATTA-AT-ATTAAACAAATTA-TTAAATATTAATATAA
6776349 ATATTAATTATATATTAATATTAAACAAATTATTAAATATTAATATAA
1 ATATTAATTATATATTAATATTAAACAAATTATTAAATATTAATATAA
6776397 ATATTAATTATATATTAATATTAAACAAATTATTAAATATTAATA
1 ATATTAATTATATATTAATATTAAACAAATTATTAAATATTAATA
6776442 ATTAATACGC
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
48 67 0.76
49 6 0.07
50 15 0.17
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (48 bp):
ATATTAATTATATATTAATATTAAACAAATTATTAAATATTAATATAA
Found at i:6776389 original size:25 final size:25
Alignment explanation
Indices: 6776334--6776446 Score: 121
Period size: 25 Copynumber: 4.6 Consensus size: 25
6776324 AACTATTAGA
*
6776334 TAAATATTAATA-T-AAATATTAAT
1 TAAATATTAATATTAAAAAATTAAT
*
6776357 TATATATTAATATTAAACAAATT-AT
1 TAAATATTAATATTAAA-AAATTAAT
*
6776382 TAAATATTAATA-T-AAATATTAAT
1 TAAATATTAATATTAAAAAATTAAT
*
6776405 TATATATTAATATTAAACAAATT-AT
1 TAAATATTAATATTAAA-AAATTAAT
6776430 TAAATATTAATAATTAA
1 TAAATATTAAT-ATTAA
6776447 TACGCATGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
22 4 0.05
23 26 0.35
24 3 0.04
25 29 0.39
26 13 0.17
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TAAATATTAATATTAAAAAATTAAT
Found at i:6776417 original size:6 final size:6
Alignment explanation
Indices: 6776336--6776448 Score: 67
Period size: 6 Copynumber: 18.7 Consensus size: 6
6776326 CTATTAGATA
* **
6776336 AATATT AATATA AATATT -A-ATT ATATATT AATATT AA-ACA AATTATT
1 AATATT AATATT AATATT AATATT A-ATATT AATATT AATATT AA-TATT
* **
6776383 AAATATT AATATA AATATT -A-ATT ATATATT AATATT AA-ACA AATTATT
1 -AATATT AATATT AATATT AATATT A-ATATT AATATT AATATT AA-TATT
6776431 AAATATT AATAATT AATA
1 -AATATT AAT-ATT AATA
6776449 CGCATGTATT
Statistics
Matches: 82, Mismatches: 12, Indels: 26
0.68 0.10 0.22
Matches are distributed among these distances:
4 6 0.07
5 8 0.10
6 40 0.49
7 24 0.29
8 4 0.05
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (6 bp):
AATATT
Found at i:6776417 original size:23 final size:23
Alignment explanation
Indices: 6776314--6776415 Score: 63
Period size: 23 Copynumber: 4.4 Consensus size: 23
6776304 AATTATTTAT
*
6776314 AATA-TAATTAAACTATT-AGATA
1 AATATTAATTAAA-TATTAATATA
6776336 AATATTAATATAAATATTAAT-TA
1 AATATTAAT-TAAATATTAATATA
* *
6776359 TATATTAATATTAAACA--AATTATTA
1 AATATT-A-ATTAAATATTAA-TA-TA
6776384 AATATTAATATAAATATTAAT-TA
1 AATATTAAT-TAAATATTAATATA
*
6776407 TATATTAAT
1 AATATTAAT
6776416 ATTAAACAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 21
0.70 0.07 0.23
Matches are distributed among these distances:
22 6 0.10
23 28 0.44
24 17 0.27
25 10 0.16
26 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (23 bp):
AATATTAATTAAATATTAATATA
Found at i:6776420 original size:29 final size:29
Alignment explanation
Indices: 6776333--6776448 Score: 100
Period size: 29 Copynumber: 4.0 Consensus size: 29
6776323 AAACTATTAG
6776333 ATAAATATTAATATAAATATT-A-ATTATAT
1 ATAAATATTAAT-TAAATATTAATATTA-AT
* **
6776362 ATTAATATTAAACAAATTATTAAATATTAAT
1 ATAAATATTAATTAAA-TATT-AATATTAAT
*
6776393 ATAAATATTAATTATATATTAATATTAA-
1 ATAAATATTAATTAAATATTAATATTAAT
*
6776421 A-CAA-ATT-ATTAAATATTAATAATTAAT
1 ATAAATATTAATTAAATATTAAT-ATTAAT
6776448 A
1 A
6776449 CGCATGTATT
Statistics
Matches: 72, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
25 12 0.17
26 8 0.11
27 3 0.04
28 4 0.06
29 22 0.31
30 4 0.06
31 15 0.21
32 4 0.06
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (29 bp):
ATAAATATTAATTAAATATTAATATTAAT
Found at i:6776437 original size:19 final size:18
Alignment explanation
Indices: 6776342--6776439 Score: 61
Period size: 17 Copynumber: 5.8 Consensus size: 18
