Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold60
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: 3815296
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 18690 characters in sequence are not A, C, G, or T
File 6 of 21
Found at i:738609 original size:2 final size:2
Alignment explanation
Indices: 738602--738628 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
738592 GGGAAAACAT
738602 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
738629 ATTCCGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:742504 original size:15 final size:14
Alignment explanation
Indices: 742486--742531 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 14
742476 AATATAATCT
742486 TAATATTATAATATA
1 TAATATTATAATA-A
*
742501 TAATATAATAATAA
1 TAATATTATAATAA
742515 -AATATTA-AATAA
1 TAATATTATAATAA
742527 TAATA
1 TAATA
742532 AATATTATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 5 0.18
13 10 0.36
14 1 0.04
15 12 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATATTATAATAA
Found at i:742519 original size:18 final size:18
Alignment explanation
Indices: 742474--742533 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
742464 AAATCTTTAA
*
742474 AAAATATAATCTTAATATTAT
1 AAAATATAAT-ATAATA--AT
*
742495 AATATATAATATAATAAT
1 AAAATATAATATAATAAT
742513 AAAATATTAA-ATAATAAT
1 AAAATA-TAATATAATAAT
742531 AAA
1 AAA
742534 TATTATCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 18 0.51
19 3 0.09
20 5 0.14
21 9 0.26
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATATAATATAATAAT
Found at i:742620 original size:15 final size:15
Alignment explanation
Indices: 742597--742627 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
742587 AGAGAAATAT
742597 TATTAATAATAAAAA
1 TATTAATAATAAAAA
*
742612 TATTTATAATAAAAA
1 TATTAATAATAAAAA
742627 T
1 T
742628 TTAGAACTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TATTAATAATAAAAA
Found at i:742697 original size:27 final size:27
Alignment explanation
Indices: 742667--742732 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
742657 TTTTGTCGGT
*
742667 TTAATAACTAATCAAATGTAATCTTAA
1 TTAATAACTAATCAAATGAAATCTTAA
* * *
742694 TTAATAACTAATCATATGAAATTTTAG
1 TTAATAACTAATCAAATGAAATCTTAA
*
742721 TTAATAATTAAT
1 TTAATAACTAAT
742733 AAGTCTTCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.41
Consensus pattern (27 bp):
TTAATAACTAATCAAATGAAATCTTAA
Found at i:743595 original size:20 final size:20
Alignment explanation
Indices: 743570--743609 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
743560 TTATTAGGCC
743570 ATCTTCTTCCCACCTCATGT
1 ATCTTCTTCCCACCTCATGT
743590 ATCTTCTTCCCACCTCATGT
1 ATCTTCTTCCCACCTCATGT
743610 TAACTAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.40, G:0.05, T:0.40
Consensus pattern (20 bp):
ATCTTCTTCCCACCTCATGT
Found at i:743712 original size:50 final size:50
Alignment explanation
Indices: 743637--743818 Score: 274
Period size: 50 Copynumber: 3.6 Consensus size: 50
743627 AGTTGTTGTC
* * * *
743637 ATTGTTGACTATCCTTCATCAACCTTTGACAATAGAGAGAGGTGGTCGTA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCATA
* * *
743687 ATTGTTGACGATTCTTCACCAACCTTTGATAATAGAAAGAGGTGGTCATT
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCATA
**
743737 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGACCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCATA
*
743787 ATTGTTGACGATTCTTCACCAACCGTTGACAA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAA
743819 ATGTGGCCAT
Statistics
Matches: 119, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 119 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (50 bp):
ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCATA
Found at i:748305 original size:50 final size:49
Alignment explanation
Indices: 748229--748407 Score: 252
Period size: 50 Copynumber: 3.6 Consensus size: 49
748219 AGTTGTTGTC
* * * *
748229 ATTGTTGACTA-TCATTCACCAACCTTTGACAATAGAGAGAAGTGGTCGT
1 ATTGTTGACGATTC-TTCACCAACCTTTGACAATAGAGAGAGGTGGCCAT
*
748278 ACTTGTTGACGATTCTTCACCAACCTTTGACAATAGAAAGAGGTGGCCATT
1 A-TTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCA-T
*
748329 ATTATTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCAT
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCAT
*
748378 AATTGTTGACGATTCTTCACCAACCGTTGA
1 -ATTGTTGACGATTCTTCACCAACCTTTGA
748408 TAAATGTGGC
Statistics
Matches: 117, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
49 2 0.02
50 111 0.95
51 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (49 bp):
ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCAT
Found at i:749648 original size:19 final size:18
Alignment explanation
Indices: 749620--749655 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
749610 GATATATTTT
*
749620 TTTATTTTTTTATAAAAAA
1 TTTATATTTTT-TAAAAAA
749639 TTTATATTTTTTAAAAA
1 TTTATATTTTTTAAAAA
749656 CTCTCTTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTATATTTTTTAAAAAA
Found at i:750123 original size:55 final size:55
Alignment explanation
Indices: 750032--750141 Score: 132
Period size: 55 Copynumber: 2.0 Consensus size: 55
750022 GAAGAGACCA
* * * * * *
750032 AATCTGTTTTTAAAGTCAAATCTAGAAAACCTTTGAAGCAATTATAGAAGACCCT
1 AATCCGTTTTCAAAGTCAAATATAGAAAACCTTTGAAACAAATATAAAAGACCCT
* *
750087 AATCCGTTTTCAAAGTTAAATATAGAAAA-CTCTTGAAACAAATCTAAAAGACCCT
1 AATCCGTTTTCAAAGTCAAATATAGAAAACCT-TTGAAACAAATATAAAAGACCCT
750142 TGAATCAGGC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 2 0.04
55 44 0.96
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (55 bp):
AATCCGTTTTCAAAGTCAAATATAGAAAACCTTTGAAACAAATATAAAAGACCCT
Found at i:751631 original size:19 final size:21
Alignment explanation
Indices: 751609--751650 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
751599 TTCATATTTA
751609 ATATAAAT-A-TAAAAAAATT
1 ATATAAATAATTAAAAAAATT
751628 ATATAAATACATTAAAAAAATT
1 ATATAAATA-ATTAAAAAAATT
751650 A
1 A
751651 AATATATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
21 1 0.05
22 11 0.55
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
ATATAAATAATTAAAAAAATT
Found at i:755883 original size:15 final size:15
Alignment explanation
Indices: 755833--755877 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
755823 TTTAAAAAAA
755833 TAATATTTATAAA-TT
1 TAATATTT-TAAATTT
755848 TAA-ATTTTAAATTT
1 TAATATTTTAAATTT
*
755862 TAATATTTTTAATTT
1 TAATATTTTAAATTT
755877 T
1 T
755878 TTTATTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 4 0.15
14 9 0.33
15 14 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TAATATTTTAAATTT
Found at i:765369 original size:36 final size:36
Alignment explanation
Indices: 765322--765470 Score: 172
Period size: 36 Copynumber: 4.1 Consensus size: 36
765312 GATATATATA
* * *
765322 TATATATATATATATGTGTGTGTGTGTGTGTGTATG
1 TATATATATATATATGTATGTATGTGTGTATGTATG
* * * * *
765358 TATATATATATATATATGTGTGTGTGTGTGTGTGTG
1 TATATATATATATATGTATGTATGTGTGTATGTATG
* *
765394 TATATATATGTATGTATGTATGTATGTGTGTATGTGTG
1 TATATATA--TATATATGTATGTATGTGTGTATGTATG
* *
765432 TGTATATATATATATGTATGTATGTATGTATGTATG
1 TATATATATATATATGTATGTATGTGTGTATGTATG
765468 TAT
1 TAT
765471 GTGTGTGTGT
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
36 69 0.70
38 30 0.30
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (36 bp):
TATATATATATATATGTATGTATGTGTGTATGTATG
Found at i:765373 original size:40 final size:40
Alignment explanation
Indices: 765314--765494 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
765304 TCTTACTTGA
*
765314 TATATATATATATATATATATATGTGTGTGTGTGTGTGTG
1 TATATATATATATATATATATATGTGTGTATGTGTGTGTG
* * *
765354 TATGTATATATATATATATATGTGTGTGTGTGTGTGTGTG
1 TATATATATATATATATATATATGTGTGTATGTGTGTGTG
* * * *
765394 TATATATATGTATGTATGTATGTATGTGTGTATGTGTGTGTA
1 TATATATA--TATATATATATATATGTGTGTATGTGTGTGTG
* * * * *
765436 TATATATATATGTATGTATGTATGTATGTATGTATGTGTG
1 TATATATATATATATATATATATGTGTGTATGTGTGTGTG
* * * *
765476 TGTGTGTATATATACATAT
1 TATATATATATATATATAT
765495 CTGGATATGC
