Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 22 of 173
Found at i:6223895 original size:20 final size:20
Alignment explanation
Indices: 6223866--6223909 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
6223856 TAATGAAAAA
*
6223866 CTAAACCATAAACATAAACC
1 CTAAAACATAAACATAAACC
*
6223886 CTAAAACATAAGCATAAACC
1 CTAAAACATAAACATAAACC
6223906 CTAA
1 CTAA
6223910 TTATATCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.27, G:0.02, T:0.16
Consensus pattern (20 bp):
CTAAAACATAAACATAAACC
Found at i:6223995 original size:40 final size:40
Alignment explanation
Indices: 6223958--6224079 Score: 144
Period size: 40 Copynumber: 3.1 Consensus size: 40
6223948 CACTAAACAC
*
6223958 TAAACCCTAAATATAAATCATAAACCGTAAATATAAACCT
1 TAAACCCTAAATATAAATCATAAACCATAAATATAAACCT
* * *
6223998 TAAGCACTATAAT-TATATCATAAACCATAAATATAAACCT
1 TAAACCCTA-AATATAAATCATAAACCATAAATATAAACCT
* *
6224038 TAAACCCT-AATA-ACAAAC-TAAACCATAAATATAAACCC
1 TAAACCCTAAATATA-AATCATAAACCATAAATATAAACCT
6224076 TAAA
1 TAAA
6224080 ATATAAGTAT
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
38 27 0.39
39 2 0.03
40 38 0.54
41 3 0.04
ACGTcount: A:0.53, C:0.20, G:0.02, T:0.25
Consensus pattern (40 bp):
TAAACCCTAAATATAAATCATAAACCATAAATATAAACCT
Found at i:6224151 original size:14 final size:14
Alignment explanation
Indices: 6224134--6224173 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
6224124 CACTAAACAC
*
6224134 TAAACCTTAAATTA
1 TAAACCTTAAAATA
* *
6224148 TAAACCCTAAAATC
1 TAAACCTTAAAATA
6224162 TAAACCTTAAAA
1 TAAACCTTAAAA
6224174 CCATAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.28
Consensus pattern (14 bp):
TAAACCTTAAAATA
Found at i:6224165 original size:21 final size:20
Alignment explanation
Indices: 6224127--6224257 Score: 70
Period size: 21 Copynumber: 6.4 Consensus size: 20
6224117 CCTCAATCAC
* *
6224127 TAAACACTAAACCTTAAATTA
1 TAAACCCTAAAAC-TAAATTA
6224148 TAAACCCTAAAATCTAAACCTTA
1 TAAACCCTAAAA-CTAAA--TTA
* * **
6224171 -AAACCATAAAAATAAACAA
1 TAAACCCTAAAACTAAATTA
* * * *
6224190 TAAACCTTACAATTAAA-CA
1 TAAACCCTAAAACTAAATTA
*
6224209 TAAACACTAAAACTAAAATTA
1 TAAACCCTAAAACT-AAATTA
* *
6224230 AAAACCCTAAAACCTAAA-CA
1 TAAACCCTAAAA-CTAAATTA
6224250 TAAACCCT
1 TAAACCCT
6224258 CATTATATCA
Statistics
Matches: 84, Mismatches: 19, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
19 12 0.14
20 24 0.29
21 32 0.38
22 13 0.15
23 3 0.04
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.21
Consensus pattern (20 bp):
TAAACCCTAAAACTAAATTA
Found at i:6224286 original size:98 final size:97
Alignment explanation
Indices: 6224171--6224353 Score: 237
Period size: 98 Copynumber: 1.9 Consensus size: 97
6224161 CTAAACCTTA
* *
6224171 AAACCATAAAAATAAACA-ATAAACCTTACAA-TTAAACATAAACA-CTAAAACTAAAATTAAAA
1 AAACCATAAAAATAAACACA-AAACCTTA-AACTTAAA-ATAAAAACCTAAAA-TAAAACTAAAA
6224233 ACCCTAAAACCTAAACATAAACCCTCATTATATCAT
62 ACCCTAAAACCTAAACATAAACCCTCATTATATCAT
* * *
6224269 AAACCATAAACATAAACACAAAACCTTAAACCTTAAAATAAAAACCTAAGATAAAACTAGAAACC
1 AAACCATAAAAATAAACACAAAACCTTAAA-CTTAAAATAAAAACCTAAAATAAAACTAAAAACC
* *
6224334 CTAAAACCTATATATAAACC
65 CTAAAACCTAAACATAAACC
6224354 ATAAACCTAA
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
97 2 0.03
98 61 0.82
99 11 0.15
ACGTcount: A:0.57, C:0.22, G:0.01, T:0.20
Consensus pattern (97 bp):
AAACCATAAAAATAAACACAAAACCTTAAACTTAAAATAAAAACCTAAAATAAAACTAAAAACCC
TAAAACCTAAACATAAACCCTCATTATATCAT
Found at i:6224376 original size:13 final size:13
Alignment explanation
Indices: 6224359--6224406 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
6224349 AAACCATAAA
6224359 CCTAAACTCAAAC
1 CCTAAACTCAAAC
* *
6224372 ACTAAACACTAAAC
1 CCTAAACTC-AAAC
6224386 CCT-AACTACAAAC
1 CCTAAACT-CAAAC
6224399 CCTAAACT
1 CCTAAACT
6224407 TTAAATAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.17
Consensus pattern (13 bp):
CCTAAACTCAAAC
Found at i:6224411 original size:27 final size:26
Alignment explanation
Indices: 6224355--6224500 Score: 68
Period size: 27 Copynumber: 5.4 Consensus size: 26
6224345 ATATAAACCA
6224355 TAAACCTAAACTCAAACACTAAACAC
1 TAAACCTAAACTCAAACACTAAACAC
* **
6224381 TAAACCCT-AACTACAAACCCTAAACTT
1 TAAA-CCTAAACT-CAAACACTAAACAC
** *
6224408 TAAATAATAAACCCTAAAC-CATAAACAC
1 TAAA-CCTAAACTC-AAACAC-TAAACAC
* * *
6224436 TAAACTTTAAACCCTAAAC-CAAAACAC
1 TAAAC-CTAAACTC-AAACACTAAACAC
*
6224463 -AAACCCTAAACCTTAAATCA-TAAACAC
1 TAAA-CCTAAA-CTCAAA-CACTAAACAC
6224490 TAAACTCTAAA
1 TAAAC-CTAAA
6224501 ACCCTAAACC
Statistics
Matches: 92, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
26 18 0.20
27 37 0.40
28 37 0.40
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (26 bp):
TAAACCTAAACTCAAACACTAAACAC
Found at i:6224468 original size:68 final size:67
Alignment explanation
Indices: 6224321--6224500 Score: 195
Period size: 68 Copynumber: 2.7 Consensus size: 67
6224311 AACCTAAGAT
* * * *
6224321 AAAACTAGAAACCCTAAAACC-TATAT-ATAAACCATAAACCTAAACTCAAACACTAAACACTAA
1 AAAACTACAAACCCT-AAACCTTAAATAATAAACCCTAAACCTAAACACAAACACTAAACACTAA
6224384 ACC
65 ACC
** * ** *
6224387 CTAACTACAAACCCTAAACTTTAAATAATAAACCCTAAACCATAAACACTAAACTTTAAACCCTA
1 AAAACTACAAACCCTAAACCTTAAATAATAAACCCTAAACC-TAAACAC-AAACACTAAACACTA
6224452 AACC
64 AACC
* *
6224456 AAAAC-ACAAACCCTAAACCTTAAATCATAAACACTAAACTCTAAA
1 AAAACTACAAACCCTAAACCTTAAATAATAAACCCTAAAC-CTAAA
6224501 ACCCTAAACC
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
65 4 0.04
66 16 0.17
67 13 0.14
68 41 0.44
69 20 0.21
ACGTcount: A:0.53, C:0.28, G:0.01, T:0.19
Consensus pattern (67 bp):
AAAACTACAAACCCTAAACCTTAAATAATAAACCCTAAACCTAAACACAAACACTAAACACTAAA
CC
Found at i:6224509 original size:7 final size:7
Alignment explanation
Indices: 6224348--6224686 Score: 99
Period size: 7 Copynumber: 48.4 Consensus size: 7
6224338 AACCTATATA
*
6224348 TAAACCA
1 TAAACCC
6224355 TAAA-CC
1 TAAACCC
*
6224361 TAAACTC
1 TAAACCC
*
6224368 -AAACAC
1 TAAACCC
*
6224374 TAAACAC
1 TAAACCC
6224381 TAAACCC
1 TAAACCC
*
6224388 T-AACTAC
1 TAAAC-CC
6224395 -AAACCC
1 TAAACCC
**
6224401 TAAACTT
1 TAAACCC
***
6224408 TAAATAA
1 TAAACCC
6224415 TAAACCC
1 TAAACCC
*
6224422 TAAACCA
1 TAAACCC
*
6224429 TAAACAC
1 TAAACCC
**
6224436 TAAACTT
1 TAAACCC
6224443 TAAACCC
1 TAAACCC
6224450 TAAA-CC
1 TAAACCC
* *
6224456 AAAACAC
1 TAAACCC
6224463 -AAACCC
1 TAAACCC
*
6224469 TAAACCT
1 TAAACCC
* *
6224476 TAAATCA
1 TAAACCC
*
6224483 TAAACAC
1 TAAACCC
*
6224490 TAAACTC
1 TAAACCC
6224497 TAAAACCC
1 T-AAACCC
*
6224505 TAAACCATAA
1 TAAACC---C
**
6224515 TGAAAAAC
1 T-AAACCC
*
6224523 TAAACCA
1 TAAACCC
*
6224530 TAAA-CA
1 TAAACCC
6224536 TAAACCC
1 TAAACCC
* *
6224543 TTATTATATCA
1 -TA--A-ACCC
*
6224554 TAAACCA
1 TAAACCC
*
6224561 T-AA-CT
1 TAAACCC
*
6224566 TCAAACAC
1 T-AAACCC
6224574 TAAACCC
1 TAAACCC
*
6224581 TAGACCC
1 TAAACCC
*
6224588 TAGACCC
1 TAAACCC
*
6224595 TAAACCA
1 TAAACCC
6224602 TAAACCC
1 TAAACCC
6224609 TAAA-CC
1 TAAACCC
*
6224615 TAAACTC
1 TAAACCC
*
6224622 -AAACAC
1 TAAACCC
* *
6224628 TAAATCT
1 TAAACCC
* *
6224635 TAAATCT
1 TAAACCC
6224642 TAAACCC
1 TAAACCC
*
6224649 TAAACAC
1 TAAACCC
*
6224656 -AAACAC
1 TAAACCC
6224662 TAAACCC
1 TAAACCC
*
6224669 TAAAACCT
1 T-AAACCC
6224677 TAAACCC
1 TAAACCC
6224684 TAA
1 TAA
6224687 TAAAAAACTA
Statistics
Matches: 246, Mismatches: 62, Indels: 48
0.69 0.17 0.13
Matches are distributed among these distances:
5 2 0.01
6 49 0.20
7 169 0.69
8 17 0.07
10 4 0.02
11 5 0.02
ACGTcount: A:0.50, C:0.29, G:0.01, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:6224526 original size:54 final size:53
Alignment explanation
Indices: 6224415--6224540 Score: 148
Period size: 54 Copynumber: 2.3 Consensus size: 53
6224405 CTTTAAATAA
* * *
6224415 TAAACCCTAAACCATAAACACTAAACTTTAAACCCTAAACCAAAACACAAACCC
1 TAAACCATAAA-CATAAACACTAAACTTAAAACCCTAAACCAAAACACAAACAC
* **
6224469 TAAACCTTAAATCATAAACACTAAACTCTAAAACCCTAAACCATAATGA-AAA-AC