6776332 GATAAATATT
**
6776342 AATA-TAAATATTAATTA
1 AATATTAAATATTAAACA
*
6776359 TATATT-AATATTAAACA
1 AATATTAAATATTAAACA
6776376 AATTATTAAATATT-----
1 AA-TATTAAATATTAAACA
**
6776390 AATA-TAAATATTAATTA
1 AATATTAAATATTAAACA
*
6776407 TATATT-AATATTAAACA
1 AATATTAAATATTAAACA
6776424 AATTATTAAATATTAA
1 AA-TATTAAATATTAA
6776440 TAATTAATAC
Statistics
Matches: 62, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
12 8 0.13
13 2 0.03
14 2 0.03
17 26 0.42
18 10 0.16
19 14 0.23
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
AATATTAAATATTAAACA
Found at i:6776676 original size:12 final size:11
Alignment explanation
Indices: 6776660--6776700 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
6776650 ATAATTATTC
6776660 ATATTAATAAT
1 ATATTAATAAT
6776671 AGTATTAATAAT
1 A-TATTAATAAT
* *
6776683 ATTTTAATAAA
1 ATATTAATAAT
6776694 ATATTAA
1 ATATTAA
6776701 ATTAATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (11 bp):
ATATTAATAAT
Found at i:6777654 original size:39 final size:39
Alignment explanation
Indices: 6777611--6777789 Score: 113
Period size: 39 Copynumber: 4.6 Consensus size: 39
6777601 TAATTAATAT
*
6777611 TAATTATAA-TATTTATGTTATTAATATTAAT-ATTATAAA
1 TAATTATAATTAATTAT-TTA-TAATATTAATAATTATAAA
* * *
6777650 TAATTTTAATTAATTATTTATAATTTTAATAATTATTAA
1 TAATTATAATTAATTATTTATAATATTAATAATTATAAA
* * * *
6777689 TAA-TATAAATAATT-TTAATTAATTATTTATAATT-TTAA
1 TAATTATAATTAATTATTTA-TAA-TATTAATAATTATAAA
** * **
6777727 TAATTATTAA-TAA-TATAAATAATTTTAATTAATTATTTA
1 TAATTA-TAATTAATTATTTATAATATTAA-TAATTATAAA
* *
6777766 TAATTTTAA-TAATTATTAATAATA
1 TAATTATAATTAATTATTTATAATA
6777790 GTATTATTAA
Statistics
Matches: 114, Mismatches: 16, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
37 7 0.06
38 43 0.38
39 55 0.48
40 9 0.08
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.53
Consensus pattern (39 bp):
TAATTATAATTAATTATTTATAATATTAATAATTATAAA
Found at i:6777667 original size:29 final size:29
Alignment explanation
Indices: 6777635--6777788 Score: 158
Period size: 29 Copynumber: 5.3 Consensus size: 29
6777625 ATGTTATTAA
*
6777635 TATTAAT-ATTATAAATAATTTTAATTAAT
1 TATTAATAATTATTAATAATTTTAA-TAAT
*
6777664 TATTTATAATT-TTAATAATTATTAATAA-
1 TATTAATAATTATTAATAATT-TTAATAAT
* *
6777692 TATAAATAATT-TTAATTAATTATTTATAAT
1 TATTAATAATTATTAA-TAATT-TTAATAAT
* *
6777722 T-TTAATAATTATTAATAATATAAATAAT
1 TATTAATAATTATTAATAATTTTAATAAT
*
6777750 T-TTAATTAATTATTTATAATTTTAATAAT
1 TATTAA-TAATTATTAATAATTTTAATAAT
6777779 TATTAATAAT
1 TATTAATAAT
6777789 AGTATTATTA
Statistics
Matches: 106, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
28 24 0.23
29 66 0.62
30 16 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
TATTAATAATTATTAATAATTTTAATAAT
Found at i:6777699 original size:48 final size:48
Alignment explanation
Indices: 6777635--6777789 Score: 301
Period size: 48 Copynumber: 3.2 Consensus size: 48
6777625 ATGTTATTAA
*
6777635 TATTAATATTATAAATAATTTTAATTAATTATTTATAATTTTAATAAT
1 TATTAATAATATAAATAATTTTAATTAATTATTTATAATTTTAATAAT
6777683 TATTAATAATATAAATAATTTTAATTAATTATTTATAATTTTAATAAT
1 TATTAATAATATAAATAATTTTAATTAATTATTTATAATTTTAATAAT
6777731 TATTAATAATATAAATAATTTTAATTAATTATTTATAATTTTAATAAT
1 TATTAATAATATAAATAATTTTAATTAATTATTTATAATTTTAATAAT
6777779 TATTAATAATA
1 TATTAATAATA
6777790 GTATTATTAA
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 106 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (48 bp):
TATTAATAATATAAATAATTTTAATTAATTATTTATAATTTTAATAAT
Found at i:6777864 original size:19 final size:21
Alignment explanation
Indices: 6777821--6777869 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
6777811 CTTTTATAAA
