Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168071.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_32, 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: 761692
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.42
Warning! 1000 characters in sequence are not A, C, G, or T
File 15 of 17
Found at i:570919 original size:17 final size:17
Alignment explanation
Indices: 570889--570921 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
570879 ATAATTAATT
570889 AATAATATTAATAAATA
1 AATAATATTAATAAATA
570906 AATAAT-TTATATAAAT
1 AATAATATTA-ATAAAT
570922 TATTTGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATAATATTAATAAATA
Found at i:571258 original size:24 final size:24
Alignment explanation
Indices: 571228--571279 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
571218 AATTATTCAA
571228 ATATTTAATTACTTA-TCAATTATT
1 ATATTTAATTAC-TAGTCAATTATT
*
571252 ATATTTAATTACTAGTCAGTTATT
1 ATATTTAATTACTAGTCAATTATT
571276 ATAT
1 ATAT
571280 AATTATAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.52
Consensus pattern (24 bp):
ATATTTAATTACTAGTCAATTATT
Found at i:571639 original size:19 final size:20
Alignment explanation
Indices: 571617--571657 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
571607 ATAATAGTAA
571617 TATTAGTTAAT-ATAATTAT
1 TATTAGTTAATAATAATTAT
* *
571636 TATTATTTAATAATATTTAT
1 TATTAGTTAATAATAATTAT
571656 TA
1 TA
571658 GATAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TATTAGTTAATAATAATTAT
Found at i:571655 original size:14 final size:13
Alignment explanation
Indices: 571642--571677 Score: 63
Period size: 14 Copynumber: 2.7 Consensus size: 13
571632 TTATTATTAT
571642 TTAATAATATTTA
1 TTAATAATATTTA
571655 TTAGATAATATTTA
1 TTA-ATAATATTTA
571669 TTAATAATA
1 TTAATAATA
571678 ATAATAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
TTAATAATATTTA
Found at i:572545 original size:22 final size:22
Alignment explanation
Indices: 572515--572568 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
572505 ATCGTTATAT
*
572515 TTAACTAATATATATATTAATTA
1 TTAA-TAATATATATAATAATTA
*
572538 TTAGTAATATATATAATAATTA
1 TTAATAATATATATAATAATTA
572560 TTAATAATA
1 TTAATAATA
572569 ATTGAGATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 25 0.89
23 3 0.11
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
TTAATAATATATATAATAATTA
Found at i:573333 original size:3 final size:3
Alignment explanation
Indices: 573325--573353 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
573315 AATTATTTTT
573325 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
573354 TTATTAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:575779 original size:21 final size:22
Alignment explanation
Indices: 575750--575796 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
575740 ATTATTTTAA
575750 AATACTTTAAAGAATTAAAT-T
1 AATACTTTAAAGAATTAAATAT
* * *
575771 AATATTTTACAGAATTATATAT
1 AATACTTTAAAGAATTAAATAT
575793 AATA
1 AATA
575797 AAATTAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (22 bp):
AATACTTTAAAGAATTAAATAT
Found at i:576791 original size:182 final size:180
Alignment explanation
Indices: 575924--576931 Score: 739
Period size: 181 Copynumber: 5.6 Consensus size: 180
575914 ATTTTTTAAA
** * * * ** * *
575924 TCTT-TTAATTTTCAAAATATTAAGAAAAGTAGTATTATTTTATTTTGGATAAACTTTTGTGAAC
1 TCTTATTAATTTTTTAAATATTAA-TAAATTAGTATTATTTTATTCTAAATAAGCTTTTATGAAC
* * * * *
575988 TAAAACAATTGTTTTATGACAAAACAAAA-ATTCACAATGATTTTAAATAGATAATTGTTCAAAT
65 TGAAACAATTGTTTTATGACAAAACAAAAGA-TCATAATGATTTGAAATAGATAATTATTCTAAT
* * *
576052 AGT-TATAACTATTTG-AACTTATTCAGTAAACAAATTTAGTTTTTCAAATATCCT
129 AGTCT-TAACTATTTGAAAC-TGTTCAGTAAACAAATTTA-TTTTTTAAATCT-CT
* * * * * * * *
576106 ACTTATTAATCTTTCAAA-AGTTAATAAATTAGTTTTATTTTCTTTTGAATAAGCTTGTATGAAC
1 TCTTATTAATTTTTTAAATA-TTAATAAATTAGTATTATTTTATTCTAAATAAGCTTTTATGAAC
* * ** * ** *
576170 TGAAATAATTATTTTATGATTAAACAAAAGGTCATAACAATTTGAAATAGATAGTTATTCTAATA
65 TGAAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCTAATA
* * * * *
576235 ATCTTAACTATTTG-AACTGATCGGCAAACACATTTATTTTTTAAATCTCT
130 GTCTTAACTATTTGAAACTGTTCAGTAAACAAATTTATTTTTTAAATCTCT
* * * * *
576285 TACTTATTAATTTTTAAAATATTATTAAATTAGTATTATTTT-TATCGT-AATCAGCTTATAGGA
1 T-CTTATTAATTTTTTAAATATTAATAAATTAGTATTATTTTAT-TC-TAAATAAGCTTTTATGA
*** * * * *
576348 CAAAAAAACAATTGTTTTATGACAAAAC-AAATATCATAATGATTTGAGATTA-ATATTTATTCA
63 -ACTGAAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGA-AATAGATAATTATTCT
* * * * * *
576411 AATAGTCATAACTATTAG-AACTGCTT-TGAAAAACAACTTTAGTTTTTAAATCTCT
126 AATAGTCTTAACTATTTGAAACTG-TTCAG-TAAACAAATTTATTTTTTAAATCTCT
* * * * * *
576466 TGCTTAATAATTTTTGAAATATTAATAACA-TAGTATTATTTTATTTTAGATAAGTTTTTATTAA
1 T-CTTATTAATTTTTTAAATATTAATAA-ATTAGTATTATTTTATTCTAAATAAGCTTTTATGAA
* * * * * * *
576530 CTGAAACAATAGTTTTATGACAAAACAGAATG-TCAAAATAATTTTAAACAGATAATTGTT-TAA
64 CTGAAACAATTGTTTTATGACAAAACA-AAAGATCATAATGATTTGAAATAGATAATTATTCT-A
* * * * *
576593 ATAGTCATATCTATTTGAAATTGTTCAGTAAATAGATTTATTTTTTTTAAATCTCT
127 ATAGTCTTAACTATTTGAAACTGTTCAGTAAACAAATTTA--TTTTTTAAATCTCT
* * * * *
576649 TGTT-TTAATTTTTTGAATGTTAATAAATTAGTATTATTTTATTCCAAATATAGCTTTTATGAAT
1 TCTTATTAATTTTTTAAATATTAATAAATTAGTATTATTTTATTCTAAATA-AGCTTTTATGAAC
* * * *
576713 TGAAATAATTGTTTTATGACTAAACAAAAGGAT-AGAATGATTTGAAATAGATAATTATTCTGAT
65 TGAAACAATTGTTTTATGACAAAACAAAA-GATCATAATGATTTGAAATAGATAATTATTCTAAT
** * *
576777 AGTCTTAACTATTTG-AACTAGTTTGGCT-AACATATTTATTTCTTAAA--TC-
129 AGTCTTAACTATTTGAAACT-GTTCAG-TAAACAAATTTATTTTTTAAATCTCT
* * * * * ** * **
576826 TCTTAGTAATTTTTGAAATATTATTAAATTAGTATCATTTTAATCCGAATAAGCTTGTATGAAAG
1 TCTTATTAATTTTTTAAATATTAATAAATTAGTATTATTTTATTCTAAATAAGCTTTTATGAACT
* * *
576891 GAAACAATTGTTGTATGACAAAA-TAAAGATCATTATGATTT
66 GAAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTT
576932 CATTGTAATT
Statistics
Matches: 648, Mismatches: 146, Indels: 70
0.75 0.17 0.08
Matches are distributed among these distances:
175 3 0.00
176 11 0.02
177 34 0.05
178 40 0.06
179 3 0.00
180 137 0.21
181 194 0.30
182 194 0.30
183 32 0.05
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (180 bp):
TCTTATTAATTTTTTAAATATTAATAAATTAGTATTATTTTATTCTAAATAAGCTTTTATGAACT
GAAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTGAAATAGATAATTATTCTAATAG
TCTTAACTATTTGAAACTGTTCAGTAAACAAATTTATTTTTTAAATCTCT
Found at i:577369 original size:14 final size:14
Alignment explanation
Indices: 577337--577366 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
577327 ATCTTACATA
577337 TAATATAGTTTAAT
1 TAATATAGTTTAAT
577351 TAATATA-TTTAAT
1 TAATATAGTTTAAT
577364 TAA
1 TAA
577367 ATAAATAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
TAATATAGTTTAAT
Found at i:577770 original size:21 final size:20
Alignment explanation
Indices: 577746--577791 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
577736 AATAACTATC
*
577746 ATAATTAGTATTATTAAATTA
1 ATAATAAGTATTATTAAA-TA
* *
577767 ATAATAATTATTTTTAAATA
1 ATAATAAGTATTATTAAATA
577787 ATAAT
1 ATAAT
577792 CAATAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
ATAATAAGTATTATTAAATA
Found at i:577833 original size:15 final size:17
Alignment explanation
Indices: 577795--577833 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
577785 TAATAATCAA
577795 TAAAATATTCAATAATT
1 TAAAATATTCAATAATT
*
577812 GAAAATATT-AAT-ATT
1 TAAAATATTCAATAATT
577827 TAAAATA
1 TAAAATA
577834 CTATAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 9 0.45
16 3 0.15
17 8 0.40
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
TAAAATATTCAATAATT
Found at i:578032 original size:25 final size:23
Alignment explanation
Indices: 577988--578033 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
577978 ATTAAGTAAG
577988 ATAAATTTAATCTAATAATATTT
1 ATAAATTTAATCTAATAATATTT
*
578011 ATAAATTATAATTTAAATAATAT
1 ATAAATT-TAATCT-AATAATAT
578034 ACTTATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 5 0.25
25 8 0.40
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
ATAAATTTAATCTAATAATATTT
Found at i:578326 original size:23 final size:21
Alignment explanation
Indices: 578300--578367 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 21
578290 TTCATATAAC
578300 TTAATTAGTATAGTAATTATATA
1 TTAATT-GTATA-TAATTATATA
*
578323 TTAAATTGTATTAATAATTGT-TA
1 TT-AATTGTA-T-ATAATTATATA
578346 TTAATTG-ATATAATTATA-A
1 TTAATTGTATATAATTATATA
578365 TTA
1 TTA
578368 TAGTAATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
19 11 0.28
20 1 0.03
21 1 0.03
22 5 0.13
23 9 0.23
24 11 0.28
25 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (21 bp):
TTAATTGTATATAATTATATA
Found at i:578709 original size:21 final size:22