Statistics
Matches: 121, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
40 87 0.72
42 34 0.28
ACGTcount: A:0.26, C:0.01, G:0.24, T:0.50
Consensus pattern (40 bp):
TATATATATATATATATATATATGTGTGTATGTGTGTGTG
Found at i:765384 original size:44 final size:44
Alignment explanation
Indices: 765313--765494 Score: 214
Period size: 44 Copynumber: 4.3 Consensus size: 44
765303 ATCTTACTTG
*
765313 ATATATATATATATATATATATATGTGTG--TGTGTGTGTGTGT
1 ATATATATATATATATATATGTATGTGTGTATGTGTGTGTGTGT
*
765355 ATGTATATATATATATATATG--TGTGTG--TGTGTGTGTGTGT
1 ATATATATATATATATATATGTATGTGTGTATGTGTGTGTGTGT
* * * * *
765395 ATATATATGTATGTATGTATGTATGTGTGTATGTGTGTGTATAT
1 ATATATATATATATATATATGTATGTGTGTATGTGTGTGTGTGT
* * * *
765439 ATATATATGTATGTATGTATGTATGTATGTATGTGTGTGTGTGT
1 ATATATATATATATATATATGTATGTGTGTATGTGTGTGTGTGT
*
765483 ATATATACATAT
1 ATATATATATAT
765495 CTGGATATGC
Statistics
Matches: 123, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
40 36 0.29
42 25 0.20
44 62 0.50
ACGTcount: A:0.26, C:0.01, G:0.24, T:0.49
Consensus pattern (44 bp):
ATATATATATATATATATATGTATGTGTGTATGTGTGTGTGTGT
Found at i:765407 original size:4 final size:4
Alignment explanation
Indices: 765400--765472 Score: 92
Period size: 4 Copynumber: 18.2 Consensus size: 4
765390 TGTGTATATA
* * * * * *
765400 TATG TATG TATG TATG TATG TGTG TATG TGTG TGTA TATA TATA TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
765448 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
765473 GTGTGTGTGT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 63 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:769585 original size:16 final size:17
Alignment explanation
Indices: 769557--769589 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
769547 AGATAAAATG
769557 TATTTTTTATATATTTT
1 TATTTTTTATATATTTT
769574 TATTTTTT-TATATTTT
1 TATTTTTTATATATTTT
769590 CTTTAATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
TATTTTTTATATATTTT
Found at i:769650 original size:27 final size:27
Alignment explanation
Indices: 769620--769695 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
769610 ACTAAATATT
769620 TAAATAATTATAATTAATTAATTTAAA
1 TAAATAATTATAATTAATTAATTTAAA
* * * * *
769647 TAAAAAATTTTAATAAATTCATTTCAA
1 TAAATAATTATAATTAATTAATTTAAA
*
769674 -AATTAATATATAATTAAATTAA
1 TAAATAAT-TATAATT-AATTAA
769696 AAATAAATCT
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
26 5 0.14
27 27 0.73
28 5 0.14
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (27 bp):
TAAATAATTATAATTAATTAATTTAAA
Found at i:770362 original size:2 final size:2
Alignment explanation
Indices: 770357--770394 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
770347 AATTGTGTGC
*
770357 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
770395 CTAAACTCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:774504 original size:4 final size:4
Alignment explanation
Indices: 774481--774525 Score: 56
Period size: 4 Copynumber: 11.0 Consensus size: 4
774471 TTTAAAATTT
*
774481 TTAA TT-A TTAA TTATT TTAA TTAA TTAA TTAA TTAAA TTAA TTAA
1 TTAA TTAA TTAA TTA-A TTAA TTAA TTAA TTAA TT-AA TTAA TTAA
774526 AATATATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
3 3 0.08
4 26 0.72
5 7 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
TTAA
Found at i:774507 original size:17 final size:17
Alignment explanation
Indices: 774479--774525 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
774469 TTTTTAAAAT
774479 TTTTAATT-ATTAATTA
1 TTTTAATTAATTAATTA
774495 TTTTAATTAATTAATTA
1 TTTTAATTAATTAATTA
* *
774512 ATTAAATTAATTAA
1 TTTTAATTAATTAA
774526 AATATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 8 0.29
17 20 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTAATTAATTAATTA
Found at i:774580 original size:22 final size:22
Alignment explanation
Indices: 774539--774580 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
774529 ATATATAATA
*
774539 TATATTTTTTAATTTTTATTTG
1 TATATTTTTAAATTTTTATTTG
774561 TATA-TTTTAAATTTTATATT
1 TATATTTTTAAATTTT-TATT
774581 ATAAGAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
TATATTTTTAAATTTTTATTTG
Found at i:774629 original size:22 final size:22
Alignment explanation
Indices: 774538--774630 Score: 57
Period size: 22 Copynumber: 4.2 Consensus size: 22
774528 TATATATAAT
* *
774538 ATATATTTTTTAATTTTTATTT-
1 ATATATTTTAT-ATTTATATTTA
* *
774560 GTATATTTTAAATTTTATATTATA
1 ATATATTTTATA-TTTATATT-TA
* * * *
774584 AGAAATTTT-GATTTAT-TATAA
1 ATATATTTTATATTTATAT-TTA
774605 ATATATTTTATATTTATATTTA
1 ATATATTTTATATTTATATTTA
774627 ATAT
1 ATAT
774631 TTAAATATTT
Statistics
Matches: 52, Mismatches: 13, Indels: 12
0.68 0.17 0.16
Matches are distributed among these distances:
21 10 0.19
22 33 0.63
23 3 0.06
24 6 0.12
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (22 bp):
ATATATTTTATATTTATATTTA
Found at i:776542 original size:22 final size:21
Alignment explanation
Indices: 776516--776566 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
776506 TAAATATATG
*
776516 AAAAATAAAAGATATAACATAA
1 AAAAATAAAA-ACATAACATAA
* *
776538 AAAAATTAAAACATAATATAA
1 AAAAATAAAAACATAACATAA
776559 AAATAATA
1 AAA-AATA
776567 TGACACAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.22
Consensus pattern (21 bp):
AAAAATAAAAACATAACATAA
Found at i:776851 original size:17 final size:18
Alignment explanation
Indices: 776817--776856 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
776807 CTTAATTTTA
776817 TATTATTAATAAAAATTT
1 TATTATTAATAAAAATTT
*
776835 TATTATTAA-ATAAATTT
1 TATTATTAATAAAAATTT
776852 TATTA
1 TATTA
776857 AATAATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTATTAATAAAAATTT
Found at i:776863 original size:17 final size:16
Alignment explanation
Indices: 776819--776864 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
776809 TAATTTTATA
776819 TTATTAATAA-AAATT
1 TTATTAATAATAAATT
*
776834 TTATTATTAAATAAATT
1 TTATTAAT-AATAAATT
776851 TTATTAAATAATAA
1 TTATT-AATAATAA
776865 TTATATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 7 0.27
16 2 0.08
17 15 0.58
18 2 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTATTAATAATAAATT
Found at i:777230 original size:21 final size:22
Alignment explanation
Indices: 777205--777247 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
777195 TATACAAAGA
*
777205 TAAACATGATAT-AAAAATAAT
1 TAAACATAATATAAAAAATAAT
777226 TAAACATAATATAAAAAATAAT
1 TAAACATAATATAAAAAATAAT
777248 ATGATACGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (22 bp):
TAAACATAATATAAAAAATAAT
Found at i:777248 original size:12 final size:11
Alignment explanation
Indices: 777213--777273 Score: 54
Period size: 10 Copynumber: 5.6 Consensus size: 11
777203 GATAAACATG
777213 ATATAAAAATA
1 ATATAAAAATA
*
777224 AT-TAAACATA
1 ATATAAAAATA
777234 ATATAAAAAATA
1 ATAT-AAAAATA
* * **
777246 ATATGATACGA
1 ATATAAAAATA
777257 ATATAAAAAT-
1 ATATAAAAATA
777267 ATATAAA
1 ATATAAA
777274 TATATATGTG
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
10 16 0.42
11 12 0.32
12 10 0.26
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (11 bp):
ATATAAAAATA
Found at i:777575 original size:11 final size:11
Alignment explanation
Indices: 777559--777627 Score: 59
Period size: 11 Copynumber: 5.8 Consensus size: 11
777549 ATTTTACTTT
777559 AATAATATAAA
1 AATAATATAAA
777570 AATAATATAAA
1 AATAATATAAA
*
777581 CATGATATTTATAAA
1 -A--ATA-ATATAAA
*
777596 AA-ATATTTAAA
1 AATA-ATATAAA
777607 ATATAATATAAA
1 A-ATAATATAAA
777619 AATAATATA
1 AATAATATA
777628 CACATGATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
11 27 0.56
12 10 0.21
13 1 0.02
14 4 0.08
15 6 0.12
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (11 bp):
AATAATATAAA
Found at i:777697 original size:21 final size:22
Alignment explanation
Indices: 777674--777724 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
777664 ATAAAATAAA
777674 ATAA-ATTATTAATATATAAAAAT
1 ATAATATTA-TAA-ATATAAAAAT
777697 ATAATATTATAAATATAAAAA-
1 ATAATATTATAAATATAAAAAT