*
6777821 TATATAATTATAAAAATATAT
1 TATATAATTATAAAAATATAG
*
6777842 TATATAATTA-ATAAAT-TAG
1 TATATAATTATAAAAATATAG
*
6777861 TATAGAATT
1 TATATAATT
6777870 TGATTTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 10 0.40
20 5 0.20
21 10 0.40
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (21 bp):
TATATAATTATAAAAATATAG
Found at i:6778165 original size:29 final size:27
Alignment explanation
Indices: 6778108--6778175 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 27
6778098 TATAATGTAA
*
6778108 ATATATTATATTTATAAACTATATTAT
1 ATATATTATATTTATAAACTATATAAT
*
6778135 ATATAATTAATATTTATAAAAT-TATAA-
1 ATAT-ATT-ATATTTATAAACTATATAAT
6778162 ATAT-TTATTATTTA
1 ATATATTA-TATTTA
6778176 ATAATATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
24 1 0.03
25 8 0.22
27 8 0.22
28 7 0.19
29 12 0.33
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (27 bp):
ATATATTATATTTATAAACTATATAAT
Found at i:6778179 original size:18 final size:16
Alignment explanation
Indices: 6778105--6778185 Score: 54
Period size: 18 Copynumber: 4.5 Consensus size: 16
6778095 TAATATAATG
6778105 TAAATATATTATATTTA
1 TAAATAT-TTATATTTA
*
6778122 TAAACTATATTATATATAA
1 TAAA-TAT-TTATAT-TTA
* *
6778141 TTAATATTTATAAAATTA
1 TAAATATTTAT--ATTTA
6778159 TAAATATTTATTATTTAA
1 TAAATATTTA-TATTT-A
6778177 TAATATATT
1 TAA-ATATT
6778186 AATTTCTAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
17 11 0.22
18 28 0.55
19 12 0.24
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (16 bp):
TAAATATTTATATTTA
Found at i:6778298 original size:25 final size:25
Alignment explanation
Indices: 6778259--6778311 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
6778249 TATGAATGTA
*
6778259 ATTTATATAATAATATAT-ATAAATT
1 ATTTATATAATAATAAATAAT-AATT
6778284 ATTTATAT-ATAAATAAATAATAATT
1 ATTTATATAAT-AATAAATAATAATT
6778309 ATT
1 ATT
6778312 ATTTTTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 2 0.08
25 21 0.84
26 2 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTTATATAATAATAAATAATAATT
Found at i:6778609 original size:19 final size:19
Alignment explanation
Indices: 6778585--6778634 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 19
6778575 ATATTATAAT
6778585 TAATTAAATAATTAATATA
1 TAATTAAATAATTAATATA
* *
6778604 TAATT--AT-ATTTATTTA
1 TAATTAAATAATTAATATA
6778620 TAATTATAATAATTA
1 TAATTA-AATAATTA
6778635 TTAAATTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 7
0.71 0.09 0.21
Matches are distributed among these distances:
16 12 0.50
17 2 0.08
19 7 0.29
20 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATTAAATAATTAATATA
Found at i:6778610 original size:29 final size:25
Alignment explanation
Indices: 6778573--6778635 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 25
6778563 TTATATAAGT
6778573 TAAT-ATTATAATTAATTAAATAATTAA
1 TAATAATTAT-ATTAATT-AATAATT-A
* *
6778600 TATATAATTATATTTATTTATAATTA
1 TA-ATAATTATATTAATTAATAATTA
6778626 TAATAATTAT
1 TAATAATTAT
6778636 TAAATTCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 8 0.25
26 3 0.09
27 8 0.25
28 8 0.25
29 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TAATAATTATATTAATTAATAATTA
Found at i:6778749 original size:31 final size:32
Alignment explanation
Indices: 6778693--6778752 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
6778683 ATATAATTAC
*
6778693 TTAATAATATAATTATAATTTACAATTATATA
1 TTAATAATATAATTATAATTAACAATTATATA
6778725 TTAA-AATA-AATTATTAATTAACAATTAT
1 TTAATAATATAATTA-TAATTAACAATTAT
6778753 TTAATATATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 5 0.19
31 17 0.65
32 4 0.15
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (32 bp):
