Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 22 of 120
Found at i:6171293 original size:20 final size:21
Alignment explanation
Indices: 6171270--6171312 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
6171260 CCTAAACTCC
*
6171270 AACCATCAACCCTAAA-TATA
1 AACCATAAACCCTAAATTATA
*
6171290 AACCATAAATCCTAAATTATA
1 AACCATAAACCCTAAATTATA
6171311 AA
1 AA
6171313 TACCAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (21 bp):
AACCATAAACCCTAAATTATA
Found at i:6171426 original size:20 final size:19
Alignment explanation
Indices: 6171372--6171426 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
6171362 ATTAAATTCC
*
6171372 AACTAAACCCTAAACCCTA
1 AACTAAAACCTAAACCCTA
6171391 AACTAAAA-CTACAAACCCTA
1 AACTAAAACCT--AAACCCTA
6171411 AACATAAAACCTAAAC
1 AAC-TAAAACCTAAAC
6171427 AGTAAATCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.06
19 7 0.23
20 15 0.48
21 5 0.16
22 2 0.06
ACGTcount: A:0.55, C:0.31, G:0.00, T:0.15
Consensus pattern (19 bp):
AACTAAAACCTAAACCCTA
Found at i:6171459 original size:14 final size:14
Alignment explanation
Indices: 6171442--6171480 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
6171432 ATCTAAACTT
6171442 TAAACCTTAAATTA
1 TAAACCTTAAATTA
*
6171456 TAAA-TTATAAATTA
1 TAAACCT-TAAATTA
6171470 TAAACCTTAAA
1 TAAACCTTAAA
6171481 CCTAAAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
13 1 0.05
14 19 0.90
15 1 0.05
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAACCTTAAATTA
Found at i:6171488 original size:14 final size:14
Alignment explanation
Indices: 6171471--6171537 Score: 57
Period size: 14 Copynumber: 4.9 Consensus size: 14
6171461 TATAAATTAT
6171471 AAACCTTAAACCTA
1 AAACCTTAAACCTA
* **
6171485 AAACCCTAAAAAT-
1 AAACCTTAAACCTA
*
6171498 AAA-CTTAAACCTT
1 AAACCTTAAACCTA
* *
6171511 AATCCCTAAACCCTA
1 AAACCTTAAA-CCTA
6171526 AAACCTTAAACC
1 AAACCTTAAACC
6171538 CTAATGAAAA
Statistics
Matches: 39, Mismatches: 11, Indels: 6
0.70 0.20 0.11
Matches are distributed among these distances:
12 6 0.15
13 5 0.13
14 17 0.44
15 11 0.28
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (14 bp):
AAACCTTAAACCTA
Found at i:6171506 original size:6 final size:7
Alignment explanation
Indices: 6171470--6171537 Score: 50
Period size: 7 Copynumber: 9.9 Consensus size: 7
6171460 TTATAAATTA
6171470 TAAACCT
1 TAAACCT
6171477 TAAACCT
1 TAAACCT
* *
6171484 AAAACCC
1 TAAACCT
**
6171491 TAAA-AA
1 TAAACCT
6171497 TAAA-CT
1 TAAACCT
6171503 TAAACCT
1 TAAACCT
* *
6171510 TAATCCC
1 TAAACCT
6171517 TAAACCCT
1 TAAA-CCT
*
6171525 AAAACCT
1 TAAACCT
6171532 TAAACC
1 TAAACC
6171538 CTAATGAAAA
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
6 8 0.17
7 33 0.72
8 5 0.11
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCT
Found at i:6171517 original size:26 final size:27
Alignment explanation
Indices: 6171469--6171520 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
6171459 ATTATAAATT
6171469 ATAAACCTTAAACCTAAAACCCTAAAA
1 ATAAACCTTAAACCTAAAACCCTAAAA
* *
6171496 ATAAA-CTTAAACCTTAATCCCTAAA
1 ATAAACCTTAAACCTAAAACCCTAAA
6171521 CCCTAAAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (27 bp):
ATAAACCTTAAACCTAAAACCCTAAAA
Found at i:6171638 original size:14 final size:15
Alignment explanation
Indices: 6171621--6171666 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
6171611 CCTCAAACAC
6171621 TAAA-CACTAAACCT
1 TAAATCACTAAACCT
* *
6171635 TAAATTA-TAAACCC
1 TAAATCACTAAACCT
6171649 TAAATC-CTAAACCT
1 TAAATCACTAAACCT
6171663 TAAA
1 TAAA
6171667 ACCATAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 25 0.96
15 1 0.04
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCACTAAACCT
Found at i:6172125 original size:20 final size:19
Alignment explanation
Indices: 6172071--6172125 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
6172061 ATTAAATTCT
6172071 AACT-AAACCATAAACCCTA
1 AACTAAAACC-TAAACCCTA
6172090 AACTAAAA-CTACAAACCCTA
1 AACTAAAACCT--AAACCCTA
6172110 AACATAAAACCTAAAC
1 AAC-TAAAACCTAAAC
6172126 ACTTAATCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
18 1 0.03
19 5 0.16
20 18 0.58
21 5 0.16
22 2 0.06
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (19 bp):
AACTAAAACCTAAACCCTA
Found at i:6172158 original size:7 final size:7
Alignment explanation
Indices: 6172148--6172172 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6172138 CTTTAAACCT
6172148 TAAATTA
1 TAAATTA
6172155 TAAATTA
1 TAAATTA
6172162 TAAATTA
1 TAAATTA
6172169 TAAA
1 TAAA
6172173 CATTAAACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
TAAATTA
Found at i:6172214 original size:7 final size:7
Alignment explanation
Indices: 6172202--6172226 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6172192 AAAATAAATT
6172202 TAAACCC
1 TAAACCC
6172209 TAAACCC
1 TAAACCC
6172216 TAAACCC
1 TAAACCC
6172223 TAAA
1 TAAA
6172227 ACCTTAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:6172336 original size:21 final size:21
Alignment explanation
Indices: 6172307--6172351 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6172297 CCATAAACAC
*
6172307 AAATACTAAACACTAAACCTT
1 AAATACTAAACACTAAACCCT
* *
6172328 AAATTCTAAACTCTAAACCCT
1 AAATACTAAACACTAAACCCT
6172349 AAA
1 AAA
6172352 CCTTAAAACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATACTAAACACTAAACCCT
Found at i:6172448 original size:28 final size:27
Alignment explanation
Indices: 6172395--6172448 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 27
6172385 CAATTAAACA
*
6172395 TAAACCCTAAAATAATAATCCTAATCCC
1 TAAACCCTAAAATAATAAT-CAAATCCC
6172423 TAAACCCTAAATATAAGTAAT-AAATC
1 TAAACCCTAAA-ATAA-TAATCAAATC
6172449 AAGAATTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
28 15 0.65
29 4 0.17
30 4 0.17
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.26
Consensus pattern (27 bp):
TAAACCCTAAAATAATAATCAAATCCC
Found at i:6172563 original size:692 final size:692
Alignment explanation
Indices: 6171151--6172775 Score: 2781
Period size: 692 Copynumber: 2.3 Consensus size: 692
6171141 NNNNNNNNNN
*
6171151 AATTTTAAACACAAAATATAAACCACAAATCCTCAATACTAAACATTAAACCTTAAAACCAAAAT
1 AATTTTAAACACAAAATATAAACCACAAATCCTCAATACTAAACATTAAACCCTAAAACCAAAAT
6171216 CACAAACAAACATAAAAACTAAACCCTATACTTAAATTATAAACCCTAAACTCCAACCATCAACC
66 CACAAACAAACATAAAAACTAAACCCTATACTTAAATTATAAACCCTAAACTCCAACCATCAACC
*
6171281 CTAAATATAAACCATAAATCCTAAATTATAAATACCAAAACTTAAACCCTAAAACTAAAATCAAA
131 CTAAATATAAACCATAAATCCTAAATTATAAATACTAAAACTTAAACCCTAAAACTAAAATCAAA
*
6171346 AACAAAAAACCCAACAATTAAATTCCAACTAAACCCTAAACCCTAAACTAAAACTACAAACCCTA
196 AACAAAAAACCCAACAATTAAATTCTAACTAAACCCTAAACCCTAAACTAAAACTACAAACCCTA
* *
6171411 AACATAAAACCTAAACAGTAAATCTAAACTTTAAACCTTAAATTATAAATTATAAATTATAAACC
261 AACATAAAACCTAAACACTAAATCTAAACTTTAAACCTTAAATTATAAATTATAAATTATAAACA
* *
6171476 TTAAACCTAAAACCCTAAAAATAAACTTAAACCTTAATCCCTAAACCCTAAAACCTTAAACCCTA
326 TTAAACCTAAAACCCTAAAAATAAACTTAAACCCTAAACCCTAAACCCTAAAACCTT--A---TA
6171541 ATGAAAAACTAAACCATAAGCATAAACCCTAAAATATAAGCATAAACCCAAATTATATCCTAAAC
386 ATGAAAAACTAAACCATAAGCATAAACCCTAAAATATAAGCATAAACCCAAATTATATCCTAAAC
* * *
6171606 CATAACCTCAAACACTAAACACTAAACCTTAAATTATAAACCCTAAATCCTAAACCTTAAAACCA
451 CATAAACACAAACACTAAACACTAAACCTTAAATTATAAACCCTAAACCCTAAACCTTAAAACCA
* *
6171671 TAAAAATAAATCTTTAGCCCTACAATTAAACATAAACCCTAAAACTATAATCTTAAACCCTAAAC
516 TAAAAATAAATCTTCAGCCCTACAATTAAACATAAACCCTAAAACTATAATCCTAAACCCTAAAC
* *
6171736 CTTAAATATATGAAATAAATCAAGAATTATAAACCCTAAATATAGAATCACAAAAACTAAACCTA
581 CCTAAATATAAGAAATAAATCAAGAATTATAAACCCTAAATATAGAATCACAAAAACTAAACCTA
6171801 AACATTAAACCATATATTTAAATCATAAACCATAAACCCTAAACCCT
646 AACATTAAACCATATATTTAAATCATAAACCATAAACCCTAAACCCT
* *
6171848 AATTTTAAACATAAAATATAAACCACAAATCATCAATACTAAACATTAAACCCTAAAACC-AAAT
1 AATTTTAAACACAAAATATAAACCACAAATCCTCAATACTAAACATTAAACCCTAAAACCAAAAT
* *
6171912 CACAAACCATAAACATAAAATCTAAACCCTATACTTAAATTATAAACCCTAAGCTCCAACCATCA
66 CACAAA-C--AAACATAAAAACTAAACCCTATACTTAAATTATAAACCCTAAACTCCAACCATCA
* * * *
6171977 ACCTTAAATATAAGCCATAAATCCTATATTATAAATACTAAAACTTAAACCCTAAAACTAAAATA
128 ACCCTAAATATAAACCATAAATCCTAAATTATAAATACTAAAACTTAAACCCTAAAACTAAAATC
*
6172042 AAAAACAAAAAACCCAACAATTAAATTCTAACTAAACCATAAACCCTAAACTAAAACTACAAACC
193 AAAAACAAAAAACCCAACAATTAAATTCTAACTAAACCCTAAACCCTAAACTAAAACTACAAACC
*
6172107 CTAAACATAAAACCTAAACACTTAATCTAAACTTTAAACCTTAAATTATAAATTATAAATTATAA
258 CTAAACATAAAACCTAAACACTAAATCTAAACTTTAAACCTTAAATTATAAATTATAAATTATAA
*
6172172 ACATTAAACCTAAAACCCTAAAAATAAATTTAAACCCTAAACCCTAAACCCTAAAACC-T-TAAT
323 ACATTAAACCTAAAACCCTAAAAATAAACTTAAACCCTAAACCCTAAACCCTAAAACCTTATAAT
* * *
6172235 GAAAAACTAAACCATAAGCATAAATCCTAAAATATAAGCATAAACCCTAATTATATCGTAAACCA
388 GAAAAACTAAACCATAAGCATAAACCCTAAAATATAAGCATAAACCCAAATTATATCCTAAACCA
* * *
6172300 TAAACACAAATACTAAACACTAAACCTTAAATTCTAAACTCTAAACCCTAAACCTTAAAACCATA
453 TAAACACAAACACTAAACACTAAACCTTAAATTATAAACCCTAAACCCTAAACCTTAAAACCATA
*
6172365 AAAATAAATCTTCAGCCCTACAATTAAACATAAACCCTAAAA-TAATAATCCTAATCCCTAAACC
518 AAAATAAATCTTCAGCCCTACAATTAAACATAAACCCTAAAACT-ATAATCCTAAACCCTAAACC
*
6172429 CTAAATATAAGTAATAAATCAAGAATTATAAACCCTAAATATAGAATCACAAAAACTAAACCTAA
582 CTAAATATAAGAAATAAATCAAGAATTATAAACCCTAAATATAGAATCACAAAAACTAAACCTAA
* *
6172494 ACATTAAACCCTATATTTAAATCATAAACCATAAACCCTAAACCTT
647 ACATTAAACCATATATTTAAATCATAAACCATAAACCCTAAACCCT
6172540 AATTTTAAACACAAAATATAAACCACAAATCCTCAATACTAAACATTAAACCCTAAAACCAAAAT
1 AATTTTAAACACAAAATATAAACCACAAATCCTCAATACTAAACATTAAACCCTAAAACCAAAAT
* * *
6172605 CACAAACAAACATAAAAAGTAAACCCTATACTTCAATTATAAACCCTAAACTGCAACCATCAACC
66 CACAAACAAACATAAAAACTAAACCCTATACTTAAATTATAAACCCTAAACTCCAACCATCAACC
*
6172670 CTAAATATAAACCATAAATCCTAAATTATAAATACTAAAACTTAAACCATAAAACTAAAATCAAA
131 CTAAATATAAACCATAAATCCTAAATTATAAATACTAAAACTTAAACCCTAAAACTAAAATCAAA