Alignment explanation
Indices: 578685--578734 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
578675 TTCATTGACG
578685 ATTTAATTAATAAT-TTTAT-TA
1 ATTTAA-TAATAATATTTATATA
*
578706 ATTTAATAATTATATTTATATA
1 ATTTAATAATAATATTTATATA
578728 A-TTAATA
1 ATTTAATA
578735 TTATAATAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 6 0.23
21 17 0.65
22 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTTAATAATAATATTTATATA
Found at i:578728 original size:14 final size:13
Alignment explanation
Indices: 578702--578743 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 13
578692 TAATAATTTT
578702 ATTA-ATTTAATA
1 ATTATATTTAATA
578714 ATTATATTTATATA
1 ATTATATTTA-ATA
578728 ATTAATATTATAATA
1 ATT-ATATT-TAATA
578743 A
1 A
578744 GAATAACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.15
13 5 0.19
14 6 0.23
15 9 0.35
16 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTATATTTAATA
Found at i:578729 original size:17 final size:17
Alignment explanation
Indices: 578687--578729 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
578677 CATTGACGAT
*
578687 TTAAT-TAATAATTTTA
1 TTAATATAATAATTATA
*
578703 TTAATTTAATAATTATA
1 TTAATATAATAATTATA
*
578720 TTTATATAAT
1 TTAATATAAT
578730 TAATATTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAATATAATAATTATA
Found at i:578861 original size:15 final size:16
Alignment explanation
Indices: 578823--578863 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
578813 ATTATTAAAA
578823 ATAATTAATAATTATT
1 ATAATTAATAATTATT
*
578839 ATATTTAATAA-TATT
1 ATAATTAATAATTATT
*
578854 GTAATTAATA
1 ATAATTAATA
578864 TAATCATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATAATTAATAATTATT
Found at i:579660 original size:38 final size:39
Alignment explanation
Indices: 579590--579663 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 39
579580 TATTTTCTAA
* * **
579590 ATATTAATAAAACAATATTATTTTATTTCAAACAAACTT
1 ATATTAACAAAACAAAATTATTTTATGACAAACAAACTT
*
579629 ATATTAACAAAA-AAAATTGTTTTATGACAAACAAA
1 ATATTAACAAAACAAAATTATTTTATGACAAACAAA
579664 TCTTTAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
38 19 0.63
39 11 0.37
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.35
Consensus pattern (39 bp):
ATATTAACAAAACAAAATTATTTTATGACAAACAAACTT
Found at i:579759 original size:21 final size:21
Alignment explanation
Indices: 579718--579759 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
579708 AATTATTATC
*
579718 TTTAATTAAAATATAATAAAT
1 TTTAATTAAAATATAAAAAAT
*
579739 TTTAATTTATAAT-TAAAAAAT
1 TTTAA-TTAAAATATAAAAAAT
579760 AAAATTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTAATTAAAATATAAAAAAT
Found at i:581363 original size:4 final size:4
Alignment explanation
Indices: 581349--581413 Score: 53
Period size: 4 Copynumber: 15.8 Consensus size: 4
581339 AATTTTTTTG
* *
581349 ATTA TTTA ATTA ATTA TATATCA ATT- ATTA ATTA ATAA ATTA A-TA ATTA
1 ATTA ATTA ATTA ATTA -AT-T-A ATTA ATTA ATTA ATTA ATTA ATTA ATTA
*
581398 ATTA TGTTA ATTA ATT
1 ATTA -ATTA ATTA ATT
581414 TAGTTATATT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
3 6 0.12
4 33 0.67
5 6 0.12
6 3 0.06
7 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (4 bp):
ATTA
Found at i:581383 original size:26 final size:27
Alignment explanation
Indices: 581349--581422 Score: 71
Period size: 26 Copynumber: 2.7 Consensus size: 27
581339 AATTTTTTTG
*
581349 ATTATTTAATTAATTATAT-ATCAATT
1 ATTAATTAATTAATTATATAATCAATT
* *
581375 ATTAATTAATAAATTA-ATAATTAATT
1 ATTAATTAATTAATTATATAATCAATT
*
581401 ATGTTAATTAATTTAGTTATAT
1 A--TTAATTAA-TTAATTATAT
581423 TAATATTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 2 0.05
26 21 0.55
28 8 0.21
29 5 0.13
30 2 0.05
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (27 bp):
ATTAATTAATTAATTATATAATCAATT
Found at i:581389 original size:15 final size:16
Alignment explanation
Indices: 581357--581399 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
581347 TGATTATTTA
581357 ATTAATTATATATCAATT
1 ATTAATTA-ATA-CAATT
581375 ATTAATTAATA-AATT
1 ATTAATTAATACAATT
*
581390 AATAATTAAT
1 ATTAATTAAT
581400 TATGTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 13 0.54
17 3 0.12
18 8 0.33
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTAATTAATACAATT
Found at i:581739 original size:25 final size:25
Alignment explanation
Indices: 581709--581762 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
581699 ATTGTTCAAA
581709 TATATAATATTATAATATAAA-T-AAT
1 TATATAA-ATTATAAT-TAAATTAAAT
581734 TATATAAATTATAATTAAATTAAAT
1 TATATAAATTATAATTAAATTAAAT
581759 TATA
1 TATA
581763 ATTAGTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 4 0.15
24 9 0.33
25 14 0.52
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
TATATAAATTATAATTAAATTAAAT
Found at i:581759 original size:16 final size:15
Alignment explanation
Indices: 581729--581766 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
581719 TATAATATAA
*
581729 ATAATTATATAAATT
1 ATAATTAAATAAATT
581744 ATAATTAAATTAAATT
1 ATAATTAAA-TAAATT
581760 ATAATTA
1 ATAATTA
581767 GTTTAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATAAATT
Found at i:581772 original size:16 final size:15
Alignment explanation
Indices: 581729--581773 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
581719 TATAATATAA
*
581729 ATAATTATATAAATT
1 ATAATTATTTAAATT
*
581744 ATAATTAAATTAAATT
1 ATAATT-ATTTAAATT
581760 ATAATTAGTTTAAA
1 ATAATTA-TTTAAA
581774 AATTGTCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
ATAATTATTTAAATT
Found at i:581845 original size:42 final size:43
Alignment explanation
Indices: 581819--582019 Score: 186
Period size: 42 Copynumber: 5.0 Consensus size: 43
581809 ATTTAATTTA
581819 AATAATTTT-AAAAATAATA-TTTAATA-TAAATATAATATAT
1 AATAATTTTAAAAAATAATATTTTAATATTAAATATAATATAT
*
581859 AATAATTTTAAAAAATAGTATTTTAATA-TAAATATAATATAT
1 AATAATTTTAAAAAATAATATTTTAATATTAAATATAATATAT
* * * *
581901 -A-AA---TATAATATAATATTTATAA-A-TATATATAATATCT
1 AATAATTTTAAAAAATAATATTT-TAATATTAAATATAATATAT
* * *
581938 AATTTATTTT----AAT-ATA-TATAATTTTAAATATAATATAT
1 AA-TAATTTTAAAAAATAATATTTTAATATTAAATATAATATAT
581976 AATAATTTTAAAAAATAATATTTTAATA-TAAATATAATATAT
1 AATAATTTTAAAAAATAATATTTTAATATTAAATATAATATAT
582018 AA
1 AA
582020 ATATAATATA
Statistics
Matches: 129, Mismatches: 15, Indels: 32
0.73 0.09 0.18
Matches are distributed among these distances:
36 3 0.02
37 32 0.25
38 21 0.16
39 2 0.02
40 12 0.09
41 13 0.10
42 40 0.31
43 6 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.44
Consensus pattern (43 bp):
AATAATTTTAAAAAATAATATTTTAATATTAAATATAATATAT
Found at i:581909 original size:24 final size:24
Alignment explanation
Indices: 581882--582030 Score: 91
Period size: 26 Copynumber: 6.3 Consensus size: 24
581872 AATAGTATTT
581882 TAATATAAATATAATATATAAATA
1 TAATATAAATATAATATATAAATA
581906 TAATAT-AATAT--T-TATAAATA
1 TAATATAAATATAATATATAAATA
* * *
581926 T-ATATAATATCTAATTTATTTTAATA
1 TAATATAA-ATATAA--TATATAAATA
* *
581952 T-ATATAATTTTAA-ATAT-AATA
1 TAATATAAATATAATATATAAATA
* * * * *
581973 T-ATAATAATTTTAAAAAATAATATTT
1 TAAT-ATAAATATAATATATAA-A-TA
581999 TAATATAAATATAATATATAAATA
1 TAATATAAATATAATATATAAATA
582023 TAATATAA
1 TAATATAA
582031 TTTTTTTAAA
Statistics
Matches: 99, Mismatches: 13, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
19 4 0.04
20 10 0.10
21 11 0.11
22 13 0.13
23 8 0.08
24 16 0.16
25 7 0.07
26 28 0.28
27 2 0.02
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (24 bp):
TAATATAAATATAATATATAAATA
Found at i:582022 original size:8 final size:7
Alignment explanation
Indices: 581884--582029 Score: 76
Period size: 7 Copynumber: 21.4 Consensus size: 7
581874 TAGTATTTTA
581884 ATATAA-
1 ATATAAT
581890 ATATAAT
1 ATATAAT
581897 ATATAA-
1 ATATAAT
581903 ATATAAT
1 ATATAAT
*
581910 ATAATATTT
1 AT-ATA-AT
*
581919 ATAAATAT
1 ATATA-AT
581927 ATATAAT
1 ATATAAT
*
581934 ATCTAAT
1 ATATAAT
* **
581941 TTATTTT
1 ATATAAT
581948 A-AT-AT
1 ATATAAT
581953 ATATAAT
1 ATATAAT
*
581960 -TTTAA-
1 ATATAAT
581965 ATATAAT
1 ATATAAT
581972 ATATAAT
1 ATATAAT
* *
581979 AATTTTAAA
1 -A-TATAAT
*
581988 AAATAAT
1 ATATAAT
* *
581995 ATTTTA-
1 ATATAAT
582001 ATATAA-
1 ATATAAT
582007 ATATAAT
1 ATATAAT
582014 ATATAA-
1 ATATAAT
582020 ATATAAT
1 ATATAAT
582027 ATA
1 ATA
582030 ATTTTTTTAA
Statistics
Matches: 105, Mismatches: 23, Indels: 23
0.70 0.15 0.15
Matches are distributed among these distances:
5 2 0.02
6 40 0.38
7 43 0.41
8 13 0.12
9 7 0.07
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.45
Consensus pattern (7 bp):
ATATAAT
Found at i:582481 original size:179 final size:179
Alignment explanation
Indices: 582030--582566 Score: 577