TTAATAATATAATTATAATTAACAATTATATA
Found at i:6778816 original size:61 final size:59
Alignment explanation
Indices: 6778742--6778861 Score: 140
Period size: 61 Copynumber: 2.0 Consensus size: 59
6778732 AAATTATTAA
6778742 TTAACAATTATTTAATAT-A-TCAA-ATTAATATAGTT-ATTAATAATTAATAATGATAATATT
1 TTAACAATTATTT-ATATCAGTCAATATT-ATA-A-TTAATTAATAATTAATAAT-ATAATATT
* *
6778802 TTAATAATATATTTATATCAGTTAATATTATAATTAATTAATAATTAATAATATAATATT
1 TTAACAAT-TATTTATATCAGTCAATATTATAATTAATTAATAATTAATAATATAATATT
6778862 ATTGTAAATT
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
60 21 0.40
61 23 0.43
62 6 0.11
63 3 0.06
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (59 bp):
TTAACAATTATTTATATCAGTCAATATTATAATTAATTAATAATTAATAATATAATATT
Found at i:6779660 original size:29 final size:27
Alignment explanation
Indices: 6779603--6779670 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 27
6779593 TATAATGTAA
*
6779603 ATATATTATATTTATAAACTATATTAT
1 ATATATTATATTTATAAACTATATAAT
*
6779630 ATATAATTAATATTTATAAA-TTTATAA-
1 ATAT-ATT-ATATTTATAAACTATATAAT
6779657 ATAT-TTATTATTTA
1 ATATATTA-TATTTA
6779671 ATAATATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
24 1 0.03
25 8 0.22
27 8 0.22
28 8 0.22
29 11 0.31
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (27 bp):
ATATATTATATTTATAAACTATATAAT
Found at i:6779661 original size:18 final size:18
Alignment explanation
Indices: 6779600--6779681 Score: 66
Period size: 18 Copynumber: 4.6 Consensus size: 18
6779590 TAATATAATG
6779600 TAAATATATTAT-ATTTA
1 TAAATATATTATAATTTA
*
6779617 TAAACTATATTAT-ATATAA
1 TAAA-TATATTATAAT-TTA
*
6779636 TTAATAT-TTATAAATTTA
1 TAAATATATTAT-AATTTA
*
6779654 TAAATAT-TTATTATTTA
1 TAAATATATTATAATTTA
6779671 -ATAATATATTA
1 TA-AATATATTA
6779682 ATTTCTAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
16 1 0.02
17 18 0.33
18 28 0.52
19 7 0.13
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (18 bp):
TAAATATATTATAATTTA
Found at i:6779705 original size:22 final size:23
Alignment explanation
Indices: 6779671--6779716 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
6779661 TTATTATTTA
6779671 ATAATATATTAATTT-CTAAAAT
1 ATAATATATTAATTTACTAAAAT
*
6779693 ATAATA-ATATAATTTATTAAAAT
1 ATAATATAT-TAATTTACTAAAAT
6779716 A
1 A
6779717 ATTATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 12 0.57
23 7 0.33
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
ATAATATATTAATTTACTAAAAT
Found at i:6779735 original size:16 final size:15
Alignment explanation
Indices: 6779694--6779738 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
6779684 TTCTAAAATA
6779694 TAATAATATAATTTAT
1 TAATAATATAA-TTAT
6779710 T-A-AA-ATAATTAT
1 TAATAATATAATTAT
6779722 TAAATAATATAATTAT
1 T-AATAATATAATTAT
6779738 T
1 T
6779739 TAACTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
12 5 0.20
13 4 0.16
14 3 0.12
15 3 0.12
16 10 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATAATATAATTAT
Found at i:6779865 original size:15 final size:15
Alignment explanation
Indices: 6779787--6779865 Score: 58
Period size: 15 Copynumber: 5.3 Consensus size: 15
6779777 AATGTAATTT
*
6779787 ATATAATAATATAT-
1 ATATAATAATTTATA
*
6779801 ATA-AATTATTTAT-
1 ATATAATAATTTATA
* *
6779814 ATATAAATAAATAATA
1 ATAT-AATAATTTATA
*
6779830 ATAATAAT-TTTTATA
1 AT-ATAATAATTTATA
6779845 ATTATAATAATTTATA
1 A-TATAATAATTTATA
6779861 ATATA
1 ATATA
6779866 TTCATTATAT
Statistics
Matches: 50, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
13 11 0.22
14 3 0.06
15 21 0.42
16 13 0.26
17 2 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATATAATAATTTATA
Found at i:6779979 original size:15 final size:14