*
6172735 AACAAAAAACCCAACAATTAAGTTCTAACTAAACCCTAAAC
196 AACAAAAAACCCAACAATTAAATTCTAACTAAACCCTAAAC
6172776 NNNNNNNNNN
Statistics
Matches: 874, Mismatches: 49, Indels: 17
0.93 0.05 0.02
Matches are distributed among these distances:
690 152 0.17
691 1 0.00
692 349 0.40
693 10 0.01
696 10 0.01
697 58 0.07
698 1 0.00
699 293 0.34
ACGTcount: A:0.53, C:0.23, G:0.01, T:0.23
Consensus pattern (692 bp):
AATTTTAAACACAAAATATAAACCACAAATCCTCAATACTAAACATTAAACCCTAAAACCAAAAT
CACAAACAAACATAAAAACTAAACCCTATACTTAAATTATAAACCCTAAACTCCAACCATCAACC
CTAAATATAAACCATAAATCCTAAATTATAAATACTAAAACTTAAACCCTAAAACTAAAATCAAA
AACAAAAAACCCAACAATTAAATTCTAACTAAACCCTAAACCCTAAACTAAAACTACAAACCCTA
AACATAAAACCTAAACACTAAATCTAAACTTTAAACCTTAAATTATAAATTATAAATTATAAACA
TTAAACCTAAAACCCTAAAAATAAACTTAAACCCTAAACCCTAAACCCTAAAACCTTATAATGAA
AAACTAAACCATAAGCATAAACCCTAAAATATAAGCATAAACCCAAATTATATCCTAAACCATAA
ACACAAACACTAAACACTAAACCTTAAATTATAAACCCTAAACCCTAAACCTTAAAACCATAAAA
ATAAATCTTCAGCCCTACAATTAAACATAAACCCTAAAACTATAATCCTAAACCCTAAACCCTAA
ATATAAGAAATAAATCAAGAATTATAAACCCTAAATATAGAATCACAAAAACTAAACCTAAACAT
TAAACCATATATTTAAATCATAAACCATAAACCCTAAACCCT
Found at i:6172682 original size:20 final size:21
Alignment explanation
Indices: 6172659--6172701 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
6172649 CCTAAACTGC
*
6172659 AACCATCAACCCTAAA-TATA
1 AACCATAAACCCTAAATTATA
*
6172679 AACCATAAATCCTAAATTATA
1 AACCATAAACCCTAAATTATA
6172700 AA
1 AA
6172702 TACTAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (21 bp):
AACCATAAACCCTAAATTATA
Found at i:6172905 original size:15 final size:15
Alignment explanation
Indices: 6172885--6173013 Score: 92
Period size: 15 Copynumber: 8.7 Consensus size: 15
6172875 NATAAATTAT
*
6172885 AAACCCTAAATCTTA
1 AAACCCTAAACCTTA
*
6172900 AAACCCTAAAAC-T-
1 AAACCCTAAACCTTA
*
6172913 AAACTACC-AAATCTT-
1 AAAC--CCTAAACCTTA
*
6172928 AAACCTCTAAACCAT-
1 AAACC-CTAAACCTTA
* *
6172943 AAGCCCTAAACCCTA
1 AAACCCTAAACCTTA
*
6172958 AAA-CTTAAACCTTA
1 AAACCCTAAACCTTA
6172972 AAACCCTAAACCTTA
1 AAACCCTAAACCTTA
*
6172987 AGACCCTAAAACC-TA
1 AAACCCT-AAACCTTA
6173002 TAAACCCTAAAC
1 -AAACCCTAAAC
6173014 TCTAATTTTA
Statistics
Matches: 93, Mismatches: 12, Indels: 18
0.76 0.10 0.15
Matches are distributed among these distances:
13 5 0.05
14 26 0.28
15 51 0.55
16 11 0.12
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (15 bp):
AAACCCTAAACCTTA
Found at i:6172958 original size:7 final size:7
Alignment explanation
Indices: 6172927--6173018 Score: 67
Period size: 7 Copynumber: 12.4 Consensus size: 7
6172917 TACCAAATCT
6172927 TAAACCTC
1 TAAACC-C
*
6172935 TAAACCA
1 TAAACCC
*
6172942 TAAGCCC
1 TAAACCC
6172949 TAAACCC
1 TAAACCC
* *
6172956 TAAAACT
1 TAAACCC
*
6172963 TAAACCT
1 TAAACCC
6172970 TAAAACCC
1 T-AAACCC
*
6172978 TAAACCT
1 TAAACCC
6172985 TAAGACCC
1 TAA-ACCC
*
6172993 TAAAACCTA
1 T-AAACC-C
6173002 TAAACCC
1 TAAACCC
*
6173009 TAAACTC
1 TAAACCC
6173016 TAA
1 TAA
6173019 TTTTAAAAAC
Statistics
Matches: 67, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
7 40 0.60
8 24 0.36
9 3 0.04
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:6173010 original size:9 final size:8
Alignment explanation
Indices: 6172946--6173012 Score: 54
Period size: 8 Copynumber: 8.9 Consensus size: 8
6172936 AAACCATAAG
6172946 CCCT-AAA
1 CCCTAAAA
6172953 CCCTAAAA
1 CCCTAAAA
*
6172961 --CTTAAA
1 CCCTAAAA
*
6172967 CCTTAAAA
1 CCCTAAAA
6172975 CCCT-AAA
1 CCCTAAAA
* *
6172982 CCTTAAGA
1 CCCTAAAA
6172990 CCCTAAAA
1 CCCTAAAA
6172998 -CCTATAAA
1 CCCTA-AAA
6173006 CCCTAAA
1 CCCTAAA
6173013 CTCTAATTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
6 5 0.11
7 14 0.30
8 23 0.50
9 4 0.09
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.19
Consensus pattern (8 bp):
CCCTAAAA
Found at i:6173604 original size:20 final size:20
Alignment explanation
Indices: 6173575--6173653 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
6173565 CACTAAATGA
*
6173575 TAAACTATAAACCCTAAACT
1 TAAACAATAAACCCTAAACT
*
6173595 TAAACAATAAACCCGAAA-T
1 TAAACAATAAACCCTAAACT
* * *
6173614 ATAAACCATAAATCCTAAATCC
1 -TAAACAATAAACCCTAAA-CT
* *
6173636 TAAAAAATAAATCCTAAA
1 TAAACAATAAACCCTAAA
6173654 AAATAAACCT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
19 1 0.02
20 31 0.65
21 16 0.33
ACGTcount: A:0.56, C:0.22, G:0.01, T:0.22
Consensus pattern (20 bp):
TAAACAATAAACCCTAAACT
Found at i:6173660 original size:21 final size:21
Alignment explanation
Indices: 6173621--6173660 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6173611 AATATAAACC
***
6173621 ATAAATCCTAAATCCTAAAAA
1 ATAAATCCTAAAAAATAAAAA
6173642 ATAAATCCTAAAAAATAAA
1 ATAAATCCTAAAAAATAAA
6173661 CCTTAAACCC
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:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (21 bp):
ATAAATCCTAAAAAATAAAAA
Found at i:6173667 original size:14 final size:14
Alignment explanation
Indices: 6173629--6173660 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
6173619 CCATAAATCC
6173629 TAAATCCTAAAAAA
1 TAAATCCTAAAAAA
6173643 TAAATCCTAAAAAA
1 TAAATCCTAAAAAA
6173657 TAAA
1 TAAA
6173661 CCTTAAACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAATCCTAAAAAA
Found at i:6173734 original size:14 final size:14
Alignment explanation
Indices: 6173712--6173745 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
6173702 ACCCAACAAT
*
6173712 TAAATTCTAAACCC
1 TAAACTCTAAACCC
6173726 TAAACTCTAAACCC
1 TAAACTCTAAACCC
6173740 TAAACT
1 TAAACT
6173746 AAAACTACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAACTCTAAACCC
Found at i:6175170 original size:20 final size:20
Alignment explanation
Indices: 6175127--6175219 Score: 89
Period size: 20 Copynumber: 4.5 Consensus size: 20
6175117 CAGTAAAAAC
*
6175127 TAAACCCTAAATGATAAACTA
1 TAAACCCTAAAT-ATAAACAA
6175148 TAAACCCTAAACT-TAAACAA
1 TAAACCCTAAA-TATAAACAA
* *
6175168 TAAACCTTAAATATAAACCA
1 TAAACCCTAAATATAAACAA
* * *
6175188 TAAATCCTAAATCTAAAAAA
1 TAAACCCTAAATATAAACAA
*
6175208 CTAAACCTTAAA
1 -TAAACCCTAAA
6175220 CCCTAATCAC
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 1 0.02
20 37 0.63
21 20 0.34
22 1 0.02
ACGTcount: A:0.55, C:0.20, G:0.01, T:0.24
Consensus pattern (20 bp):
TAAACCCTAAATATAAACAA
Found at i:6175430 original size:7 final size:7
Alignment explanation
Indices: 6175414--6175464 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
6175404 ACTCGAACGT
6175414 TAAACCC
1 TAAACCC
*
6175421 TAAACAC
1 TAAACCC
*
6175428 TAAA-CA
1 TAAACCC
*
6175434 GAAACCC
1 TAAACCC
**
6175441 TAAACTT
1 TAAACCC
6175448 TAAACCC
1 TAAACCC
6175455 TAAACCC
1 TAAACCC
6175462 TAA
1 TAA
6175465 CTAAAACTAA
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
6 3 0.09
7 30 0.91
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:6175490 original size:30 final size:31
Alignment explanation
Indices: 6175455--6175512 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
6175445 CTTTAAACCC
6175455 TAAACCCTAACTA-AAACTAAACCATAAGCA
1 TAAACCCTAACTATAAACTAAACCATAAGCA
* **
6175485 TAAACCCTAATTATATCCTAAACCATAA
1 TAAACCCTAACTATAAACTAAACCATAA
6175513 CCTCAAACAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.50, C:0.26, G:0.02, T:0.22
Consensus pattern (31 bp):
TAAACCCTAACTATAAACTAAACCATAAGCA
Found at i:6175533 original size:27 final size:27
Alignment explanation
Indices: 6175502--6175567 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
6175492 TAATTATATC
* *
6175502 CTAAACCATAACCTCAAACACTAAACA
1 CTAAACCATAAACTAAAACACTAAACA
* * * *
6175529 CTAAACCTTAAAGTAAAACCCTAAACC
1 CTAAACCATAAACTAAAACACTAAACA
*
6175556 CTAAACCTTAAA
1 CTAAACCATAAA
6175568 ACCATAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.50, C:0.30, G:0.02, T:0.18
Consensus pattern (27 bp):
CTAAACCATAAACTAAAACACTAAACA
Found at i:6175971 original size:20 final size:21
Alignment explanation
Indices: 6175948--6175990 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
6175938 CCTAAGCTCC
*
6175948 AACCATCAACCCTAAA-TATA
1 AACCATAAACCCTAAATTATA
*
6175968 AACCATAAATCCTAAATTATA
1 AACCATAAACCCTAAATTATA
6175989 AA
1 AA
6175991 TACTAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (21 bp):
AACCATAAACCCTAAATTATA
Found at i:6176098 original size:27 final size:29
Alignment explanation
Indices: 6176054--6176157 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 29
6176044 AATTTTAACT
*
6176054 AAACCCTAAACCCTAAA-CTAAA-ACTAC
1 AAACCCTAAACCATAAACCTAAACACTAC
6176081 AAACCCTAAA-CATAAAACCTAAACACT--
1 AAACCCTAAACCAT-AAACCTAAACACTAC
* **
6176108 AAA-TCTAAACTTTAAACCTTAAAC-CTA-
1 AAACCCTAAACCATAAACC-TAAACACTAC
* *
6176135 AAACCCTAAA-AATAAACTTAAAC
1 AAACCCTAAACCATAAACCTAAAC
6176158 TTTAAACCCC
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
26 19 0.31
27 30 0.48
28 10 0.16
29 3 0.05
ACGTcount: A:0.54, C:0.27, G:0.00, T:0.19
Consensus pattern (29 bp):
AAACCCTAAACCATAAACCTAAACACTAC
Found at i:6176101 original size:13 final size:13
Alignment explanation
Indices: 6176085--6176150 Score: 53
Period size: 13 Copynumber: 4.9 Consensus size: 13
6176075 AACTACAAAC
6176085 CCTAAACATAAAA
1 CCTAAACATAAAA
6176098 CCTAAACACT-AAA
1 CCTAAACA-TAAAA
* * *
6176111 TCTAAACTTTAAA
1 CCTAAACATAAAA
*
6176124 CCTTAAACCTAAAA
1 CC-TAAACATAAAA
*
6176138 CCCTAAAAATAAA
1 -CCTAAACATAAA
6176151 CTTAAACTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
12 1 0.02
13 21 0.50
14 18 0.43
15 2 0.05
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (13 bp):
CCTAAACATAAAA
Found at i:6176104 original size:20 final size:19
Alignment explanation
Indices: 6176050--6176144 Score: 77
Period size: 20 Copynumber: 4.7 Consensus size: 19
6176040 ATTAAATTTT
*
6176050 AACTAAACCCTAAACCCTA
1 AACTAAAACCTAAACCCTA