Period size: 182 Copynumber: 3.0 Consensus size: 179
582020 ATATAATATA
* * * * * *
582030 ATTTTTTTAAAAT-TTATACTTATTAATTTTTGGAACATTAATAAATTTATATTATTTTATTTGA
1 ATTTTTTTTAAATCTTTTATTTATTAA-TTTTGGAATATTAATAAATTAATATTATTTTATTTCA
* * * * * * *
582094 AATAAGCTTGAATGAAAAGAACCAATTGTTTTATGATAAAACAAAAGGCTATAATGTTTTGAAAT
65 AATAAGCTAGAATGAATAGAAACAATTGTTTTATGACAAAACAAAAAGTTATAATGATTTGAAAT
582159 AGATAATTA-TTAAGATAGTCATAACTATTTGAACTTGTTCGATAAACAAATT
130 AGATAATTATTTAA-ATAGTCATAACTATTTGAACTTGTTCGATAAAC--ATT
* * *
582211 -TATTTTTTTAATTCTCTTACTTT-TTAAATTTTGGAATATTAATAAATTAGTATTATTTTATTT
1 AT-TTTTTTTAAATCTTTTA-TTTATT-AATTTTGGAATATTAATAAATTAATATTATTTTATTT
* * * * *
582274 CAAATAAGCTA-ACATGAATTGAAACAATTATTTTATTACAAAACAAAATGTTACAATGATTTGA
63 CAAATAAGCTAGA-ATGAATAGAAACAATTGTTTTATGACAAAACAAAAAGTTATAATGATTTGA
* * *
582338 AATAGATAATTATTTAAATAGTCATGACTATTTGAACTTGTTTGGTAAAC-TT
127 AATAGATAATTATTTAAATAGTCATAACTATTTGAACTTGTTCGATAAACATT
* *
582390 ATTTTTTTTAAATCTTTTATTTATTAATTGTTGAAATATTAATAAATTAATATTATTTTA-ATCT
1 ATTTTTTTTAAATCTTTTATTTATTAATT-TTGGAATATTAATAAATTAATATTATTTTATTTC-
* * * * * *
582454 AAATAAGCTCGTATGGATGGAAACAATTGTTTTATGACTAAACAAAAAAGTCATAA-GACTTTGA
64 AAATAAGCTAGAATGAATAGAAACAATTGTTTTATGACAAAAC-AAAAAGTTATAATGA-TTTGA
* * * * *
582518 AATAAATAATTATTTAGATAGTCATAACGATTTAAATTTGTTCGATAAA
127 AATAGATAATTATTTAAATAGTCATAACTATTTGAACTTGTTCGATAAA
582567 TAGATTTATT
Statistics
Matches: 297, Mismatches: 46, Indels: 27
0.80 0.12 0.07
Matches are distributed among these distances:
178 9 0.03
179 84 0.28
180 57 0.19
181 10 0.03
182 129 0.43
183 8 0.03
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (179 bp):
ATTTTTTTTAAATCTTTTATTTATTAATTTTGGAATATTAATAAATTAATATTATTTTATTTCAA
ATAAGCTAGAATGAATAGAAACAATTGTTTTATGACAAAACAAAAAGTTATAATGATTTGAAATA
GATAATTATTTAAATAGTCATAACTATTTGAACTTGTTCGATAAACATT
Found at i:583148 original size:33 final size:35
Alignment explanation
Indices: 583111--583193 Score: 95
Period size: 33 Copynumber: 2.5 Consensus size: 35
583101 TTTAATTTAC
*
583111 ATATTATTATAATTA-ATTTA-ACTAAT-AA-ATTAG
1 ATATTATTATAATTATATTTATA--AATGAAGATTAA
*
583144 ATATTATTAT-ACTATATTTATAAATGAAGATTAA
1 ATATTATTATAATTATATTTATAAATGAAGATTAA
583178 ATATTATTATAATTAT
1 ATATTATTATAATTAT
583194 TGTAATATTG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
32 6 0.14
33 17 0.40
34 15 0.36
35 4 0.10
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (35 bp):
ATATTATTATAATTATATTTATAAATGAAGATTAA
Found at i:583571 original size:32 final size:32
Alignment explanation
Indices: 583532--583596 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
583522 AAATATTTGT
* *
583532 TAATTTATATTAATTATAA-AT-TTAATATTAA
1 TAATTT-TATGAATTATAATATATTAATATAAA
583563 TAATTTTATGAATTATAATATATTAATATAAA
1 TAATTTTATGAATTATAATATATTAATATAAA
583595 TA
1 TA
583597 TATTATAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 11 0.37
31 8 0.27
32 11 0.37
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (32 bp):
TAATTTTATGAATTATAATATATTAATATAAA
Found at i:584220 original size:14 final size:15
Alignment explanation
Indices: 584201--584229 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
584191 TTACTTAAAT
584201 CAATTATT-TATTAA
1 CAATTATTATATTAA
584215 CAATTATTATATTAA
1 CAATTATTATATTAA
584230 AAAATAAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (15 bp):
CAATTATTATATTAA
Found at i:584285 original size:14 final size:14
Alignment explanation
Indices: 584263--584316 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
584253 AGATTTAATC
*
584263 ATTATTATCTATTA
1 ATTAATATCTATTA
584277 ATTAATATCTATTA
1 ATTAATATCTATTA
584291 ATTAAGTAT-T-TTA
1 ATTAA-TATCTATTA
*
584304 CTTAATATACTAT
1 ATTAATAT-CTAT
584317 AATAATTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
12 3 0.09
13 7 0.21
14 20 0.59
15 4 0.12
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (14 bp):
ATTAATATCTATTA
Found at i:584594 original size:16 final size:18
Alignment explanation
Indices: 584575--584619 Score: 60
Period size: 16 Copynumber: 2.7 Consensus size: 18
584565 ATATATAAGT
584575 TTATTAATATA-AAT-AA
1 TTATTAATATATAATAAA
*
584591 TTATTAAT-TATGATAAA
1 TTATTAATATATAATAAA
584608 TTATTAATATAT
1 TTATTAATATAT
584620 TAATTGAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 10 0.40
17 10 0.40
18 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
TTATTAATATATAATAAA
Found at i:584658 original size:28 final size:31
Alignment explanation
Indices: 584603--584674 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 31
584593 ATTAATTATG
*
584603 ATAAATTATTAATATATTAATTGAATAC-A-T
1 ATAAA-TATTATTATATTAATTGAATACAATT
*
584633 AT-AATATTATTA-ATTAATTTGTATACAATT
1 ATAAATATTATTATATTAA-TTGAATACAATT
584663 ATAAATATTATT
1 ATAAATATTATT
584675 GCAATATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
27 5 0.14
28 14 0.39
29 3 0.08
30 5 0.14
31 9 0.25
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (31 bp):
ATAAATATTATTATATTAATTGAATACAATT
Found at i:584910 original size:24 final size:25
Alignment explanation
Indices: 584870--584920 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
584860 TAACAATTAA
*
584870 TAATTTAACTTATTATAAATTATAT
1 TAATATAACTTATTATAAATTATAT
* *
584895 TAATATAA-TTATTATATATTTTAT
1 TAATATAACTTATTATAAATTATAT
584919 TA
1 TA
584921 TTGTTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
TAATATAACTTATTATAAATTATAT
Found at i:585060 original size:23 final size:22
Alignment explanation
Indices: 585034--585107 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 22
585024 ATATAGTATC
*
585034 AATATATTATTATTAATTAAATA
1 AATA-ATTATAATTAATTAAATA
585057 AATAA-TATAATTATATATAAATA
1 AATAATTATAATTA-AT-TAAATA
* *
585080 AATAATTATAATATATTTAGATA
1 AATAATTATAAT-TAATTAAATA
585103 AATAA
1 AATAA
585108 CAATATATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
21 7 0.16
22 3 0.07
23 25 0.57
24 7 0.16
25 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (22 bp):
AATAATTATAATTAATTAAATA
Found at i:585078 original size:19 final size:19
Alignment explanation
Indices: 585054--585094 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
585044 TATTAATTAA
585054 ATAAATAATATAATTAT-AT
1 ATAAATAA-ATAATTATAAT
585073 ATAAATAAATAATTATAAT
1 ATAAATAAATAATTATAAT
585092 ATA
1 ATA
585095 TTTAGATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATAAATAAATAATTATAAT
Found at i:585081 original size:27 final size:27
Alignment explanation
Indices: 585034--585121 Score: 85
Period size: 27 Copynumber: 3.3 Consensus size: 27
585024 ATATAGTATC
*
585034 AATATATTAT-TATTAATTAAATAA-AT
1 AATATATTATATA-TAAATAAATAATAT
585060 AATATAATTATATATAAATAAATAATTAT
1 AATAT-ATTATATATAAATAAATAA-TAT
* *
585089 AATATATT-TAGATAAAT-AACAATAT
1 AATATATTATATATAAATAAATAATAT
*
585114 ATTATATT
1 AATATATT
585122 TAAGTAGAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
25 10 0.19
26 9 0.17
27 23 0.43
28 5 0.09
29 7 0.13
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (27 bp):
AATATATTATATATAAATAAATAATAT
Found at i:585492 original size:25 final size:26
Alignment explanation
Indices: 585443--585516 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 26
585433 TATATATTAT
* * *
585443 ATTAAATAAGTAATATATTATTACTATT
1 ATTATATAA-TAATAT-TTAATACTATA
*
585471 TTTAT-TAATAATATTTAATACTATA
1 ATTATATAATAATATTTAATACTATA
585496 ATTATATAA-AATATTTGAATA
1 ATTATATAATAATATTT-AATA
585517 AATTCATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 20 0.51
26 13 0.33
27 3 0.08
28 3 0.08
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (26 bp):
ATTATATAATAATATTTAATACTATA
Found at i:586271 original size:16 final size:16
Alignment explanation
Indices: 586230--586272 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
586220 TTTATATTTA
*
586230 ATTAATAAT-TAAATT
1 ATTAATAATATTAATT
586245 ATT-ATAGATATTAATT
1 ATTAATA-ATATTAATT
586261 ATTAATAATATT
1 ATTAATAATATT
586273 TTATTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 3 0.12
15 5 0.21
16 13 0.54
17 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATTAATAATATTAATT
Found at i:586791 original size:34 final size:36
Alignment explanation
Indices: 586738--586805 Score: 104
Period size: 34 Copynumber: 1.9 Consensus size: 36
586728 TATTAATCGA
586738 AATAAGTTATTTAATATTAATATTAAATTTATTATT
1 AATAAGTTATTTAATATTAATATTAAATTTATTATT
* *
586774 AATAA-TTA-TTAATATTAATTTTAATTTTATTA
1 AATAAGTTATTTAATATTAATATTAAATTTATTA
586806 ACAAAAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 22 0.73
35 3 0.10
36 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (36 bp):
AATAAGTTATTTAATATTAATATTAAATTTATTATT
Found at i:586850 original size:24 final size:25