1 TAAACCATAAA-CATAAACACTAAACT-TAAAACCCTAAACCA-AAACACAAACAC
6224523 TAAACCATAAACATAAAC
1 TAAACCATAAACATAAAC
6224541 CCTTATTATA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
53 7 0.11
54 36 0.57
55 17 0.27
56 3 0.05
ACGTcount: A:0.54, C:0.28, G:0.01, T:0.17
Consensus pattern (53 bp):
TAAACCATAAACATAAACACTAAACTTAAAACCCTAAACCAAAACACAAACAC
Found at i:6224765 original size:631 final size:625
Alignment explanation
Indices: 6223319--6224796 Score: 1607
Period size: 631 Copynumber: 2.3 Consensus size: 625
6223309 CCATAAATCT
* * *
6223319 AAACTCAAACA-TAAAATACTAAACCCTAAATATAAATCATAAACCGTAAATATAAACCTTAAAC
1 AAACCCAAACACT-AAACACTAAACCCTAAACATAAATCATAAACCGTAAATATAAACCTTAAAC
* * * * * *
6223383 ACTGTAATTATATCATAAACCCTAAACATAAACCCTAAACCCTAATAAAAAACTAAACCATAAAC
65 ACTATAATCAAAACATAAA-CC--AATATAAACCTTAAACCCTAATAAAAAACTAAACCATAAAC
* * *
6223448 ATAAACCC-----T-T----ATAAACCCTAATTCTATCCTAAACTATAACCTCAAACAGTAAACA
127 ATAAACCCTAAAATATAAGCATAAACCCTAATTATATCCTAAACCATAACCTCATAC--TAAACA
* * **
6223503 CCAAACCTTTAATTATAAACACTAAAATCTAAACCTTAAAACATAAAAATAAACCTTAAACCCTA
190 CTAAACCTTAAATTATAAACACTAAAATCTAAACCTTAAAACATAAAAATAAACAATAAACCCTA
* *
6223568 CAATTAAACAGAAACCCTAAAACTAGAATTAAAAACCCTAAAACCTAAACATAAACCCTCACTAT
255 CAATTAAACAGAAACACTAAAACTAAAATTAAAAACCCTAAAACCTAAACATAAACCCTCACTAT
*
6223633 ATCATAAATCATAAACATAAACACAAACCTTTAAACCTTAAAATAAAAACCTAAGATAAAACTAG
320 ATCATAAACCATAAACATAAACACAAACCTTTAAACCTTAAAATAAAAACCTAAGATAAAACTAG
* * *
6223698 AAACCCTAAAACCTATATATAAACCATAAACCTAAACTCGAACACTAAACACAAACCTTAAACCC
385 AAACCCTAAAACCTATATATAAACCATAAACCTAAACTCAAACACTAAACACAAACCCTAAACAC
* * * * ** * *
6223763 TAAACCTAAACATTATAATTATATTATAAACCCTAAATATAAACCTTAAACACTATAATTATATC
450 TAAACCTAAACATTATAATAATATAATAAACCATAAACATAAACCTTAAACACTATAACCAAAAC
** * *
6223828 GTAAACAATAAATATAAACTGTAAAAACTAATGAAAAACTAAACCATAAACATAAACCCTAAAAC
515 ACAAACAATAAATATAAACTATAAAAACTAATGAAAAACTAAACCATAAACATAAACACTAAAAC
* * * *
6223893 ATAAGCATAAACCCTAATTATATCTTAAATTCTAAACCCTAAACCA
580 ATAAACATAAACCCTAATTATATCTAAAATACTAAACACTAAACCA
* * *
6223939 AAACTCAAACACTAAACACTAAACCCTAAATATAAATCATAAACCGTAAATATAAACCTTAAGCA
1 AAACCCAAACACTAAACACTAAACCCTAAACATAAATCATAAACCGTAAATATAAACCTTAAACA
* * * * *
6224004 CTATAATTATATCATAAACCATAAATATAAACCTTAAACCCTAATAACAAACTAAACCATAAATA
66 CTATAATCAAAACATAAACC---AATATAAACCTTAAACCCTAATAAAAAACTAAACCATAAACA
* * *
6224069 TAAACCCTAAAATATAAGTATAAACCCTAATTCTATCCTAAACTATAACCTCAATCACTAAACAC
128 TAAACCCTAAAATATAAGCATAAACCCTAATTATATCCTAAACCATAACCTC-AT-ACTAAACAC
* *
6224134 TAAACCTTAAATTATAAACCCTAAAATCTAAACCTTAAAACCATAAAAATAAACAATAAACCTTA
191 TAAACCTTAAATTATAAACACTAAAATCTAAACCTTAAAA-CATAAAAATAAACAATAAACCCTA
* *
6224199 CAATTAAACATAAACACTAAAACTAAAATTAAAAACCCTAAAACCTAAACATAAACCCTCATTAT
255 CAATTAAACAGAAACACTAAAACTAAAATTAAAAACCCTAAAACCTAAACATAAACCCTCACTAT
6224264 ATCATAAACCATAAACATAAACACAAAACC-TTAAACCTTAAAATAAAAACCTAAGATAAAACTA
320 ATCATAAACCATAAACATAAACAC-AAACCTTTAAACCTTAAAATAAAAACCTAAGATAAAACTA
6224328 GAAACCCTAAAACCTATATATAAACCATAAACCTAAACTCAAACACTAAACACTAAACCCT-AAC
384 GAAACCCTAAAACCTATATATAAACCATAAACCTAAACTCAAACACTAAACAC-AAACCCTAAAC
* * *
6224392 TAC-AAACCCTAAACTTTA-AATAATA-AACCCTAAACCATAAACACTAAACTTTAAACCCTA-A
448 -ACTAAA-CCTAAACATTATAATAATATAA---TAAACCATAAACA-TAAACCTTAAACACTATA
** * * * *
6224453 ACCAAAACACAAACCCTAAACCT-TAAA-TCATAAACACTAAACTCTAAAACCCTAAACCATAAT
507 ACCAAAACACAAACAATAAA--TATAAACT-ATAAAAACT-AA-T-GAAAA-ACTAAACCATAAA
* * *
6224516 GA-AAA-ACTAAACCATAAACATAAACCCTTATTATATCATAAACCATAACTTCAAACACTAAAC
565 CATAAACACTAAAACATAAACATAAACCCTAATTATATC-TAAA--AT-AC-T-AAACACTAAA-
*
6224579 CCT
623 CCA
* * * * * *
6224582 AGACCCTAGACCCTAAAC-CATAAACCCTAAACCTAAA-C-TCAAACAC-TAAATCTTAAATCTT
1 AAACCC-AAACACTAAACAC-TAAACCCTAAACATAAATCAT-AAAC-CGTAAAT-ATAAACCTT
* * **
6224643 AAACCCTA-AA-CACAAACACTAAACC-CTA-AAACCTTAAACCCTAATAAAAAACTAAATTATA
61 AAACACTATAATCA-AAACA-TAAACCAATATAAACCTTAAACCCTAATAAAAAACTAAACCATA
* *
6224704 AACATAAACCCTAAACATA-AA-CATAAACCCTTATTATAT-CTAAAACCATAACCTCAAACACT
124 AACATAAACCCTAAA-ATATAAGCATAAACCCTAATTATATCCT-AAACCATAACCTC--ATACT
* *
6224766 AAACACTAAACTTTAAATTATAAACCCTAAA
185 AAACACTAAACCTTAAATTATAAACACTAAA
6224797 GCAATAATCC
Statistics
Matches: 736, Mismatches: 75, Indels: 76
0.83 0.08 0.09
Matches are distributed among these distances:
619 2 0.00
620 125 0.17
621 1 0.00
625 1 0.00
626 1 0.00
630 78 0.11
631 204 0.28
632 24 0.03
633 25 0.03
634 25 0.03
635 3 0.00
636 29 0.04
637 12 0.02
638 72 0.10
639 50 0.07
640 6 0.01
641 1 0.00
642 11 0.01
643 22 0.03
644 44 0.06
ACGTcount: A:0.52, C:0.24, G:0.01, T:0.22
Consensus pattern (625 bp):
AAACCCAAACACTAAACACTAAACCCTAAACATAAATCATAAACCGTAAATATAAACCTTAAACA
CTATAATCAAAACATAAACCAATATAAACCTTAAACCCTAATAAAAAACTAAACCATAAACATAA
ACCCTAAAATATAAGCATAAACCCTAATTATATCCTAAACCATAACCTCATACTAAACACTAAAC
CTTAAATTATAAACACTAAAATCTAAACCTTAAAACATAAAAATAAACAATAAACCCTACAATTA
AACAGAAACACTAAAACTAAAATTAAAAACCCTAAAACCTAAACATAAACCCTCACTATATCATA
AACCATAAACATAAACACAAACCTTTAAACCTTAAAATAAAAACCTAAGATAAAACTAGAAACCC
TAAAACCTATATATAAACCATAAACCTAAACTCAAACACTAAACACAAACCCTAAACACTAAACC
TAAACATTATAATAATATAATAAACCATAAACATAAACCTTAAACACTATAACCAAAACACAAAC
AATAAATATAAACTATAAAAACTAATGAAAAACTAAACCATAAACATAAACACTAAAACATAAAC
ATAAACCCTAATTATATCTAAAATACTAAACACTAAACCA
Found at i:6224907 original size:21 final size:20
Alignment explanation
Indices: 6224883--6224927 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
6224873 AACTAAACCT
*
6224883 AAACATTAAACCCAAAACTCA
1 AAACACTAAACCCAAAACT-A
* *
6224904 AAACCCTAAACCCTAAACTA
1 AAACACTAAACCCAAAACTA
6224924 AAAC
1 AAAC
6224928 TACAAACCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.56, C:0.31, G:0.00, T:0.13
Consensus pattern (20 bp):
AAACACTAAACCCAAAACTA
Found at i:6224987 original size:7 final size:7
Alignment explanation
Indices: 6224977--6225001 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6224967 CTTTAAACCC
6224977 TAAATTA
1 TAAATTA
6224984 TAAATTA
1 TAAATTA
6224991 TAAATTA
1 TAAATTA
6224998 TAAA
1 TAAA
6225002 CCTTAAACTT
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:6224987 original size:14 final size:14
Alignment explanation
Indices: 6224970--6225022 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
6224960 ATCTAAACTT
6224970 TAAACCCTAAATTA
1 TAAACCCTAAATTA
***
6224984 TAAATTATAAATTA
1 TAAACCCTAAATTA
*
6224998 TAAACCTTAAACTTA
1 TAAACCCTAAA-TTA
6225013 -AAACCCTAAA
1 TAAACCCTAAA
6225023 CATAAACTCA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
14 28 0.90
15 3 0.10
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAACCCTAAATTA
Found at i:6224987 original size:41 final size:40
Alignment explanation
Indices: 6224832--6224987 Score: 99
Period size: 41 Copynumber: 3.8 Consensus size: 40
6224822 AAATATACGA
* * *
6224832 ACTAAATCTAGAA-TTATAAACCTTAAATATAGAATCAC-AAAA
1 ACTAAATCTA-AACTT-TAAACCCTAAATATA-AAAC-CTAAAC
* *
6224874 ACTAAACCTAAACATTAAACCC-AAA-ACTCAAAACCCTAAAC
1 ACTAAATCTAAACTTTAAACCCTAAATA-T-AAAA-CCTAAAC
* ** *
6224915 CCTAAA-CTAAAACTACAAACCATAAGA-ATAAAACCTAAAC
1 ACTAAATCT-AAACTTTAAACCCTAA-ATATAAAACCTAAAC
6224955 ACTAAATCTAAACTTTAAACCCTAAATTATAAA
1 ACTAAATCTAAACTTTAAACCCTAAA-TATAAA
6224988 TTATAAATTA
Statistics
Matches: 89, Mismatches: 14, Indels: 23
0.71 0.11 0.18
Matches are distributed among these distances:
39 2 0.02
40 34 0.38
41 38 0.43
42 13 0.15
43 2 0.02
ACGTcount: A:0.54, C:0.22, G:0.02, T:0.21
Consensus pattern (40 bp):
ACTAAATCTAAACTTTAAACCCTAAATATAAAACCTAAAC
Found at i:6225152 original size:15 final size:15
Alignment explanation
Indices: 6225134--6225177 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6225124 ACTAAACTAC
6225134 CAAACCTTAAACCTT
1 CAAACCTTAAACCTT
*
6225149 CAAACCATAAAACCTT
1 CAAACC-TTAAACCTT
* *
6225165 AAAATCTTAAACC
1 CAAACCTTAAACC
6225178 CTAAAATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.23
Consensus pattern (15 bp):
CAAACCTTAAACCTT