777718 ATAATAT
1 ATAATAT
777725 AAATATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.26
22 9 0.33
23 7 0.26
24 4 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
ATAATATTATAAATATAAAAAT
Found at i:777709 original size:16 final size:16
Alignment explanation
Indices: 777683--777743 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
777673 AATAAATTAT
777683 TAATA-TATAAAAATA
1 TAATATTATAAAAATA
*
777698 TAATATTATAAATATA
1 TAATATTATAAAAATA
* * * *
777714 AAAAATAATATAAATA
1 TAATATTATAAAAATA
777730 TAA-ATTCATAAAAA
1 TAATATT-ATAAAAA
777744 AAAAATCACT
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
15 7 0.20
16 28 0.80
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
TAATATTATAAAAATA
Found at i:777720 original size:18 final size:18
Alignment explanation
Indices: 777699--777733 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
777689 ATAAAAATAT
*
777699 AATATTATAAATATAAAA
1 AATAATATAAATATAAAA
777717 AATAATATAAATATAAA
1 AATAATATAAATATAAA
777734 TTCATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AATAATATAAATATAAAA
Found at i:777724 original size:26 final size:25
Alignment explanation
Indices: 777656--777744 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 25
777646 ATACGCATCA
*
777656 AAATATACATAAAATAAAATAAATTAT
1 AAATATA-A-AAAATAATATAAATTAT
* *
777683 TAATATATAAAAAT-ATA-ATATTAT
1 AAATATA-AAAAATAATATAAATTAT
777707 AAATATAAAAAATAATATAAA-TAT
1 AAATATAAAAAATAATATAAATTAT
777731 AAATTCATAAAAAA
1 AAA-T-ATAAAAAA
777745 AAAATCACTT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
23 6 0.12
24 21 0.40
25 5 0.10
26 13 0.25
27 7 0.13
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.31
Consensus pattern (25 bp):
AAATATAAAAAATAATATAAATTAT
Found at i:777741 original size:32 final size:31
Alignment explanation
Indices: 777684--777749 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
777674 ATAAATTATT
777684 AATATATAAAAATATAATATTATAAATATAAAA
1 AATATATAAAAATATAATATTATAAA-A-AAAA
*
777717 AATA-ATATAAATATAA-ATTCATAAAAAAAA
1 AATATATAAAAATATAATATT-ATAAAAAAAA
777747 AAT
1 AAT
777750 CACTTATACC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
30 7 0.23
31 4 0.13
32 16 0.52
33 4 0.13
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (31 bp):
AATATATAAAAATATAATATTATAAAAAAAA
Found at i:778008 original size:19 final size:20
Alignment explanation
Indices: 777960--778000 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
777950 ATAAGTTAAA
*
777960 AATAAAG-ATATATTTTTTT
1 AATAAAGTAAATATTTTTTT
*
777979 AATGAAGTAAATATTTTTTT
1 AATAAAGTAAATATTTTTTT
777999 AA
1 AA
778001 AAATTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (20 bp):
AATAAAGTAAATATTTTTTT
Found at i:779335 original size:19 final size:18
Alignment explanation
Indices: 779300--779338 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
779290 ATTAAAAAAG
* *
779300 TAAATATTAATTTATTAT
1 TAAATATTAAATAATTAT
779318 TAAATAATTAAATAATTAT
1 TAAAT-ATTAAATAATTAT
779337 TA
1 TA
779339 TATTAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAATATTAAATAATTAT
Found at i:779666 original size:18 final size:18
Alignment explanation
Indices: 779626--779665 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
779616 TGTAATATAA
*
779626 ATTTTATTATTTTTGAAT
1 ATTTTATTATGTTTGAAT
779644 ATTTTATTATGTTTGAAT
1 ATTTTATTATGTTTGAAT
779662 -TTTT
1 ATTTT
779666 TTAAGGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (18 bp):
ATTTTATTATGTTTGAAT
Found at i:780543 original size:21 final size:21
Alignment explanation
Indices: 780519--780579 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
780509 TTAATCATAC
780519 TATTATAATATTTAATATTTT
1 TATTATAATATTTAATATTTT
*
780540 TATTATAATAATTAATTTTATTTT
1 TATTATAATATTTAA---TATTTT
780564 TATTATTAAT-TTTAAT
1 TATTA-TAATATTTAAT
780580 TCTACAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
21 15 0.44
24 15 0.44
25 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTATAATATTTAATATTTT
Found at i:780558 original size:18 final size:18
Alignment explanation
Indices: 780537--780577 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
780527 TATTTAATAT
780537 TTTTATTATAATAATTAA
1 TTTTATTATAATAATTAA
* * *
780555 TTTTATTTTTATTATTAA
1 TTTTATTATAATAATTAA
780573 TTTTA
1 TTTTA
780578 ATTCTACAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTATTATAATAATTAA
Found at i:780580 original size:24 final size:24
Alignment explanation
Indices: 780519--780569 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 24
780509 TTAATCATAC
*
780519 TATTATAATATTTAA---TATTTT
1 TATTATAATAATTAATTTTATTTT
780540 TATTATAATAATTAATTTTATTTT
1 TATTATAATAATTAATTTTATTTT
780564 TATTAT
1 TATTAT
780570 TAATTTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 14 0.54
24 12 0.46
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTATAATAATTAATTTTATTTT
Found at i:780900 original size:31 final size:31
Alignment explanation
Indices: 780855--780918 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
780845 TAATATGTAT
780855 TTTATTATTTAATATAAAT-ATAATTTTAATAA
1 TTTATTATTTAATATAAATAAT-A-TTTAATAA
780887 TTTATT-TTTAATATAAATAATATTTAATAA
1 TTTATTATTTAATATAAATAATATTTAATAA
780917 TT
1 TT
780919 CTGAATTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
30 10 0.32
31 13 0.42
32 8 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
TTTATTATTTAATATAAATAATATTTAATAA
Found at i:780912 original size:16 final size:15
Alignment explanation
Indices: 780860--780915 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 15
780850 TGTATTTTAT
780860 TATTTAATATAAATA
1 TATTTAATATAAATA
**
780875 TAATTTTAATA-ATTTA
1 T-A-TTTAATATAAATA
*
780891 TTTTTAATATAAATAA
1 TATTTAATATAAAT-A
780907 TATTTAATA
1 TATTTAATA
780916 ATTCTGAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
14 7 0.23
15 3 0.10
16 14 0.45
17 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATATAAATA
Found at i:781045 original size:10 final size:10
Alignment explanation
Indices: 781023--781062 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
781013 ATTTTAAATT
781023 AATTAATTTA
1 AATTAATTTA
781033 AATT-ATTTA
1 AATTAATTTA
*
781042 AA--ATTTTA
1 AATTAATTTA
781050 AATTAATTTA
1 AATTAATTTA
781060 AAT
1 AAT
781063 AAAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
8 6 0.24
9 7 0.28
10 12 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
AATTAATTTA
Found at i:781062 original size:17 final size:17
Alignment explanation
Indices: 781008--781062 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
780998 CTATTAAAAT
781008 TTTAAATTTTAAATTAA
1 TTTAAATTTTAAATTAA
781025 -TT-AA-TTTAAATT-A
1 TTTAAATTTTAAATTAA
781038 TTTAAAATTTTAAATTAA
1 TTT-AAATTTTAAATTAA
781056 TTTAAAT
1 TTTAAAT
781063 AAAAATTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
13 1 0.03
14 10 0.30
15 2 0.06
16 4 0.12
17 12 0.36
18 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAAATTTTAAATTAA
Found at i:781067 original size:23 final size:25
Alignment explanation
Indices: 781023--781077 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 25
781013 ATTTTAAATT
*
781023 AATTAATTTAAATTATTTAAAATTTTA
1 AATTAATTTAAATTA--TAAAATTTAA
781050 AATTAATTTAAA-TA-AAAATTTAA
1 AATTAATTTAAATTATAAAATTTAA
781073 AATTA
1 AATTA
781078 TGTAATTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 13 0.48
26 2 0.07
27 12 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
AATTAATTTAAATTATAAAATTTAA
Found at i:781071 original size:30 final size:30
Alignment explanation
Indices: 781003--781076 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 30
780993 AAAATCTATT
* *
781003 AAAATTTTAAATTTTAAATTAATTAATTTA
1 AAAATTTAAAATTTTAAATTAATTAATATA
*
781033 AATTATTTAAAATTTTAAATTAATTTAA-ATA
1 AA-AATTTAAAATTTTAAATTAA-TTAATATA
781064 AAAATTTAAAATT
1 AAAATTTAAAATT
781077 ATGTAATTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 12 0.32
31 22 0.58
32 4 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
AAAATTTAAAATTTTAAATTAATTAATATA