6176069 AACTAAAA-CTACAAACCCTA
1 AACTAAAACCT--AAACCCTA
*
6176089 AACATAAAACCTAAACACTA
1 AAC-TAAAACCTAAACCCTA
* *
6176109 AATCT-AAACTTTAAACCTTA
1 AA-CTAAAAC-CTAAACCCTA
6176129 AACCTAAAACCCTAAA
1 AA-CTAAAA-CCTAAA
6176145 AATAAACTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
18 2 0.03
19 11 0.18
20 32 0.52
21 13 0.21
22 3 0.05
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (19 bp):
AACTAAAACCTAAACCCTA
Found at i:6176156 original size:33 final size:33
Alignment explanation
Indices: 6176095--6176178 Score: 98
Period size: 33 Copynumber: 2.5 Consensus size: 33
6176085 CCTAAACATA
* **
6176095 AAACCTAAACACTAAATCTAAACTTTAAACCTT
1 AAACCTAAACCCTAAAAATAAACTTTAAACCTT
*
6176128 AAACCTAAAACCCTAAAAATAAAC-TTAAACTTT
1 AAACCT-AAACCCTAAAAATAAACTTTAAACCTT
*
6176161 AAACCCCAAACCCTAAAA
1 AAA-CCTAAACCCTAAAA
6176179 CATTAAATCC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
33 28 0.64
34 16 0.36
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.21
Consensus pattern (33 bp):
AAACCTAAACCCTAAAAATAAACTTTAAACCTT
Found at i:6176157 original size:40 final size:41
Alignment explanation
Indices: 6176054--6176179 Score: 132
Period size: 40 Copynumber: 3.1 Consensus size: 41
6176044 AATTTTAACT
** * ** *
6176054 AAACCCTAAACCCTAAACTAAAACTACAAACCCTAAACATA
1 AAACCCTAAACAATAAACTTAAACTTTAAACCCTAAACCTA
* *
6176095 AAA-CCTAAACACTAAA-TCTAAACTTTAAACCTTAAACCTA
1 AAACCCTAAACAATAAACT-TAAACTTTAAACCCTAAACCTA
*
6176135 AAACCCTAAA-AATAAACTTAAACTTTAAACCCCAAACCCTA
1 AAACCCTAAACAATAAACTTAAACTTTAAACCCTAAA-CCTA
6176176 AAAC
1 AAAC
6176180 ATTAAATCCT
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.01
40 53 0.74
41 18 0.25
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (41 bp):
AAACCCTAAACAATAAACTTAAACTTTAAACCCTAAACCTA
Found at i:6177622 original size:20 final size:21
Alignment explanation
Indices: 6177599--6177641 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
6177589 CCTAAACTGC
*
6177599 AACCATCAACCCTAAA-TATA
1 AACCATAAACCCTAAATTATA
*
6177619 AACCATAAATCCTAAATTATA
1 AACCATAAACCCTAAATTATA
6177640 AA
1 AA
6177642 TACTAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (21 bp):
AACCATAAACCCTAAATTATA
Found at i:6177755 original size:20 final size:19
Alignment explanation
Indices: 6177701--6177755 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
6177691 ATTAAGTTCT
*
6177701 AACTAAACCCTAAACCCTA
1 AACTAAAACCTAAACCCTA
6177720 AACTAAAA-CTACAAACCCTA
1 AACTAAAACCT--AAACCCTA
6177740 AACATAAAACCTAAAC
1 AAC-TAAAACCTAAAC
6177756 AGTAAATCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.06
19 7 0.23
20 15 0.48
21 5 0.16
22 2 0.06
ACGTcount: A:0.55, C:0.31, G:0.00, T:0.15
Consensus pattern (19 bp):
AACTAAAACCTAAACCCTA
Found at i:6177788 original size:7 final size:7
Alignment explanation
Indices: 6177778--6177802 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6177768 CTTTAAACCT
6177778 TAAATTA
1 TAAATTA
6177785 TAAATTA
1 TAAATTA
6177792 TAAATTA
1 TAAATTA
6177799 TAAA
1 TAAA
6177803 CCTTAAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
TAAATTA
Found at i:6177788 original size:14 final size:14
Alignment explanation
Indices: 6177771--6177810 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
6177761 ATCTAAACTT
6177771 TAAACCTTAAATTA
1 TAAACCTTAAATTA
*
6177785 TAAA-TTATAAATTA
1 TAAACCT-TAAATTA
6177799 TAAACCTTAAAT
1 TAAACCTTAAAT
6177811 CTTAAAACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAACCTTAAATTA
Found at i:6177824 original size:15 final size:15
Alignment explanation
Indices: 6177800--6177928 Score: 74
Period size: 15 Copynumber: 8.7 Consensus size: 15
6177790 TATAAATTAT
* *
6177800 AAACCTTAAATCTTA
1 AAACCCTAAACCTTA
*
6177815 AAACCCTAAAAC-T-
1 AAACCCTAAACCTTA
*
6177828 AAACTACC-AAATCTT-
1 AAAC--CCTAAACCTTA
*
6177843 AAACCTCTAAACCAT-
1 AAACC-CTAAACCTTA
* *
6177858 AAGCCCTAAACCCTA
1 AAACCCTAAACCTTA
*
6177873 AAA-CTTAAACCTTA
1 AAACCCTAAACCTTA
6177887 AAACCCTAAACCTTA
1 AAACCCTAAACCTTA
* *
6177902 AGACCTTAAAACC-TA
1 AAACCCT-AAACCTTA
6177917 TAAACCCTAAAC
1 -AAACCCTAAAC
6177929 TCTAATTTTA
Statistics
Matches: 90, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
13 5 0.06
14 26 0.29
15 49 0.54
16 10 0.11
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (15 bp):
AAACCCTAAACCTTA
Found at i:6177845 original size:36 final size:35
Alignment explanation
Indices: 6177799--6177896 Score: 92
Period size: 36 Copynumber: 2.7 Consensus size: 35
6177789 TTATAAATTA
* *
6177799 TAAACCTTAAATCTTAAAACCCTAAAACTAAACTACC
1 TAAAACTTAAACCTTAAAACCCTAAAACTAAAC--CC
* * **
6177836 -AAATCTTAAACCTCT-AAACCATAAGCCCTAAACCC
1 TAAAACTTAAACCT-TAAAACCCTAA-AACTAAACCC
6177871 TAAAACTTAAACCTTAAAACCCTAAA
1 TAAAACTTAAACCTTAAAACCCTAAA
6177897 CCTTAAGACC
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
35 3 0.06
36 39 0.80
37 7 0.14
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.22
Consensus pattern (35 bp):
TAAAACTTAAACCTTAAAACCCTAAAACTAAACCC
Found at i:6177873 original size:7 final size:7
Alignment explanation
Indices: 6177842--6177933 Score: 58
Period size: 7 Copynumber: 12.4 Consensus size: 7
6177832 TACCAAATCT
6177842 TAAACCTC
1 TAAACC-C
*
6177850 TAAACCA
1 TAAACCC
*
6177857 TAAGCCC
1 TAAACCC
6177864 TAAACCC
1 TAAACCC
* *
6177871 TAAAACT
1 TAAACCC
*
6177878 TAAACCT
1 TAAACCC
6177885 TAAAACCC
1 T-AAACCC
*
6177893 TAAACCT
1 TAAACCC
*
6177900 TAAGACCT
1 TAA-ACCC
*
6177908 TAAAACCTA
1 T-AAACC-C
6177917 TAAACCC
1 TAAACCC
*
6177924 TAAACTC
1 TAAACCC
6177931 TAA
1 TAA
6177934 TTTTAAAAAC
Statistics
Matches: 68, Mismatches: 12, Indels: 9
0.76 0.13 0.10
Matches are distributed among these distances:
7 40 0.59
8 25 0.37
9 3 0.04
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:6177890 original size:22 final size:23
Alignment explanation
Indices: 6177865--6177914 Score: 84
Period size: 22 Copynumber: 2.2 Consensus size: 23
6177855 CATAAGCCCT
6177865 AAACCCTAAAACTTAA-ACCTTA
1 AAACCCTAAAACTTAAGACCTTA
*
6177887 AAACCCTAAACCTTAAGACCTTA
1 AAACCCTAAAACTTAAGACCTTA
6177910 AAACC
1 AAACC
6177915 TATAAACCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.20
Consensus pattern (23 bp):
AAACCCTAAAACTTAAGACCTTA
Found at i:6177916 original size:22 final size:22
Alignment explanation
Indices: 6177840--6177916 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
6177830 ACTACCAAAT
* *
6177840 CTTAAACCTCTAAACCATAAG-C
1 CTTAAAAC-CTAAACCTTAAGAC
* * *
6177862 CCTAAACCCTAAAACTTAA-AC
1 CTTAAAACCTAAACCTTAAGAC
6177883 CTTAAAACCCTAAACCTTAAGAC
1 CTTAAAA-CCTAAACCTTAAGAC
6177906 CTTAAAACCTA
1 CTTAAAACCTA
6177917 TAAACCCTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
21 15 0.33
22 22 0.48
23 9 0.20
ACGTcount: A:0.44, C:0.31, G:0.03, T:0.22
Consensus pattern (22 bp):
CTTAAAACCTAAACCTTAAGAC
Found at i:6178460 original size:20 final size:20
Alignment explanation
Indices: 6178431--6178509 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
6178421 CACTAAATGA
*
6178431 TAAACTATAAACCCTAAACT
1 TAAACAATAAACCCTAAACT
*
6178451 TAAACAATAAACCCGAAA-T
1 TAAACAATAAACCCTAAACT
* * *
6178470 ATAAACCATAAATCCTAAATCC
1 -TAAACAATAAACCCTAAA-CT
* *
6178492 TAAAAAATAAATCCTAAA
1 TAAACAATAAACCCTAAA
6178510 AAATAAACCT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
19 1 0.02
20 31 0.65
21 16 0.33
ACGTcount: A:0.56, C:0.22, G:0.01, T:0.22
Consensus pattern (20 bp):
TAAACAATAAACCCTAAACT
Found at i:6178516 original size:21 final size:21
Alignment explanation
Indices: 6178477--6178516 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6178467 AATATAAACC
***
6178477 ATAAATCCTAAATCCTAAAAA
1 ATAAATCCTAAAAAATAAAAA
6178498 ATAAATCCTAAAAAATAAA
1 ATAAATCCTAAAAAATAAA
6178517 CCTTAAACCC
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:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (21 bp):
ATAAATCCTAAAAAATAAAAA
Found at i:6178523 original size:14 final size:14
Alignment explanation
Indices: 6178485--6178516 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
6178475 CCATAAATCC
6178485 TAAATCCTAAAAAA
1 TAAATCCTAAAAAA
6178499 TAAATCCTAAAAAA
1 TAAATCCTAAAAAA
6178513 TAAA
1 TAAA
6178517 CCTTAAACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAATCCTAAAAAA
Found at i:6178590 original size:14 final size:14
Alignment explanation
Indices: 6178568--6178601 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
6178558 ACCCAACAAT
*
6178568 TAAATTCTAAACCC
1 TAAACTCTAAACCC
6178582 TAAACTCTAAACCC
1 TAAACTCTAAACCC
6178596 TAAACT
1 TAAACT
6178602 AAAACTACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAACTCTAAACCC
Found at i:6178639 original size:14 final size:13
Alignment explanation
Indices: 6178574--6178646 Score: 53
Period size: 14 Copynumber: 5.5 Consensus size: 13
6178564 CAATTAAATT
*
6178574 CTAAACCCTAAAC
1 CTAAACACTAAAC
*
6178587 TCTAAACCCTAAA-
1 -CTAAACACTAAAC
6178600 CTAAA-ACTACAAAC
1 CTAAACACT--AAAC
6178614 CTTAAACA-TAAAGC
1 C-TAAACACTAAA-C
*
6178628 CTAAACACTAAAT
1 CTAAACACTAAAC
6178641 CTAAAC
1 CTAAAC
6178647 TTTAAACCCT
Statistics
Matches: 50, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
11 2 0.04
12 5 0.10
13 18 0.36
14 19 0.38
15 5 0.10
16 1 0.02
ACGTcount: A:0.51, C:0.29, G:0.01, T:0.19
Consensus pattern (13 bp):
CTAAACACTAAAC
Found at i:6179780 original size:14 final size:14
Alignment explanation
Indices: 6179763--6179801 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
6179753 ATCTAAACTT
6179763 TAAACCTTAAATTA
1 TAAACCTTAAATTA
*
6179777 TAAA-TTATAAATTA
1 TAAACCT-TAAATTA
6179791 TAAACCTTAAA
1 TAAACCTTAAA
6179802 CCTAAAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
13 1 0.05
14 19 0.90
15 1 0.05
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAACCTTAAATTA
Found at i:6179827 original size:6 final size:7
Alignment explanation
Indices: 6179791--6179998 Score: 106
Period size: 7 Copynumber: 28.9 Consensus size: 7
6179781 TTATAAATTA
6179791 TAAACCT
1 TAAACCT
6179798 TAAACCT
1 TAAACCT
* *
6179805 AAAACCC
1 TAAACCT
**
6179812 TAAA-AA
1 TAAACCT
6179818 TAAA-CT
1 TAAACCT
6179824 TAAACCT
1 TAAACCT
*
6179831 T-AATCT
1 TAAACCT
6179837 CTAAACCCT
1 -TAAA-CCT
*
6179846 AAAACCT
1 TAAACCT
6179853 TAAACCT
1 TAAACCT
6179860 TAAACCCT
1 TAAA-CCT
*
6179868 AATGAAAAAC-
1 --T--AAACCT
*
6179878 TAAACCA
1 TAAACCT
* *
6179885 T-AAGCA
1 TAAACCT
6179891 TAAACCTT
1 TAAACC-T
6179899 TAAACCT
1 TAAACCT
*
6179906 TAAACCC
1 TAAACCT
6179913 TAAACCTT
1 TAAACC-T
*
6179921 TAAACCA
1 TAAACCT
*
6179928 TAAACCC
1 TAAACCT
6179935 TAAACCT
1 TAAACCT
6179942 TAAACCT
1 TAAACCT
6179949 TAAGACCCT
1 TAA-A-CCT
*
6179958 AAAACCT
1 TAAACCT
*
6179965 ATAAACCC
1 -TAAACCT
6179973 TAAA-CT
1 TAAACCT
6179979 CTAAACC-
1 -TAAACCT
*
6179986 TAAACAT
1 TAAACCT
6179993 TAAACC
1 TAAACC
6179999 ATATATTTAA
Statistics
Matches: 155, Mismatches: 27, Indels: 38
0.70 0.12 0.17
Matches are distributed among these distances:
6 27 0.17
7 87 0.56
8 29 0.19
9 7 0.05
10 1 0.01
11 1 0.01
12 3 0.02
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.23
Consensus pattern (7 bp):
TAAACCT
Found at i:6179840 original size:26 final size:27
Alignment explanation
Indices: 6179790--6179869 Score: 81
Period size: 26 Copynumber: 2.9 Consensus size: 27
6179780 ATTATAAATT
6179790 ATAAACCTTAAACCTAAAACCCTAAAA
1 ATAAACCTTAAACCTAAAACCCTAAAA
* * * *
6179817 ATAAA-CTTAAACCTTAATCTCTAAACC
1 ATAAACCTTAAACCTAAAACCCTAAA-A
* *
6179844 CTAAAACCTTAAACCTTAAACCCTAA
1 AT-AAACCTTAAACCTAAAACCCTAA
6179870 TGAAAAACTA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 17 0.40
27 6 0.14
28 3 0.07
29 17 0.40
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.24
Consensus pattern (27 bp):
ATAAACCTTAAACCTAAAACCCTAAAA
Found at i:6179851 original size:22 final size:22
Alignment explanation
Indices: 6179825--6179998 Score: 130
Period size: 22 Copynumber: 7.9 Consensus size: 22
6179815 AAATAAACTT
*
6179825 AAACCTT-AATCTCTAAACCCTA
1 AAACCTTAAACCT-TAAACCCTA
6179847 AAACCTTAAACCTTAAACCCTAATGA
1 AAACCTTAAACCTTAAACCC---T-A
* * * *
6179873 AAAAC-TAAACCAT-AAGCAT-
1 AAACCTTAAACCTTAAACCCTA
6179892 AAACCTTTAAACCTTAAACCCT-
1 AAACC-TTAAACCTTAAACCCTA
*
6179914 AAACCTTTAAACCATAAACCCT-
1 AAACC-TTAAACCTTAAACCCTA
6179936 AAACCTTAAACCTTAAGACCCTA
1 AAACCTTAAACCTTAA-ACCCTA
* *
6179959 AAACCTATAAACCCTAAACTCT-
1 AAACCT-TAAACCTTAAACCCTA
*
6179981 AAACC-TAAACATTAAACC
1 AAACCTTAAACCTTAAACC
6179999 ATATATTTAA
Statistics
Matches: 125, Mismatches: 16, Indels: 24
0.76 0.10 0.15
Matches are distributed among these distances:
19 4 0.03
20 10 0.08
21 18 0.14
22 54 0.43
23 14 0.11
24 12 0.10
25 8 0.06
26 5 0.04
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (22 bp):
AAACCTTAAACCTTAAACCCTA
Found at i:6179877 original size:68 final size:68
Alignment explanation
Indices: 6179811--6179937 Score: 163
Period size: 68 Copynumber: 1.9 Consensus size: 68
6179801 ACCTAAAACC
* * *
6179811 CTAAA-AATAAACTTAAACC-TT-AATCTCTAAACCCTAAAACC-TTAAACCTTAAACCCTAATG
1 CTAAACAATAAACATAAACCTTTAAACCT-TAAACCCT-AAACCTTTAAACCATAAACCCTAATG
6179872 AAAAA
64 AAAAA
* *
6179877 CTAAACCATAAGCATAAACCTTTAAACCTTAAACCCTAAACCTTTAAACCATAAACCCTAA
1 CTAAACAATAAACATAAACCTTTAAACCTTAAACCCTAAACCTTTAAACCATAAACCCTAA
6179938 ACCTTAAACC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
66 5 0.10
67 16 0.31
68 27 0.52
69 4 0.08
ACGTcount: A:0.48, C:0.27, G:0.02, T:0.24
Consensus pattern (68 bp):
CTAAACAATAAACATAAACCTTTAAACCTTAAACCCTAAACCTTTAAACCATAAACCCTAATGAA
AAA
Found at i:6180016 original size:7 final size:7
Alignment explanation
Indices: 6179878--6180032 Score: 77
Period size: 7 Copynumber: 21.9 Consensus size: 7
6179868 AATGAAAAAC
6179878 TAAACCA
1 TAAACCA
*
6179885 T-AAGCA
1 TAAACCA
*
6179891 TAAACCTT
1 TAAACC-A
*
6179899 TAAACCT
1 TAAACCA
*
6179906 TAAACCC
1 TAAACCA
*
6179913 TAAACCTT
1 TAAACC-A
6179921 TAAACCA
1 TAAACCA
*
6179928 TAAACCC
1 TAAACCA
*
6179935 TAAACCT
1 TAAACCA
*
6179942 TAAACCT
1 TAAACCA
*
6179949 TAAGACCC
1 TAA-ACCA
6179957 TAAAACCTA
1 T-AAACC-A
*
6179966 TAAACCC
1 TAAACCA
6179973 TAAACTC-
1 TAAAC-CA
6179980 TAAACC-
1 TAAACCA
6179986 TAAA-CA
1 TAAACCA
6179992 TTAAACCA
1 -TAAACCA
* **
6180000 TATA-TT
1 TAAACCA
*
6180006 TAAATCA
1 TAAACCA
6180013 TAAACCA
1 TAAACCA
*
6180020 TAAACCC
1 TAAACCA
6180027 TAAACC
1 TAAACC
6180033 CTAATTTTAA
Statistics
Matches: 118, Mismatches: 19, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
5 1 0.01
6 13 0.11
7 74 0.63
8 27 0.23
9 3 0.03
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.23
Consensus pattern (7 bp):
TAAACCA
Found at i:6180392 original size:15 final size:15
Alignment explanation
Indices: 6180372--6180435 Score: 55
Period size: 15 Copynumber: 4.3 Consensus size: 15
6180362 GTTATACAAT
6180372 AAACCTTAAATCTTA
1 AAACCTTAAATCTTA
*
6180387 AAACCTTAAAAC-TA
1 AAACCTTAAATCTTA
6180401 AACTACC--AAATCTT-
1 AA--ACCTTAAATCTTA
*
6180415 AAACCTTTAAACCTTA
1 AAACC-TTAAATCTTA
6180431 AAACC
1 AAACC
6180436 CATAAACCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
12 3 0.08
14 10 0.26
15 18 0.46
16 8 0.21
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (15 bp):
AAACCTTAAATCTTA
Found at i:6180598 original size:20 final size:21
Alignment explanation
Indices: 6180575--6180617 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
6180565 CCTAAACTCC
*
6180575 AACCATCAACCCTAAA-TATA
1 AACCATAAACCCTAAATTATA
*
6180595 AACCATAAATCCTAAATTATA
1 AACCATAAACCCTAAATTATA
6180616 AA
1 AA
6180618 TACTAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (21 bp):
AACCATAAACCCTAAATTATA
Found at i:6180700 original size:20 final size:20
Alignment explanation
Indices: 6180677--6180753 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
6180667 ATTAAATTCT
6180677 AAACCTTAAACCCTAAACTA
1 AAACCTTAAACCCTAAACTA
*
6180697 AAA-CTATAAAACCTAAACATA
1 AAACCT-TAAACCCTAAAC-TA
*
6180718 AAACC-TAAACACTAAATCT-
1 AAACCTTAAACCCTAAA-CTA
*
6180737 AAACTTTAAACCCTAAA
1 AAACCTTAAACCCTAAA
6180754 TTATTAATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
19 6 0.13
20 34 0.72
21 6 0.13
22 1 0.02
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.21
Consensus pattern (20 bp):
AAACCTTAAACCCTAAACTA
Found at i:6180740 original size:13 final size:13
Alignment explanation
Indices: 6180697--6180733 Score: 56
Period size: 13 Copynumber: 2.7 Consensus size: 13
6180687 CCCTAAACTA
6180697 AAACTATAAAACCT
1 AAAC-ATAAAACCT
6180711 AAACATAAAACCT
1 AAACATAAAACCT
6180724 AAACACTAAA
1 AAACA-TAAA
6180734 TCTAAACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.62, C:0.22, G:0.00, T:0.16
Consensus pattern (13 bp):
AAACATAAAACCT
Found at i:6180754 original size:20 final size:21
Alignment explanation
Indices: 6180669--6180754 Score: 74
Period size: 20 Copynumber: 4.2 Consensus size: 21
6180659 ACCCAACAAT
*
6180669 TAAATTCT-AAACCTTAAACCC
1 TAAA-TCTAAAACTTTAAACCC
* *
6180690 TAAA-CTAAAACTATAAAACC
1 TAAATCTAAAACTTTAAACCC
* *
6180710 TAAA-CATAAAAC-CTAAACAC
1 TAAATC-TAAAACTTTAAACCC
6180730 TAAATCT-AAACTTTAAACCC
1 TAAATCTAAAACTTTAAACCC
6180750 TAAAT
1 TAAAT
6180755 TATTAATTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
19 6 0.11
20 36 0.68
21 11 0.21
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAATCTAAAACTTTAAACCC
Found at i:6181338 original size:14 final size:14
Alignment explanation
Indices: 6181321--6181359 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
6181311 ATCTAAACTT
6181321 TAAACCTTAAATTA
1 TAAACCTTAAATTA
*
6181335 TAAA-TTATAAATTA
1 TAAACCT-TAAATTA
6181349 TAAACCTTAAA
1 TAAACCTTAAA
6181360 CCTAAAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
13 1 0.05
14 19 0.90
15 1 0.05
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAACCTTAAATTA
Found at i:6181385 original size:6 final size:7
Alignment explanation
Indices: 6181349--6181556 Score: 97
Period size: 7 Copynumber: 28.9 Consensus size: 7
6181339 TTATAAATTA
6181349 TAAACCT
1 TAAACCT
6181356 TAAACCT
1 TAAACCT
* *
6181363 AAAACCC
1 TAAACCT
**
6181370 TAAA-AA
1 TAAACCT
6181376 TAAA-CT
1 TAAACCT
6181382 TAAACCT
1 TAAACCT
*
6181389 T-AATCT
1 TAAACCT
6181395 CTAAACCCT
1 -TAAA-CCT
*
6181404 AAAACCT
1 TAAACCT
6181411 TAAACCT
1 TAAACCT
6181418 TAAACCCT
1 TAAA-CCT
*
6181426 AATGAAAAAC-
1 --T--AAACCT
*
6181436 TAAACCA
1 TAAACCT
* *
6181443 T-AAGCA
1 TAAACCT
6181449 TAAACCTT
1 TAAACC-T
6181457 TAAACCT
1 TAAACCT
*
6181464 TAAACCC
1 TAAACCT
6181471 TAAACCTT
1 TAAACC-T
*
6181479 TAAACCA
1 TAAACCT
*
6181486 TAAACCC
1 TAAACCT
6181493 TAAACCT
1 TAAACCT
6181500 TAAACCT
1 TAAACCT
6181507 TAAGACCCT
1 TAA-A-CCT
* *
6181516 AAAATCT
1 TAAACCT
*
6181523 ATAAACCC
1 -TAAACCT
6181531 TAAA-CT
1 TAAACCT
6181537 CTAAACC-
1 -TAAACCT
*
6181544 TAAACAT
1 TAAACCT
6181551 TAAACC
1 TAAACC
6181557 ATATATTTAA
Statistics
Matches: 153, Mismatches: 29, Indels: 38
0.70 0.13 0.17
Matches are distributed among these distances:
6 27 0.18
7 86 0.56
8 28 0.18
9 7 0.05
10 1 0.01
11 1 0.01
12 3 0.02
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.23
Consensus pattern (7 bp):
TAAACCT
Found at i:6181398 original size:26 final size:27
Alignment explanation
Indices: 6181348--6181427 Score: 81
Period size: 26 Copynumber: 2.9 Consensus size: 27
6181338 ATTATAAATT
6181348 ATAAACCTTAAACCTAAAACCCTAAAA
1 ATAAACCTTAAACCTAAAACCCTAAAA
* * * *
6181375 ATAAA-CTTAAACCTTAATCTCTAAACC
1 ATAAACCTTAAACCTAAAACCCTAAA-A
* *
6181402 CTAAAACCTTAAACCTTAAACCCTAA
1 AT-AAACCTTAAACCTAAAACCCTAA
6181428 TGAAAAACTA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 17 0.40