Found at i:6225153 original size:8 final size:7
Alignment explanation
Indices: 6225135--6225210 Score: 55
Period size: 7 Copynumber: 10.6 Consensus size: 7
6225125 CTAAACTACC
6225135 AAACCTT
1 AAACCTT
6225142 AAACCTT
1 AAACCTT
*
6225149 CAAACCATA
1 -AAACC-TT
6225158 AAACCTT
1 AAACCTT
*
6225165 AAAATCTT
1 -AAACCTT
*
6225173 AAACCCT
1 AAACCTT
*
6225180 AAA-ATT
1 AAACCTT
*
6225186 AAACTTT
1 AAACCTT
**
6225193 AAACCAA
1 AAACCTT
6225200 AAACCTT
1 AAACCTT
6225207 AAAC
1 AAAC
6225211 TCAAACACAA
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
6 4 0.08
7 31 0.60
8 16 0.31
9 1 0.02
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (7 bp):
AAACCTT
Found at i:6225269 original size:20 final size:20
Alignment explanation
Indices: 6225240--6225320 Score: 65
Period size: 20 Copynumber: 4.0 Consensus size: 20
6225230 CCTTAAATAA
*
6225240 TAAACTATAAACCCTAAACT
1 TAAACAATAAACCCTAAACT
*
6225260 TAAACAATAAATCCTAAA-T
1 TAAACAATAAACCCTAAACT
* * *
6225279 AAAAACCATATACCCTAAATCT
1 -TAAACAATAAACCCTAAA-CT
* *
6225301 TAAAAAACTAAACCTTAAAC
1 TAAACAA-TAAACCCTAAAC
6225321 ACTAAACCCT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
19 1 0.02
20 30 0.65
21 5 0.11
22 10 0.22
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAACAATAAACCCTAAACT
Found at i:6225365 original size:7 final size:7
Alignment explanation
Indices: 6225353--6225392 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
6225343 ACTATACATA
6225353 TAAACCC
1 TAAACCC
6225360 TAAACCC
1 TAAACCC
6225367 TTAAACCC
1 -TAAACCC
6225375 TAAACCC
1 TAAACCC
*
6225382 TAAACCA
1 TAAACCC
6225389 TAAA
1 TAAA
6225393 TATTAGAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:6225373 original size:15 final size:14
Alignment explanation
Indices: 6225353--6225392 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
6225343 ACTATACATA
6225353 TAAACCCTAAACCC
1 TAAACCCTAAACCC
6225367 TTAAACCCTAAACCC
1 -TAAACCCTAAACCC
*
6225382 TAAACCATAAA
1 TAAACCCTAAA
6225393 TATTAGAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.17
Consensus pattern (14 bp):
TAAACCCTAAACCC
Found at i:6225492 original size:20 final size:20
Alignment explanation
Indices: 6225464--6225502 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6225454 AATAAAAAAC
*
6225464 TAAACCATAAACATAAACCT
1 TAAAACATAAACATAAACCT
*
6225484 TAAAACATAAGCATAAACC
1 TAAAACATAAACATAAACC
6225503 CTTATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.23, G:0.03, T:0.18
Consensus pattern (20 bp):
TAAAACATAAACATAAACCT
Found at i:6225879 original size:20 final size:20
Alignment explanation
Indices: 6225856--6225925 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
6225846 AATTAAATTC
6225856 TAAACCCTAAACTAAAACTA
1 TAAACCCTAAACTAAAACTA
* * * *
6225876 TAAACCATAAGCATAAGAC-C
1 TAAACCCTAAAC-TAAAACTA
* *
6225896 TAAACACTAAATCT-AAACTT
1 TAAACCCTAAA-CTAAAACTA
6225916 TAAACCCTAA
1 TAAACCCTAA
6225926 GTTATAAATT
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
19 3 0.08
20 28 0.76
21 6 0.16
ACGTcount: A:0.51, C:0.24, G:0.03, T:0.21
Consensus pattern (20 bp):
TAAACCCTAAACTAAAACTA
Found at i:6226461 original size:19 final size:19
Alignment explanation
Indices: 6226421--6226488 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
6226411 AGAAACCCTA
* *
6226421 AAACCTATATATAAAC-CAT
1 AAACCTAAACATAAACAC-T
6226440 AAACCTAAAC-TCAAACACT
1 AAACCTAAACAT-AAACACT
*
6226459 AAACAC-AAACATAAACCCT
1 AAAC-CTAAACATAAACACT
6226478 AAACCTTAAAC
1 AAACC-TAAAC
6226489 CTTAAATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
18 2 0.05
19 31 0.77
20 7 0.17
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.18
Consensus pattern (19 bp):
AAACCTAAACATAAACACT
Found at i:6226525 original size:159 final size:159
Alignment explanation
Indices: 6226343--6226653 Score: 509
Period size: 159 Copynumber: 2.0 Consensus size: 159
6226333 ATAAACCCTC
6226343 ATTATATCATAAACCACAAACATAAACACAAAACCTTAAACCTTCAAATAAAAACCTAAGATAAA
1 ATTATATCATAAACCACAAACATAAACACAAAACCTTAAACCTTCAAATAAAAACCTAAGATAAA
* * *
6226408 ACTAGAAACCCTAAAACCTATATATAAACCATAAACCTAAACTCAAACACTAAACAC-AAACATA
66 ACTACAAACCCTAAAACATATATATAAACAAT-AACCTAAACTCAAACACTAAACACTAAACATA
6226472 AACC-CTAAACCTTAAACCTTAAATATTATA
130 AACCAC-AAACCTTAAACCTTAAATATTATA
* * *
6226502 ATTATATCATAAACCATACACATAAACACAAAACCTTAAACCTTTAAATAAAAACCTAAGATAAA
1 ATTATATCATAAACCACAAACATAAACACAAAACCTTAAACCTTCAAATAAAAACCTAAGATAAA
* * *
6226567 ATTACAAACCCTAAAACATATATATAAACAATAACCTAAACTCGAACACTAAACACTAAACATTA
66 ACTACAAACCCTAAAACATATATATAAACAATAACCTAAACTCAAACACTAAACACTAAACATAA
6226632 ACCACAAACCTTAAACCTTAAA
131 ACCACAAACCTTAAACCTTAAA
6226654 CACTAAACCT
Statistics
Matches: 141, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
158 23 0.16
159 117 0.83
160 1 0.01
ACGTcount: A:0.54, C:0.23, G:0.01, T:0.21
Consensus pattern (159 bp):
ATTATATCATAAACCACAAACATAAACACAAAACCTTAAACCTTCAAATAAAAACCTAAGATAAA
ACTACAAACCCTAAAACATATATATAAACAATAACCTAAACTCAAACACTAAACACTAAACATAA
ACCACAAACCTTAAACCTTAAATATTATA
Found at i:6226654 original size:14 final size:14
Alignment explanation
Indices: 6226643--6226669 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6226633 CCACAAACCT
6226643 TAAACCTTAAACAC
1 TAAACCTTAAACAC
6226657 TAAACCTTAAACA
1 TAAACCTTAAACA
6226670 TTATAATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCTTAAACAC
Found at i:6226727 original size:20 final size:20
Alignment explanation
Indices: 6226664--6226729 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
6226654 CACTAAACCT
* *
6226664 TAAACATTATAATTATATTA
1 TAAACACTATAATTATATCA
* * * * *
6226684 TAAACCCTAAAAATCA-ACCT
1 TAAACACT-ATAATTATATCA
6226704 TAAACACTATAATTATATCA
1 TAAACACTATAATTATATCA
6226724 TAAACA
1 TAAACA
6226730 ATAAATATAA
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
19 5 0.16
20 22 0.69
21 5 0.16
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAACACTATAATTATATCA
Found at i:6226790 original size:20 final size:20
Alignment explanation
Indices: 6226761--6226804 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
6226751 TAATGAAAAA
*
6226761 CTAAACCATAAACATAAACC
1 CTAAAACATAAACATAAACC
*
6226781 CTAAAACATAAGCATAAACC
1 CTAAAACATAAACATAAACC
6226801 CTAA
1 CTAA
6226805 TTATATCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.27, G:0.02, T:0.16
Consensus pattern (20 bp):
CTAAAACATAAACATAAACC
Found at i:6226925 original size:21 final size:20
Alignment explanation
Indices: 6226891--6226940 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
6226881 TCAAACCATC
*
6226891 AACCCTAAATATAAAT-CATA
1 AACCTTAAATATAAATAC-TA
*
6226911 AATCTTAAATTATAAATACTA
1 AACCTTAAA-TATAAATACTA
6226932 AACCTTAAA
1 AACCTTAAA
6226941 CCCTAAAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 7 0.28
21 17 0.68
22 1 0.04
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (20 bp):
AACCTTAAATATAAATACTA
Found at i:6227061 original size:20 final size:20
Alignment explanation
Indices: 6227038--6227127 Score: 83
Period size: 20 Copynumber: 4.5 Consensus size: 20
6227028 CACTAAATAC
*
6227038 TAAACCCTAAATACATATCA
1 TAAACCCTAAATATATATCA
* * * *
6227058 TAAACCATAAATATAAACCT
1 TAAACCCTAAATATATATCA
*
6227078 TAAACACTATAAT-TATATCA
1 TAAACCCTA-AATATATATCA
* * *
6227098 TAAACCCTAAATATAAACCT
1 TAAACCCTAAATATATATCA
6227118 TAAACCCTAA
1 TAAACCCTAA
6227128 TAAAAAACTA
Statistics
Matches: 54, Mismatches: 14, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
19 3 0.06
20 48 0.89
21 3 0.06
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAACCCTAAATATATATCA
Found at i:6227082 original size:40 final size:40
Alignment explanation
Indices: 6227038--6227154 Score: 141
Period size: 40 Copynumber: 3.0 Consensus size: 40
6227028 CACTAAATAC
*
6227038 TAAACCCTAAATACATATCATAAACCATAAATATAAACCT
1 TAAACCCTAAATAAATATCATAAACCATAAATATAAACCT
* * *
6227078 TAAACACTATAAT-TATATCATAAACCCTAAATATAAACCT
1 TAAACCCTA-AATAAATATCATAAACCATAAATATAAACCT