Found at i:783200 original size:1 final size:1
Alignment explanation
Indices: 783194--783220 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
783184 TCGCATAGCC
783194 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
783221 ACGATGAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:786951 original size:2 final size:2
Alignment explanation
Indices: 786944--786981 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
786934 TCTTTATTTA
786944 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
786982 TGCTTTCTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:791477 original size:23 final size:23
Alignment explanation
Indices: 791450--791527 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 23
791440 ATAAAATATA
791450 ATAAAAATATCATATGA-TAAAAT
1 ATAAAAATATCATAT-ATTAAAAT
* *
791473 ATAAATATATGATATATTAAAAT
1 ATAAAAATATCATATATTAAAAT
* * * *
791496 TTATATAATAT-AAATAATTAATAT
1 ATA-AAAATATCATAT-ATTAAAAT
791520 ATAAAAAT
1 ATAAAAAT
791528 TTATAATATT
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
22 1 0.02
23 28 0.65
24 14 0.33
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (23 bp):
ATAAAAATATCATATATTAAAAT
Found at i:791506 original size:17 final size:16
Alignment explanation
Indices: 791484--791537 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
791474 TAAATATATG
791484 ATATATTAAAATTTAT
1 ATATATTAAAATTTAT
*
791500 ATA-ATATAAATAATTA-
1 ATATAT-TAAA-ATTTAT
*
791516 ATATATAAAAATTTAT
1 ATATATTAAAATTTAT
791532 A-ATATT
1 ATATATT
791538 TTAAATATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
15 10 0.33
16 14 0.47
17 6 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATATTAAAATTTAT
Found at i:791506 original size:32 final size:32
Alignment explanation
Indices: 791466--791558 Score: 95
Period size: 32 Copynumber: 2.9 Consensus size: 32
791456 ATATCATATG
791466 ATAA-AATATAAATATATGATATATTAAAATTT
1 ATAATAATATAAATATAT-ATATATTAAAATTT
*
791498 AT-ATAATATAAATA-ATTAATATATAAAAATTT
1 ATAATAATATAAATATA-T-ATATATTAAAATTT
* *
791530 ATAATATTTTAAATATA-ATTATATTAAAA
1 ATAATAATATAAATATATA-TATATTAAAA
791559 AAATGTAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
31 3 0.06
32 37 0.73
33 10 0.20
34 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (32 bp):
ATAATAATATAAATATATATATATTAAAATTT
Found at i:791536 original size:15 final size:16
Alignment explanation
Indices: 791499--791536 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
791489 TTAAAATTTA
791499 TATAATATAAATAATT
1 TATAATATAAATAATT
*
791515 AAT-ATATAAA-AATT
1 TATAATATAAATAATT
791529 TATAATAT
1 TATAATAT
791537 TTTAAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
14 6 0.32
15 11 0.58
16 2 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TATAATATAAATAATT
Found at i:792874 original size:49 final size:49
Alignment explanation
Indices: 792793--793230 Score: 396
Period size: 49 Copynumber: 8.9 Consensus size: 49
792783 GAATTTTGCT
* * * *
792793 TAATTTAATTTTTCATCC-ATTTATGGCCATTGGAATGTGTTTGATTGTA
1 TAATTTAGTTTCTCATCCGA-TTATCGCCATTGGAATGTGTATGATTGTA
* ** * *
792842 TAATTTAGTTTCTCATCCAATTATCGTGATTGGAATGTGTGTGACTGTA
1 TAATTTAGTTTCTCATCCGATTATCGCCATTGGAATGTGTATGATTGTA
* * **** *
792891 TAATTTAGTTTCTCATCTGATTATCACTGCCGGGATGTGTATGACTT-TA
1 TAATTTAGTTTCTCATCCGATTATCGCCATTGGAATGTGTATGA-TTGTA
* ** **
792940 TAATTTAGTTACTCATTGGATTATCGCCATTGGAATGCATATGATTGTA
1 TAATTTAGTTTCTCATCCGATTATCGCCATTGGAATGTGTATGATTGTA
* ** * *
792989 TACTTTTTTTTCTCATCCGATTATTGCCATTGGAACGTGTATGATTGTA
1 TAATTTAGTTTCTCATCCGATTATCGCCATTGGAATGTGTATGATTGTA
* ** * ** * *
793038 TAATTTAGTTACTTGTCGGATTATCGCCATTTTAATGAGTGTGATTGTA
1 TAATTTAGTTTCTCATCCGATTATCGCCATTGGAATGTGTATGATTGTA
* * * *
793087 TAATTTAGTTACTCATCGGATTATTGCCATCGGAATGTGTATGATTGTA
1 TAATTTAGTTTCTCATCCGATTATCGCCATTGGAATGTGTATGATTGTA
* * ** * * *
793136 TAATTTACTTTCTCATCTGATTATCGCCATCCGAATGTTTATGATAGTG
1 TAATTTAGTTTCTCATCCGATTATCGCCATTGGAATGTGTATGATTGTA
* **
793185 TAATTTGGTTTCTCATCTAATTAT-GACCATTGGAATGTGTATGATT
1 TAATTTAGTTTCTCATCCGATTATCG-CCATTGGAATGTGTATGATT
793231 TTATTTGAAT
Statistics
Matches: 310, Mismatches: 75, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
48 3 0.01
49 305 0.98
50 2 0.01
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (49 bp):
TAATTTAGTTTCTCATCCGATTATCGCCATTGGAATGTGTATGATTGTA
Found at i:795115 original size:21 final size:21
Alignment explanation
Indices: 795091--795130 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
795081 AAAAGATGAC
795091 ATTTAAAAAATTATAATTTAA
1 ATTTAAAAAATTATAATTTAA
* * *
795112 ATTTTAATATTTATAATTT
1 ATTTAAAAAATTATAATTT
795131 TTTTATTCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTAAAAAATTATAATTTAA
Found at i:795321 original size:2 final size:2
Alignment explanation
Indices: 795314--795342 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
795304 TAATAAATAA
795314 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
795343 AATTTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:823160 original size:2 final size:2
Alignment explanation
Indices: 823155--823190 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
823145 TCTCTCTCTC
*
823155 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
823191 CCTTTGTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:824398 original size:16 final size:16
Alignment explanation
Indices: 824379--824421 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
824369 TAATAATTTT
824379 TCATATATTTAAAAAA
1 TCATATATTTAAAAAA
*
824395 TCATATATTTAAAAGA
1 TCATATATTTAAAAAA
*
824411 TCATATTTTTA
1 TCATATATTTA
824422 TATTCATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (16 bp):
TCATATATTTAAAAAA
Found at i:829956 original size:30 final size:29
Alignment explanation
Indices: 829838--829961 Score: 96
Period size: 30 Copynumber: 4.2 Consensus size: 29
829828 TATTTAAGTG
829838 AATCTTATAA-TTTTA-TTATACTCAAAT-
1 AATCTT-TAATTTTTATTTATACTCAAATA
* * *
829865 AAGCTTTTAATTTTTATTTTAAAGCT-AAACA
1 AATC-TTTAATTTTTA-TTTATA-CTCAAATA
* *
829896 AATCTTTAGTTTTTATTTTTA-TCCAAATA
1 AATCTTTAATTTTTATTTATACT-CAAATA
*
829925 AATCTTTAATTTTTAATTTATACTTAAATA
1 AATCTTTAATTTTT-ATTTATACTCAAATA
829955 AACTCTT
1 AA-TCTT
829962 AACTTCAAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
27 7 0.09
28 7 0.09
29 21 0.28
30 30 0.40
31 10 0.13
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.50
Consensus pattern (29 bp):
AATCTTTAATTTTTATTTATACTCAAATA
Found at i:830028 original size:29 final size:30
Alignment explanation
Indices: 829983--830063 Score: 87
Period size: 29 Copynumber: 2.7 Consensus size: 30
829973 ATTTTTATTT
* * *
829983 AATATAAAAACTAATTTAAATATAAAT-TAA
1 AATATAAAAATTTATTTAAATAT-AATGAAA
830013 AA-ATAAAAATTTATTTTAAA-ATAATGAAA
1 AATATAAAAATTTA-TTTAAATATAATGAAA
*
830042 AATATAAAAATTTACTTAAATA
1 AATATAAAAATTTATTTAAATA
830064 AATTTGTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
28 3 0.07
29 20 0.47
30 20 0.47
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (30 bp):
AATATAAAAATTTATTTAAATATAATGAAA
Found at i:830324 original size:25 final size:25
Alignment explanation
Indices: 830259--830324 Score: 71
Period size: 28 Copynumber: 2.5 Consensus size: 25
830249 TACTTTTTAA
*
830259 AATTATTATATATAATAAAAATTTT
1 AATTATTATAAATAATAAAAATTTT
*
830284 AATTAATACATAAAATAATAAAAAATTTT
1 AATT-AT-TAT-AAATAAT-AAAAATTTT
830313 -ATTATTATAAAT
1 AATTATTATAAAT
830325 GATTACGGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
25 8 0.24
26 4 0.12
27 4 0.12
28 9 0.26
29 9 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
AATTATTATAAATAATAAAAATTTT
Found at i:830865 original size:17 final size:17
Alignment explanation
Indices: 830843--830879 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
830833 ATATTTAATG
830843 AATATTTAAAATTT-TTA
1 AATATTT-AAATTTATTA
830860 AATATTTAAATTTATTA
1 AATATTTAAATTTATTA
830877 AAT
1 AAT
830880 TTATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATATTTAAATTTATTA
Found at i:830951 original size:13 final size:14
Alignment explanation