27 6 0.14
28 3 0.07
29 17 0.40
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.24
Consensus pattern (27 bp):
ATAAACCTTAAACCTAAAACCCTAAAA
Found at i:6181409 original size:22 final size:22
Alignment explanation
Indices: 6181383--6181556 Score: 121
Period size: 22 Copynumber: 7.9 Consensus size: 22
6181373 AAATAAACTT
*
6181383 AAACCTT-AATCTCTAAACCCTA
1 AAACCTTAAACCT-TAAACCCTA
6181405 AAACCTTAAACCTTAAACCCTAATGA
1 AAACCTTAAACCTTAAACCC---T-A
* * * *
6181431 AAAAC-TAAACCAT-AAGCAT-
1 AAACCTTAAACCTTAAACCCTA
6181450 AAACCTTTAAACCTTAAACCCT-
1 AAACC-TTAAACCTTAAACCCTA
*
6181472 AAACCTTTAAACCATAAACCCT-
1 AAACC-TTAAACCTTAAACCCTA
6181494 AAACCTTAAACCTTAAGACCCTA
1 AAACCTTAAACCTTAA-ACCCTA
* * *
6181517 AAATCTATAAACCCTAAACTCT-
1 AAACCT-TAAACCTTAAACCCTA
*
6181539 AAACC-TAAACATTAAACC
1 AAACCTTAAACCTTAAACC
6181557 ATATATTTAA
Statistics
Matches: 123, Mismatches: 18, Indels: 24
0.75 0.11 0.15
Matches are distributed among these distances:
19 4 0.03
20 10 0.08
21 18 0.15
22 53 0.43
23 13 0.11
24 12 0.10
25 8 0.07
26 5 0.04
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.23
Consensus pattern (22 bp):
AAACCTTAAACCTTAAACCCTA
Found at i:6181409 original size:55 final size:53
Alignment explanation
Indices: 6181350--6181474 Score: 144
Period size: 55 Copynumber: 2.3 Consensus size: 53
6181340 TATAAATTAT
* * *
6181350 AAACCTTAAACCTAAAACCCTAA-AAATAAACTTAAACCTTAATCTCTAAACCCTA
1 AAACCTTAAACCTAAAACCCTAATAAA-AAAC-TAAACCATAAGC-ATAAACCCTA
* * * *
6181405 AAACCTTAAACCTTAAACCCTAATGAAAAACTAAACCATAAGCATAAACCTTT
1 AAACCTTAAACCTAAAACCCTAATAAAAAACTAAACCATAAGCATAAACCCTA
6181458 AAACCTTAAACCCTAAA
1 AAACCTTAAA-CCTAAA
6181475 CCTTTAAACC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
53 17 0.28
54 15 0.25
55 26 0.43
56 2 0.03
ACGTcount: A:0.50, C:0.26, G:0.02, T:0.22
Consensus pattern (53 bp):
AAACCTTAAACCTAAAACCCTAATAAAAAACTAAACCATAAGCATAAACCCTA
Found at i:6181435 original size:68 final size:68
Alignment explanation
Indices: 6181369--6181495 Score: 163
Period size: 68 Copynumber: 1.9 Consensus size: 68
6181359 ACCTAAAACC
* * *
6181369 CTAAA-AATAAACTTAAACC-TT-AATCTCTAAACCCTAAAACC-TTAAACCTTAAACCCTAATG
1 CTAAACAATAAACATAAACCTTTAAACCT-TAAACCCT-AAACCTTTAAACCATAAACCCTAATG
6181430 AAAAA
64 AAAAA
* *
6181435 CTAAACCATAAGCATAAACCTTTAAACCTTAAACCCTAAACCTTTAAACCATAAACCCTAA
1 CTAAACAATAAACATAAACCTTTAAACCTTAAACCCTAAACCTTTAAACCATAAACCCTAA
6181496 ACCTTAAACC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
66 5 0.10
67 16 0.31
68 27 0.52
69 4 0.08
ACGTcount: A:0.48, C:0.27, G:0.02, T:0.24
Consensus pattern (68 bp):
CTAAACAATAAACATAAACCTTTAAACCTTAAACCCTAAACCTTTAAACCATAAACCCTAATGAA
AAA
Found at i:6181574 original size:7 final size:7
Alignment explanation
Indices: 6181436--6181590 Score: 68
Period size: 7 Copynumber: 21.9 Consensus size: 7
6181426 AATGAAAAAC
6181436 TAAACCA
1 TAAACCA
*
6181443 T-AAGCA
1 TAAACCA
*
6181449 TAAACCTT
1 TAAACC-A
*
6181457 TAAACCT
1 TAAACCA
*
6181464 TAAACCC
1 TAAACCA
*
6181471 TAAACCTT
1 TAAACC-A
6181479 TAAACCA
1 TAAACCA
*
6181486 TAAACCC
1 TAAACCA
*
6181493 TAAACCT
1 TAAACCA
*
6181500 TAAACCT
1 TAAACCA
*
6181507 TAAGACCC
1 TAA-ACCA
*
6181515 TAAAATCTA
1 T-AAA-CCA
*
6181524 TAAACCC
1 TAAACCA
6181531 TAAACTC-
1 TAAAC-CA
6181538 TAAACC-
1 TAAACCA
6181544 TAAA-CA
1 TAAACCA
6181550 TTAAACCA
1 -TAAACCA
* **
6181558 TATA-TT
1 TAAACCA
*
6181564 TAAATCA
1 TAAACCA
6181571 TAAACCA
1 TAAACCA
*
6181578 TAAACCC
1 TAAACCA
6181585 TAAACC
1 TAAACC
6181591 CTAATTTTAA
Statistics
Matches: 116, Mismatches: 21, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
5 1 0.01
6 13 0.11
7 75 0.65
8 23 0.20
9 4 0.03
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.24
Consensus pattern (7 bp):
TAAACCA
Found at i:6181649 original size:20 final size:21
Alignment explanation
Indices: 6181626--6181668 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
6181616 CCTAAACTCC
*
6181626 AACCATCAACCCTAAA-TATA
1 AACCATAAACCCTAAATTATA
*
6181646 AACCATAAATCCTAAATTATA
1 AACCATAAACCCTAAATTATA
6181667 AA
1 AA
6181669 TACTAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (21 bp):
AACCATAAACCCTAAATTATA
Found at i:6181782 original size:20 final size:19
Alignment explanation
Indices: 6181728--6181782 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
6181718 ATTAAGTTCT
*
6181728 AACTAAACCCTAAACCCTA
1 AACTAAAACCTAAACCCTA
6181747 AACTAAAA-CTACAAACCCTA
1 AACTAAAACCT--AAACCCTA
6181767 AACATAAAACCTAAAC
1 AAC-TAAAACCTAAAC
6181783 AGTAAATCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.06
19 7 0.23
20 15 0.48
21 5 0.16
22 2 0.06
ACGTcount: A:0.55, C:0.31, G:0.00, T:0.15
Consensus pattern (19 bp):
AACTAAAACCTAAACCCTA
Found at i:6181815 original size:7 final size:7
Alignment explanation
Indices: 6181805--6181829 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6181795 CTTTAAACCT
6181805 TAAATTA
1 TAAATTA
6181812 TAAATTA
1 TAAATTA
6181819 TAAATTA
1 TAAATTA
6181826 TAAA
1 TAAA
6181830 CCCTAAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
TAAATTA
Found at i:6181896 original size:22 final size:22
Alignment explanation
Indices: 6181870--6181941 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 22
6181860 ACCAAATCTT
*
6181870 AAACCTCTAAACCATAAGCCCT-
1 AAACC-CTAAACCTTAAGCCCTA
* * *
6181892 AAACCCTAAAACTTAAACCTTA
1 AAACCCTAAACCTTAAGCCCTA
6181914 AAACCCTAAACCTTAAGACCCTA
1 AAACCCTAAACCTTAAG-CCCTA
6181937 AAACC
1 AAACC
6181942 TATAAACCCT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
21 12 0.29
22 20 0.49
23 9 0.22
ACGTcount: A:0.46, C:0.33, G:0.03, T:0.18
Consensus pattern (22 bp):
AAACCCTAAACCTTAAGCCCTA
Found at i:6181900 original size:7 final size:7
Alignment explanation
Indices: 6181869--6181960 Score: 67
Period size: 7 Copynumber: 12.4 Consensus size: 7
6181859 TACCAAATCT
6181869 TAAACCTC
1 TAAACC-C
*
6181877 TAAACCA
1 TAAACCC
*
6181884 TAAGCCC
1 TAAACCC
6181891 TAAACCC
1 TAAACCC
* *
6181898 TAAAACT
1 TAAACCC
*
6181905 TAAACCT
1 TAAACCC
6181912 TAAAACCC
1 T-AAACCC
*
6181920 TAAACCT
1 TAAACCC
6181927 TAAGACCC
1 TAA-ACCC
*
6181935 TAAAACCTA
1 T-AAACC-C
6181944 TAAACCC
1 TAAACCC
*
6181951 TAAACTC
1 TAAACCC
6181958 TAA
1 TAA
6181961 TTTTAAAAAC
Statistics
Matches: 67, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
7 40 0.60
8 24 0.36
9 3 0.04
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:6181925 original size:15 final size:15
Alignment explanation
Indices: 6181827--6181955 Score: 83
Period size: 15 Copynumber: 8.7 Consensus size: 15
6181817 TATAAATTAT
*
6181827 AAACCCTAAATCTTA
1 AAACCCTAAACCTTA
* *
6181842 AAACGCTAAAAC-T-
1 AAACCCTAAACCTTA
*
6181855 AAACTACC-AAATCTT-
1 AAAC--CCTAAACCTTA
*
6181870 AAACCTCTAAACCAT-
1 AAACC-CTAAACCTTA
* *
6181885 AAGCCCTAAACCCTA
1 AAACCCTAAACCTTA
*
6181900 AAA-CTTAAACCTTA
1 AAACCCTAAACCTTA
6181914 AAACCCTAAACCTTA
1 AAACCCTAAACCTTA
*
6181929 AGACCCTAAAACC-TA
1 AAACCCT-AAACCTTA
6181944 TAAACCCTAAAC
1 -AAACCCTAAAC
6181956 TCTAATTTTA
Statistics
Matches: 91, Mismatches: 14, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
13 5 0.05
14 26 0.29
15 49 0.54
16 11 0.12
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.20
Consensus pattern (15 bp):
AAACCCTAAACCTTA
Found at i:6181952 original size:9 final size:8
Alignment explanation
Indices: 6181888--6181954 Score: 54
Period size: 8 Copynumber: 8.9 Consensus size: 8
6181878 AAACCATAAG
6181888 CCCT-AAA
1 CCCTAAAA
6181895 CCCTAAAA
1 CCCTAAAA
*
6181903 --CTTAAA
1 CCCTAAAA
*
6181909 CCTTAAAA
1 CCCTAAAA
6181917 CCCT-AAA
1 CCCTAAAA
* *
6181924 CCTTAAGA
1 CCCTAAAA
6181932 CCCTAAAA
1 CCCTAAAA
6181940 -CCTATAAA
1 CCCTA-AAA
6181948 CCCTAAA
1 CCCTAAA
6181955 CTCTAATTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
6 5 0.11
7 14 0.30
8 23 0.50
9 4 0.09
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.19
Consensus pattern (8 bp):
CCCTAAAA
Found at i:6182206 original size:15 final size:14
Alignment explanation
Indices: 6182182--6182276 Score: 70
Period size: 15 Copynumber: 6.7 Consensus size: 14
6182172 AATTAAATTC
6182182 TAAACCTAAAACCT
1 TAAACCTAAAACCT
*
6182196 TAAACCCTAAATCCT
1 TAAA-CCTAAAACCT
* *
6182211 AAAACCCTAAAACCC
1 TAAA-CCTAAAACCT
* *
6182226 TAAA-TTATAAATCT
1 TAAACCTA-AAACCT
*
6182240 TAAACCTAAAACCC
1 TAAACCTAAAACCT
*
6182254 TAAACAT-AAA-CT
1 TAAACCTAAAACCT
6182266 TAAACCCTAAA
1 TAAA-CCTAAA
6182277 CACAAATCAT
Statistics
Matches: 62, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
12 5 0.08
13 7 0.11
14 24 0.39
15 26 0.42
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCTAAAACCT
Found at i:6182221 original size:8 final size:8
Alignment explanation
Indices: 6182186--6182229 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
6182176 AAATTCTAAA
6182186 CCTAAAA-
1 CCTAAAAC
*
6182193 CCTTAAAC
1 CCTAAAAC
*
6182201 CCT-AAAT
1 CCTAAAAC
6182208 CCTAAAAC
1 CCTAAAAC
6182216 CCTAAAAC
1 CCTAAAAC
6182224 CCTAAA
1 CCTAAA
6182230 TTATAAATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
7 12 0.38
8 20 0.62
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (8 bp):
CCTAAAAC
Found at i:6182487 original size:20 final size:20
Alignment explanation
Indices: 6182458--6182537 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
6182448 CACTAAATGA
*
6182458 TAAACTATAAACCCTAAACT
1 TAAACAATAAACCCTAAACT
*
6182478 TAAACAATAAACCCGAAA-T
1 TAAACAATAAACCCTAAACT
* * *
6182497 ATAAACCATAAATCCTAAATCC
1 -TAAACAATAAACCCTAAA-CT
* *
6182519 TAAAAAATAAACCTTAAAC
1 TAAACAATAAACCCTAAAC
6182538 CCTAATCATA
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
19 1 0.02
20 32 0.68
21 14 0.30
ACGTcount: A:0.55, C:0.23, G:0.01, T:0.21
Consensus pattern (20 bp):
TAAACAATAAACCCTAAACT