Alignment explanation
Indices: 586823--586880 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 25
586813 CAATTGTCTT
586823 AAATAATAATAATATTAT-TATAAA
1 AAATAATAATAATATTATATATAAA
* *
586847 AAATAATAATATTATTATATATAAT
1 AAATAATAATAATATTATATATAAA
586872 AAATAATAA
1 AAATAATAA
586881 CTATATAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 17 0.55
25 14 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AAATAATAATAATATTATATATAAA
Found at i:586851 original size:21 final size:21
Alignment explanation
Indices: 586822--586879 Score: 89
Period size: 21 Copynumber: 2.7 Consensus size: 21
586812 ACAATTGTCT
586822 TAAATAATAATAATATTATTA
1 TAAATAATAATAATATTATTA
*
586843 TAAAAAATAATAATATTATTA
1 TAAATAATAATAATATTATTA
*
586864 TATATAATAAATAATA
1 TAAATAAT-AATAATA
586880 ACTATATAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 26 0.79
22 7 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATAATAATAATATTATTA
Found at i:586978 original size:15 final size:15
Alignment explanation
Indices: 586958--586987 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
586948 TTATAGTTAC
*
586958 ATTAATTTAATTAAA
1 ATTAATTAAATTAAA
586973 ATTAATTAAATTAAA
1 ATTAATTAAATTAAA
586988 TGTATTGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTAATTAAATTAAA
Found at i:587108 original size:21 final size:21
Alignment explanation
Indices: 587079--587118 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
587069 CATGTTAATA
*
587079 TTATTATAATTTAA-TATATGT
1 TTATAATAA-TTAACTATATGT
587100 TTATAATAATTAACTATAT
1 TTATAATAATTAACTATAT
587119 TTATTAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (21 bp):
TTATAATAATTAACTATATGT
Found at i:587177 original size:16 final size:15
Alignment explanation
Indices: 587129--587178 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
587119 TTATTAAATC
*
587129 TTATAATATATTAAA
1 TTATAATATATTTAA
587144 TTAT-ATAT-TCATTAA
1 TTATAATATAT--TTAA
587159 TTATAATATATTTATA
1 TTATAATATATTTA-A
587175 TTAT
1 TTAT
587179 TAATTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
13 1 0.03
14 4 0.14
15 14 0.48
16 9 0.31
17 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATAATATATTTAA
Found at i:587432 original size:34 final size:29
Alignment explanation
Indices: 587362--587437 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 29
587352 TATGAAAGCT
587362 TATAAT-ATTTATAACAATATTATATATA
1 TATAATAATTTATAACAATATTATATATA
*
587390 TAT-ATAATTTATAACTATATTAATGATCATA
1 TATAATAATTTATAACAATATT-AT-AT-ATA
587421 TTAGTAATAATTTATAA
1 -TA-TAATAATTTATAA
587438 TTTATTATTC
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
27 2 0.05
28 17 0.43
29 2 0.05
30 2 0.05
31 3 0.08
32 2 0.05
33 1 0.03
34 11 0.28
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (29 bp):
TATAATAATTTATAACAATATTATATATA
Found at i:587522 original size:31 final size:32
Alignment explanation
Indices: 587501--587565 Score: 62
Period size: 31 Copynumber: 2.1 Consensus size: 32
587491 ATTTAAAAAT
* **
587501 AATAA-TAATAATATTATTATTATTTAATTAT
1 AATAATTAATAATATTAATATTATTTAAAAAT
* * *
587532 TATAATTAATAATACTAAT-TTAATTAAAAAT
1 AATAATTAATAATATTAATATTATTTAAAAAT
587563 AAT
1 AAT
587566 TTTAATTATT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (32 bp):
AATAATTAATAATATTAATATTATTTAAAAAT
Found at i:588428 original size:18 final size:18
Alignment explanation
Indices: 588383--588432 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
588373 TATTCAGAAA
*
588383 TTTTTCTTTTTA-TTTAT
1 TTTTTCTCTTTATTTTAT
*
588400 TTATTT-ACTTTATTTTAT
1 TT-TTTCTCTTTATTTTAT
588418 TTTTTCTCTTT-TTTT
1 TTTTTCTCTTTATTTT
588433 GTTTGAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTCTCTTTATTTTAT
Found at i:589947 original size:21 final size:21
Alignment explanation
Indices: 589911--590038 Score: 105
Period size: 21 Copynumber: 5.9 Consensus size: 21
589901 AGATTCACAT
* *
589911 TCAAAAATTATCATTTGAAAC
1 TCAAAGATTCTCATTTGAAAC
*
589932 TTAAAGATTCTCATTTGAAGAC
1 TCAAAGATTCTCATTTGAA-AC
589954 TCAAAGATTCTCATTTGAGAATTTC
1 TCAAAGATTCTCATTTGA-AA---C
* * *
589979 TTAAATATTCTTATTT-AAGAC
1 TCAAAGATTCTCATTTGAA-AC
* ** *
590000 TCAGAGATTCTTTTTTAAAAC
1 TCAAAGATTCTCATTTGAAAC
590021 TCAAAGATTCTCATTTGA
1 TCAAAGATTCTCATTTGA
590039 GGATTTCTTA
Statistics
Matches: 85, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
21 45 0.53
22 22 0.26
23 2 0.02
24 2 0.02
25 14 0.16
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAC
Found at i:590059 original size:25 final size:25
Alignment explanation
Indices: 590023--590074 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
590013 TTTAAAACTC
* *
590023 AAAGATTCTCATTTGAGGATTTCTT
1 AAAGATTCTCATTTGAAGATTTATT
*
590048 AAAGATTTTCATTTGAAGATTTATT
1 AAAGATTCTCATTTGAAGATTTATT
590073 AA
1 AA
590075 TTATATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.44
Consensus pattern (25 bp):
AAAGATTCTCATTTGAAGATTTATT
Found at i:591313 original size:15 final size:16
Alignment explanation
Indices: 591286--591329 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
591276 ATGTTTAGTT
* *
591286 ATAATTAATAATATTA
1 ATAATTTATAATAATA
*
591302 TTAATTTA-AATAATA
1 ATAATTTATAATAATA
591317 ATAATTTATAATA
1 ATAATTTATAATA
591330 CATGTAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAATTTATAATAATA
Found at i:591361 original size:9 final size:10
Alignment explanation
Indices: 591347--591379 Score: 52
Period size: 9 Copynumber: 3.5 Consensus size: 10
591337 TAACCTAAAG
591347 TTATAATTA-
1 TTATAATTAT
591356 TTATAATTAT
1 TTATAATTAT
591366 TTATAA-TAT
1 TTATAATTAT
591375 TTATA
1 TTATA
591380 TATAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTATAATTAT
Found at i:591545 original size:23 final size:22
Alignment explanation
Indices: 591506--591551 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
591496 TGATATGATT
591506 AATATATTAAAGCATATAATATA
1 AATATATTAAAGCATATAA-ATA
*
591529 AATATAATTAAA-TATATAAATA
1 AATAT-ATTAAAGCATATAAATA
591551 A
1 A
591552 TAGATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 11 0.52
24 6 0.29
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATATTAAAGCATATAAATA
Found at i:591827 original size:36 final size:35
Alignment explanation
Indices: 591763--591845 Score: 89
Period size: 36 Copynumber: 2.3 Consensus size: 35
591753 ATAATATTAA
*
591763 TAATTTATT-TAATATAATAATTATAATATACTAGT
1 TAATTT-TTATAATATAATAATTATAATATACTAAT
* *
591798 TAAATTTTTATAATATAATTA-TATGAATATATTAAT
1 T-AATTTTTATAATATAATAATTAT-AATATACTAAT
*
591834 TAATTATTATAA
1 TAATTTTTATAA
591846 ATTTAGATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
35 16 0.39
36 25 0.61
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (35 bp):
TAATTTTTATAATATAATAATTATAATATACTAAT
Found at i:591894 original size:18 final size:18
Alignment explanation
Indices: 591873--591917 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
591863 TCAATTAATA
591873 ATATATAAAATTTTAAGT
1 ATATATAAAATTTTAAGT
*
591891 ATATTAATAAAGTTTTAAGT
1 ATA-T-ATAAAATTTTAAGT
591911 ATATATA
1 ATATATA
591918 CATAACCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 6 0.25
19 2 0.08
20 16 0.67
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (18 bp):
ATATATAAAATTTTAAGT
Found at i:591922 original size:22 final size:20
Alignment explanation
Indices: 591877--591914 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
591867 TTAATAATAT
591877 ATAAAATTTTAAGTATATTA
1 ATAAAATTTTAAGTATATTA
*
591897 ATAAAGTTTTAAGTATAT
1 ATAAAATTTTAAGTATAT
591915 ATACATAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (20 bp):
ATAAAATTTTAAGTATATTA
Found at i:592078 original size:24 final size:23
Alignment explanation
Indices: 592029--592091 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 23
592019 TATAATTATG
*
592029 TATATTAATAAATATTTAAATAA
1 TATATTAATAAATAGTTAAATAA
*
592052 TATACTTAAT-AATAGTTAATATTA
1 TATA-TTAATAAATAGTTAA-ATAA
592076 TATATATAATTAAATA
1 TATAT-TAA-TAAATA
592092 AACATAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
23 13 0.39
24 15 0.45
25 1 0.03
26 4 0.12
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TATATTAATAAATAGTTAAATAA
Found at i:592953 original size:18 final size:19
Alignment explanation
Indices: 592920--592975 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
592910 ATTAATAGTC
*
592920 AAATATTAACATTATTTATTA
1 AAATA-TAA-ATTATTAATTA
592941 AAA-ATAAATTATTAATTA
1 AAATATAAATTATTAATTA
*
592959 AAATATTAATTATTAAT
1 AAATATAAATTATTAAT
592976 AATTCAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 13 0.41
19 15 0.47
20 1 0.03
21 3 0.09
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATATAAATTATTAATTA
Found at i:592971 original size:19 final size:19