* * *
6227118 TAAACCCT-AATAAAAAAC-TAAACCATAAACATAAACC
1 TAAACCCTAAATAAATATCATAAACCATAAATATAAACC
6227155 CCTAAATATA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
38 20 0.30
39 3 0.05
40 40 0.61
41 3 0.05
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24
Consensus pattern (40 bp):
TAAACCCTAAATAAATATCATAAACCATAAATATAAACCT
Found at i:6227135 original size:20 final size:20
Alignment explanation
Indices: 6227038--6227146 Score: 62
Period size: 20 Copynumber: 5.5 Consensus size: 20
6227028 CACTAAATAC
* * * *
6227038 TAAACCCTAAATACATATCA
1 TAAACCCTAAATAAAAACCT
* *
6227058 TAAACCATAAATATAAACCT
1 TAAACCCTAAATAAAAACCT
* * * * *
6227078 TAAACACTATAAT-TATATCA
1 TAAACCCTA-AATAAAAACCT
*
6227098 TAAACCCTAAATATAAACCT
1 TAAACCCTAAATAAAAACCT
*
6227118 TAAACCCT-AATAAAAAAC-
1 TAAACCCTAAATAAAAACCT
*
6227136 TAAACCATAAA
1 TAAACCCTAAA
6227147 CATAAACCCC
Statistics
Matches: 69, Mismatches: 17, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
18 7 0.10
19 13 0.19
20 46 0.67
21 3 0.04
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.25
Consensus pattern (20 bp):
TAAACCCTAAATAAAAACCT
Found at i:6227231 original size:14 final size:14
Alignment explanation
Indices: 6227214--6227252 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
6227204 CACAAAACAC
*
6227214 TAAACCTTAAATTA
1 TAAACCTTAAAATA
*
6227228 TAAACCTTAAAATC
1 TAAACCTTAAAATA
6227242 TAAACCTTAAA
1 TAAACCTTAAA
6227253 CCCATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAACCTTAAAATA
Found at i:6227438 original size:7 final size:6
Alignment explanation
Indices: 6227428--6227523 Score: 50
Period size: 7 Copynumber: 14.2 Consensus size: 6
6227418 AACCTATATA
6227428 TAAACC GTAAACC TAAA-C TCAAACAC TAAACAC TAAACC ATAAACCC
1 TAAACC -TAAACC TAAACC T-AAAC-C TAAAC-C TAAACC -TAAA-CC
** *
6227475 TAAATTA TAAACC ATTAACTC TAAACC ATAAACC TAAAACCC TAAACC
1 TAAA-CC TAAACC -TAAAC-C TAAACC -TAAACC T-AAA-CC TAAACC
6227523 T
1 T
6227524 TAATGAAAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 21
0.72 0.07 0.21
Matches are distributed among these distances:
5 2 0.03
6 13 0.18
7 49 0.68
8 8 0.11
ACGTcount: A:0.50, C:0.29, G:0.01, T:0.20
Consensus pattern (6 bp):
TAAACC
Found at i:6227477 original size:21 final size:20
Alignment explanation
Indices: 6227427--6227673 Score: 78
Period size: 21 Copynumber: 11.7 Consensus size: 20
6227417 AAACCTATAT
*
6227427 ATAAACCGTAAACCTAAA-C
1 ATAAACCCTAAACCTAAACC
*
6227446 -TCAAACACTAAACACTAAACC
1 AT-AAACCCTAAAC-CTAAACC
**
6227467 ATAAACCCTAAATTATAAACC
1 ATAAACCCTAAA-CCTAAACC
* *
6227488 ATTAACTCTAAACCATAAACC
1 ATAAACCCTAAACC-TAAACC
**
6227509 -TAAAACCCTAAACCTTAATGAAAA
1 AT-AAACCCTAAACC-T-A--AACC
*
6227533 ATTAAACCAC-AAACATAAACCC
1 A-TAAACC-CTAAACCTAAA-CC
* *
6227555 TTATTATATCCTAAACC-ATAACC
1 --A-TAAACCCTAAACCTA-AACC
*
6227578 -TCAAACACTAAACACTAAACC
1 AT-AAACCCTAAAC-CTAAACC
* *
6227599 ATAGACCCTAAATCTAAA-C
1 ATAAACCCTAAACCTAAACC
* * *
6227618 TTAAACACTAAATTCTAAACC
1 ATAAACCCTAAA-CCTAAACC
* *
6227639 TTAAA-CATAAACCTTAAACC
1 ATAAACCCTAAACC-TAAACC
6227659 ATAAAACCCTAAACC
1 AT-AAACCCTAAACC
6227674 CTAATAAAAA
Statistics
Matches: 167, Mismatches: 34, Indels: 51
0.66 0.13 0.20
Matches are distributed among these distances:
18 1 0.01
19 21 0.13
20 36 0.22
21 67 0.40
22 11 0.07
23 5 0.03
24 15 0.09
25 9 0.05
26 2 0.01
ACGTcount: A:0.50, C:0.28, G:0.01, T:0.21
Consensus pattern (20 bp):
ATAAACCCTAAACCTAAACC
Found at i:6227499 original size:14 final size:13
Alignment explanation
Indices: 6227482--6227673 Score: 52
Period size: 14 Copynumber: 14.0 Consensus size: 13
6227472 CCCTAAATTA
*
6227482 TAAACCATTAACTC
1 TAAACCATAAAC-C
6227496 TAAACCATAAACC
1 TAAACCATAAACC
*
6227509 TAAAACCCTAAACC
1 T-AAACCATAAACC
* ** **
6227523 TTAATGA-AAAAT
1 TAAACCATAAACC
* *
6227535 TAAACCACAAACA
1 TAAACCATAAACC
*
6227548 TAAACCCTTATTATATCC
1 TAAA-CC--A-TA-AACC
6227566 TAAACCAT-AACC
1 TAAACCATAAACC
6227578 TCAAA-CACTAAACAC
1 T-AAACCA-TAAAC-C
*
6227593 TAAACCATAGACCC
1 TAAACCATA-AACC
* *
6227607 TAAATC-TAAACT
1 TAAACCATAAACC
*
6227619 TAAA-CACTAAATTC
1 TAAACCA-TAAA-CC
* *
6227633 TAAACCTTAAACA
1 TAAACCATAAACC
*
6227646 TAAACCTTAAACC
1 TAAACCATAAACC
*
6227659 ATAAAACCCTAAACC
1 -T-AAACCATAAACC
6227674 CTAATAAAAA
Statistics
Matches: 131, Mismatches: 28, Indels: 37
0.67 0.14 0.19
Matches are distributed among these distances:
11 1 0.01
12 19 0.15
13 33 0.25
14 49 0.37
15 19 0.15
16 1 0.01
17 3 0.02
18 6 0.05
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.22
Consensus pattern (13 bp):
TAAACCATAAACC
Found at i:6227634 original size:20 final size:20
Alignment explanation
Indices: 6227574--6227663 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
6227564 CCTAAACCAT
* *
6227574 AACCTCAAACACTAAACACTA
1 AACCTTAAACACTAAA-TCTA
* * *
6227595 AACCATAGACCCTAAATCTA
1 AACCTTAAACACTAAATCTA
6227615 AA-CTTAAACACTAAATTCTA
1 AACCTTAAACACTAAA-TCTA
*
6227635 AACCTTAAACA-TAAACCTTA
1 AACCTTAAACACTAAATC-TA
*
6227655 AACCATAAA
1 AACCTTAAA
6227664 ACCCTAAACC
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
19 11 0.20
20 25 0.45
21 20 0.36
ACGTcount: A:0.51, C:0.27, G:0.01, T:0.21
Consensus pattern (20 bp):
AACCTTAAACACTAAATCTA
Found at i:6227638 original size:172 final size:172
Alignment explanation
Indices: 6227435--6227769 Score: 378
Period size: 172 Copynumber: 1.9 Consensus size: 172
6227425 ATATAAACCG
* * * *
6227435 TAAACCTAAACTCAAACACTAAACACTAAACCATAAACCCTAAA-TTATAAACCAT-TAACTCTA
1 TAAACCTAAACTCAAACACTAAACACTAAACCATAAA-CATAAACCT-TAAACCATAAAACCCTA
** * * *
6227498 AACCATAA-ACCTAAAACCCTAAAC-CT-TA-ATGAAAAATTAAACCACAAA-CATAAACCCTTA
64 AACCATAATA---AAAAAACTAAACTATATACAT-AAAAACTAAAACA-AAAGCATAAACCCTTA
**
6227558 TTATATCCTAAACCATAACCTCAAACACTAAACACTAAACCATAGACCC
124 TTATATCAAAAACCATAACCTCAAACACTAAACACTAAACCATAGACCC
* * ** *
6227607 TAAATCTAAACTTAAACACTAAATTCTAAACCTTAAACATAAACCTTAAACCATAAAACCCTAAA
1 TAAACCTAAACTCAAACACTAAACACTAAACCATAAACATAAACCTTAAACCATAAAACCCTAAA
* * **
6227672 CCCTAATAAAAAAAGTAAACTATATACATAAACCCTAAAACAAAAGCATAAACCCTTATTATATC
66 CCATAATAAAAAAACTAAACTATATACATAAAAACTAAAACAAAAGCATAAACCCTTATTATATC
6227737 AAAAACCATAACCTCAAACACTAAACACTAAAC
131 AAAAACCATAACCTCAAACACTAAACACTAAAC
6227770 ATTAAATTAT
Statistics
Matches: 136, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
170 9 0.07
171 17 0.12
172 107 0.79
173 3 0.02
ACGTcount: A:0.52, C:0.26, G:0.01, T:0.21
Consensus pattern (172 bp):
TAAACCTAAACTCAAACACTAAACACTAAACCATAAACATAAACCTTAAACCATAAAACCCTAAA
CCATAATAAAAAAACTAAACTATATACATAAAAACTAAAACAAAAGCATAAACCCTTATTATATC
AAAAACCATAACCTCAAACACTAAACACTAAACCATAGACCC
Found at i:6227651 original size:13 final size:14
Alignment explanation
Indices: 6227633--6227673 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
6227623 CACTAAATTC
6227633 TAAACCTTAAA-CA
1 TAAACCTTAAACCA
6227646 TAAACCTTAAACCA
1 TAAACCTTAAACCA
*
6227660 TAAAACCCTAAACC
1 T-AAACCTTAAACC
6227674 CTAATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 11 0.44
14 3 0.12
15 11 0.44
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:6227788 original size:21 final size:21
Alignment explanation
Indices: 6227758--6227822 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
6227748 CCTCAAACAC
*
6227758 TAAACACTAAACATTAAATTA
1 TAAACCCTAAACATTAAATTA
* *
6227779 TAAACCCTAAA-ACTATAATCA
1 TAAACCCTAAACATTA-AATTA
*
6227800 TAAACCCTAAACCTTAAA-TA
1 TAAACCCTAAACATTAAATTA
6227820 TAA
1 TAA
6227823 TAAATAAATC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
20 7 0.19
21 27 0.75
22 2 0.06
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAACCCTAAACATTAAATTA
Found at i:6227965 original size:7 final size:7
Alignment explanation
Indices: 6227955--6227979 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6227945 CTTTAAAACC
6227955 TAAATTA
1 TAAATTA
6227962 TAAATTA
1 TAAATTA
6227969 TAAATTA
1 TAAATTA
6227976 TAAA