Found at i:6182554 original size:27 final size:28
Alignment explanation
Indices: 6182493--6182557 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
6182483 AATAAACCCG
* *
6182493 AAAT-ATAAACCATAAATCCTAAATCCT
1 AAATAATAAACCATAAACCCTAAATCAT
* *
6182520 AAAAAATAAACCTTAAACCCT-AATCAT
1 AAATAATAAACCATAAACCCTAAATCAT
6182547 AAATAATAAAC
1 AAATAATAAAC
6182558 TATACACATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 18 0.56
28 14 0.44
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (28 bp):
AAATAATAAACCATAAACCCTAAATCAT
Found at i:6183393 original size:19 final size:20
Alignment explanation
Indices: 6183358--6183396 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6183348 TTATAAACCT
6183358 AAAACCTAAACCTCTAAACA
1 AAAACCTAAACCTCTAAACA
*
6183378 AAAACTTAAACC-CTAAACA
1 AAAACCTAAACCTCTAAACA
6183397 CAAATCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.15
Consensus pattern (20 bp):
AAAACCTAAACCTCTAAACA
Found at i:6183514 original size:7 final size:7
Alignment explanation
Indices: 6183502--6183617 Score: 65
Period size: 7 Copynumber: 16.4 Consensus size: 7
6183492 CTTAAACCTT
6183502 TAAACCC
1 TAAACCC
6183509 TAAACCC
1 TAAACCC
*
6183516 TAAACCT
1 TAAACCC
* *
6183523 TAAATCT
1 TAAACCC
6183530 TAAGACCC
1 TAA-ACCC
*
6183538 TAAAACCTA
1 T-AAACC-C
6183547 TAAACCC
1 TAAACCC
*
6183554 TAAACTC
1 TAAACCC
6183561 TAAA-CC
1 TAAACCC
**
6183567 TAAACAT
1 TAAACCC
*
6183574 TAAACCA
1 TAAACCC
* **
6183581 TATA-TT
1 TAAACCC
* *
6183587 TAAATCA
1 TAAACCC
*
6183594 TAAACCA
1 TAAACCC
6183601 TAAACCC
1 TAAACCC
6183608 TAAACCC
1 TAAACCC
6183615 TAA
1 TAA
6183618 TTTTAAACAC
Statistics
Matches: 84, Mismatches: 20, Indels: 10
0.74 0.18 0.09
Matches are distributed among these distances:
6 8 0.10
7 62 0.74
8 11 0.13
9 3 0.04
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.23
Consensus pattern (7 bp):
TAAACCC
Found at i:6183524 original size:29 final size:29
Alignment explanation
Indices: 6183492--6183612 Score: 83
Period size: 27 Copynumber: 4.2 Consensus size: 29
6183482 ACTACCAAAT
*
6183492 CTTAAACCTTTAAACCCTAAACC-CTAAAC
1 CTTAAA-CTTTAAACCCTAAACCTATAAAC
6183521 CTTAAA-TCTTAAGACCCTAAAACCTATAAAC
1 CTTAAACT-TTAA-ACCCT-AAACCTATAAAC
* * *
6183552 CCTAAACTCTAAA-CCTAAACAT-TAAAC
1 CTTAAACTTTAAACCCTAAACCTATAAAC
* * * *
6183579 CATATA-TTTAAATCATAAACC-ATAAAC
1 CTTAAACTTTAAACCCTAAACCTATAAAC
*
6183606 CCTAAAC
1 CTTAAAC
6183613 CCTAATTTTA
Statistics
Matches: 73, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
26 5 0.07
27 25 0.34
28 9 0.12
29 14 0.19
30 6 0.08
31 13 0.18
32 1 0.01
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.25
Consensus pattern (29 bp):
CTTAAACTTTAAACCCTAAACCTATAAAC
Found at i:6183568 original size:22 final size:22
Alignment explanation
Indices: 6183494--6183568 Score: 89
Period size: 22 Copynumber: 3.4 Consensus size: 22
6183484 TACCAAATCT
*
6183494 TAAACCTTTAAACCCTAAACCC
1 TAAACCTATAAACCCTAAACCC
* *
6183516 TAAACCT-TAAATCTTAAGACCC
1 TAAACCTATAAACCCTAA-ACCC
*
6183538 TAAAACCTATAAACCCTAAACTC
1 T-AAACCTATAAACCCTAAACCC
6183561 TAAACCTA
1 TAAACCTA
6183569 AACATTAAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
21 8 0.18
22 19 0.42
23 10 0.22
24 8 0.18
ACGTcount: A:0.44, C:0.31, G:0.01, T:0.24
Consensus pattern (22 bp):
TAAACCTATAAACCCTAAACCC
Found at i:6183831 original size:14 final size:14
Alignment explanation
Indices: 6183809--6183842 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
6183799 ACCCAACAAT
*
6183809 TAAATTCTAAACCC
1 TAAACTCTAAACCC
6183823 TAAACTCTAAACCC
1 TAAACTCTAAACCC
6183837 TAAACT
1 TAAACT
6183843 AAAACTACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAACTCTAAACCC
Found at i:6183880 original size:14 final size:13
Alignment explanation
Indices: 6183815--6183887 Score: 53
Period size: 14 Copynumber: 5.5 Consensus size: 13
6183805 CAATTAAATT
*
6183815 CTAAACCCTAAAC
1 CTAAACACTAAAC
*
6183828 TCTAAACCCTAAA-
1 -CTAAACACTAAAC
6183841 CTAAA-ACTACAAAC
1 CTAAACACT--AAAC
6183855 CTTAAACA-TAAAGC
1 C-TAAACACTAAA-C
*
6183869 CTAAACACTAAAT
1 CTAAACACTAAAC
6183882 CTAAAC
1 CTAAAC
6183888 TTTAAACCCT
Statistics
Matches: 50, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
11 2 0.04
12 5 0.10
13 18 0.36
14 19 0.38
15 5 0.10
16 1 0.02
ACGTcount: A:0.51, C:0.29, G:0.01, T:0.19
Consensus pattern (13 bp):
CTAAACACTAAAC
Found at i:6184039 original size:15 final size:15
Alignment explanation
Indices: 6184019--6184082 Score: 55
Period size: 15 Copynumber: 4.3 Consensus size: 15
6184009 GTTATACAAT
6184019 AAACCTTAAATCTTA
1 AAACCTTAAATCTTA
*
6184034 AAACCTTAAAAC-TA
1 AAACCTTAAATCTTA
6184048 AACTACC--AAATCTT-
1 AA--ACCTTAAATCTTA
*
6184062 AAACCTTTAAACCTTA
1 AAACC-TTAAATCTTA
6184078 AAACC
1 AAACC
6184083 CATAAACCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
12 3 0.08
14 10 0.26
15 18 0.46
16 8 0.21
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (15 bp):
AAACCTTAAATCTTA
Found at i:6184351 original size:20 final size:20
Alignment explanation
Indices: 6184328--6184404 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
6184318 ATTAAATTCT
6184328 AAACCTTAAACCCTAAACTA
1 AAACCTTAAACCCTAAACTA
*
6184348 AAA-CTATAAAACCTAAACATA
1 AAACCT-TAAACCCTAAAC-TA
*
6184369 AAACC-TAAACACTAAATCT-
1 AAACCTTAAACCCTAAA-CTA
*
6184388 AAACTTTAAACCCTAAA
1 AAACCTTAAACCCTAAA
6184405 TTATTAATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
19 6 0.13
20 34 0.72
21 6 0.13
22 1 0.02
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.21
Consensus pattern (20 bp):
AAACCTTAAACCCTAAACTA
Found at i:6184391 original size:13 final size:13
Alignment explanation
Indices: 6184348--6184384 Score: 56
Period size: 13 Copynumber: 2.7 Consensus size: 13
6184338 CCCTAAACTA
6184348 AAACTATAAAACCT
1 AAAC-ATAAAACCT
6184362 AAACATAAAACCT
1 AAACATAAAACCT
6184375 AAACACTAAA
1 AAACA-TAAA
6184385 TCTAAACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.62, C:0.22, G:0.00, T:0.16
Consensus pattern (13 bp):
AAACATAAAACCT
Found at i:6184405 original size:20 final size:21
Alignment explanation
Indices: 6184320--6184405 Score: 74
Period size: 20 Copynumber: 4.2 Consensus size: 21
6184310 ACCCAACAAT
*
6184320 TAAATTCT-AAACCTTAAACCC
1 TAAA-TCTAAAACTTTAAACCC
* *
6184341 TAAA-CTAAAACTATAAAACC
1 TAAATCTAAAACTTTAAACCC
* *
6184361 TAAA-CATAAAAC-CTAAACAC
1 TAAATC-TAAAACTTTAAACCC
6184381 TAAATCT-AAACTTTAAACCC
1 TAAATCTAAAACTTTAAACCC
6184401 TAAAT
1 TAAAT
6184406 TATTAATTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
19 6 0.11
20 36 0.68
21 11 0.21
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAATCTAAAACTTTAAACCC
Found at i:6184590 original size:21 final size:21
Alignment explanation
Indices: 6184566--6184638 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
6184556 CTTAAAACCC
6184566 TAAACCCTAAAAATTAAACTT
1 TAAACCCTAAAAATTAAACTT
6184587 TAAA-CC-AAAAACCTTAAAC-T
1 TAAACCCTAAAAA--TTAAACTT
* * * *
6184607 CAAACACTAAACGA-TAAACTA
1 TAAACCCTAAA-AATTAAACTT
6184628 TAAACCCTAAA
1 TAAACCCTAAA
6184639 CTTAAATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
19 5 0.12
20 11 0.28
21 20 0.50
22 3 0.08
23 1 0.03
ACGTcount: A:0.55, C:0.23, G:0.01, T:0.21
Consensus pattern (21 bp):
TAAACCCTAAAAATTAAACTT
Found at i:6184644 original size:20 final size:20
Alignment explanation
Indices: 6184566--6184678 Score: 70
Period size: 20 Copynumber: 5.5 Consensus size: 20
6184556 CTTAAAACCC
* *
6184566 TAAACCCTAAAAATTAAACTT
1 TAAACCCT-AAACTTAAACTA
**
6184587 TAAACCAAAAACCTTAAACT-
1 TAAACCCTAAA-CTTAAACTA
* * *
6184607 CAAACACTAAACGATAAACTA
1 TAAACCCTAAAC-TTAAACTA
6184628 TAAACCCTAAACTTAAA-TAA
1 TAAACCCTAAACTTAAACT-A
* *
6184648 TAAAACCTAAA-TATAAACCA
1 TAAACCCTAAACT-TAAACTA
*
6184668 TAAATCCTAAA
1 TAAACCCTAAA
6184679 TCCTAAAAAA
Statistics
Matches: 72, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
19 3 0.04
20 46 0.64
21 23 0.32
ACGTcount: A:0.56, C:0.21, G:0.01, T:0.22
Consensus pattern (20 bp):
TAAACCCTAAACTTAAACTA
Found at i:6184860 original size:20 final size:21
Alignment explanation
Indices: 6184837--6184880 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
6184827 CCCTAAACTC
*
6184837 AAACCATCAACCCTAAAT-AT
1 AAACCATAAACCCTAAATGAT
* *
6184857 AAACCGTAAATCCTAAATGAT
1 AAACCATAAACCCTAAATGAT
6184878 AAA
1 AAA
6184881 TACTAAACCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.52, C:0.23, G:0.05, T:0.20
Consensus pattern (21 bp):
AAACCATAAACCCTAAATGAT
Found at i:6185169 original size:15 final size:14
Alignment explanation
Indices: 6185151--6185206 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 14
6185141 TACCAAAGCT
*
6185151 TAAACCTTGAAACTC
1 TAAACCTT-AAACCC
6185166 TAAAACCTTAAACCC
1 T-AAACCTTAAACCC
* *
6185181 TAAA-ATTAAACCT
1 TAAACCTTAAACCC
*
6185194 TAAACCATAAACC
1 TAAACCTTAAACC
6185207 ATACTCTCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
13 11 0.32
14 9 0.26
15 7 0.21
16 7 0.21
ACGTcount: A:0.48, C:0.27, G:0.02, T:0.23
Consensus pattern (14 bp):
TAAACCTTAAACCC
Found at i:6185184 original size:7 final size:7
Alignment explanation
Indices: 6185149--6185206 Score: 55
Period size: 7 Copynumber: 8.1 Consensus size: 7
6185139 ACTACCAAAG
6185149 CTTAAAC
1 CTTAAAC
6185156 CTTGAAAC
1 CTT-AAAC
*
6185164 TCTAAAAC
1 -CTTAAAC
6185172 CTTAAAC
1 CTTAAAC
*
6185179 CCTAAA-
1 CTTAAAC
*
6185185 ATTAAAC
1 CTTAAAC
6185192 CTTAAAC
1 CTTAAAC
*
6185199 CATAAAC
1 CTTAAAC
6185206 C
1 C
6185207 ATACTCTCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
6 4 0.10
7 27 0.66
8 8 0.20
9 2 0.05
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.24
Consensus pattern (7 bp):
CTTAAAC
Found at i:6185300 original size:20 final size:20
Alignment explanation
Indices: 6185228--6185300 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