Alignment explanation
Indices: 6779961--6780002 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
6779951 AATTTAATAT
6779961 TATATTAATTAATTC
1 TATATTAA-TAATTC
6779976 TATATTAATAATT-
1 TATATTAATAATTC
6779989 TGATATATAATAAT
1 T-ATAT-TAATAAT
6780003 ATAATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.04
14 9 0.36
15 15 0.60
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (14 bp):
TATATTAATAATTC
Found at i:6780135 original size:19 final size:19
Alignment explanation
Indices: 6780111--6780160 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 19
6780101 ATATTATAAT
6780111 TAATTAAATAATTAATATA
1 TAATTAAATAATTAATATA
* *
6780130 TAATT--AT-ATTTATTTA
1 TAATTAAATAATTAATATA
6780146 TAATTATAATAATTA
1 TAATTA-AATAATTA
6780161 TAAATTCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 7
0.71 0.09 0.21
Matches are distributed among these distances:
16 12 0.50
17 2 0.08
19 7 0.29
20 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATTAAATAATTAATATA
Found at i:6780274 original size:31 final size:32
Alignment explanation
Indices: 6780218--6780284 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
6780208 ATATAATTAC
*
6780218 TTAATAATATAATTATAATTTACAATTATATA
1 TTAATAATATAATTATAATTAACAATTATATA
6780250 TTAA-AATA-AATTATTAATTAACAATTAT-T-
1 TTAATAATATAATTA-TAATTAACAATTATATA
6780279 TTAATA
1 TTAATA
6780285 TATCAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 4 0.12
30 7 0.22
31 17 0.53
32 4 0.12
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (32 bp):
TTAATAATATAATTATAATTAACAATTATATA
Found at i:6780800 original size:23 final size:23
Alignment explanation
Indices: 6780773--6780829 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
6780763 TGTGATTATG
6780773 AATTACAAT-ATTGATTATATAAT
1 AATTACAATAATTGATTA-ATAAT
* * *
6780796 AATTATAATAATTTATTAATTAT
1 AATTACAATAATTGATTAATAAT
6780819 AATT-CAA-AATT
1 AATTACAATAATT
6780830 ATTTAGTCGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 4 0.14
22 2 0.07
23 16 0.55
24 7 0.24
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (23 bp):
AATTACAATAATTGATTAATAAT
Found at i:6781798 original size:27 final size:31
Alignment explanation
Indices: 6781767--6781829 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 31
6781757 TAATATTTTT
*
6781767 TATTAATATTAAT-AAAT-ATA-ATTATATA
1 TATTAATATTAATCAAATAATATATTAAATA
*
6781795 -ATT-ATATTTATCAAATAATATATTAAATA
1 TATTAATATTAATCAAATAATATATTAAATA
6781824 TATTAA
1 TATTAA
6781830 CAATAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
26 7 0.25
27 7 0.25
28 3 0.11
29 7 0.25
30 3 0.11
31 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (31 bp):
TATTAATATTAATCAAATAATATATTAAATA
Found at i:6782012 original size:22 final size:21
Alignment explanation
Indices: 6781958--6782045 Score: 69
Period size: 22 Copynumber: 4.3 Consensus size: 21
6781948 GGATAAAATT
* *
6781958 ATTATTATTATTATATTATT-
1 ATTAATATTATAATATTATTA
*
6781978 -TTAAAGATTATAATTATTATTA
1 ATT-AATATTATAA-TATTATTA
6782000 ATTAATATTATAATATTTATT-
1 ATTAATATTATAATA-TTATTA
* *
6782021 A-TACT-TTATAATAATATTA
1 ATTAATATTATAATATTATTA
6782040 ATTAAT
1 ATTAAT
6782046 TAATTAACTT
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
18 4 0.07
19 11 0.20
20 13 0.24
21 10 0.19
22 14 0.26
23 2 0.04
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (21 bp):
ATTAATATTATAATATTATTA
Found at i:6782045 original size:4 final size:4
Alignment explanation
Indices: 6782036--6782079 Score: 52
Period size: 4 Copynumber: 10.0 Consensus size: 4
6782026 TTATAATAAT
6782036 ATTA ATTA ATTA ATTA ACTTAA ATTA ATTAA ATATA ATTA ATTA
1 ATTA ATTA ATTA ATTA A-TT-A ATTA ATT-A AT-TA ATTA ATTA