Indices: 830916--830944 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
830906 AAAATGTAAA
830916 TAAATA-TTAAATT
1 TAAATATTTAAATT
830929 TAAATATTTAAATT
1 TAAATATTTAAATT
830943 TA
1 TA
830945 TTATTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAATATTTAAATT
Found at i:830975 original size:15 final size:13
Alignment explanation
Indices: 830954--830987 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
830944 ATTATTTATA
830954 TAAATAAAAAAGAT
1 TAAATAAAAAA-AT
830968 TGAAATAAAAAAAT
1 T-AAATAAAAAAAT
830982 TAAATA
1 TAAATA
830988 TTTAATATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 4 0.21
15 10 0.53
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (13 bp):
TAAATAAAAAAAT
Found at i:831819 original size:2 final size:2
Alignment explanation
Indices: 831812--831838 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
831802 CAGTATTCAA
831812 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
831839 AAGATTCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:833219 original size:22 final size:22
Alignment explanation
Indices: 833194--833239 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
833184 AATTTTTAAA
* *
833194 AAATTAAATTAATATTAATTAT
1 AAATTAAATAAATATTAAATAT
*
833216 AAATTTAATAAATATTAAATAT
1 AAATTAAATAAATATTAAATAT
833238 AA
1 AA
833240 TTATTCGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAATTAAATAAATATTAAATAT
Found at i:833287 original size:32 final size:32
Alignment explanation
Indices: 833207--833291 Score: 91
Period size: 32 Copynumber: 2.7 Consensus size: 32
833197 TTAAATTAAT
* * * *
833207 ATTAATTATAAATTTAATAAATATTAAATATA
1 ATTATTTATAAATTTGATGAATAGTAAATATA
** *
833239 ATTATTCGTAAATTTGATGAATAGTAGATATA
1 ATTATTTATAAATTTGATGAATAGTAAATATA
*
833271 ATTATTTATAACTTTGA-GAAT
1 ATTATTTATAAATTTGATGAAT
833292 CATTAATAAG
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
31 4 0.09
32 39 0.91
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (32 bp):
ATTATTTATAAATTTGATGAATAGTAAATATA
Found at i:835053 original size:2 final size:2
Alignment explanation
Indices: 835040--835078 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
835030 AAGTTTGGTC
*
835040 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
835079 TCTTTTTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:848646 original size:21 final size:22
Alignment explanation
Indices: 848602--848656 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
848592 AACTTATTTT
**
848602 ATAATTATATATTATATATTAA
1 ATAATTATATATTATATACAAA
*
848624 ATAATT-TTTATTATATACAAA
1 ATAATTATATATTATATACAAA
*
848645 ATATATAATATA
1 ATA-ATTATATA
848657 ATAATATAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 15 0.58
22 8 0.31
23 3 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAATTATATATTATATACAAA
Found at i:848733 original size:10 final size:10
Alignment explanation
Indices: 848706--848778 Score: 53
Period size: 10 Copynumber: 7.3 Consensus size: 10
848696 AAAATTATAA
*
848706 AAATATATTT
1 AAATAAATTT
848716 -AA-AAATTT
1 AAATAAATTT
848724 AAATAAATTT
1 AAATAAATTT
*
848734 AAAT-TATTT
1 AAATAAATTT
* *
848743 ATTTATAAATAT
1 A--AATAAATTT
*
848755 AAATAAATAT
1 AAATAAATTT
848765 AAATAAAATTT
1 AAAT-AAATTT
848776 AAA
1 AAA
848779 ATATATACTT
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
8 5 0.10
9 9 0.18
10 22 0.44
11 10 0.20
12 4 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AAATAAATTT
Found at i:848763 original size:53 final size:54
Alignment explanation
Indices: 848642--848784 Score: 149
Period size: 53 Copynumber: 2.7 Consensus size: 54
848632 TATTATATAC
*
848642 AAAATATATAATATAATA-ATATAAATA-TTAAAAAATATTAAATTATTTAAAATT
1 AAAATATATAATA-AATATATATAAAAATTTAAAAAATATTAAATTATTT-AAATT
* *
848696 AAAAT-TATAA-AAATATATTTAAAAATTTAAATAAAT-TTAAATTATTT-ATTT
1 AAAATATATAATAAATATATATAAAAATTTAAA-AAATATTAAATTATTTAAATT
* *
848747 ATAAATATA-AATAAATATAAAT-AAAATTTAAAATATAT
1 A-AAATATATAATAAATATATATAAAAATTTAAAAAATAT
848785 ACTTTAAATT
Statistics
Matches: 76, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
51 11 0.14
52 25 0.33
53 31 0.41
54 9 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (54 bp):
AAAATATATAATAAATATATATAAAAATTTAAAAAATATTAAATTATTTAAATT
Found at i:848793 original size:41 final size:42
Alignment explanation
Indices: 848718--848812 Score: 115
Period size: 41 Copynumber: 2.3 Consensus size: 42
848708 ATATATTTAA
* * *
848718 AAATTTAAAT-AAATTTAAATTATTTATTTATAAATATAAA-T
1 AAATTTAAATAAAATTTAAAATATATACTTATAAAT-TAAATT
*
848759 AAATATAAATAAAATTTAAAATATATACTT-TAAATTAAATT
1 AAATTTAAATAAAATTTAAAATATATACTTATAAATTAAATT
*
848800 AAATTTTAATAAA
1 AAATTTAAATAAA
848813 TATAAATAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 4 0.09
41 26 0.57
42 16 0.35
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (42 bp):
AAATTTAAATAAAATTTAAAATATATACTTATAAATTAAATT
Found at i:848820 original size:10 final size:10
Alignment explanation
Indices: 848747--848821 Score: 55
Period size: 10 Copynumber: 7.4 Consensus size: 10
848737 TTATTTATTT
848747 ATAAATATAA
1 ATAAATATAA
848757 ATAAATATAA
1 ATAAATATAA
*
848767 ATAAAATTTAA
1 AT-AAATATAA
* *
848778 A-ATATATACT
1 ATAAATATA-A
*
848788 TTAAAT-TAA
1 ATAAATATAA
* *
848797 ATTAAATTTTA
1 A-TAAATATAA
848808 ATAAATATAA
1 ATAAATATAA
848818 ATAA
1 ATAA
848822 TATTAATATT
Statistics
Matches: 49, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.10
10 30 0.61
11 14 0.29
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (10 bp):
ATAAATATAA
Found at i:848827 original size:31 final size:29
Alignment explanation
Indices: 848713--848832 Score: 98
Period size: 31 Copynumber: 3.9 Consensus size: 29
848703 TAAAAATATA
* **
848713 TTTAAAAATTTAAATAAATTTAAATTATTT
1 TTTAAAAATATAAATAAA-TTAAATTAAAT
* *
848743 ATTTATAAATATAAATAAATATAAA-TAAAA
1 -TTTAAAAATATAAATAAAT-TAAATTAAAT
**
848773 TTTAAAATATATACTTTAAATTAAATTAAAT
1 TTTAAAA-ATATA-AATAAATTAAATTAAAT
848804 TTTAATAAATATAAATAATATTAATATTA
1 TTTAA-AAATATAAATAA-ATTAA-ATTA
848833 TATTATTATA
Statistics
Matches: 71, Mismatches: 11, Indels: 13
0.75 0.12 0.14
Matches are distributed among these distances:
29 6 0.08
30 15 0.21
31 44 0.62
32 6 0.08
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (29 bp):
TTTAAAAATATAAATAAATTAAATTAAAT
Found at i:849659 original size:50 final size:50
Alignment explanation
Indices: 849530--849749 Score: 287
Period size: 50 Copynumber: 4.4 Consensus size: 50
849520 ATGGTCACAT
* * * *
849530 TTGTTAAAGGTTGGTGAAGAATCGTCAACAATAATGGCCACCTCCCTCAA
1 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGACCACCTCTCTCTA
* * **
849580 TTTATCAAAGGTTGGTGAAGAATCGTCAACAATTATGACCATTTCTCTCTA
1 -TTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGACCACCTCTCTCTA
* *
849631 TTGTCAAAAGTTGGTGAAGAATCGTCAACAATAATGACCACCTCTTTCTA
1 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGACCACCTCTCTCTA
* * * * *
849681 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATTACGATCATCTTTCTCTA
1 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGACCACCTCTCTCTA
*
849731 TTGTCAAAGGTTGATGAAG
1 TTGTCAAAGGTTGGTGAAG
849750 GATAATCAAC
Statistics
Matches: 147, Mismatches: 22, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 105 0.71
51 42 0.29
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (50 bp):
TTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGACCACCTCTCTCTA
Found at i:849762 original size:100 final size:101
Alignment explanation
Indices: 849530--849749 Score: 327
Period size: 100 Copynumber: 2.2 Consensus size: 101
849520 ATGGTCACAT
* *
849530 TTGTTAAAGGTTGGTGAAGAATCGTCAACAATAATGGCCACCTCCCTCAATTTATCAAAGGTTGG
1 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGACCACCTCCCTCAATTTATCAAAGGTTGG
*
849595 TGAAGAATCGTCAACAATTATGACCATTTCTCTCTA
66 TGAAGAATCGTCAACAATTACGACCATTTCTCTCTA
* ** * *
849631 TTGTCAAAAGTTGGTGAAGAATCGTCAACAATAATGACCACCTCTTTCTA-TTGTCAAAGGTTGG
1 TTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGACCACCTCCCTCAATTTATCAAAGGTTGG
*