1 TAAA
6227980 CCATAAACCT
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:6228004 original size:20 final size:20
Alignment explanation
Indices: 6227976--6228019 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
6227966 TTATAAATTA
6227976 TAAACCATAAACCTAAAACCC
1 TAAACCATAAA-CTAAAACCC
*
6227997 TAAA-CATAAACTTAAACCC
1 TAAACCATAAACTAAAACCC
6228016 TAAA
1 TAAA
6228020 AACAAACCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.55
20 6 0.27
21 4 0.18
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18
Consensus pattern (20 bp):
TAAACCATAAACTAAAACCC
Found at i:6228188 original size:15 final size:14
Alignment explanation
Indices: 6228165--6228206 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
6228155 CCCTAAAATT
6228165 AAACTTAAAACTAA
1 AAACTTAAAACTAA
6228179 AAACCTT-AAACTTAA
1 AAA-CTTAAAAC-TAA
*
6228194 AAACTAAAAACTA
1 AAACTTAAAACTA
6228207 TACCTTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.62, C:0.17, G:0.00, T:0.21
Consensus pattern (14 bp):
AAACTTAAAACTAA
Found at i:6228189 original size:21 final size:22
Alignment explanation
Indices: 6228163--6228204 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
6228153 AACCCTAAAA
6228163 TTAAACTT-AAAACTAAAAACC
1 TTAAACTTAAAAACTAAAAACC
6228184 TTAAACTTAAAAACTAAAAAC
1 TTAAACTTAAAAACTAAAAAC
6228205 TATACCTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.24
Consensus pattern (22 bp):
TTAAACTTAAAAACTAAAAACC
Found at i:6228248 original size:20 final size:20
Alignment explanation
Indices: 6228219--6228298 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 20
6228209 CCTTAAATGA
*
6228219 TAAACTATAAACCCTAAACT
1 TAAACAATAAACCCTAAACT
*
6228239 TAAACAATAAACCATAAA-T
1 TAAACAATAAACCCTAAACT
* *
6228258 ATAAACCATAAACCCTAAATCC
1 -TAAACAATAAACCCTAAA-CT
*
6228280 TAAA-AACTAAACCTTAAAC
1 TAAACAA-TAAACCCTAAAC
6228299 ACTAAACCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
19 1 0.02
20 34 0.69
21 14 0.29
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (20 bp):
TAAACAATAAACCCTAAACT
Found at i:6228271 original size:7 final size:7
Alignment explanation
Indices: 6228218--6228276 Score: 50
Period size: 7 Copynumber: 8.7 Consensus size: 7
6228208 ACCTTAAATG
*
6228218 ATAAACT
1 ATAAACC
6228225 ATAAACC
1 ATAAACC
*
6228232 CTAAA-C
1 ATAAACC
* *
6228238 TTAAACA
1 ATAAACC
6228245 ATAAACC
1 ATAAACC
*
6228252 ATAAA-T
1 ATAAACC
6228258 ATAAACC
1 ATAAACC
6228265 ATAAACC
1 ATAAACC
*
6228272 CTAAA
1 ATAAA
6228277 TCCTAAAAAC
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
6 10 0.24
7 31 0.76
ACGTcount: A:0.58, C:0.22, G:0.00, T:0.20
Consensus pattern (7 bp):
ATAAACC
Found at i:6228289 original size:14 final size:14
Alignment explanation
Indices: 6228232--6228310 Score: 58
Period size: 14 Copynumber: 5.8 Consensus size: 14
6228222 ACTATAAACC
6228232 CTAAA-CTTAAACAA
1 CTAAACCTTAAA-AA
* *
6228246 -TAAACCATAAATA
1 CTAAACCTTAAAAA
* **
6228259 -TAAACCATAAACC
1 CTAAACCTTAAAAA
6228272 CTAAATCC-TAAAAA
1 CTAAA-CCTTAAAAA
*
6228286 CTAAACCTTAAACA
1 CTAAACCTTAAAAA
6228300 CTAAACCTTAA
1 CTAAACCTTAA
6228311 TCACAAAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
13 18 0.33
14 34 0.63
15 2 0.04
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (14 bp):
CTAAACCTTAAAAA
Found at i:6228298 original size:75 final size:75
Alignment explanation
Indices: 6228219--6228386 Score: 178
Period size: 75 Copynumber: 2.2 Consensus size: 75
6228209 CCTTAAATGA
** * *
6228219 TAAACTATAAACCCTAAACTTAAACAATAAACCATAAATATAAACCATAAACCCTAAATCC-TAA
1 TAAACTATAAACCCTAAACACAAAAAATAAACCATAAATATAAACCATAAAACCTAAA-CCATAA
*
6228283 AAACTAAACCT
65 AAACTAAACCC
* * * * * *
6228294 TAAAC-ACTAAACCTTAATCACAAAAAATAAACTATACATATAAACCCTAAAACTTAAACCATAA
1 TAAACTA-TAAACCCTAAACACAAAAAATAAACCATAAATATAAACCATAAAACCTAAACCATAA
**
6228358 ACCCTAAACCC
65 AAACTAAACCC
*
6228369 TAAACTAGAAACCCTAAA
1 TAAACTATAAACCCTAAA
6228387 ACCTATATGT
Statistics
Matches: 74, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
74 3 0.04
75 70 0.95
76 1 0.01
ACGTcount: A:0.54, C:0.25, G:0.01, T:0.20
Consensus pattern (75 bp):
TAAACTATAAACCCTAAACACAAAAAATAAACCATAAATATAAACCATAAAACCTAAACCATAAA
AACTAAACCC
Found at i:6228303 original size:21 final size:21
Alignment explanation
Indices: 6228151--6228304 Score: 60
Period size: 21 Copynumber: 7.5 Consensus size: 21
6228141 CTAAAAATCC
* *
6228151 TAAACCCT-AAAATTAAA-CT
1 TAAACACTAAAAACTAAACCT
6228170 TAAA-ACTAAAAACCTTAAA-CT
1 TAAACACTAAAAA-C-TAAACCT
* *
6228191 TAAAAACTAAAAACTATACCT
1 TAAACACTAAAAACTAAACCT
* * *
6228212 TAAATGA-TAAACTA-TAAACCC
1 TAAA-CACTAAA-AACTAAACCT
* *
6228233 TAAAC-TTAAACAA-TAAACCA
1 TAAACACTAAA-AACTAAACCT
* * *
6228253 TAAATA-T-AAACCATAAACCC
1 TAAACACTAAAAAC-TAAACCT
6228273 TAAATC-CTAAAAACTAAACCT
1 TAAA-CACTAAAAACTAAACCT
6228294 TAAACACTAAA
1 TAAACACTAAA
6228305 CCTTAATCAC
Statistics
Matches: 104, Mismatches: 16, Indels: 28
0.70 0.11 0.19
Matches are distributed among these distances:
18 3 0.03
19 10 0.10
20 31 0.30
21 46 0.44
22 14 0.13
ACGTcount: A:0.56, C:0.21, G:0.01, T:0.23
Consensus pattern (21 bp):
TAAACACTAAAAACTAAACCT
Found at i:6228346 original size:21 final size:21
Alignment explanation
Indices: 6228322--6228393 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
6228312 CACAAAAAAT
6228322 AAACTATACATATAAACCCTA
1 AAACTATACATATAAACCCTA
* *
6228343 AAACT-TAAACCATAAACCCTA
1 AAACTATACA-TATAAACCCTA
* * *
6228364 AACCCTAAAC-TAGAAACCCTA
1 AA-ACTATACATATAAACCCTA
6228385 AAACCTATA
1 AAA-CTATA
6228394 TGTAAACCAT
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
20 3 0.08
21 32 0.84
22 2 0.05
23 1 0.03
ACGTcount: A:0.51, C:0.28, G:0.01, T:0.19
Consensus pattern (21 bp):
AAACTATACATATAAACCCTA
Found at i:6228463 original size:14 final size:14
Alignment explanation
Indices: 6228333--6228465 Score: 65
Period size: 14 Copynumber: 9.3 Consensus size: 14
6228323 AACTATACAT
6228333 ATAAACCCTAAAAC
1 ATAAACCCTAAAAC
* * *
6228347 TTAAACCATAAACC
1 ATAAACCCTAAAAC
*
6228361 CTAAACCCT-AAAC
1 ATAAACCCTAAAAC
*
6228374 TAGAAACCCTAAAAC
1 -ATAAACCCTAAAAC
* * ** *
6228389 CTATA-TGTAAACC
1 ATAAACCCTAAAAC
6228402 ATAAACCCTAAAACC
1 ATAAACCCTAAAA-C
* * *
6228417 CTAAACCTTAATAAAAA
1 ATAAACC---CTAAAAC
*
6228434 ACTAAACCAT-AAAC
1 A-TAAACCCTAAAAC
6228448 ATAAACCCTAAAAC
1 ATAAACCCTAAAAC
6228462 ATAA
1 ATAA
6228466 GCATAAACTC
Statistics
Matches: 85, Mismatches: 25, Indels: 18
0.66 0.20 0.14
Matches are distributed among these distances:
13 18 0.21
14 43 0.51
15 13 0.15
18 11 0.13
ACGTcount: A:0.53, C:0.27, G:0.02, T:0.18
Consensus pattern (14 bp):
ATAAACCCTAAAAC
Found at i:6228631 original size:20 final size:20
Alignment explanation
Indices: 6228526--6228631 Score: 63
Period size: 20 Copynumber: 5.2 Consensus size: 20
6228516 ACTTTAAATT
*
6228526 ATAAACCCTAAACCTTAAATC
1 ATAAACCCTAAAACTTAAA-C
* * * *
6228547 TTAAAACCATAAAAATTAACC
1 AT-AAACCCTAAAACTTAAAC
* * * *
6228568 TTTAACCTTACAA-TTAAAC
1 ATAAACCCTAAAACTTAAAC
6228587 ATAAACCCTAAAAC-TACAAC
1 ATAAACCCTAAAACTTA-AAC
* * *
6228607 CTAAACCCTAAACCTTAAAT
1 ATAAACCCTAAAACTTAAAC
6228627 ATAAA
1 ATAAA
6228632 AACTAAATCT
Statistics
Matches: 64, Mismatches: 17, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
19 16 0.25
20 29 0.45
21 6 0.09
22 13 0.20
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (20 bp):
ATAAACCCTAAAACTTAAAC
Found at i:6228903 original size:7 final size:7
Alignment explanation
Indices: 6228891--6228915 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6228881 CTTTGAACCC
6228891 TAAATTA
1 TAAATTA
6228898 TAAATTA
1 TAAATTA
6228905 TAAATTA
1 TAAATTA
6228912 TAAA
1 TAAA
6228916 CCTAAAACCT
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:6229078 original size:7 final size:7
Alignment explanation
Indices: 6229060--6229110 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
6229050 CAAATCTTCC
6229060 ACCTTAAA
1 ACCTT-AA