6782080 TTTATTCAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
4 23 0.64
5 10 0.28
6 3 0.08
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (4 bp):
ATTA
Found at i:6782060 original size:14 final size:14
Alignment explanation
Indices: 6782042--6782079 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
6782032 TAATATTAAT
*
6782042 TAATTAATTAACT-
1 TAATTAATTAAATA
6782055 TAAATTAATTAAATA
1 T-AATTAATTAAATA
6782070 TAATTAATTA
1 TAATTAATTA
6782080 TTTATTCAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATTAATTAAATA
Found at i:6782078 original size:18 final size:16
Alignment explanation
Indices: 6782036--6782079 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 16
6782026 TTATAATAAT
6782036 ATTAATTAATTAATTA
1 ATTAATTAATTAATTA
6782052 ACTTAAATTAATTAAATATA
1 A-TT-AATTAATT-AAT-TA
6782072 ATTAATTA
1 ATTAATTA
6782080 TTTATTCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 1 0.04
17 2 0.08
18 13 0.54
19 5 0.21
20 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTAATTAATTAATTA
Found at i:6782134 original size:19 final size:20
Alignment explanation
Indices: 6782112--6782149 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
6782102 TATGATAAAT
6782112 TATAATGAATATT-TATTAA
1 TATAATGAATATTATATTAA
* *
6782131 TATATTTAATATTATATTA
1 TATAATGAATATTATATTA
6782150 TAATTATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TATAATGAATATTATATTAA
Found at i:6782137 original size:12 final size:12
Alignment explanation
Indices: 6782120--6782179 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
6782110 ATTATAATGA
6782120 ATATTTATTAAT
1 ATATTTATTAAT
* *
6782132 ATATTTAATATT
1 ATATTTATTAAT
6782144 ATA-TTA-TAATT
1 ATATTTATTAA-T
*
6782155 ATAATATATTAAT
1 AT-ATTTATTAAT
*
6782168 ATAATTATTAAT
1 ATATTTATTAAT
6782180 CTAAATAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
10 2 0.05
11 6 0.16
12 22 0.58
13 5 0.13
14 3 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATATTTATTAAT
Found at i:6782159 original size:19 final size:19
Alignment explanation
Indices: 6782119--6782175 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
6782109 AATTATAATG
6782119 AATATT-TATTAATATATT-T
1 AATATTATATT-ATA-ATTAT
6782138 AATATTATATTATAATTAT
1 AATATTATATTATAATTAT
*
6782157 AATA-TATTAATATAATTAT
1 AATATTA-TATTATAATTAT
6782176 TAATCTAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
18 5 0.15
19 25 0.74
20 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATATTATATTATAATTAT
Found at i:6782453 original size:24 final size:24
Alignment explanation
Indices: 6782425--6782473 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
6782415 ATGAACTAAG
6782425 ATAATTGTAATAAT-TATTA-TTATA
1 ATAATT-T-ATAATATATTATTTATA
6782449 ATAATTTATAATATATTATTTATA
1 ATAATTTATAATATATTATTTATA
6782473 A
1 A
6782474 CACGTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.22
23 6 0.26
24 12 0.52
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
ATAATTTATAATATATTATTTATA
Found at i:6782580 original size:15 final size:15
Alignment explanation
Indices: 6782545--6782595 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 15
6782535 AAATTAATAT
6782545 AATATAACTATATATTA
1 AATATAA-TATA-ATTA
6782562 AATTATAATATAATT-
1 AA-TATAATATAATTA
*
6782577 AAT-TAATATAATTG
1 AATATAATATAATTA
6782591 AATAT
1 AATAT
6782596 TAAGCTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 10 0.32
14 4 0.13
15 3 0.10
16 3 0.10
17 6 0.19
18 5 0.16
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (15 bp):
AATATAATATAATTA
Found at i:6782585 original size:26 final size:25
Alignment explanation