849695 TGAAGAATCGTCAACAATTACGATCATCTT-TCTCTA
66 TGAAGAATCGTCAACAATTACGACCAT-TTCTCTCTA
*
849731 TTGTCAAAGGTTGATGAAG
1 TTGTCAAAGGTTGGTGAAG
849750 GATAATCAAC
Statistics
Matches: 107, Mismatches: 11, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
100 61 0.57
101 46 0.43
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (101 bp):
TTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGACCACCTCCCTCAATTTATCAAAGGTTGG
TGAAGAATCGTCAACAATTACGACCATTTCTCTCTA
Found at i:849897 original size:25 final size:23
Alignment explanation
Indices: 849803--849909 Score: 87
Period size: 23 Copynumber: 4.7 Consensus size: 23
849793 CTAACTAAAT
*
849803 TAAATAA-ATAATATATTTATAA
1 TAAATAATAAAATATATTTATAA
* *
849825 TAAATAATTAAATATATTTGATTA
1 TAAATAATAAAATATATTT-ATAA
** * *
849849 -AAAT-AT-ATGTGTATATATAA
1 TAAATAATAAAATATATTTATAA
*
849869 TAAATAATTAAGAATATATTTATAT
1 TAAATAA-TAA-AATATATTTATAA
849894 TAAATAATAAAATATA
1 TAAATAATAAAATATA
849910 AATAAAATTA
Statistics
Matches: 65, Mismatches: 13, Indels: 13
0.71 0.14 0.14
Matches are distributed among these distances:
20 3 0.05
21 10 0.15
22 10 0.15
23 20 0.31
24 7 0.11
25 15 0.23
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (23 bp):
TAAATAATAAAATATATTTATAA
Found at i:849909 original size:44 final size:43
Alignment explanation
Indices: 849801--849915 Score: 101
Period size: 44 Copynumber: 2.6 Consensus size: 43
849791 CACTAACTAA
*
849801 ATTAAATAAATAATATATTTATAATAAATAATTAAATATATTTGAT
1 ATTAAAT-AATAA-A-ATATATAATAAATAATTAAATATATTTGAT
* ***
849847 -TAAAATATATGTGTATATATAATAAATAATTAAGAATATATTT-AT
1 ATTAAATA-AT-AAAATATATAATAAATAATT-A-AATATATTTGAT
849892 ATTAAATAATAAAATATA-AATAAA
1 ATTAAATAATAAAATATATAATAAA
849916 ATTATATTTG
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
43 6 0.11
44 22 0.40
45 12 0.22
46 15 0.27
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (43 bp):
ATTAAATAATAAAATATATAATAAATAATTAAATATATTTGAT
Found at i:849987 original size:38 final size:38
Alignment explanation
Indices: 849932--850008 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 38
849922 TTTGTGTTGA
849932 TAAAATTATATTAATATTAAATAATAATTAAAAATTAT
1 TAAAATTATATTAATATTAAATAATAATTAAAAATTAT
* *
849970 TAAAA-TATCATTTATATTAAATAATAATTAACAATTAT
1 TAAAATTAT-ATTAATATTAAATAATAATTAAAAATTAT
850008 T
1 T
850009 TACAGGGATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 3 0.08
38 33 0.92
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.43
Consensus pattern (38 bp):
TAAAATTATATTAATATTAAATAATAATTAAAAATTAT
Found at i:850369 original size:133 final size:133
Alignment explanation
Indices: 850131--850431 Score: 602
Period size: 133 Copynumber: 2.3 Consensus size: 133
850121 ACAGTTAACC
850131 AACTGAACCCTTGGGTGGTGGACAAAACTCATCTTGCTGGGGTGTGTCCAGTAGAGGTGAGTACC
1 AACTGAACCCTTGGGTGGTGGACAAAACTCATCTTGCTGGGGTGTGTCCAGTAGAGGTGAGTACC
850196 GGGGGAGGGGATTTTTCCCCCCAACTTTACACTTTGGTCTCATCTTACTGATGAGTACCGGGGGA
66 GGGGGAGGGGATTTTTCCCCCCAACTTTACACTTTGGTCTCATCTTACTGATGAGTACCGGGGGA
850261 CAA
131 CAA
850264 AACTGAACCCTTGGGTGGTGGACAAAACTCATCTTGCTGGGGTGTGTCCAGTAGAGGTGAGTACC
1 AACTGAACCCTTGGGTGGTGGACAAAACTCATCTTGCTGGGGTGTGTCCAGTAGAGGTGAGTACC
850329 GGGGGAGGGGATTTTTCCCCCCAACTTTACACTTTGGTCTCATCTTACTGATGAGTACCGGGGGA
66 GGGGGAGGGGATTTTTCCCCCCAACTTTACACTTTGGTCTCATCTTACTGATGAGTACCGGGGGA
850394 CAA
131 CAA
850397 AACTGAACCCTTGGGTGGTGGACAAAACTCATCTT
1 AACTGAACCCTTGGGTGGTGGACAAAACTCATCTT
850432 ACTGATGAGT
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
133 168 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (133 bp):
AACTGAACCCTTGGGTGGTGGACAAAACTCATCTTGCTGGGGTGTGTCCAGTAGAGGTGAGTACC
GGGGGAGGGGATTTTTCCCCCCAACTTTACACTTTGGTCTCATCTTACTGATGAGTACCGGGGGA
CAA
Found at i:850437 original size:57 final size:57
Alignment explanation
Indices: 850367--850480 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
850357 ACACTTTGGT
850367 CTCATCTTACTGATGAGTACCGGGGGACAAAACTGAACCCTTGGGTGGTGGACAAAA
1 CTCATCTTACTGATGAGTACCGGGGGACAAAACTGAACCCTTGGGTGGTGGACAAAA
*
850424 CTCATCTTACTGATGAGTACCGGGGGACAAAACTGAACCCTTGGGTGGTGGATAAAA
1 CTCATCTTACTGATGAGTACCGGGGGACAAAACTGAACCCTTGGGTGGTGGACAAAA
850481 GGGAATTTCT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (57 bp):
CTCATCTTACTGATGAGTACCGGGGGACAAAACTGAACCCTTGGGTGGTGGACAAAA
Found at i:855603 original size:3 final size:3
Alignment explanation
Indices: 855597--855629 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
855587 CAAAGGAAAG
855597 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
855630 AAAGCTGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:864339 original size:15 final size:15
Alignment explanation
Indices: 864319--864349 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
864309 GAAATACAGT
864319 GAAAAATATTAAAAG
1 GAAAAATATTAAAAG
*
864334 GAAAAATATTACAAG
1 GAAAAATATTAAAAG
864349 G
1 G
864350 GGAATCCGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.03, G:0.16, T:0.19
Consensus pattern (15 bp):
GAAAAATATTAAAAG
Found at i:866064 original size:5 final size:5
Alignment explanation
Indices: 866050--866078 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
866040 TTGACCTTGC
866050 TTTT- TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
866079 ATAATTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:866933 original size:26 final size:26
Alignment explanation
Indices: 866904--866955 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
866894 AATATTATAT
*
866904 ATTTTTAAATTAT-TATATAAATAAAA
1 ATTTATAAATTATGTATA-AAATAAAA
*
866930 ATTTATATATTATGTATAAAATAAAA
1 ATTTATAAATTATGTATAAAATAAAA
866956 TTAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
ATTTATAAATTATGTATAAAATAAAA
Found at i:867991 original size:22 final size:24
Alignment explanation
Indices: 867945--867991 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
867935 ATCAATTCGT
867945 AAATGATGAAAATTATTATTATAAA
1 AAATGATGAAAATTA-TATTATAAA
*
867970 AAATGATTAAAATTA-ATT-TAAA
1 AAATGATGAAAATTATATTATAAA
867992 TAATAATAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 3 0.14
25 14 0.67
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (24 bp):
AAATGATGAAAATTATATTATAAA
Found at i:869126 original size:14 final size:14
Alignment explanation
Indices: 869107--869150 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
869097 TATAGTTAAT
*
869107 ATTTAATTATATAA
1 ATTTAATTATATTA
*
869121 ATTTAAATATATTA
1 ATTTAATTATATTA
*
869135 A-GTAATTATATTA
1 ATTTAATTATATTA
869148 ATT
1 ATT
869151 AATATAATAG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
ATTTAATTATATTA
Found at i:869658 original size:18 final size:18
Alignment explanation
Indices: 869620--869652 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
869610 ATAAATATAT
869620 ATTTATATTTTTATAATA
1 ATTTATATTTTTATAATA
869638 ATTT-TATTTTT-TAAT
1 ATTTATATTTTTATAAT
869653 TAAATTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTATATTTTTATAATA
Found at i:872776 original size:17 final size:17
Alignment explanation
Indices: 872754--872803 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
872744 TTGATTCACA
872754 AATTTTTTATATTATAT
1 AATTTTTTATATTATAT
**
872771 AATTTTAAATATT-TAT
1 AATTTTTTATATTATAT
*
872787 GATATTTTT-TATTATAT
1 AAT-TTTTTATATTATAT
872804 TATATTTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
AATTTTTTATATTATAT
Found at i:872803 original size:21 final size:21
Alignment explanation
Indices: 872763--872838 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 21
872753 AAATTTTTTA
*
872763 TATTATATAATTTTA-AATATT
1 TATTATAT-TTTTTATAATATT
* *
872784 TATGATATTTTTTATTATATT
1 TATTATATTTTTTATAATATT
*
872805 ATATTTTAATTTTTTTATAATATT
1 -TATTAT-A-TTTTTTATAATATT
872829 TATTATATTT
1 TATTATATTT
872839 AAGGTTATTA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
20 5 0.11
21 15 0.34
22 5 0.11
23 6 0.14
24 13 0.30
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (21 bp):
TATTATATTTTTTATAATATT
Found at i:872828 original size:36 final size:33
Alignment explanation