Alignment explanation
Indices: 592920--592975 Score: 69
Period size: 18 Copynumber: 2.9 Consensus size: 19
592910 ATTAATAGTC
*
592920 AAATATTAACATTATTTATTA
1 AAATATT-A-ATTATTAATTA
*
592941 AAA-ATAAATTATTAATTA
1 AAATATTAATTATTAATTA
592959 AAATATTAATTATTAAT
1 AAATATTAATTATTAAT
592976 AATTCAAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 13 0.42
19 13 0.42
20 2 0.06
21 3 0.10
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATATTAATTATTAATTA
Found at i:592978 original size:22 final size:22
Alignment explanation
Indices: 592948--592990 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
592938 TTAAAAATAA
* *
592948 ATTATTAATTAAAATATTAATT
1 ATTAATAATTAAAACATTAATT
*
592970 ATTAATAATTCAAACATTAAT
1 ATTAATAATTAAAACATTAAT
592991 AAGTAAGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTAATAATTAAAACATTAATT
Found at i:593335 original size:11 final size:11
Alignment explanation
Indices: 593292--593335 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
593282 ACCAAATTAC
593292 TAATATTATAA
1 TAATATTATAA
*
593303 AAATATTATAA
1 TAATATTATAA
593314 TTATTATATTATAA
1 -TA--ATATTATAA
593328 TAATATTA
1 TAATATTA
593336 ATTATTAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 16 0.57
12 1 0.04
13 2 0.07
14 9 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TAATATTATAA
Found at i:593347 original size:16 final size:16
Alignment explanation
Indices: 593306--593353 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
593296 ATTATAAAAA
593306 TATTATAATTATTATAT
1 TATTATAA-TATTATAT
*
593323 TATAATAATATTA-AT
1 TATTATAATATTATAT
593338 TATTAGTAATATTATA
1 TATTA-TAATATTATA
593354 AATATTAAAA
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:593357 original size:25 final size:25
Alignment explanation
Indices: 593286--593373 Score: 85
Period size: 25 Copynumber: 3.5 Consensus size: 25
593276 TGGATAACCA
593286 AATTACTAATATTATAAAAATATT-AT
1 AATTA-TAATATTAT-AAAATATTAAT
*
593312 AATTATTATATTATAATAATATTAAT
1 AATTATAATATTATAA-AATATTAAT
*
593338 TATTAGTAATATTAT-AAATATTAA-
1 AATTA-TAATATTATAAAATATTAAT
*
593362 AATAATAA-ATTA
1 AATTATAATATTA
593374 AATAATGACA
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
22 4 0.07
23 3 0.06
24 5 0.09
25 22 0.41
26 12 0.22
27 8 0.15
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (25 bp):
AATTATAATATTATAAAATATTAAT
Found at i:593359 original size:18 final size:18
Alignment explanation
Indices: 593303--593368 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
593293 AATATTATAA
593303 AAATATTATAAT--TATT
1 AAATATTATAATAATATT
593319 --ATATTATAATAATATT
1 AAATATTATAATAATATT
* *
593335 AATTATTAGTAATATTA-T
1 AAATATTA-TAATAATATT
*
593353 AAATATTAAAATAATA
1 AAATATTATAATAATA
593369 AATTAAATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
14 10 0.25
16 4 0.10
17 6 0.15
18 13 0.32
19 7 0.17
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
AAATATTATAATAATATT
Found at i:593493 original size:46 final size:45
Alignment explanation
Indices: 593399--593486 Score: 104
Period size: 46 Copynumber: 1.9 Consensus size: 45
593389 AATTAGTAGT
* * * * *
593399 TTAATAATAATATAATAATACTAATTACAATTCATTATTAAACTA
1 TTAATAAAAATATAATAATAATAATAACAATTAATTAGTAAACTA
* *
593444 TTAATAAAAATAATCATAATAATAATAATAATTAATTAGTAAA
1 TTAATAAAAAT-ATAATAATAATAATAACAATTAATTAGTAAA
593487 TAATTAAATG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
45 10 0.29
46 25 0.71
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.38
Consensus pattern (45 bp):
TTAATAAAAATATAATAATAATAATAACAATTAATTAGTAAACTA
Found at i:595161 original size:181 final size:180
Alignment explanation
Indices: 594974--595373 Score: 428
Period size: 180 Copynumber: 2.2 Consensus size: 180
594964 ACCAAACCAT
*** * * *
594974 TTCAAATAGTTTTGACTATTTCAATAATTATTTATTTCAAATCGTTATAACCTTTTATTTTATCA
1 TTCAAATAGTTAAAACTATATCAATAATTATCTATTTCAAATCGTTATAACCTTTTATTTTAACA
* ** ** *
595039 TCAAACAATTGGTTCTATTCATATTATTTTATTTTGAATAAAATAATACTAATTTAATAATATTT
66 TAAAACAATT-GTTCTATTCATACAAGCTTATTTGGAATAAAATAATACTAATTTAATAATATTT
** *
595104 TGAAACTTAATAACAAAGAAAATTAAAAAATAAATCTAATTGTCGAATCAG
130 AAAAAATTAATAACAAAGAAAATTAAAAAATAAATCTAATTGTCGAATCAG
* * * * * *
595155 TTCAAATAGTTAAAACTCTATGAATGATTATCTATTTCAAATCGTTATGACCTTTTCTTTTAACG
1 TTCAAATAGTTAAAACTATATCAATAATTATCTATTTCAAATCGTTATAACCTTTTATTTTAACA
* * ** *
595220 TAAAACAATTGTTTTGTTTGTACAAGCTTATTTGGATTAAAATAATACTAATTTAATAATATTTA
66 TAAAACAATTGTTCTATTCATACAAGCTTATTTGGAATAAAATAATACTAATTTAATAATATTTA
** * * **
595285 AAAAATTAATAAGTAAGAGATTTAAAAAATAAAT-TTGTT-TACTGAATCAG
131 AAAAATTAATAACAAAGAAAATTAAAAAATAAATCTAATTGT-C-GAATCAG
* * *
595335 TTCAAATGGTTAAAATTAT-TAGAATAATTATCTATTTCA
1 TTCAAATAGTTAAAACTATAT-CAATAATTATCTATTTCA
595374 TATCATTTAT
Statistics
Matches: 180, Mismatches: 36, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
178 1 0.01
179 5 0.03
180 112 0.62
181 62 0.34
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (180 bp):
TTCAAATAGTTAAAACTATATCAATAATTATCTATTTCAAATCGTTATAACCTTTTATTTTAACA
TAAAACAATTGTTCTATTCATACAAGCTTATTTGGAATAAAATAATACTAATTTAATAATATTTA
AAAAATTAATAACAAAGAAAATTAAAAAATAAATCTAATTGTCGAATCAG
Found at i:595859 original size:181 final size:181
Alignment explanation
Indices: 595555--595901 Score: 448
Period size: 181 Copynumber: 1.9 Consensus size: 181
595545 AATTGTCATA
* * *
595555 ACTATTTAAACTTGTTTGGTAAATAGATTCATTTTTTAAATCTCTTACTCATTAATTTTTAGAAT
1 ACTATTTAAACTTGTTCGGTAAACAGATTCATTTTTTAAATCTCTTACTCATTAATTTTGAGAAT
* * * * * * **
595620 AGTAATAAGTTAGTATTATTTTATTTTGAATAAGCCTATATGAATTGATATAATTGTTTTATGGT
66 AGTAATAAATTAATATTATTTTAATATGAATAAGCCTATATGAAATGAAATAATTGTTTTATGAC
* * *
595685 GAAACAAAAGGTTATAACGATTTGAAATAGATAATTATTCAGATAGTTATT
131 AAAACAAAAGGTCATAACGATTTGAAATAAATAATTATTCAGATAGTTATT
* ** * * *
595736 ACTATTTGAACTTGTTCGGTAAACATTTTTATTTTTTAAATCTTTTACTTATTAATTGTTGA-AA
1 ACTATTTAAACTTGTTCGGTAAACAGATTCATTTTTTAAATCTCTTACTCATTAATT-TTGAGAA
*
595800 TATTAATAAATTAATATTATTTTAATATGAATAAG-CTAATATGAACAT-AAATAATTGTTTTAT
65 TAGTAATAAATTAATATTATTTTAATATGAATAAGCCT-ATATGAA-ATGAAATAATTGTTTTAT
*
595863 GACAAAACAAAAGGTCATAATGATTTGAAATAAATAATT
128 GACAAAACAAAAGGTCATAACGATTTGAAATAAATAATT
595902 CTTCCAATAG
Statistics
Matches: 141, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
180 2 0.01
181 135 0.96
182 4 0.03
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.44
Consensus pattern (181 bp):
ACTATTTAAACTTGTTCGGTAAACAGATTCATTTTTTAAATCTCTTACTCATTAATTTTGAGAAT
AGTAATAAATTAATATTATTTTAATATGAATAAGCCTATATGAAATGAAATAATTGTTTTATGAC
AAAACAAAAGGTCATAACGATTTGAAATAAATAATTATTCAGATAGTTATT
Found at i:596189 original size:16 final size:17
Alignment explanation
Indices: 596168--596200 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
596158 TAATGATTTG
596168 AAATAG-ATAATTGTTC
1 AAATAGCATAATTGTTC
596184 AAATAGTCATAATTGTT
1 AAATAG-CATAATTGTT
596201 TGCACTGGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (17 bp):
AAATAGCATAATTGTTC
Found at i:596369 original size:181 final size:179
Alignment explanation
Indices: 596063--596509 Score: 477
Period size: 181 Copynumber: 2.5 Consensus size: 179
596053 TTAGTAAACA
* *
596063 TATTAATTTTTGAAATATTAATAAATTAAAATTATGTTATTCTGAATAAGCTTGTATGAACAAAA
1 TATTAATTTTTGAAATATTAATAAATTAAAATTAT-TTATT-TGAATAAGATTATATGAACAAAA
* * * * * ** * *
596128 ATACTTATTTTGTGAGAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCA
64 ACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTGGTCAAATAGTCA
* ** * *
596193 TAATTGTTTGCACTGGTCAAGCCAAA-AGATACATTTTCTAAATC-CATTACT
129 TAACTAATTGAACTGGT-AAGCCAAACAGATACATTTTCTAAATCTC-TTACG
** ** *
596244 TATTAATTTTCAAAATATTAATAAATTAGCATTACTTTATTTGGAATAAGATTATATGAACATAA
1 TATTAATTTTTGAAATATTAATAAATTAAAATTA-TTTATTT-GAATAAGATTATATGAACAAAA
* * * *
596309 ACAATTGTTTTATGATAAAACAAATGGTCATAACAATTTGAAATAAATATTTGGTCAAATAGTTA
64 ACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTGGTCAAATAGTCA
* * ** *
596374 TAACTAATTGAACTGGTATGGCAAACAGATTTATTTTTTAAATCTCTTACG
129 TAACTAATTGAACTGGTAAGCCAAACAGATACATTTTCTAAATCTCTTACG
* ** *
596425 TATTAATTTTTGAAATATTAATAAATTAATATTATTTTATTCCAA-ACAAACTTATATGAACAAA
1 TATTAATTTTTGAAATATTAATAAATTAAAATTA-TTTATTTGAATA-AGA-TTATATGAACAAA
*
596489 AACATTTGTTTTATGACAAAA
63 AACAATTGTTTTATGACAAAA
596510 TTGATATTAT
Statistics
Matches: 220, Mismatches: 40, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
179 1 0.00
180 11 0.05
181 206 0.94
182 2 0.01
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.38
Consensus pattern (179 bp):
TATTAATTTTTGAAATATTAATAAATTAAAATTATTTATTTGAATAAGATTATATGAACAAAAAC
AATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTGGTCAAATAGTCATA
ACTAATTGAACTGGTAAGCCAAACAGATACATTTTCTAAATCTCTTACG
Found at i:596863 original size:21 final size:21
Alignment explanation
Indices: 596816--596864 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
596806 TTGCTAATAA
*
596816 AATATAACAATTATAGTATAT
1 AATATAACAATTATAATATAT
596837 AATATAACAATTAATAATAT-T
1 AATATAACAATT-ATAATATAT
*
596858 ATTATAA
1 AATATAA
596865 AATAATGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (21 bp):
AATATAACAATTATAATATAT
Found at i:596907 original size:26 final size:28
Alignment explanation
Indices: 596857--596908 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 28
596847 TTAATAATAT
596857 TATTATAAAATAATGATAAATTATTATC
1 TATTATAAAATAATGATAAATTATTATC
*
596885 TATTAT-AATTAAT-ATAAATTATTA
1 TATTATAAAATAATGATAAATTATTA
596909 ATAATTTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 11 0.48
27 6 0.26
28 6 0.26
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (28 bp):
TATTATAAAATAATGATAAATTATTATC
Found at i:597187 original size:18 final size:18
Alignment explanation
Indices: 597154--597188 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
597144 TGTACTAATC
*
597154 TATATATAATAGAATTAA
1 TATATATAATACAATTAA
*
597172 TATATATAATTCAATTA
1 TATATATAATACAATTA
597189 GTTATGAATA
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:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
TATATATAATACAATTAA
Found at i:597363 original size:13 final size:14
Alignment explanation
Indices: 597317--597365 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
597307 ATAAATTCTT
597317 ATTAATT-AT-TTA
1 ATTAATTAATATTA
*
597329 ATATAATAGAATATTA
1 AT-TAAT-TAATATTA
597345 ATTAATTAATATT-
1 ATTAATTAATATTA
597358 ATTAATTA
1 ATTAATTA
597366 TCTAAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 2 0.06
13 12 0.39
14 6 0.19
15 6 0.19
16 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
ATTAATTAATATTA
Found at i:597462 original size:13 final size:13
Alignment explanation
Indices: 597422--597507 Score: 50
Period size: 13 Copynumber: 6.5 Consensus size: 13
597412 TTAATAAAAT
*
597422 TAATATTATTATA
1 TAATATAATTATA
*
597435 CAAT-TAAATTA-A
1 TAATAT-AATTATA
597447 TAATATAATTATA
1 TAATATAATTATA
*
597460 TAATATTTATTATA
1 TAATA-TAATTATA
* * *
597474 TTATAATAAATATT
1 TAAT-ATAATTATA
* * *
597488 TAATTTAAATATT
1 TAATATAATTATA
597501 TAATATA
1 TAATATA
597508 TAAAAATATT
Statistics
Matches: 57, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
12 10 0.18
13 28 0.49
14 18 0.32
15 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (13 bp):
TAATATAATTATA
Found at i:597514 original size:17 final size:17
Alignment explanation
Indices: 597461--597517 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 17
597451 ATAATTATAT
597461 AATATTTATTATATTATAATA
1 AATATTTA--ATA-TATAA-A
597482 AATATTTAAT-T-T--A
1 AATATTTAATATATAAA
597495 AATATTTAATATATAAA
1 AATATTTAATATATAAA
597512 AATATT
1 AATATT
597518 ATATAATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.34
14 1 0.03
15 1 0.03
16 1 0.03
17 8 0.25
19 2 0.06
21 8 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATATTTAATATATAAA
Found at i:597554 original size:21 final size:21
Alignment explanation
Indices: 597512--597570 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
597502 AATATATAAA
597512 AATATTATATAATTATCCTAAT
1 AATATTA-ATAATTATCCTAAT
* **
597534 AATATTAATCATTATGTTAAT
1 AATATTAATAATTATCCTAAT
597555 AATATTAAGTAATTAT
1 AATATTAA-TAATTAT
597571 TAATATTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 19 0.59
22 13 0.41
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (21 bp):
AATATTAATAATTATCCTAAT
Found at i:597576 original size:17 final size:16
Alignment explanation
Indices: 597553--597598 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
597543 CATTATGTTA
597553 ATAATATTAAGTAATT
1 ATAATATTAAGTAATT
*
597569 ATTAATATTAATTAAATT
1 A-TAATATTAAGT-AATT
597587 ATAA-ATTAAGTA
1 ATAATATTAAGTA
597599 CTTTTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 1 0.04
16 7 0.27
17 13 0.50
18 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (16 bp):
ATAATATTAAGTAATT
Found at i:597712 original size:20 final size:19
Alignment explanation
Indices: 597661--597713 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
597651 AAATATTAGT
*
597661 TATT-TAATAATTATCAAT
1 TATTATAATAATTATCAAA
597679 TA-TATGAATAAATTATCCAAA
1 TATTAT-AAT-AATTAT-CAAA
597700 TATTATAATAATTA
1 TATTATAATAATTA
597714 CAATAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 1 0.03
18 3 0.10
19 3 0.10
20 11 0.38
21 8 0.28
22 3 0.10
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (19 bp):
TATTATAATAATTATCAAA
Found at i:597848 original size:20 final size:20
Alignment explanation
Indices: 597825--597886 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
597815 TTATATTACC
597825 TATTAATAATAAATATTAAT
1 TATTAATAATAAATATTAAT
* * *
597845 TATTTATTATAAATTTTAA-
1 TATTAATAATAAATATTAAT
*
597864 T-TT-ATCATAAATATTAAT
1 TATTAATAATAAATATTAAT
*
597882 AATTA
1 TATTA
597887 CTATTAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
17 12 0.36
18 2 0.06
19 3 0.09
20 16 0.48
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTAATAATAAATATTAAT
Found at i:597868 original size:17 final size:17
Alignment explanation
Indices: 597846--597881 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
597836 AATATTAATT
* *
597846 ATTTATTATAAATTTTA
1 ATTTATCATAAATATTA
597863 ATTTATCATAAATATTA
1 ATTTATCATAAATATTA
597880 AT
1 AT
597882 AATTACTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTATCATAAATATTA
Found at i:597977 original size:12 final size:12
Alignment explanation
Indices: 597960--598009 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
597950 ATTTTTATAA
597960 TATTAATAAATT
1 TATTAATAAATT
*
597972 TATTAATAATTT
1 TATTAATAAATT
597984 CTATT-AT-AA-T
1 -TATTAATAAATT
597994 TATTAATAAAGTT
1 TATTAATAAA-TT
598007 TAT
1 TAT
598010 CCAAAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
9 4 0.13
10 3 0.10
11 3 0.10
12 13 0.42
13 8 0.26
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (12 bp):
TATTAATAAATT
Found at i:598107 original size:30 final size:32
Alignment explanation
Indices: 598060--598118 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
598050 CTTAATTATT
*
598060 ATTATTATTTATTTTTAAT-AT-TAAATATAA
1 ATTATTATTTATATTTAATAATATAAATATAA
598090 ATTATTTATTT-TATTTAATAATATAAATA
1 ATTA-TTATTTATATTTAATAATATAAATA
598119 CTTATTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 11 0.44
31 8 0.32
32 6 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
ATTATTATTTATATTTAATAATATAAATATAA
Found at i:598112 original size:26 final size:26
Alignment explanation
Indices: 598083--598134 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
598073 TTTAATATTA
* *
598083 AATATAAATTATTTATTTTAT-TTAAT
1 AATATAAA-TACTTATTATATATTAAT
598109 AATATAAATACTTATTATATATTAAT
1 AATATAAATACTTATTATATATTAAT
598135 CTATTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
AATATAAATACTTATTATATATTAAT
Found at i:598126 original size:32 final size:31
Alignment explanation
Indices: 598045--598188 Score: 82
Period size: 32 Copynumber: 4.5 Consensus size: 31
598035 TAATATTATA
* *
598045 ATAATCTTAATTATTATTA-TTA-TTTATTT
1 ATAATATTAAATATTATTATTTATTTTATTT
* *
598074 TTAATATTAAATATAAATTATTTATTTTATTT
1 ATAATATTAAATAT-TATTATTTATTTTATTT
*
598106 AATAATA-TAAATACTTATTATATATTAATCTATTTT
1 -ATAATATTAAATA-TTATTATTTATT--T-TA-TTT
* * *
598142 ATTATATAATAATAATTA-TATTTA-TTTATAT
1 ATAATATTA-AAT-ATTATTATTTATTTTATTT
*
598173 ATCAATATTAATTATT
1 AT-AATATTAAATATT
598189 TTAATTAATA
Statistics
Matches: 88, Mismatches: 14, Indels: 25
0.69 0.11 0.20
Matches are distributed among these distances:
29 11 0.12
30 7 0.08
31 9 0.10
32 29 0.33
33 7 0.08
34 1 0.01
35 8 0.09
36 9 0.10
37 6 0.07
38 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (31 bp):
ATAATATTAAATATTATTATTTATTTTATTT
Found at i:598169 original size:27 final size:25
Alignment explanation
Indices: 598139--598249 Score: 80
Period size: 27 Copynumber: 4.2 Consensus size: 25
598129 ATTAATCTAT
598139 TTTATTATATAATAATAATTATATTTA
1 TTTA-TATATAATAATAATTAT-TTTA
*
598166 TTTATATATCAATATTAATTATTTTAA
1 TTTATATAT-AATAATAATTATTTT-A
* **
598193 TTAATACTATAAGTTAATAATTATTAAA
1 TTTATA-TATAA--TAATAATTATTTTA
** * *
598221 CATATAT-TATTAATAATTATTTAA
1 TTTATATATAATAATAATTATTTTA
598245 TTTAT
1 TTTAT
598250 TGTAAAACCA
Statistics
Matches: 67, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
24 16 0.24
26 10 0.15
27 24 0.36
28 7 0.10
29 10 0.15
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (25 bp):
TTTATATATAATAATAATTATTTTA
Found at i:598179 original size:24 final size:23