Indices: 6782527--6782585 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 25
6782517 ATTTACTATT
6782527 TTAATATTAAATTAATATAATATAA
1 TTAATATTAAATTAATATAATATAA
*
6782552 CTATATATTAAATTATAATATAAT-TAA
1 TTA-ATATTAAA-T-TAATATAATATAA
6782579 TTAATAT
1 TTAATAT
6782586 AATTGAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 2 0.07
26 12 0.41
27 6 0.21
28 9 0.31
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TTAATATTAAATTAATATAATATAA
Found at i:6782725 original size:9 final size:9
Alignment explanation
Indices: 6782697--6782752 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
6782687 TATTTATTTC
*
6782697 AAATTATTA
1 AAATAATTA
6782706 AAATAA-T-
1 AAATAATTA
6782713 AAATAATTA
1 AAATAATTA
*
6782722 AAATAAATA
1 AAATAATTA
*
6782731 TAATAATTA
1 AAATAATTA
6782740 TAAATAACTTA
1 -AAATAA-TTA
6782751 AA
1 AA
6782753 TTATATAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
7 6 0.16
8 2 0.05
9 20 0.53
10 7 0.18
11 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
AAATAATTA
Found at i:6784728 original size:25 final size:27
Alignment explanation
Indices: 6784687--6784764 Score: 92
Period size: 25 Copynumber: 3.0 Consensus size: 27
6784677 TGAATAACAA
*
6784687 AATTACTAATATTATAAAAATATT-AT
1 AATTAGTAATATTATAAAAATATTAAT
* *
6784713 AATTA-TTATATTATAATAATATTAAT
1 AATTAGTAATATTATAAAAATATTAAT
*
6784739 TATTAGTAATATTAT--AAATATTAAT
1 AATTAGTAATATTATAAAAATATTAAT
6784764 A
1 A
6784765 TAATAAATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
25 25 0.57
26 11 0.25
27 8 0.18
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (27 bp):
AATTAGTAATATTATAAAAATATTAAT
Found at i:6784748 original size:16 final size:16
Alignment explanation
Indices: 6784707--6784754 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
6784697 ATTATAAAAA
6784707 TATTATAATTATTATAT
1 TATTATAA-TATTATAT
*
6784724 TATAATAATATTA-AT
1 TATTATAATATTATAT
6784739 TATTAGTAATATTATA
1 TATTA-TAATATTATA
6784755 AATATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 6 0.22
16 13 0.48
17 8 0.30
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TATTATAATATTATAT
Found at i:6784760 original size:18 final size:18
Alignment explanation
Indices: 6784704--6784761 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
6784694 AATATTATAA
6784704 AAATATTATAAT--TATT
1 AAATATTATAATAATATT
6784720 --ATATTATAATAATATT
1 AAATATTATAATAATATT
* *
6784736 AATTATTAGTAATATTA-T
1 AAATATTA-TAATAATATT
6784754 AAATATTA
1 AAATATTA
6784762 ATATAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 10 0.29
16 4 0.12
18 13 0.38
19 7 0.21
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AAATATTATAATAATATT
Found at i:6784877 original size:13 final size:14
Alignment explanation
Indices: 6784844--6784891 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 14
6784834 TTATTAAATG
6784844 TTAATAATAAATAA
1 TTAATAATAAATAA
6784858 TCATAATAATAAA-AA
1 T--TAATAATAAATAA
*
6784873 TTAATCAGTAAATAA
1 TTAAT-AATAAATAA
6784888 TTAA
1 TTAA
6784892 ATGTTATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 4 0.14
14 6 0.21
15 9 0.31
16 10 0.34
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (14 bp):
TTAATAATAAATAA
Found at i:6784885 original size:43 final size:44
Alignment explanation
Indices: 6784800--6784885 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 44
6784790 AATTAGTAGT
* * * * * *
6784800 TTAATAATAATATAATAATACTAATTACAATTGATTATTAAATG
1 TTAATAATAATATAATAATAATAATAAAAATTAATCAGTAAATG
*
6784844 TTAATAATAA-ATAATCATAATAATAAAAATTAATCAGTAAAT
1 TTAATAATAATATAATAATAATAATAAAAATTAATCAGTAAAT
6784886 AATTAAATGT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
43 25 0.71
44 10 0.29