Indices: 872757--872834 Score: 84
Period size: 36 Copynumber: 2.2 Consensus size: 33
872747 ATTCACAAAT
*
872757 TTTTTATATTATATAATTTTAAATATTTATGATA
1 TTTTT-TATTATATAATTTTAAATATTTATAATA
* *
872791 TTTTTTATTATATTATATTTTAATTTTTTTATAATA
1 TTTTTTATTATA-TA-ATTTTAA-ATATTTATAATA
*
872827 TTTATTAT
1 TTTTTTAT
872835 ATTTAAGGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 7 0.19
34 7 0.19
35 7 0.19
36 16 0.43
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (33 bp):
TTTTTTATTATATAATTTTAAATATTTATAATA
Found at i:873422 original size:15 final size:15
Alignment explanation
Indices: 873399--873437 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
873389 AGGGTATATG
*
873399 AATATAATATAAAAA
1 AATAAAATATAAAAA
*
873414 AATAAAATATAATAA
1 AATAAAATATAAAAA
*
873429 GATAAAATA
1 AATAAAATA
873438 ATTATATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
AATAAAATATAAAAA
Found at i:873544 original size:11 final size:11
Alignment explanation
Indices: 873526--873573 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
873516 TAAAATATTT
873526 TAAATATAAT-
1 TAAATATAATA
873536 TATAATAT-A-A
1 TA-AATATAATA
873546 TAAA-AT-ATA
1 TAAATATAATA
873555 TAAATATAATA
1 TAAATATAATA
873566 TAAATATA
1 TAAATATA
873574 TGAATTATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
8 3 0.09
9 7 0.21
10 7 0.21
11 16 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAATATAATA
Found at i:873564 original size:29 final size:30
Alignment explanation
Indices: 873514--873573 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
873504 AAAATTTATA
*
873514 AATAAAATATTTTAAATATAAT-TATAATAT
1 AATAAAATATTATAAATATAATATA-AATAT
873544 AATAAAATA-TATAAATATAATATAAATAT
1 AATAAAATATTATAAATATAATATAAATAT
873573 A
1 A
873574 TGAATTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (30 bp):
AATAAAATATTATAAATATAATATAAATAT
Found at i:874376 original size:11 final size:11
Alignment explanation
Indices: 874362--874418 Score: 53
Period size: 11 Copynumber: 4.9 Consensus size: 11
874352 TTAATATAAT
874362 TAATTTTTTAA
1 TAATTTTTTAA
*
874373 TAATTTATT-A
1 TAATTTTTTAA
*
874383 TATATATTTTAA
1 TA-ATTTTTTAA
874395 TTTAATATTTTTAA
1 --TAAT-TTTTTAA
874409 TAATTTTTTA
1 TAATTTTTTA
874419 TTTTCCTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
10 3 0.08
11 19 0.51
12 5 0.14
13 2 0.05
14 8 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TAATTTTTTAA
Found at i:874392 original size:39 final size:35
Alignment explanation
Indices: 874344--874419 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 35
874334 ATTTGACATA
874344 ATATAATTTTAATATAATTAATTTTTTAATAATTTATT
1 ATATAATTTTAATATAA-T-A-TTTTTAATAATTTATT
* *
874382 ATATATATTTTAATTTAATATTTTTAATAATTTTTT
1 ATATA-ATTTTAATATAATATTTTTAATAATTTATT
874418 AT
1 AT
874420 TTTCCTATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 17 0.49
37 1 0.03
38 6 0.17
39 11 0.31
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (35 bp):
ATATAATTTTAATATAATATTTTTAATAATTTATT
Found at i:874790 original size:13 final size:14
Alignment explanation
Indices: 874761--874804 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
874751 TAAATTTATA
874761 AAAATAATATATTT
1 AAAATAATATATTT
*
874775 AAAATAAT-TTTTT
1 AAAATAATATATTT
874788 AAAACTAA-ATATTT
1 AAAA-TAATATATTT
874802 AAA
1 AAA
874805 TAAATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATAATATATTT
Found at i:874791 original size:27 final size:26
Alignment explanation
Indices: 874751--874812 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 26
874741 TATTTTTTAT
* *
874751 TAAATTTATAAAAATAATATATTTAAAA
1 TAAATTTTTAAAACTAA-ATATTT-AAA
*
874779 TAATTTTTTAAAACTAAATATTTAAA
1 TAAATTTTTAAAACTAAATATTTAAA
874805 TAAATTTT
1 TAAATTTT
874813 AATTAATATC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (26 bp):
TAAATTTTTAAAACTAAATATTTAAA
Found at i:877682 original size:2 final size:2
Alignment explanation
Indices: 877675--877706 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
877665 TTAAACCATT
877675 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
877707 GAGAGAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:877711 original size:2 final size:2
Alignment explanation
Indices: 877706--877731 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
877696 ATATATATAT
877706 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
877732 TTTTTAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:880629 original size:14 final size:13
Alignment explanation
Indices: 880587--880625 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 13
880577 TTATTTATTT
880587 TTTAAAATAATTATA
1 TTTAAAA-AA-TATA
880602 TTTAAAAAATATA
1 TTTAAAAAATATA
880615 TTTAAAAAATA
1 TTTAAAAAATA
880626 ATATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 15 0.62
14 2 0.08
15 7 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TTTAAAAAATATA
Found at i:880858 original size:20 final size:19
Alignment explanation
Indices: 880822--880860 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
880812 TCACCGTCCA
*
880822 AGTTTTTATAAATTTAAAT
1 AGTTTTTATAAACTTAAAT
*
880841 AGTTTTTATTCAACTTAAAT
1 AGTTTTTA-TAAACTTAAAT
880861 TATTATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (19 bp):
AGTTTTTATAAACTTAAAT
Found at i:881397 original size:19 final size:19
Alignment explanation
Indices: 881375--881454 Score: 60
Period size: 20 Copynumber: 4.3 Consensus size: 19
881365 ATATTAAAAA
881375 ATTAA-AATAATTATTTTAT
1 ATTAATAATAA-TATTTTAT
* *
881394 ATTAATATTAATATTTTTT
1 ATTAATAATAATATTTTAT
* * *
881413 ATTATTTAATAATAATTTAA
1 ATTA-ATAATAATATTTTAT
881433 ATTAATTAA-AA-ATTTTAT
1 ATTAA-TAATAATATTTTAT
881451 -TTAA
1 ATTAA
881455 AATTTAATTT
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
17 4 0.08
18 5 0.10
19 18 0.38
20 21 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTAATAATAATATTTTAT
Found at i:881458 original size:12 final size:12
Alignment explanation
Indices: 881425--881465 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
881415 TATTTAATAA
881425 TAATTT-AAA-T
1 TAATTTAAAATT
*
881435 TAATTAAAAATT
1 TAATTTAAAATT
*
881447 TTATTTAAAATT
1 TAATTTAAAATT
881459 TAATTTA
1 TAATTTA
881466 TATGAATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 5 0.20
11 3 0.12
12 17 0.68
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TAATTTAAAATT
Found at i:881474 original size:34 final size:35
Alignment explanation
Indices: 881425--881512 Score: 90
Period size: 34 Copynumber: 2.5 Consensus size: 35
881415 TATTTAATAA
* * **
881425 TAATTTAAATTAATTAAAAATT-TTATTTAAAATT
1 TAATTTATATGAATTAAAAATTATTAAATAAAATT
*
881459 TAATTTATATGAATT-AAATTTATTAAATAAAATT
1 TAATTTATATGAATTAAAAATTATTAAATAAAATT
*
881493 TAATTATTTATCGAATTAAA
1 TAATT-TATAT-GAATTAAA
881513 TAGATAGCGC
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
33 5 0.11
34 28 0.64
35 4 0.09
36 5 0.11
37 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (35 bp):
TAATTTATATGAATTAAAAATTATTAAATAAAATT
Found at i:885782 original size:4 final size:4
Alignment explanation
Indices: 885768--885797 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
885758 GGATTAAGGG
885768 ATTA GATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA -ATTA ATTA ATTA ATTA ATTA ATTA A
885798 AATAAAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:886031 original size:17 final size:19
Alignment explanation
Indices: 886009--886043 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
885999 ATATATTTAA
886009 ATAT-AAATT-TTTTAAAT
1 ATATAAAATTATTTTAAAT
886026 ATATAAAATTATTTTAAA
1 ATATAAAATTATTTTAAA
886044 CAAATTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 5 0.31
19 7 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATAAAATTATTTTAAAT
Found at i:886520 original size:24 final size:24
Alignment explanation
Indices: 886493--886539 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
886483 AATTTGATAA
*
886493 TTTATGTATATATATATTTTTATT
1 TTTATATATATATATATTTTTATT
*
886517 TTTATATATATTTATATTTTTAT