6185218 CAGTAAAAAC
*
6185228 TAAACCCTAAATGATAAACTA
1 TAAACCCTAAAT-ATAAACAA
6185249 TAAACCCTAAACT-TAAACAA
1 TAAACCCTAAA-TATAAACAA
* *
6185269 TAAACCTTAAATATAAACCA
1 TAAACCCTAAATATAAACAA
*
6185289 TAAATCCTAAAT
1 TAAACCCTAAAT
6185301 CTGAAAAACT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.02
20 32 0.71
21 11 0.24
22 1 0.02
ACGTcount: A:0.53, C:0.21, G:0.01, T:0.25
Consensus pattern (20 bp):
TAAACCCTAAATATAAACAA
Found at i:6185979 original size:20 final size:21
Alignment explanation
Indices: 6185956--6185998 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
6185946 CCTAAGCTCC
*
6185956 AACCATCAACCCTAAA-TATA
1 AACCATAAACCCTAAATTATA
*
6185976 AACCATAAATCCTAAATTATA
1 AACCATAAACCCTAAATTATA
6185997 AA
1 AA
6185999 TACTAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (21 bp):
AACCATAAACCCTAAATTATA
Found at i:6186106 original size:27 final size:29
Alignment explanation
Indices: 6186062--6186165 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 29
6186052 AATTTTAACT
*
6186062 AAACCCTAAACCCTAAA-CTAAA-ACTAC
1 AAACCCTAAACCATAAACCTAAACACTAC
6186089 AAACCCTAAA-CATAAAACCTAAACACT--
1 AAACCCTAAACCAT-AAACCTAAACACTAC
* **
6186116 AAA-TCTAAACTTTAAACCTTAAAC-CTA-
1 AAACCCTAAACCATAAACC-TAAACACTAC
* *
6186143 AAACCCTAAA-AATAAACTTAAAC
1 AAACCCTAAACCATAAACCTAAAC
6186166 TTTAAACCCC
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
26 19 0.31
27 30 0.48
28 10 0.16
29 3 0.05
ACGTcount: A:0.54, C:0.27, G:0.00, T:0.19
Consensus pattern (29 bp):
AAACCCTAAACCATAAACCTAAACACTAC
Found at i:6186109 original size:13 final size:13
Alignment explanation
Indices: 6186093--6186158 Score: 53
Period size: 13 Copynumber: 4.9 Consensus size: 13
6186083 AACTACAAAC
6186093 CCTAAACATAAAA
1 CCTAAACATAAAA
6186106 CCTAAACACT-AAA
1 CCTAAACA-TAAAA
* * *
6186119 TCTAAACTTTAAA
1 CCTAAACATAAAA
*
6186132 CCTTAAACCTAAAA
1 CC-TAAACATAAAA
*
6186146 CCCTAAAAATAAA
1 -CCTAAACATAAA
6186159 CTTAAACTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
12 1 0.02
13 21 0.50
14 18 0.43
15 2 0.05
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (13 bp):
CCTAAACATAAAA
Found at i:6186112 original size:20 final size:19
Alignment explanation
Indices: 6186058--6186152 Score: 77
Period size: 20 Copynumber: 4.7 Consensus size: 19
6186048 ATTAAATTTT
*
6186058 AACTAAACCCTAAACCCTA
1 AACTAAAACCTAAACCCTA
6186077 AACTAAAA-CTACAAACCCTA
1 AACTAAAACCT--AAACCCTA
*
6186097 AACATAAAACCTAAACACTA
1 AAC-TAAAACCTAAACCCTA
* *
6186117 AATCT-AAACTTTAAACCTTA
1 AA-CTAAAAC-CTAAACCCTA
6186137 AACCTAAAACCCTAAA
1 AA-CTAAAA-CCTAAA
6186153 AATAAACTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
18 2 0.03
19 11 0.18
20 32 0.52
21 13 0.21
22 3 0.05
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (19 bp):
AACTAAAACCTAAACCCTA
Found at i:6186164 original size:33 final size:33
Alignment explanation
Indices: 6186103--6186186 Score: 98
Period size: 33 Copynumber: 2.5 Consensus size: 33
6186093 CCTAAACATA
* **
6186103 AAACCTAAACACTAAATCTAAACTTTAAACCTT
1 AAACCTAAACCCTAAAAATAAACTTTAAACCTT
*
6186136 AAACCTAAAACCCTAAAAATAAAC-TTAAACTTT
1 AAACCT-AAACCCTAAAAATAAACTTTAAACCTT
*
6186169 AAACCCCAAACCCTAAAA
1 AAA-CCTAAACCCTAAAA
6186187 CATTAAATCC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
33 28 0.64
34 16 0.36
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.21
Consensus pattern (33 bp):
AAACCTAAACCCTAAAAATAAACTTTAAACCTT
Found at i:6186165 original size:40 final size:41
Alignment explanation
Indices: 6186062--6186187 Score: 132
Period size: 40 Copynumber: 3.1 Consensus size: 41
6186052 AATTTTAACT
** * ** *
6186062 AAACCCTAAACCCTAAACTAAAACTACAAACCCTAAACATA
1 AAACCCTAAACAATAAACTTAAACTTTAAACCCTAAACCTA
* *
6186103 AAA-CCTAAACACTAAA-TCTAAACTTTAAACCTTAAACCTA
1 AAACCCTAAACAATAAACT-TAAACTTTAAACCCTAAACCTA
*
6186143 AAACCCTAAA-AATAAACTTAAACTTTAAACCCCAAACCCTA
1 AAACCCTAAACAATAAACTTAAACTTTAAACCCTAAA-CCTA
6186184 AAAC
1 AAAC
6186188 ATTAAATCCT
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.01
40 53 0.74
41 18 0.25
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (41 bp):
AAACCCTAAACAATAAACTTAAACTTTAAACCCTAAACCTA
Found at i:6186649 original size:20 final size:21
Alignment explanation
Indices: 6186626--6186668 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
6186616 CCTAAACTCC
*
6186626 AACCATCAACCCTAAA-TATA
1 AACCATAAACCCTAAATTATA
*
6186646 AACCATAAATCCTAAATTATA
1 AACCATAAACCCTAAATTATA
6186667 AA
1 AA
6186669 TACTAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (21 bp):
AACCATAAACCCTAAATTATA
Found at i:6186782 original size:20 final size:19
Alignment explanation
Indices: 6186728--6186782 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
6186718 ATTAAATTCC
*
6186728 AACTAAACCCTAAACCCTA
1 AACTAAAACCTAAACCCTA
6186747 AACTAAAA-CTACAAACCCTA
1 AACTAAAACCT--AAACCCTA
6186767 AACATAAAACCTAAAC
1 AAC-TAAAACCTAAAC
6186783 AGTAAACCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.06
19 7 0.23
20 15 0.48
21 5 0.16
22 2 0.06
ACGTcount: A:0.55, C:0.31, G:0.00, T:0.15
Consensus pattern (19 bp):
AACTAAAACCTAAACCCTA
Found at i:6186801 original size:13 final size:13
Alignment explanation
Indices: 6186763--6186804 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
6186753 AACTACAAAC
*
6186763 CCTAAACATAAAA
1 CCTAAACATTAAA
*
6186776 CCTAAACAGTAAA
1 CCTAAACATTAAA
*
6186789 CCTAAACTTTAAA
1 CCTAAACATTAAA
6186802 CCT
1 CCT
6186805 TAAATTATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.50, C:0.26, G:0.02, T:0.21
Consensus pattern (13 bp):
CCTAAACATTAAA
Found at i:6186815 original size:14 final size:14
Alignment explanation
Indices: 6186785--6186836 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
6186775 ACCTAAACAG
6186785 TAAACC-TAAACTT-
1 TAAACCTTAAA-TTA
6186798 TAAACCTTAAATTA
1 TAAACCTTAAATTA
*
6186812 TAAA-TTATAAATTA
1 TAAACCT-TAAATTA
6186826 TAAACCTTAAA
1 TAAACCTTAAA
6186837 CCTAAAACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
13 9 0.27
14 23 0.70
15 1 0.03
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (14 bp):
TAAACCTTAAATTA
Found at i:6186862 original size:6 final size:7
Alignment explanation
Indices: 6186826--6187019 Score: 85
Period size: 7 Copynumber: 26.9 Consensus size: 7
6186816 TTATAAATTA
6186826 TAAACCT
1 TAAACCT
6186833 TAAACCT
1 TAAACCT
* *
6186840 AAAACCC
1 TAAACCT
**
6186847 TAAA-AA
1 TAAACCT
6186853 TAAA-CT
1 TAAACCT
6186859 TAAACCT
1 TAAACCT
*
6186866 TAATCCCT
1 TAA-ACCT
*
6186874 AAAACCT
1 TAAACCT
6186881 TAAACCCT
1 TAAA-CCT
*
6186889 AATGAAAAAC-
1 --T--AAACCT
*
6186899 TAAACCA
1 TAAACCT
* *
6186906 TAAGCAT
1 TAAACCT
6186913 -AAACCTT
1 TAAACC-T
*
6186920 TAAACCC
1 TAAACCT
*
6186927 TAAACCC
1 TAAACCT
6186934 TAAACCTT
1 TAAACC-T
*
6186942 TAAACCA
1 TAAACCT
*
6186949 TAAACCC
1 TAAACCT
6186956 TAAACCT
1 TAAACCT
6186963 TAAACCT
1 TAAACCT
6186970 TAAGACCT
1 TAA-ACCT
*
6186978 TAAAATCT
1 T-AAACCT
*
6186986 ATAAACCC
1 -TAAACCT
6186994 TAAA-CT
1 TAAACCT
6187000 CTAAACC-
1 -TAAACCT
*
6187007 TAAACAT
1 TAAACCT
6187014 TAAACC
1 TAAACC
6187020 ATATATTTAA
Statistics
Matches: 141, Mismatches: 29, Indels: 34
0.69 0.14 0.17
Matches are distributed among these distances:
6 21 0.15
7 79 0.56
8 33 0.23
9 3 0.02
10 1 0.01
11 1 0.01
12 3 0.02
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.23
Consensus pattern (7 bp):
TAAACCT
Found at i:6186873 original size:26 final size:27
Alignment explanation
Indices: 6186825--6186877 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
6186815 ATTATAAATT
6186825 ATAAACCTTAAACCTAAAACCCTAAAA
1 ATAAACCTTAAACCTAAAACCCTAAAA
* *
6186852 ATAAA-CTTAAACCTTAATCCCTAAAA
1 ATAAACCTTAAACCTAAAACCCTAAAA
6186878 CCTTAAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.23
Consensus pattern (27 bp):
ATAAACCTTAAACCTAAAACCCTAAAA
Found at i:6186880 original size:15 final size:15
Alignment explanation
Indices: 6186860--6186997 Score: 54
Period size: 15 Copynumber: 9.1 Consensus size: 15
6186850 AAATAAACTT
*
6186860 AAACCTTAATCCCTA
1 AAACCTTAAACCCTA
6186875 AAACCTTAAACCCTAATGA
1 AAACCTTAAACCC---T-A
*
6186894 AAAAC-TAAA-CC-A
1 AAACCTTAAACCCTA
* * * * *
6186906 TAAGCATAAACCTTT
1 AAACCTTAAACCCTA
*
6186921 AAACCCTAAACCCT-
1 AAACCTTAAACCCTA
*
6186935 AAACCTTTAAACCAT-
1 AAACC-TTAAACCCTA
* *
6186950 AAACCCTAAA-CCTT
1 AAACCTTAAACCCTA
*
6186964 AAACCTTAAGACCTTA
1 AAACCTTAA-ACCCTA
*
6186980 AAATCTATAAACCCTA
1 AAACCT-TAAACCCTA
6186996 AA
1 AA
6186998 CTCTAAACCT
Statistics
Matches: 92, Mismatches: 19, Indels: 23
0.69 0.14 0.17
Matches are distributed among these distances:
12 4 0.04
13 6 0.07
14 18 0.20
15 35 0.38
16 14 0.15
17 5 0.05
18 5 0.05
19 5 0.05
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.22
Consensus pattern (15 bp):
AAACCTTAAACCCTA
Found at i:6186883 original size:22 final size:21
Alignment explanation
Indices: 6186825--6187053 Score: 65
Period size: 22 Copynumber: 10.7 Consensus size: 21
6186815 ATTATAAATT
* *
6186825 ATAAACCTTAAACCTAAAACC
1 ATAAACCCTAAACCTTAAACC
* **
6186846 CTAAA-AATAAA-CTTAAACC
1 ATAAACCCTAAACCTTAAACC
* *
6186865 TTAATCCCTAAAACCTTAAACCC
1 ATAAACCCT-AAACCTTAAA-CC
** * *
6186888 TAATGAAAAACTAAACCAT-AAGC
1 --AT-AAACCCTAAACCTTAAACC
* *
6186911 ATAAACCTTTAAACCCTAAACC
1 ATAAACC-CTAAACCTTAAACC
* * *
6186933 CTAAACCTTTAAACCATAAACC
1 ATAAACC-CTAAACCTTAAACC
* *
6186955 CTAAACCTTAAACCTTAAGACC
1 ATAAACCCTAAACCTTAA-ACC
* ** *
6186977 TTAAAATCTATAAACCCTAAACTC
1 AT-AAA-CCCTAAACCTTAAAC-C
*
6187001 -TAAA-CCTAAACATTAAACC
1 ATAAACCCTAAACCTTAAACC
* ** * *
6187020 ATATA-TTTAAATCATAAACC
1 ATAAACCCTAAACCTTAAACC
6187040 ATAAACCCTAAACC
1 ATAAACCCTAAACC
6187054 CTAATTTTAA
Statistics
Matches: 153, Mismatches: 40, Indels: 30