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (44 bp):
TTAATAATAATATAATAATAATAATAAAAATTAATCAGTAAATG
Found at i:6785037 original size:16 final size:18
Alignment explanation
Indices: 6784996--6785095 Score: 75
Period size: 19 Copynumber: 5.4 Consensus size: 18
6784986 AATGACAAAC
6784996 AATATTAAATAATTATTT
1 AATATTAAATAATTATTT
6785014 GAACTATTAAAT-ATTATTT
1 -AA-TATTAAATAATTATTT
*
6785033 -ATATTAATTAATTAATTT
1 AATATTAAATAATT-ATTT
*
6785051 AATAATT--ATAAATATTT
1 AAT-ATTAAATAATTATTT
*
6785068 AAATAGTTAAAT-GTTATATT
1 -AATA-TTAAATAATTAT-TT
6785088 AATATTAA
1 AATATTAA
6785096 CAAATTTGTA
Statistics
Matches: 66, Mismatches: 5, Indels: 21
0.72 0.05 0.23
Matches are distributed among these distances:
16 7 0.11
17 9 0.14
18 17 0.26
19 18 0.27
20 15 0.23
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (18 bp):
AATATTAAATAATTATTT
Found at i:6785164 original size:10 final size:9
Alignment explanation
Indices: 6785138--6785167 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
6785128 CTAGAGCATA
6785138 TATTATAAT
1 TATTATAAT
6785147 TATTATAAT
1 TATTATAAT
6785156 TAGTTATAAT
1 TA-TTATAAT
6785166 TA
1 TA
6785168 ATAAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (9 bp):
TATTATAAT
Found at i:6785863 original size:23 final size:23
Alignment explanation
Indices: 6785835--6785878 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
6785825 ATGGATGCAT
*
6785835 ATTAAATAATT-TAATTAATTATA
1 ATTAAAT-ATTATAACTAATTATA
6785858 ATTAAATATTATAACTAATTA
1 ATTAAATATTATAACTAATTA
6785879 ATATACAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
ATTAAATATTATAACTAATTATA
Found at i:6786364 original size:181 final size:179
Alignment explanation
Indices: 6786145--6786704 Score: 655
Period size: 181 Copynumber: 3.1 Consensus size: 179
6786135 AATCTTATAA
* * * * * * *
6786145 TTCAACTATTCATAACTATTTGAATAATTATTTATTTCAAATCATTATGACCTATTGTCTTGTCA
1 TTCAAATAGTCATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCA
* * * *
6786210 TAAAACAATTGTATCAATTCATATAAACTTATTCGAAATAAAATATTACTAATTTATTAATA-TT
66 TAAAACAATTGTTTCTATTCATACAAA-TTATTCAAAATAAAATATTACTAATTTATTAATATTT
* *
6786274 TAAAAATTAATGAGTAAGAGATTTTAAAAAATGAATCCGTTTACTAAACAAG
130 TAAAAATTAAT-AGTAAGAGA-TTTAAAAAATAAATCTGTTTACTAAACAAG
* * *
6786326 TTTAAATAGTGATGACTATTTGAACAATTATCTATTTCAAATCAATATGACCTTTTGTTTTGTCA
1 TTCAAATAGTCATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCA
* * * * *
6786391 TAACACAATCGTTTCTATTCATACAAGTTTATTCAAAATAAAATAATACTACTTTATTAATATTT
66 TAAAACAATTGTTTCTATTCATACAA-ATTATTCAAAATAAAATATTACTAATTTATTAATATTT
** * * **
6786456 TGCAAATTAATAGGTAGGAGATTTAAAAAATAAATTTGTTTACCGAACAAG
130 TAAAAATTAATA-GTAAGAGATTTAAAAAATAAATCTGTTTACTAAACAAG
* * * ** *
6786507 TTCAAATAGTCATGTCCATTAGAACAATTATCTATTTCAAATTGTTATAACCTTTTGTTTTGTCA
1 TTCAAATAGTCATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCA
* * *
6786572 TAAAACAATTGTTTCTGTTCATACAGAATTATTCAAAATAAAATAATT-TTGATTTATTAATATT
66 TAAAACAATTGTTTCTATTCATACA-AATTATTCAAAATAAAAT-ATTACTAATTTATTAATATT
* *
6786636 TTAAAAATT-A-A-TAAGAGATTTAAAAACA-AAATCTATTTACTAAACCAG
129 TTAAAAATTAATAGTAAGAGATTTAAAAA-ATAAATCTGTTTACTAAACAAG
*
6786684 TTCAAATAGTTATGACTATTT
1 TTCAAATAGTCATGACTATTT
6786705 TAATTAATTA
Statistics
Matches: 317, Mismatches: 56, Indels: 16
0.81 0.14 0.04
Matches are distributed among these distances:
177 46 0.15
178 1 0.00
179 1 0.00
180 1 0.00
181 247 0.78
182 21 0.07
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (179 bp):
TTCAAATAGTCATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCA
TAAAACAATTGTTTCTATTCATACAAATTATTCAAAATAAAATATTACTAATTTATTAATATTTT
AAAAATTAATAGTAAGAGATTTAAAAAATAAATCTGTTTACTAAACAAG
Done.