1 TTTATATATATATATATTTTTAT
886540 ATAAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTATATATATATATATTTTTATT
Found at i:886522 original size:18 final size:18
Alignment explanation
Indices: 886501--886542 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
886491 AATTTATGTA
*
886501 TATATATATTTTTATTTT
1 TATATATATTTATATTTT
886519 TATATATATTTATATTTT
1 TATATATATTTATATTTT
886537 TATATA
1 TATATA
886543 AATAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATATATATTTATATTTT
Found at i:886610 original size:14 final size:14
Alignment explanation
Indices: 886591--886658 Score: 55
Period size: 14 Copynumber: 4.5 Consensus size: 14
886581 ATAGAATAAG
*
886591 TATATTAAATTTAT
1 TATATTAAATATAT
*
886605 TATATTAAGTATGTTAAT
1 TATATTAA--AT-AT-AT
886623 TATATTTAAATATAT
1 TATA-TTAAATATAT
* *
886638 TATTTTATATATAT
1 TATATTAAATATAT
886652 TATATTA
1 TATATTA
886659 TTTTTATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
14 23 0.51
15 5 0.11
16 3 0.07
17 4 0.09
18 6 0.13
19 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TATATTAAATATAT
Found at i:887049 original size:5 final size:5
Alignment explanation
Indices: 887039--887091 Score: 51
Period size: 5 Copynumber: 11.2 Consensus size: 5
887029 AAATAATTAA
* *
887039 AATAT AATAT AATAT TATAT -A-AT AATATT AATAT ATTA- AATAT -ATAT
1 AATAT AATAT AATAT AATAT AATAT AATA-T AATAT AATAT AATAT AATAT
887086 AATAT A
1 AATAT A
887092 TATTAGTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
3 2 0.05
4 9 0.22
5 24 0.60
6 5 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
AATAT
Found at i:887056 original size:37 final size:37
Alignment explanation
Indices: 887015--887094 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
887005 ATACGTTATA
*
887015 ATTATATAAT-TTAAAAATA-ATTAAAATATAATATAAT
1 ATTATATAATAATAAAAATATATT-AAATAT-ATATAAT
**
887052 ATTATATAATAATATTAATATATTAAATATATATAAT
1 ATTATATAATAATAAAAATATATTAAATATATATAAT
887089 A-TATAT
1 ATTATAT
887095 TAGTAATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
36 5 0.13
37 18 0.47
38 12 0.32
39 3 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (37 bp):
ATTATATAATAATAAAAATATATTAAATATATATAAT
Found at i:887062 original size:29 final size:29
Alignment explanation
Indices: 887018--887176 Score: 75
Period size: 27 Copynumber: 5.4 Consensus size: 29
887008 CGTTATAATT
*
887018 ATATAAT-TTA-AAAATAAT-TAAAATATA
1 ATATAATATTATATAATAATAT-AAATATA
*
887045 ATATAATATTATATAATAATATTAATATA
1 ATATAATATTATATAATAATATAAATATA
*
887074 TTA-AATA-TATATAATATATATTAGTAATATA
1 ATATAATATTATATAATA-ATA-TA--AATATA
* * *
887105 TTA-AATTTTATATGAAT-ATAT-AATATT
1 ATATAATATTATAT-AATAATATAAATATA
* * *
887132 TTA-AATATTATTATACTATATAAAAATATAA
1 ATATAATATTA-TATAATA-ATATAAATAT-A
*
887163 ATATATAAATTATA
1 ATATA-ATATTATA
887177 ATAAACGCAC
Statistics
Matches: 104, Mismatches: 12, Indels: 27
0.73 0.08 0.19
Matches are distributed among these distances:
27 32 0.31
28 13 0.12
29 19 0.18
30 7 0.07
31 17 0.16
32 8 0.08
33 8 0.08
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (29 bp):
ATATAATATTATATAATAATATAAATATA
Found at i:887063 original size:13 final size:13
Alignment explanation
Indices: 887047--887096 Score: 57
Period size: 13 Copynumber: 3.7 Consensus size: 13
887037 AAAATATAAT
887047 ATAATATTATATA
1 ATAATATTATATA
887060 ATAATATTAATATA
1 ATAATATT-ATATA
*
887074 TTAA-ATATATATA
1 ATAATAT-TATATA
887087 ATATATATTA
1 ATA-ATATTA
887097 GTAATATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
13 17 0.55
14 12 0.39
15 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATAATATTATATA
Found at i:887085 original size:11 final size:10
Alignment explanation
Indices: 887039--887108 Score: 60
Period size: 9 Copynumber: 7.2 Consensus size: 10
887029 AAATAATTAA
887039 AATATA-ATAT
1 AATATATAT-T
887049 AATAT-TATAT
1 AATATATAT-T
887059 AATA-ATATT
1 AATATATATT
*
887068 AATATAT-TA
1 AATATATATT
887077 AATATATA-T
1 AATATATATT
887086 AATATATATT
1 AATATATATT
*
887096 AGTAATATATT
1 AAT-ATATATT
887107 AA
1 AA
887109 ATTTTATATG
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
9 21 0.42
10 21 0.42
11 8 0.16
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (10 bp):
AATATATATT
Found at i:887094 original size:20 final size:20
Alignment explanation
Indices: 887038--887169 Score: 74
Period size: 18 Copynumber: 6.9 Consensus size: 20
887028 AAAATAATTA
887038 AAATATAATATAATAT-TA-T
1 AAATAT-ATATAATATATATT
*
887057 ATAATA-ATATTA-ATATATT
1 A-AATATATATAATATATATT
887076 AAATATATATAATATATATT
1 AAATATATATAATATATATT
887096 AGTAATATAT-TAA-AT-T-TT
1 A--AATATATATAATATATATT
*
887114 ATATGAATATATAATAT-T-TT
1 AAAT--ATATATAATATATATT
*
887134 AAATAT-TATTATACTATA-T
1 AAATATATATAATA-TATATT
*
887153 AAAAATATA-AATATATA
1 AAATATATATAATATATA
887170 AATTATAATA
Statistics
Matches: 91, Mismatches: 7, Indels: 31
0.71 0.05 0.24
Matches are distributed among these distances:
16 2 0.02
17 8 0.09
18 25 0.27
19 22 0.24
20 24 0.26
21 3 0.03
22 7 0.08
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.45
Consensus pattern (20 bp):
AAATATATATAATATATATT
Found at i:887105 original size:31 final size:31
Alignment explanation
Indices: 887044--887129 Score: 100
Period size: 31 Copynumber: 2.6 Consensus size: 31
887034 ATTAAAATAT
* *
887044 AATATAATATTATATAATAATATTAATATATTA
1 AATAT-ATATAATAT-ATAATAGTAATATATTA
*
887077 AATATATATAATATATATTAGTAATATATTA
1 AATATATATAATATATAATAGTAATATATTA
*
887108 AATTTTATATGAATATATAATA
1 AA-TATATAT-AATATATAATA
887130 TTTTAAATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
31 17 0.37
32 14 0.30
33 15 0.33
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (31 bp):
AATATATATAATATATAATAGTAATATATTA
Found at i:887128 original size:27 final size:27
Alignment explanation
Indices: 887039--887151 Score: 102
Period size: 27 Copynumber: 3.9 Consensus size: 27
887029 AAATAATTAA
* *
887039 AATATAATATAATATTATATAATAATATT
1 AATATATTA-AATATTATATAAT-ATAGT
887068 AATATATTAAATATATATAATATATATTAGT
1 AATATATTAAATAT-TAT-ATA-ATA-TAGT
*
887099 AATATATTAAATTTTATATGAATATA-T
1 AATATATTAAATATTATAT-AATATAGT
* *
887126 AATATTTTAAATATTATTATACTATA
1 AATATATTAAATATTA-TATAATATA
887152 TAAAAATATA
Statistics
Matches: 72, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
27 20 0.28
28 10 0.14
29 16 0.22
30 8 0.11
31 18 0.25
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (27 bp):
AATATATTAAATATTATATAATATAGT
Found at i:887707 original size:20 final size:19
Alignment explanation
Indices: 887682--887752 Score: 62
Period size: 19 Copynumber: 3.9 Consensus size: 19
887672 TAGTTGAAAG
887682 ATAATTTAAATATAAAATAA
1 ATAATTT-AATATAAAATAA
*
887702 ATAATTTAATATTAAATAA
1 ATAATTTAATATAAAATAA
* * *
887721 GT-A-TT-ATATATAGTAA
1 ATAATTTAATATAAAATAA
887737 AT-ATTTAATA-AAAATA
1 ATAATTTAATATAAAATA
887753 TATATAGATA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
16 10 0.24
17 8 0.20
18 4 0.10
19 12 0.29
20 7 0.17
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
ATAATTTAATATAAAATAA
Found at i:887747 original size:27 final size:27
Alignment explanation
Indices: 887709--887766 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
887699 TAAATAATTT
* *
887709 AATATTAAATAAGTATTATATATAG-TA
1 AATATTAAATAA-AAATATATATAGATA
*
887736 AATATTTAATAAAAATATATATAGATA
1 AATATTAAATAAAAATATATATAGATA
887763 AATA
1 AATA
887767 GTATAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (27 bp):
AATATTAAATAAAAATATATATAGATA
Found at i:889525 original size:36 final size:37
Alignment explanation
Indices: 889484--889558 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
889474 ATAGTTCATG
889484 AATTAAATAT-AAATATTTAATTTTATTATTAAAATA
1 AATTAAATATAAAATATTTAATTTTATTATTAAAATA
889520 AATTAAATATAAAATATTTAATTTTATTATTAAAATA
1 AATTAAATATAAAATATTTAATTTTATTATTAAAATA
889557 AA
1 AA
889559 AATGAGAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 10 0.26
37 28 0.74
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (37 bp):
AATTAAATATAAAATATTTAATTTTATTATTAAAATA
Done.