0.69 0.18 0.13
Matches are distributed among these distances:
19 11 0.07
20 35 0.23
21 31 0.20
22 43 0.28
23 9 0.06
24 13 0.08
25 7 0.05
26 4 0.03
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.23
Consensus pattern (21 bp):
ATAAACCCTAAACCTTAAACC
Found at i:6186899 original size:41 final size:38
Alignment explanation
Indices: 6186828--6186968 Score: 104
Period size: 41 Copynumber: 3.5 Consensus size: 38
6186818 ATAAATTATA
* * *
6186828 AACCTTAAACCTAAAACCCTAAAAATAAACTTAAACCTT
1 AACCATAAACCTTAAACCCTAAAAATAAAC-TAAACCAT
* *
6186867 AATCCCTAAAACCTTAAACCCTAATGAA-AAACTAAACCAT
1 AA-CCAT-AAACCTTAAACCCTAA-AAATAAACTAAACCAT
* **
6186907 AAGCATAAACCTTTAAACCCTAAACCCTAAACCTTTAAACCAT
1 AACCATAAACC-TTAAACCCTAAA-AATAAA-C--TAAACCAT
*
6186950 AAACCCTAAACCTTAAACC
1 -AACCATAAACCTTAAACC
6186969 TTAAGACCTT
Statistics
Matches: 81, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
38 5 0.06
39 15 0.19
40 15 0.19
41 20 0.25
42 2 0.02
43 15 0.19
44 9 0.11
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.21
Consensus pattern (38 bp):
AACCATAAACCTTAAACCCTAAAAATAAACTAAACCAT
Found at i:6187037 original size:7 final size:7
Alignment explanation
Indices: 6186899--6187053 Score: 68
Period size: 7 Copynumber: 21.9 Consensus size: 7
6186889 AATGAAAAAC
6186899 TAAACCA
1 TAAACCA
*
6186906 T-AAGCA
1 TAAACCA
*
6186912 TAAACCTT
1 TAAACC-A
*
6186920 TAAACCC
1 TAAACCA
*
6186927 TAAACCC
1 TAAACCA
*
6186934 TAAACCTT
1 TAAACC-A
6186942 TAAACCA
1 TAAACCA
*
6186949 TAAACCC
1 TAAACCA
*
6186956 TAAACCT
1 TAAACCA
*
6186963 TAAACCT
1 TAAACCA
*
6186970 TAAGACCT
1 TAA-ACCA
*
6186978 TAAAATCTA
1 T-AAA-CCA
*
6186987 TAAACCC
1 TAAACCA
6186994 TAAACTC-
1 TAAAC-CA
6187001 TAAACC-
1 TAAACCA
6187007 TAAA-CA
1 TAAACCA
6187013 TTAAACCA
1 -TAAACCA
* **
6187021 TATA-TT
1 TAAACCA
*
6187027 TAAATCA
1 TAAACCA
6187034 TAAACCA
1 TAAACCA
*
6187041 TAAACCC
1 TAAACCA
6187048 TAAACC
1 TAAACC
6187054 CTAATTTTAA
Statistics
Matches: 117, Mismatches: 20, Indels: 22
0.74 0.13 0.14
Matches are distributed among these distances:
5 1 0.01
6 13 0.11
7 75 0.64
8 24 0.21
9 4 0.03
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.24
Consensus pattern (7 bp):
TAAACCA
Found at i:6187112 original size:20 final size:21
Alignment explanation
Indices: 6187089--6187131 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
6187079 CCTAAACTCC
*
6187089 AACCATCAACCCTAAA-TATA
1 AACCATAAACCCTAAATTATA
*
6187109 AACCATAAATCCTAAATTATA
1 AACCATAAACCCTAAATTATA
6187130 AA
1 AA
6187132 TACTAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (21 bp):
AACCATAAACCCTAAATTATA
Found at i:6187269 original size:40 final size:40
Alignment explanation
Indices: 6187197--6187274 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
6187187 TTCTAAACCT
* *
6187197 TAAACCCTAAACCCTAAACTAAAACTACAAACCTTAAACA
1 TAAACCCTAAACACTAAACTAAAACTACAAACCCTAAACA
* **
6187237 TAAAGCCTAAACACTAAATCT-AAACTTTAAACCCTAAA
1 TAAACCCTAAACACTAAA-CTAAAACTACAAACCCTAAA
6187275 TTATAAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 30 0.94
41 2 0.06
ACGTcount: A:0.51, C:0.27, G:0.01, T:0.21
Consensus pattern (40 bp):
TAAACCCTAAACACTAAACTAAAACTACAAACCCTAAACA
Found at i:6187721 original size:20 final size:21
Alignment explanation
Indices: 6187698--6187748 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
6187688 ATTAAATTCT
6187698 AAACCTTAAACCCTAAAC-TA
1 AAACCTTAAACCCTAAACATA
*
6187718 AAA-CTATAAAACCTAAACATA
1 AAACCT-TAAACCCTAAACATA
6187739 AAACC-TAAAC
1 AAACCTTAAAC
6187749 ATAAACAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 2 0.08
20 18 0.69
21 5 0.19
22 1 0.04
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.18
Consensus pattern (21 bp):
AAACCTTAAACCCTAAACATA
Found at i:6187760 original size:13 final size:13
Alignment explanation
Indices: 6187718--6187753 Score: 63
Period size: 13 Copynumber: 2.7 Consensus size: 13
6187708 CCCTAAACTA
6187718 AAACTATAAAACCT
1 AAAC-ATAAAACCT
6187732 AAACATAAAACCT
1 AAACATAAAACCT
6187745 AAACATAAA
1 AAACATAAA
6187754 CAGTAAATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 18 0.82
14 4 0.18
ACGTcount: A:0.64, C:0.19, G:0.00, T:0.17
Consensus pattern (13 bp):
AAACATAAAACCT
Found at i:6187842 original size:7 final size:7
Alignment explanation
Indices: 6187832--6187864 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
6187822 AATTAAATTC
6187832 TAAACCT
1 TAAACCT
*
6187839 TAAATCT
1 TAAACCT
6187846 TAAACCT
1 TAAACCT
6187853 TAAACCT
1 TAAACCT
6187860 TAAAC
1 TAAAC
6187865 TAAAACTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (7 bp):
TAAACCT
Found at i:6188057 original size:15 final size:15
Alignment explanation
Indices: 6188039--6188092 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
6188029 ACCAAATTTT
*
6188039 AAACCTTTAACCCTA
1 AAACCTTAAACCCTA
6188054 AAACCTTAAACCCTA
1 AAACCTTAAACCCTA
*
6188069 AAA--TTAAA-CCTT
1 AAACCTTAAACCCTA
*
6188081 AAACCATAAACC
1 AAACCTTAAACC
6188093 ATACTCTCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 6 0.18
13 5 0.15
14 4 0.12
15 18 0.55
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (15 bp):
AAACCTTAAACCCTA
Found at i:6188064 original size:7 final size:7
Alignment explanation
Indices: 6188037--6188092 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
6188027 CTACCAAATT
6188037 TTAAACC
1 TTAAACC
*
6188044 TTTAACCC
1 -TTAAACC
*
6188052 TAAAACC
1 TTAAACC
6188059 TTAAACC
1 TTAAACC
* *
6188066 CTAAA-A
1 TTAAACC
6188072 TTAAACC
1 TTAAACC
6188079 TTAAACC
1 TTAAACC
*
6188086 ATAAACC
1 TTAAACC
6188093 ATACTCTCAA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
6 4 0.11
7 28 0.74
8 6 0.16
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (7 bp):
TTAAACC
Found at i:6188132 original size:41 final size:38
Alignment explanation
Indices: 6188060--6188176 Score: 92
Period size: 41 Copynumber: 2.9 Consensus size: 38
6188050 CCTAAAACCT
* * * *
6188060 TAAACCCT-AAAATTAAACCTTAAACCATAAACCATACTC
1 TAAA-CCTAAAAAATAAACCCTAAA-TATAAACCATACCC
* *
6188099 TCAAACACTAAAAAATAGACCCTAAATGATAAACAATAAACCC
1 T-AAAC-CTAAAAAATAAACCCTAAAT-ATAAACCAT--ACCC
* *
6188142 TAAACTTAAACAATAAACCCTAAATATAAACCATA
1 TAAACCTAAAAAATAAACCCTAAATATAAACCATA
6188177 AATCTTCAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
38 1 0.02
39 2 0.03
40 13 0.21
41 38 0.61
42 4 0.06
43 4 0.06
ACGTcount: A:0.54, C:0.24, G:0.02, T:0.21
Consensus pattern (38 bp):
TAAACCTAAAAAATAAACCCTAAATATAAACCATACCC
Found at i:6188153 original size:20 final size:20
Alignment explanation
Indices: 6188107--6188178 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
6188097 TCTCAAACAC
* *
6188107 TAAAAAATAGACCCTAAATGA
1 TAAACAATAAACCCTAAAT-A
6188128 TAAACAATAAACCCTAAACT-
1 TAAACAATAAACCCTAAA-TA
6188148 TAAACAATAAACCCTAAATA
1 TAAACAATAAACCCTAAATA
*
6188168 TAAACCATAAA
1 TAAACAATAAA
6188179 TCTTCAATCC
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
19 1 0.02
20 28 0.61
21 16 0.35
22 1 0.02
ACGTcount: A:0.58, C:0.19, G:0.03, T:0.19
Consensus pattern (20 bp):
TAAACAATAAACCCTAAATA
Found at i:6188218 original size:14 final size:14
Alignment explanation
Indices: 6188155--6188219 Score: 51
Period size: 14 Copynumber: 4.7 Consensus size: 14
6188145 ACTTAAACAA
*
6188155 TAAACCCTAAAT-A
1 TAAACCCTAAATCC
* *
6188168 TAAACCATAAATCT
1 TAAACCCTAAATCC
* * **
6188182 TCAATCCTAAAAAC
1 TAAACCCTAAATCC
*
6188196 TAAATCCTAAATCC
1 TAAACCCTAAATCC
6188210 TAAACCCTAA
1 TAAACCCTAA
6188220 CCACAAATAA
Statistics
Matches: 39, Mismatches: 12, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
13 11 0.28
14 28 0.72
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACCCTAAATCC
Found at i:6188268 original size:21 final size:23
Alignment explanation
Indices: 6188242--6188285 Score: 74
Period size: 21 Copynumber: 2.0 Consensus size: 23
6188232 AAATATATAT
6188242 AAACCCTAAAA-CTAAA-ATTAA
1 AAACCCTAAAACCTAAACATTAA
6188263 AAACCCTAAAACCTAAACATTAA
1 AAACCCTAAAACCTAAACATTAA
6188286 CCCTCATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 11 0.52
22 5 0.24
23 5 0.24
ACGTcount: A:0.59, C:0.23, G:0.00, T:0.18
Consensus pattern (23 bp):
AAACCCTAAAACCTAAACATTAA
Found at i:6188430 original size:20 final size:20
Alignment explanation
Indices: 6188407--6188444 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
6188397 CTCGAACGCT
6188407 AAACCCTAAACACTAAACAC
1 AAACCCTAAACACTAAACAC
6188427 AAACCCTAAACACTAAAC
1 AAACCCTAAACACTAAAC
6188445 CCTAAAACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.34, G:0.00, T:0.11
Consensus pattern (20 bp):
AAACCCTAAACACTAAACAC
Found at i:6188435 original size:27 final size:27
Alignment explanation
Indices: 6188380--6188450 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
6188370 AACCTATATA
* * * *
6188380 TAAACAATAAACA-TAAACTCGAACGC
1 TAAACACTAAACACTAAACACAAACCC
*
6188406 TAAACCCTAAACACTAAACACAAACCC
1 TAAACACTAAACACTAAACACAAACCC
*
6188433 TAAACACTAAACCCTAAA
1 TAAACACTAAACACTAAA
6188451 ACCCTAATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 11 0.30
27 26 0.70
ACGTcount: A:0.54, C:0.30, G:0.03, T:0.14
Consensus pattern (27 bp):
TAAACACTAAACACTAAACACAAACCC
Found at i:6188454 original size:8 final size:7
Alignment explanation
Indices: 6188405--6188457 Score: 63
Period size: 7 Copynumber: 7.6 Consensus size: 7
6188395 AACTCGAACG
6188405 CTAAACC
1 CTAAACC
*
6188412 CTAAACA
1 CTAAACC
*
6188419 CTAAACA
1 CTAAACC
6188426 C-AAACC
1 CTAAACC
*
6188432 CTAAACA
1 CTAAACC
6188439 CTAAACC
1 CTAAACC
6188446 CTAAAACC
1 CT-AAACC
6188454 CTAA
1 CTAA
6188458 TAAAAACTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
6 5 0.12
7 28 0.70
8 7 0.17
ACGTcount: A:0.51, C:0.36, G:0.00, T:0.13
Consensus pattern (7 bp):
CTAAACC
Done.