Alignment explanation
Indices: 598120--598173 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 23
598110 ATATAAATAC
598120 TTATTATAT-AT--TAATCTATT
1 TTATTATATAATAATAATCTATT
598140 TTATTATATAATAATAAT-TATAT
1 TTATTATATAATAATAATCTAT-T
598163 TTATTTATATA
1 TTA-TTATATA
598174 TCAATATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 9 0.31
21 2 0.07
22 3 0.10
23 8 0.28
24 7 0.24
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TTATTATATAATAATAATCTATT
Found at i:598337 original size:16 final size:15
Alignment explanation
Indices: 598316--598389 Score: 53
Period size: 16 Copynumber: 4.6 Consensus size: 15
598306 ATTATTAAGA
598316 ATAATTAATTATTAT
1 ATAATTAATTATTAT
598331 ATCAATT-ATT-TTAAT
1 AT-AATTAATTATT-AT
598346 AATTAAATTAAATTATTAT
1 -A-T-AATT-AATTATTAT
*
598365 ATAATTGATTACTTAT
1 ATAATTAATTA-TTAT
*
598381 AAAATTAAT
1 ATAATTAAT
598390 ATATCAATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
14 2 0.04
15 11 0.23
16 20 0.43
17 6 0.13
18 1 0.02
19 5 0.11
20 2 0.04
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (15 bp):
ATAATTAATTATTAT
Found at i:598387 original size:37 final size:33
Alignment explanation
Indices: 598318--598388 Score: 81
Period size: 34 Copynumber: 2.0 Consensus size: 33
598308 TATTAAGAAT
*
598318 AATTAATTATTATATCAATTATTTTAATAATTA
1 AATTAATTATTATATCAATTATTTTAAAAATTA
598351 AATTAAATTATTATAT-AATTGATTACTTATAAAATTA
1 AATT-AATTATTATATCAATT-ATT--TTA-AAAATTA
598388 A
1 A
598389 TATATCAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
33 8 0.25
34 14 0.44
36 3 0.09
37 7 0.22
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (33 bp):
AATTAATTATTATATCAATTATTTTAAAAATTA
Found at i:598392 original size:27 final size:27
Alignment explanation
Indices: 598355--598414 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
598345 TAATTAAATT
*
598355 AAATTATTATAT-AATTGAT-TACTTATA
1 AAATTAATATATCAATT-ATATA-TTATA
598382 AAATTAATATATCAATTATATATTATA
1 AAATTAATATATCAATTATATATTATA
*
598409 AGATTA
1 AAATTA
598415 TAATATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 23 0.79
28 6 0.21
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (27 bp):
AAATTAATATATCAATTATATATTATA
Found at i:598457 original size:36 final size:36
Alignment explanation
Indices: 598417--598485 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
598407 TAAGATTATA
* *
598417 ATATTTATTTA-AATAATAAATAATTATAA-ATAAGGT
1 ATATTAATTTATAA-AAT-AATAACTATAATATAAGGT
598453 ATATTAATTTATAAAATAATAACTATAATATAA
1 ATATTAATTTATAAAATAATAACTATAATATAA
598486 TTATAAGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 10 0.34
36 17 0.59
37 2 0.07
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (36 bp):
ATATTAATTTATAAAATAATAACTATAATATAAGGT
Found at i:599353 original size:16 final size:17
Alignment explanation
Indices: 599334--599367 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
599324 AATAAATTAA
*
599334 ATATAAT-AGTTACATT
1 ATATAATAAGTTAAATT
599350 ATATAATAAGTTAAATT
1 ATATAATAAGTTAAATT
599367 A
1 A
599368 CAATAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (17 bp):
ATATAATAAGTTAAATT
Found at i:599416 original size:17 final size:17
Alignment explanation
Indices: 599396--599500 Score: 65
Period size: 17 Copynumber: 5.9 Consensus size: 17
599386 TGTTTATCAT
599396 TATAATATATTTAATTA
1 TATAATATATTTAATTA
599413 TATAATATTATTATATATTA
1 TATAATA-TATT-TA-ATTA
* *
599433 AAT-ATTTATTATAA-TA
1 TATAATATATT-TAATTA
*
599449 TAATAATATTATATAATTA
1 T-ATAATA-TATTTAATTA
**
599468 TATTCT-TAATTTAATTA
1 TATAATAT-ATTTAATTA
599485 TATAATA-ATATTAATT
1 TATAATATAT-TTAATT
599501 TTATTAAACA
Statistics
Matches: 68, Mismatches: 10, Indels: 20
0.69 0.10 0.20
Matches are distributed among these distances:
16 5 0.07
17 28 0.41
18 19 0.28
19 10 0.15
20 6 0.09
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (17 bp):
TATAATATATTTAATTA
Found at i:599427 original size:13 final size:13
Alignment explanation
Indices: 599409--599497 Score: 50
Period size: 13 Copynumber: 7.3 Consensus size: 13
599399 AATATATTTA
599409 ATTATATAATATT
1 ATTATATAATATT
599422 A-T-TAT-ATATT
1 ATTATATAATATT
* *
599432 A-AATAT-TTATT
1 ATTATATAATATT
* *
599443 ATAATATAATAAT
1 ATTATATAATATT
599456 ATTATATAAT-TAT
1 ATTATATAATAT-T
*
599469 ATTCT-TAAT-TT
1 ATTATATAATATT
*
599480 AATTATATAATAAT
1 -ATTATATAATATT
599494 ATTA
1 ATTA
599498 ATTTTATTAA
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
10 6 0.10
11 12 0.20
12 15 0.25
13 26 0.43
14 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTATATAATATT
Found at i:599444 original size:21 final size:21
Alignment explanation
Indices: 599414--599470 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 21
599404 ATTTAATTAT
*
599414 ATAATA-T-TATTA-TATATT
1 ATAATATTATATTATTATATA
*
599432 A-AATATT-TATTATAATATA
1 ATAATATTATATTATTATATA
*
599451 ATAATATTATATAATTATAT
1 ATAATATTATATTATTATAT
599471 TCTTAATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 4 0.13
18 7 0.23
19 5 0.16
20 6 0.19
21 9 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATAATATTATATTATTATATA
Found at i:599706 original size:12 final size:13
Alignment explanation
Indices: 599691--599744 Score: 58
Period size: 12 Copynumber: 4.2 Consensus size: 13
599681 ACAAATTAAT
599691 TAAATTAAT-TTA
1 TAAATTAATATTA
* *
599703 TAAAATAATTAATA
1 TAAATTAA-TATTA
599717 TAAATTAATATTA
1 TAAATTAATATTA
*
599730 TAGA-TAATATTA
1 TAAATTAATATTA
599742 TAA
1 TAA
599745 TAATTATAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
12 17 0.50
13 8 0.24
14 9 0.26
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (13 bp):
TAAATTAATATTA
Found at i:599752 original size:21 final size:20
Alignment explanation
Indices: 599689--599761 Score: 59
Period size: 21 Copynumber: 3.8 Consensus size: 20
599679 AAACAAATTA
599689 ATTA-AATTAAT-TTATAA-
1 ATTATAATTAATATTATAAT
*
599706 A--ATAATTAATATAAATTAAT
1 ATTATAATTAATAT-TA-TAAT
599726 ATTATAGA-TAATATTATAAT
1 ATTATA-ATTAATATTATAAT
599746 AATTATAATTAATATT
1 -ATTATAATTAATATT
599762 TAACCTATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
15 1 0.02
16 7 0.16
17 2 0.05
18 1 0.02
19 3 0.07
20 6 0.14
21 14 0.32
22 9 0.20
23 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (20 bp):
ATTATAATTAATATTATAAT
Found at i:600031 original size:25 final size:26
Alignment explanation
Indices: 600003--600058 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
599993 TAACAAATAT
600003 ATAATTTA-AATTGATTA-TT-AATCGA
1 ATAATTTATAATT-ATTATTTAAAT-GA
600028 ATAA-TTATAATTATTATTTAAATGA
1 ATAATTTATAATTATTATTTAAATGA
600053 ATAATT
1 ATAATT
600059 ATTTGAATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
24 7 0.26
25 16 0.59
26 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (26 bp):
ATAATTTATAATTATTATTTAAATGA
Found at i:600082 original size:15 final size:15
Alignment explanation
Indices: 600064--600097 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
600054 TAATTATTTG
600064 AATAGATAATATTAA
1 AATAGATAATATTAA
* *
600079 AATATATCATATTAA
1 AATAGATAATATTAA
600094 AATA
1 AATA
600098 TATTAATTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (15 bp):
AATAGATAATATTAA
Found at i:600098 original size:15 final size:15
Alignment explanation
Indices: 600072--600100 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
600062 TGAATAGATA
600072 ATATTAAAATATATC
1 ATATTAAAATATATC
600087 ATATTAAAATATAT
1 ATATTAAAATATAT
600101 TAATTAGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATTAAAATATATC
Found at i:600230 original size:22 final size:24
Alignment explanation
Indices: 600181--600230 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 24
600171 CAATAATTGT
*
600181 AATTATAATTATTATATTATCACT
1 AATTATAATTATTATATTATCACA
*
600205 AATTA-AATTATTA-ATTATTACA
1 AATTATAATTATTATATTATCACA
600227 AATT
1 AATT
600231 CTCATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 11 0.46
23 8 0.33
24 5 0.21
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (24 bp):
AATTATAATTATTATATTATCACA
Found at i:600525 original size:11 final size:12
Alignment explanation
Indices: 600494--600533 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
600484 TCAAATTAAC
600494 TTATAATT-A-A
1 TTATAATTAATA
600504 TTATAA-TAATA
1 TTATAATTAATA
600515 TTA-AATTAATA
1 TTATAATTAATA
600526 TTATAATT
1 TTATAATT
600534 GTTCAAAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 1 0.04
10 9 0.35
11 12 0.46
12 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTATAATTAATA
Found at i:601601 original size:11 final size:12
Alignment explanation
Indices: 601540--601623 Score: 63
Period size: 12 Copynumber: 7.2 Consensus size: 12