6229068 ACCTTAA
1 ACCTTAA
6229075 ACCTTAA
1 ACCTTAA
*
6229082 A-ATTAA
1 ACCTTAA
*
6229088 ACTTTAA
1 ACCTTAA
* *
6229095 GCCATAA
1 ACCTTAA
6229102 ACCTTAA
1 ACCTTAA
6229109 AC
1 AC
6229111 TCAAACACTA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
6 5 0.14
7 25 0.71
8 5 0.14
ACGTcount: A:0.47, C:0.24, G:0.02, T:0.27
Consensus pattern (7 bp):
ACCTTAA
Found at i:6229080 original size:15 final size:15
Alignment explanation
Indices: 6229060--6229109 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
6229050 CAAATCTTCC
6229060 ACCTTAAAACCTTAA
1 ACCTTAAAACCTTAA
6229075 ACCTTAAAA--TTAA
1 ACCTTAAAACCTTAA
* * *
6229088 A-CTTTAAGCCATAA
1 ACCTTAAAACCTTAA
6229102 ACCTTAAA
1 ACCTTAAA
6229110 CTCAAACACT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
12 5 0.18
13 5 0.18
14 4 0.14
15 14 0.50
ACGTcount: A:0.48, C:0.22, G:0.02, T:0.28
Consensus pattern (15 bp):
ACCTTAAAACCTTAA
Found at i:6229089 original size:13 final size:14
Alignment explanation
Indices: 6229060--6229136 Score: 52
Period size: 13 Copynumber: 5.6 Consensus size: 14
6229050 CAAATCTTCC
6229060 ACCTTAAAACCTTAA
1 ACCTTAAAA-CTTAA
6229075 ACCTTAAAA-TTAA
1 ACCTTAAAACTTAA
* ** *
6229088 ACTTTAAGCCATAA
1 ACCTTAAAACTTAA
*
6229102 ACCTT-AAACTCAA
1 ACCTTAAAACTTAA
*
6229115 ACACTAAAAAC-TAA
1 AC-CTTAAAACTTAA
*
6229129 ACCCTAAA
1 ACCTTAAA
6229137 TGATAAACTA
Statistics
Matches: 46, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
13 20 0.43
14 13 0.28
15 13 0.28
ACGTcount: A:0.51, C:0.25, G:0.01, T:0.23
Consensus pattern (14 bp):
ACCTTAAAACTTAA
Found at i:6229183 original size:20 final size:20
Alignment explanation
Indices: 6229113--6229183 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
6229103 CCTTAAACTC
6229113 AAACACTAAA-AACTAAACCCT
1 AAACA-TAAACAA-TAAACCCT
* *
6229134 AAATGATAAACTATAAACCCT
1 AAA-CATAAACAATAAACCCT
*
6229155 AAACTTAAACAATAAACCCT
1 AAACATAAACAATAAACCCT
*
6229175 AACCATAAA
1 AAACATAAA
6229184 TTCTAAATCC
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
20 21 0.51
21 18 0.44
22 2 0.05
ACGTcount: A:0.56, C:0.24, G:0.01, T:0.18
Consensus pattern (20 bp):
AAACATAAACAATAAACCCT
Found at i:6229357 original size:13 final size:13
Alignment explanation
Indices: 6229339--6229363 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6229329 AACCTTAAAC
6229339 CCTAAAATAAAAA
1 CCTAAAATAAAAA
6229352 CCTAAAATAAAA
1 CCTAAAATAAAA
6229364 CTAGAAACCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (13 bp):
CCTAAAATAAAAA
Found at i:6229391 original size:27 final size:27
Alignment explanation
Indices: 6229348--6229400 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
6229338 CCCTAAAATA
*
6229348 AAAACCTAAAATAAAACTAGAAACCTT
1 AAAACCTAAAATAAAACCAGAAACCTT
* *
6229375 AAAACCT-ATATATAAACCATAAACCT
1 AAAACCTAAAATA-AAACCAGAAACCT
6229401 AAACTCGAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.57, C:0.21, G:0.02, T:0.21
Consensus pattern (27 bp):
AAAACCTAAAATAAAACCAGAAACCTT
Found at i:6229405 original size:40 final size:41
Alignment explanation
Indices: 6229300--6229405 Score: 112
Period size: 40 Copynumber: 2.6 Consensus size: 41
6229290 AAACCCTTAT
*
6229300 TATATCATAAACCATAAACATAAAC-ACAAAACCTTAAACCC
1 TATAT-ATAAACCATAAACATAAACTACAAAACCTTAAAACC
* * *
6229341 TAAAATAAAAACC-TAAA-ATAAAACTA-GAAACCTTAAAACC
1 T-ATATATAAACCATAAACAT-AAACTACAAAACCTTAAAACC
*
6229381 TATATATAAACCATAAACCTAAACT
1 TATATATAAACCATAAACATAAACT
6229406 CGAACACTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
39 11 0.21
40 30 0.57
41 9 0.17
42 3 0.06
ACGTcount: A:0.57, C:0.22, G:0.01, T:0.21
Consensus pattern (41 bp):
TATATATAAACCATAAACATAAACTACAAAACCTTAAAACC
Found at i:6229418 original size:7 final size:7
Alignment explanation
Indices: 6229408--6229464 Score: 64
Period size: 7 Copynumber: 8.3 Consensus size: 7
6229398 CCTAAACTCG
6229408 AACACTA
1 AACACTA
6229415 AACACTA
1 AACACTA
6229422 AACACTA
1 AACACTA
*
6229429 AACCCTA
1 AACACTA
6229436 AACAC-A
1 AACACTA
6229442 AAC-CTTA
1 AACAC-TA
*
6229449 AACCCTA
1 AACACTA
*
6229456 AACCCTA
1 AACACTA
6229463 AA
1 AA
6229465 ACATATATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
5 1 0.02
6 4 0.09
7 39 0.87
8 1 0.02
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.14
Consensus pattern (7 bp):
AACACTA
Found at i:6229427 original size:14 final size:14
Alignment explanation
Indices: 6229387--6229464 Score: 81
Period size: 14 Copynumber: 5.8 Consensus size: 14
6229377 AACCTATATA
*
6229387 TAAACCATAAAC-C
1 TAAACCCTAAACAC
* *
6229400 TAAACTC-GAACAC
1 TAAACCCTAAACAC
*
6229413 TAAACACTAAACAC
1 TAAACCCTAAACAC
6229427 TAAACCCTAAACAC
1 TAAACCCTAAACAC
* *
6229441 -AAACCTTAAACCC
1 TAAACCCTAAACAC
6229454 TAAACCCTAAA
1 TAAACCCTAAA
6229465 ACATATATAT
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
12 3 0.06
13 23 0.43
14 27 0.51
ACGTcount: A:0.51, C:0.32, G:0.01, T:0.15
Consensus pattern (14 bp):
TAAACCCTAAACAC
Found at i:6229444 original size:27 final size:28
Alignment explanation
Indices: 6229387--6229464 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 28
6229377 AACCTATATA
* * *
6229387 TAAACCATAAAC-CTAAACTC-GAACAC
1 TAAACCTTAAACACTAAACCCTAAACAC
6229413 TAAACAC-TAAACACTAAACCCTAAACAC
1 TAAAC-CTTAAACACTAAACCCTAAACAC
*
6229441 -AAACCTTAAACCCTAAACCCTAAA
1 TAAACCTTAAACACTAAACCCTAAA
6229465 ACATATATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
26 11 0.24
27 29 0.64
28 5 0.11
ACGTcount: A:0.51, C:0.32, G:0.01, T:0.15
Consensus pattern (28 bp):
TAAACCTTAAACACTAAACCCTAAACAC
Found at i:6229450 original size:20 final size:21
Alignment explanation
Indices: 6229387--6229464 Score: 74
Period size: 20 Copynumber: 3.9 Consensus size: 21
6229377 AACCTATATA
* *
6229387 TAAACCATAAAC-CTAAACTC
1 TAAACCCTAAACACTAAACAC
* *
6229407 -GAACACTAAACACTAAACAC
1 TAAACCCTAAACACTAAACAC
6229427 TAAACCCTAAACAC-AAAC-C
1 TAAACCCTAAACACTAAACAC
*
6229446 TTAAACCCTAAACCCTAAA
1 -TAAACCCTAAACACTAAA
6229465 ACATATATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
19 9 0.19
20 24 0.51
21 14 0.30
ACGTcount: A:0.51, C:0.32, G:0.01, T:0.15
Consensus pattern (21 bp):
TAAACCCTAAACACTAAACAC
Found at i:6229546 original size:40 final size:40
Alignment explanation
Indices: 6229463--6229546 Score: 91
Period size: 40 Copynumber: 2.1 Consensus size: 40
6229453 CTAAACCCTA
* ** * *
6229463 AAACATATATATTATATTATAAACCCTAAGTATCAACCTT
1 AAACATATATATTATATCATAAACAATAAATATCAACCGT
6229503 AAACACTATA-ATTATATCATAAACAATAAATA-CAAACCGT
1 AAACA-TATATATTATATCATAAACAATAAATATC-AACCGT
6229543 AAAC
1 AAAC
6229547 CCTAATAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.03
40 32 0.86
41 4 0.11
ACGTcount: A:0.51, C:0.18, G:0.02, T:0.29
Consensus pattern (40 bp):
AAACATATATATTATATCATAAACAATAAATATCAACCGT
Found at i:6229823 original size:19 final size:20
Alignment explanation
Indices: 6229796--6229834 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
6229786 TATAAATATT
*
6229796 AAACCCTAAACC-TAAACTC
1 AAACACTAAACCTTAAACTC
6229815 AAACACTAAACCTTAAACTC
1 AAACACTAAACCTTAAACTC
6229835 TAAATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (20 bp):
AAACACTAAACCTTAAACTC
Found at i:6229844 original size:20 final size:20
Alignment explanation
Indices: 6229802--6229917 Score: 89
Period size: 20 Copynumber: 5.8 Consensus size: 20
6229792 TATTAAACCC
*
6229802 TAAACC-TAAACTC-AAACA
1 TAAACCATAAACTCTAAATA
*
6229820 CTAAACCTTAAACTCTAAATA
1 -TAAACCATAAACTCTAAATA
*
6229841 TAAATCATAAAC-CATAAATA
1 TAAACCATAAACTC-TAAATA
* *
6229861 TAAACCTTAAACACTATAAT-
1 TAAACCATAAACTCTA-AATA
* *
6229881 TATATCATAAAC-CATAAATA
1 TAAACCATAAACTC-TAAATA
*
6229901 TAAACCCTAAACTCTAA
1 TAAACCATAAACTCTAA
6229918 TGACAAACTA
Statistics
Matches: 78, Mismatches: 11, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
19 11 0.14
20 58 0.74
21 9 0.12
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAACCATAAACTCTAAATA
Found at i:6229852 original size:40 final size:39
Alignment explanation
Indices: 6229821--6229917 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 39
6229811 ACTCAAACAC
6229821 TAAACCTTAAACTCTAAATATAAATCATAAACCATAAATA
1 TAAACCTTAAACTCTAAAT-TAAATCATAAACCATAAATA
* *
6229861 TAAACCTTAAACACTATAATTATATCATAAACCATAAATA
1 TAAACCTTAAACTCTA-AATTAAATCATAAACCATAAATA
*
6229901 TAAACCCTAAACTCTAA
1 TAAACCTTAAACTCTAA
6229918 TGACAAACTA
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.02
40 48 0.92
41 3 0.06
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.28
Consensus pattern (39 bp):
TAAACCTTAAACTCTAAATTAAATCATAAACCATAAATA
Found at i:6229872 original size:47 final size:45
Alignment explanation
Indices: 6229767--6229917 Score: 120
Period size: 47 Copynumber: 3.3 Consensus size: 45
6229757 AATTAAATTT
* *
6229767 TAAACCATAAACCCTAAACTATAAATATTAAACCCTAAACC-TAAACT-
1 TAAACC-TAAA-CCTAAACTATAAATA-TAAATCATAAACCATAAA-TA
* *
6229814 CAAACACTAAACCTTAAACTCTAAATATAAATCATAAACCATAAATA
1 TAAAC-CTAAACC-TAAACTATAAATATAAATCATAAACCATAAATA
*
6229861 TAAACCTTAAA-C---ACTAT-AAT-TATATCATAAACCATAAATA
1 TAAACC-TAAACCTAAACTATAAATATAAATCATAAACCATAAATA
6229901 TAAACCCTAAACTCTAA
1 TAAA-CCTAAAC-CTAA
6229918 TGACAAACTA
Statistics
Matches: 86, Mismatches: 7, Indels: 24
0.74 0.06 0.21
Matches are distributed among these distances:
40 27 0.31
41 5 0.06
42 5 0.06
46 16 0.19
47 32 0.37
48 1 0.01
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.25
Consensus pattern (45 bp):
TAAACCTAAACCTAAACTATAAATATAAATCATAAACCATAAATA
Found at i:6230056 original size:21 final size:21
Alignment explanation
Indices: 6230032--6230127 Score: 61
Period size: 21 Copynumber: 4.4 Consensus size: 21
6230022 CACTAAAATC
6230032 TAAACCCTAAAACCATAAAAA
1 TAAACCCTAAAACCATAAAAA
* * *
6230053 TAAACCTTAAACCCTACAATTAAACA
1 TAAACCCTAAA----ACCA-TAAAAA
* * *
6230079 TAAACCCTAAAACTAGAATTAA
1 TAAACCCTAAAACCATAA-AAA
*
6230101 -AAACCCTAAAACC-TAAACA
1 TAAACCCTAAAACCATAAAAA
6230120 TAAACCCT
1 TAAACCCT
6230128 CATTATATCA
Statistics
Matches: 56, Mismatches: 12, Indels: 15
0.67 0.14 0.18
Matches are distributed among these distances:
19 1 0.02
20 9 0.16
21 24 0.43
22 4 0.07
25 3 0.05
26 15 0.27
ACGTcount: A:0.54, C:0.26, G:0.01, T:0.19
Consensus pattern (21 bp):
TAAACCCTAAAACCATAAAAA
Found at i:6230279 original size:162 final size:163
Alignment explanation
Indices: 6230101--6230450 Score: 540
Period size: 162 Copynumber: 2.1 Consensus size: 163
6230091 CTAGAATTAA
** * *
6230101 AAACCCTAAAACCTAAACATAAACCCTCATTATATCATAAACTGTAAACATAAACACAAAACTTT
1 AAACCCTAAAACCTAAACATAAACCCTCATTATATCATAAACCATAAACATAAACAAAAAACCTT
*
6230166 AAACCCTAAAATAAAAACCAAAGATAAAATTACAAACCCTAAAACC-TATATAAACAATAAACCT
66 AAACCCTAAAATAAAAACCAAAGATAAAACTACAAACCCTAAAACCATATATAAACAATAAACCT
*
6230230 AAACTCGAACACTAAACACTAAACCTTAACCAC
131 AAACTCGAACACTAAACACTAAACCCTAACCAC
*
6230263 AAACCCTAAAACCTAAACCTAAACCCTCATTATATCATAAACCATAAACATAAACAAAAAACCTT
1 AAACCCTAAAACCTAAACATAAACCCTCATTATATCATAAACCATAAACATAAACAAAAAACCTT
* * * * *
6230328 AAACCTTAAAATAAAAACCTAAGATAAAACTAGAAACCTTAAAACCTATATATAAACCATAAACC
66 AAACCCTAAAATAAAAACCAAAGATAAAACTACAAACCCTAAAACC-ATATATAAACAATAAACC
*
6230393 TAAACTCGAACACTAAACACTAAACCCTAACCAT
130 TAAACTCGAACACTAAACACTAAACCCTAACCAC
* *
6230427 AAACCATAAACCCTAAATCATAAA
1 AAACCCTAAAACCTAAA-CATAAA
6230451 TCATAAACCC
Statistics
Matches: 169, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
162 101 0.60
164 63 0.37
165 5 0.03
ACGTcount: A:0.54, C:0.25, G:0.02, T:0.19
Consensus pattern (163 bp):
AAACCCTAAAACCTAAACATAAACCCTCATTATATCATAAACCATAAACATAAACAAAAAACCTT
AAACCCTAAAATAAAAACCAAAGATAAAACTACAAACCCTAAAACCATATATAAACAATAAACCT
AAACTCGAACACTAAACACTAAACCCTAACCAC
Found at i:6230384 original size:27 final size:27
Alignment explanation
Indices: 6230341--6230393 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
6230331 CCTTAAAATA
*
6230341 AAAACCTAAGATAAAACTAGAAACCTT
1 AAAACCTAAGATAAAACCAGAAACCTT
* *
6230368 AAAACCT-ATATATAAACCATAAACCT
1 AAAACCTAAGATA-AAACCAGAAACCT
6230394 AAACTCGAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.55, C:0.21, G:0.04, T:0.21
Consensus pattern (27 bp):
AAAACCTAAGATAAAACCAGAAACCTT
Found at i:6230429 original size:20 final size:19
Alignment explanation
Indices: 6230382--6230477 Score: 77
Period size: 20 Copynumber: 4.8 Consensus size: 19
6230372 CCTATATATA
* *
6230382 AACCATAAACCTAAACTCG
1 AACCATAAACCTAAACCCT
6230401 AA-CACTAAACACTAAACCCT
1 AACCA-TAAAC-CTAAACCCT
6230421 AACCATAAACCATAAACCCT
1 AACCATAAACC-TAAACCCT
* *
6230441 AAATCATAAATCATAAACCCT
1 -AACCATAAA-CCTAAACCCT
* *
6230462 AAACCCTAAGCCTAAA
1 -AACCATAAACCTAAA
6230478 ACACAAACCT
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
18 2 0.03
19 8 0.13
20 27 0.43
21 25 0.40
22 1 0.02
ACGTcount: A:0.50, C:0.31, G:0.02, T:0.17
Consensus pattern (19 bp):
AACCATAAACCTAAACCCT
Found at i:6230450 original size:21 final size:21
Alignment explanation
Indices: 6230380--6230466 Score: 85
Period size: 21 Copynumber: 4.3 Consensus size: 21
6230370 AACCTATATA
*
6230380 TAAACCATAAACC-TAAACTC
1 TAAACCATAAACCATAAACCC
*
6230400 -GAA-CACTAAA-CACTAAACCC
1 TAAACCA-TAAACCA-TAAACCC
6230420 T-AACCATAAACCATAAACCC
1 TAAACCATAAACCATAAACCC
* *
6230440 TAAATCATAAATCATAAACCC
1 TAAACCATAAACCATAAACCC
6230461 TAAACC
1 TAAACC
6230467 CTAAGCCTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
18 3 0.05
19 6 0.11
20 20 0.36
21 26 0.47
ACGTcount: A:0.51, C:0.31, G:0.01, T:0.17
Consensus pattern (21 bp):
TAAACCATAAACCATAAACCC
Found at i:6230468 original size:48 final size:48
Alignment explanation
Indices: 6230406--6230514 Score: 150
Period size: 48 Copynumber: 2.3 Consensus size: 48
6230396 ACTCGAACAC
* * *
6230406 TAAACACTAAACCCTAA-CCATAAACCATAAACCCTAAA-TCATAAATCA
1 TAAACCCTAAACCCTAAGCC-TAAAACACAAACCCTAAAGTC-TAAATCA
*
6230454 TAAACCCTAAACCCTAAGCCTAAAACACAAACCTTAAAGTCTAAATCA
1 TAAACCCTAAACCCTAAGCCTAAAACACAAACCCTAAAGTCTAAATCA
6230502 TAAACCCTAAACC
1 TAAACCCTAAACC
6230515 TTAATGAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
48 51 0.93
49 4 0.07
ACGTcount: A:0.50, C:0.30, G:0.02, T:0.18
Consensus pattern (48 bp):
TAAACCCTAAACCCTAAGCCTAAAACACAAACCCTAAAGTCTAAATCA
Found at i:6230512 original size:7 final size:7
Alignment explanation
Indices: 6230405--6230514 Score: 64
Period size: 7 Copynumber: 16.0 Consensus size: 7
6230395 AACTCGAACA
*
6230405 CTAAACA
1 CTAAACC
6230412 CTAAACC
1 CTAAACC
6230419 CT-AACC
1 CTAAACC
*
6230425 ATAAACC
1 CTAAACC
*
6230432 ATAAACC
1 CTAAACC
*
6230439 CTAAATC
1 CTAAACC
* *
6230446 ATAAATC
1 CTAAACC
*
6230453 ATAAACC
1 CTAAACC
6230460 CTAAACC
1 CTAAACC
*
6230467 CT-AAGC
1 CTAAACC
*
6230473 CTAAAACA
1 CT-AAACC
6230481 C-AAACC
1 CTAAACC
* **
6230487 TTAAAGT
1 CTAAACC
*
6230494 CTAAATC
1 CTAAACC
*
6230501 ATAAACC
1 CTAAACC
6230508 CTAAACC
1 CTAAACC
6230515 TTAATGAAAA
Statistics
Matches: 79, Mismatches: 20, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
6 14 0.18
7 62 0.78
8 3 0.04
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:6230587 original size:7 final size:7
Alignment explanation
Indices: 6230556--6230634 Score: 65
Period size: 7 Copynumber: 11.7 Consensus size: 7
6230546 CTTATTGTAG
6230556 CCTAAAC
1 CCTAAAC
*
6230563 CAT-AAC
1 CCTAAAC
*
6230569 CGTAAAC
1 CCTAAAC
*
6230576 ACTAAAC
1 CCTAAAC
6230583 CCTAAAC
1 CCTAAAC
**
6230590 ATTAAAC
1 CCTAAAC
*
6230597 CTTAAA-
1 CCTAAAC
*
6230603 CCTAAAT
1 CCTAAAC
*
6230610 TC-AAAC
1 CCTAAAC
6230616 CCTAAAC
1 CCTAAAC
6230623 CCTAAAC
1 CCTAAAC
6230630 CCTAA
1 CCTAA
6230635 CAAAAAACTA
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
6 14 0.25
7 43 0.75
ACGTcount: A:0.47, C:0.33, G:0.01, T:0.19
Consensus pattern (7 bp):
CCTAAAC
Found at i:6230588 original size:14 final size:14
Alignment explanation
Indices: 6230566--6230666 Score: 70
Period size: 14 Copynumber: 7.6 Consensus size: 14
6230556 CCTAAACCAT
*