601530 ATTAAACAAA
601540 TAATTTTATAAT
1 TAATTTTATAAT
*
601552 TAGA-TATATAA-
1 TA-ATTTTATAAT
* *
601563 T-ATTTAATAAA
1 TAATTTTATAAT
601574 TAA--TTATAAT
1 TAATTTTATAAT
*
601584 TATTTTTAT-AT
1 TAATTTTATAAT
601595 TAATTTTATAAT
1 TAATTTTATAAT
601607 TAATTTATATAAAT
1 TAATTT-TAT-AAT
601621 TAA
1 TAA
601624 ATATAATAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
9 1 0.02
10 12 0.21
11 12 0.21
12 21 0.38
13 4 0.07
14 6 0.11
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (12 bp):
TAATTTTATAAT
Found at i:601623 original size:14 final size:14
Alignment explanation
Indices: 601593--601641 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
601583 TTATTTTTAT
601593 ATTAATTT-TAT-A
1 ATTAATTTATATAA
601605 ATTAATTTATATAA
1 ATTAATTTATATAA
*
601619 ATTAA-ATATAATAA
1 ATTAATTTAT-ATAA
601633 ATT-ATTTAT
1 ATTAATTTAT
601642 TAATATTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 8 0.26
13 7 0.23
14 16 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATTAATTTATATAA
Found at i:601699 original size:10 final size:10
Alignment explanation
Indices: 601684--601708 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
601674 GATATATTAA
601684 TATTAATAAC
1 TATTAATAAC
601694 TATTAATAAC
1 TATTAATAAC
601704 TATTA
1 TATTA
601709 TTACTTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (10 bp):
TATTAATAAC
Found at i:601748 original size:30 final size:31
Alignment explanation
Indices: 601709--601772 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
601699 ATAACTATTA
* * *
601709 TTACTTAATATTATA-AATTAAGTTATATAAT
1 TTACTTAATAATATATAAGTAAATTATAT-AT
601740 TTAC-TAATAATATATAAGTAAATTATATAT
1 TTACTTAATAATATATAAGTAAATTATATAT
601770 TTA
1 TTA
601773 GAACTATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 14 0.48
31 15 0.52
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (31 bp):
TTACTTAATAATATATAAGTAAATTATATAT
Found at i:602042 original size:17 final size:17
Alignment explanation
Indices: 602020--602067 Score: 87
Period size: 17 Copynumber: 2.8 Consensus size: 17
602010 CAAAATTATA
602020 TATTCTGAATAAAAGCC
1 TATTCTGAATAAAAGCC
602037 TATTCTGAATAAAAGCC
1 TATTCTGAATAAAAGCC
*
602054 TATTCAGAATAAAA
1 TATTCTGAATAAAA
602068 TAATACTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (17 bp):
TATTCTGAATAAAAGCC
Found at i:602171 original size:16 final size:17
Alignment explanation
Indices: 602150--602183 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
602140 AAAATAATAA
602150 ATAATATAGT-ATAATT
1 ATAATATAGTAATAATT
*
602166 ATAATATATTAATAATT
1 ATAATATAGTAATAATT
602183 A
1 A
602184 ATTAATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
ATAATATAGTAATAATT
Found at i:602227 original size:20 final size:20
Alignment explanation
Indices: 602161--602227 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
602151 TAATATAGTA
*
602161 TAATTATAA-TATATTAATAAT
1 TAATT-TAATTATATAAAT-AT
602182 TAA-TTAATTATATAAGATA-
1 TAATTTAATTATATAA-ATAT
602201 -AATTTTAATTATATAAATAT
1 TAA-TTTAATTATATAAATAT
602221 TAATTTA
1 TAATTTA
602228 TATTTATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
18 2 0.05
19 6 0.15
20 24 0.62
21 7 0.18
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (20 bp):
TAATTTAATTATATAAATAT
Found at i:602776 original size:25 final size:24
Alignment explanation
Indices: 602742--602809 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
602732 ACTTAATATT
*
602742 TTATAATAATATAAATTAAATATAA
1 TTATTATAATATAAATTAAAT-TAA
*
602767 TTATTATAAT-TAATTTTATAATTAA
1 TTATTATAATATAA-ATTA-AATTAA
* *
602792 TTAATATTATA-AAATTAA
1 TTATTATAATATAAATTAA
602810 TGATAAATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
23 1 0.03
24 6 0.17
25 25 0.71
26 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TTATTATAATATAAATTAAATTAA
Found at i:602787 original size:12 final size:13
Alignment explanation
Indices: 602764--602794 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
602754 AAATTAAATA
602764 TAATTATTATAAT
1 TAATTATTATAAT
602777 TAATT-TTATAAT
1 TAATTATTATAAT
602789 TAATTA
1 TAATTA
602795 ATATTATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TAATTATTATAAT
Found at i:602794 original size:16 final size:16
Alignment explanation
Indices: 602773--602803 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
602763 ATAATTATTA
*
602773 TAATTAATTTTATAAT
1 TAATTAATATTATAAT
602789 TAATTAATATTATAA
1 TAATTAATATTATAA
602804 AATTAATGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTAATATTATAAT
Found at i:603547 original size:163 final size:162
Alignment explanation
Indices: 603293--603624 Score: 393
Period size: 163 Copynumber: 2.0 Consensus size: 162
603283 TAAACTGATC
* * * * * *
603293 ATAATTATTTAAATTGGTTTGGTAAATAGATTTATTTTTTAAATCTCTTAGTTATTAATTTTTGA
1 ATAATTATTTAAATTGATTCGATAAATAGATTTATTTTTTAAATCTC-TAATTATCAAATTTTGA
* * *
603358 AATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTA-CGATA-AAAAACAATTGTTTT
65 AATAGTAATAAAGTAATATTATTTTATTTTGAATAAG-TTGTATCGA-ACAAAAACAATTGTTTT
603421 ATAATAAAACAAAAAGGTCATAACAATTTGAAATAA
128 ATAATAAAAC-AAAAGGTCATAACAATTTGAAATAA
* *
603457 ATAATTATTTGAATTGATTCGATAAACT-GATTTATTTTTTAAATCTAC-AATTCTCAAATTTTG
1 ATAATTATTTAAATTGATTCGATAAA-TAGATTTATTTTTTAAATCT-CTAATTATCAAATTTTG
* * * **
603520 AAATAGTAATAAAGTAATATTATTTTATTTTGTATAAGTTTTATTGAACTGAAACAATTGTTTTA
64 AAATAGTAATAAAGTAATATTATTTTATTTTGAATAAGTTGTATCGAACAAAAACAATTGTTTTA
* ** * *
603585 TGATAAAACAAAAGGTCATAATGATTTTAAATAG
129 TAATAAAACAAAAGGTCATAACAATTTGAAATAA
603619 ATAATT
1 ATAATT
603625 GTTCAAATAG
Statistics
Matches: 143, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
162 32 0.22
163 69 0.48
164 40 0.28
165 2 0.01
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.43
Consensus pattern (162 bp):
ATAATTATTTAAATTGATTCGATAAATAGATTTATTTTTTAAATCTCTAATTATCAAATTTTGAA
ATAGTAATAAAGTAATATTATTTTATTTTGAATAAGTTGTATCGAACAAAAACAATTGTTTTATA
ATAAAACAAAAGGTCATAACAATTTGAAATAA
Found at i:603796 original size:19 final size:19
Alignment explanation
Indices: 603772--603810 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
603762 TAATAATCAC
*
603772 TAATTAATAAT-TGTATTAA
1 TAATTAACAATAT-TATTAA
603791 TAATTAACAATATTATTAA
1 TAATTAACAATATTATTAA
603810 T
1 T
603811 GGCTATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (19 bp):
TAATTAACAATATTATTAA
Found at i:604788 original size:16 final size:17
Alignment explanation
Indices: 604751--604790 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
604741 CAAAATAATA
604751 TCATTATATCAATGTAT
1 TCATTATATCAATGTAT
604768 T-ATTAT-TCATAT-TAT
1 TCATTATATCA-ATGTAT
604783 TCATTATA
1 TCATTATA
604791 ATAATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.35
16 12 0.60
17 1 0.05
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (17 bp):
TCATTATATCAATGTAT
Found at i:605096 original size:16 final size:16
Alignment explanation
Indices: 605068--605110 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
605058 TAAATACAAT
*
605068 TATTAATTA-ATATTA
1 TATTTATTATATATTA
605083 TATTTATTATATATTA
1 TATTTATTATATATTA
*
605099 TAATTA-TATATA
1 TATTTATTATATA
605111 ATAAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTATTATATATTA
Found at i:605106 original size:13 final size:13
Alignment explanation
Indices: 605066--605121 Score: 51
Period size: 13 Copynumber: 4.1 Consensus size: 13
605056 CCTAAATACA
605066 ATTATTAATTA-AT
1 ATTA-TAATTATAT
605079 ATTATATTTATTATAT
1 ATTATA---ATTATAT
605095 ATTATAATTATAT
1 ATTATAATTATAT
* *
605108 ATAATAAATATAT
1 ATTATAATTATAT
605121 A
1 A
605122 AATTTAATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
12 2 0.05
13 23 0.62
15 4 0.11
16 8 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTATAATTATAT
Found at i:605118 original size:22 final size:21
Alignment explanation
Indices: 605079--605122 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
605069 ATTAATTAAT
* * *
605079 ATTATATTTATTATATATTATA
1 ATTATATATAATAAATA-TATA
605101 ATTATATATAATAAATATATA
1 ATTATATATAATAAATATATA
605122 A
1 A
605123 ATTTAATTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTATATATAATAAATATATA
Found at i:605953 original size:24 final size:24
Alignment explanation
Indices: 605909--605979 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
605899 CTAAGCTAAT
*
605909 AATTAAATAATTTATGATATTAAA
1 AATTAAATAATTTAAGATATTAAA
*
605933 AATTAATTATATTTAAG-TATT-AA
1 AATTAAATA-ATTTAAGATATTAAA
* **
605956 AATATCAATAATTTATTATATTAA
1 AAT-TAAATAATTTAAGATATTAA
605980 TATTTCTAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
23 10 0.27
24 20 0.54
25 7 0.19
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (24 bp):
AATTAAATAATTTAAGATATTAAA
Done.