6230566 AACCGTAAACACTA
1 AACCCTAAACACTA
*
6230580 AACCCTAAACATTA
1 AACCCTAAACACTA
*
6230594 AACCTTAAAC-CTA
1 AACCCTAAACACTA
** *
6230607 AATTC-AAACCCTA
1 AACCCTAAACACTA
*
6230620 AACCCTAAACCCT-
1 AACCCTAAACACTA
* *
6230633 AA--CAAAAAACTA
1 AACCCTAAACACTA
*
6230645 AACCATAAACA-TA
1 AACCCTAAACACTA
6230658 AACCCTAAA
1 AACCCTAAA
6230667 ACATAAGCAT
Statistics
Matches: 66, Mismatches: 16, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
11 6 0.09
12 6 0.09
13 22 0.33
14 32 0.48
ACGTcount: A:0.52, C:0.30, G:0.01, T:0.17
Consensus pattern (14 bp):
AACCCTAAACACTA
Found at i:6230608 original size:20 final size:22
Alignment explanation
Indices: 6230572--6230629 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 22
6230562 CCATAACCGT
*
6230572 AAACACTAAACCCTAAACATT-
1 AAACCCTAAACCCTAAACATTC
*
6230593 AAACCTTAAA-CCT-AA-ATTC
1 AAACCCTAAACCCTAAACATTC
6230612 AAACCCTAAACCCTAAAC
1 AAACCCTAAACCCTAAAC
6230630 CCTAACAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
18 3 0.10
19 11 0.37
20 6 0.20
21 10 0.33
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (22 bp):
AAACCCTAAACCCTAAACATTC
Found at i:6230671 original size:20 final size:20
Alignment explanation
Indices: 6230642--6230683 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
6230632 TAACAAAAAA
*
6230642 CTAAACCATAAACATAAACC
1 CTAAAACATAAACATAAACC
*
6230662 CTAAAACATAAGCATAAACC
1 CTAAAACATAAACATAAACC
6230682 CT
1 CT
6230684 TATTATATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.29, G:0.02, T:0.17
Consensus pattern (20 bp):
CTAAAACATAAACATAAACC
Found at i:6231076 original size:20 final size:18
Alignment explanation
Indices: 6231031--6231088 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 18
6231021 TAATTAAATT
6231031 CTAAACCCTAAACTAAAA
1 CTAAACCCTAAACTAAAA
*
6231049 CTACAAACCTTAAACATAAAA
1 CT--AAACCCTAAAC-TAAAA
*
6231070 CCTAAACACTAAATCTAAA
1 -CTAAACCCTAAA-CTAAA
6231089 CTTTAAGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
18 2 0.06
20 22 0.69
21 6 0.19
22 2 0.06
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (18 bp):
CTAAACCCTAAACTAAAA
Found at i:6231111 original size:7 final size:7
Alignment explanation
Indices: 6231099--6231123 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6231089 CTTTAAGCCC
6231099 TAAATTA
1 TAAATTA
6231106 TAAATTA
1 TAAATTA
6231113 TAAATTA
1 TAAATTA
6231120 TAAA
1 TAAA
6231124 CCTAAAACCT
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:6231317 original size:7 final size:7
Alignment explanation
Indices: 6231268--6231428 Score: 50
Period size: 7 Copynumber: 23.4 Consensus size: 7
6231258 CAAATCTTTT
6231268 ACCTTAAA
1 ACCTT-AA
6231276 ACCTTAA
1 ACCTTAA
*
6231283 ACCCTAA
1 ACCTTAA
*
6231290 A-ATTAA
1 ACCTTAA
*
6231296 ACTTTAA
1 ACCTTAA
* *
6231303 GCCATAA
1 ACCTTAA
6231310 ACCTTAA
1 ACCTTAA
*
6231317 A-CTCAA
1 ACCTTAA
*
6231323 ACACTAAA
1 AC-CTTAA
*
6231331 AAC-TAA
1 ACCTTAA
*
6231337 ACCCTAA
1 ACCTTAA
***
6231344 ATGATAA
1 ACCTTAA
6231351 A-CTATAA
1 ACCT-TAA
*
6231358 ACCCTAA
1 ACCTTAA
6231365 A-CTTAA
1 ACCTTAA
**
6231371 ACAATAA
1 ACCTTAA
*
6231378 ACCCT-A
1 ACCTTAA
*
6231384 ACCATAA
1 ACCTTAA
*
6231391 A-TTCTAA
1 ACCT-TAA
*
6231398 ATCCTAAA
1 A-CCTTAA
6231406 ACC-TAA
1 ACCTTAA
6231412 ACCTTAA
1 ACCTTAA
6231419 ACCTTAA
1 ACCTTAA
6231426 ACC
1 ACC
6231429 CTAATCACAA
Statistics
Matches: 110, Mismatches: 31, Indels: 25
0.66 0.19 0.15
Matches are distributed among these distances:
6 28 0.25
7 67 0.61
8 14 0.13
9 1 0.01
ACGTcount: A:0.50, C:0.26, G:0.01, T:0.23
Consensus pattern (7 bp):
ACCTTAA
Found at i:6231391 original size:20 final size:20
Alignment explanation
Indices: 6231321--6231391 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
6231311 CCTTAAACTC
6231321 AAACACTAAA-AACTAAACCCT
1 AAACA-TAAACAA-TAAACCCT
* *
6231342 AAATGATAAACTATAAACCCT
1 AAA-CATAAACAATAAACCCT
*
6231363 AAACTTAAACAATAAACCCT
1 AAACATAAACAATAAACCCT
*
6231383 AACCATAAA
1 AAACATAAA
6231392 TTCTAAATCC
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
20 21 0.51
21 18 0.44
22 2 0.05
ACGTcount: A:0.56, C:0.24, G:0.01, T:0.18
Consensus pattern (20 bp):
AAACATAAACAATAAACCCT
Found at i:6231828 original size:14 final size:15
Alignment explanation
Indices: 6231809--6231838 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
6231799 CTAATTATAT
6231809 CCTAAACC-TTAAAC
1 CCTAAACCATTAAAC
6231823 CCTAAACCATTAAAC
1 CCTAAACCATTAAAC
6231838 C
1 C
6231839 TTATACCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (15 bp):
CCTAAACCATTAAAC
Found at i:6231923 original size:14 final size:14
Alignment explanation
Indices: 6231875--6231924 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
6231865 TTCAACCATC
6231875 AACCATAAATA-TA
1 AACCATAAATACTA
*
6231888 AA-CATTAAATTCTA
1 AACCA-TAAATACTA
**
6231902 AATTATAAATACTA
1 AACCATAAATACTA
6231916 AACCATAAA
1 AACCATAAA
6231925 CCCTAAAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
12 2 0.07
13 7 0.24
14 19 0.66
15 1 0.03
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (14 bp):
AACCATAAATACTA
Found at i:6231937 original size:27 final size:27
Alignment explanation
Indices: 6231907--6231985 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
6231897 TTCTAAATTA
6231907 TAAATACTAAACCATAAACCCTAAAAC
1 TAAATACTAAACCATAAACCCTAAAAC
* * * *
6231934 TAAAATCAC-AAA-TAAAAACCCTATAAT
1 T-AAAT-ACTAAACCATAAACCCTAAAAC
* *
6231961 TAAATTCTAAACCCTAAACCCTAAA
1 TAAATACTAAACCATAAACCCTAAA
6231986 CTCTTAACCT
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
25 1 0.03
26 7 0.18
27 22 0.56
28 7 0.18
29 2 0.05
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (27 bp):
TAAATACTAAACCATAAACCCTAAAAC
Found at i:6231977 original size:7 final size:7
Alignment explanation
Indices: 6231967--6232039 Score: 60
Period size: 7 Copynumber: 10.7 Consensus size: 7
6231957 TAATTAAATT
6231967 CTAAACC
1 CTAAACC
6231974 CTAAACC
1 CTAAACC
*
6231981 CTAAACT
1 CTAAACC
*
6231988 CTTAACC
1 CTAAACC
* *
6231995 TTAGACC
1 CTAAACC
6232002 CTAAA-C
1 CTAAACC
*
6232008 CTAAACT
1 CTAAACC
*
6232015 C-AAACA
1 CTAAACC
6232021 CTAAACC
1 CTAAACC
* *
6232028 TTAAACT
1 CTAAACC
6232035 CTAAA
1 CTAAA
6232040 TATAAATCAT
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
6 11 0.22
7 39 0.78
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:6231994 original size:21 final size:20
Alignment explanation
Indices: 6231967--6232039 Score: 67
Period size: 21 Copynumber: 3.6 Consensus size: 20
6231957 TAATTAAATT
6231967 CTAAACCCTAAACCCTAAAC
1 CTAAACCCTAAACCCTAAAC
* * *
6231987 TCTTAACCTTAGACCCTAAAC
1 -CTAAACCCTAAACCCTAAAC
* *
6232008 CTAAACTC-AAACACTAAAC
1 CTAAACCCTAAACCCTAAAC
*
6232027 CTTAAACTCTAAA
1 C-TAAACCCTAAA
6232040 TATAAATCAT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 10 0.24
20 12 0.29
21 20 0.48
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.22
Consensus pattern (20 bp):
CTAAACCCTAAACCCTAAAC
Found at i:6232045 original size:20 final size:20
Alignment explanation
Indices: 6232003--6232073 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
6231993 CCTTAGACCC
*
6232003 TAAACC-TAAACTC-AAACA
1 TAAACCTTAAACTCTAAATA
6232021 CTAAACCTTAAACTCTAAATA
1 -TAAACCTTAAACTCTAAATA
* *
6232042 TAAATCATAAAC-CGTAAATA
1 TAAACCTTAAACTC-TAAATA
6232062 TAAACCTTAAAC
1 TAAACCTTAAAC
6232074 ACTATAATCA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
19 7 0.16
20 33 0.75
21 4 0.09
ACGTcount: A:0.52, C:0.23, G:0.01, T:0.24
Consensus pattern (20 bp):
TAAACCTTAAACTCTAAATA
Found at i:6232066 original size:40 final size:40
Alignment explanation
Indices: 6232022--6232107 Score: 122
Period size: 40 Copynumber: 2.1 Consensus size: 40
6232012 ACTCAAACAC
* *
6232022 TAAACCTTAAACTCTA-AAT-ATAAATCATAAACCGTAAATA
1 TAAACCTTAAACACTATAATCAT--ATCATAAACCCTAAATA
6232062 TAAACCTTAAACACTATAATCATATCATAAACCCTAAATA
1 TAAACCTTAAACACTATAATCATATCATAAACCCTAAATA
6232102 TAAACC
1 TAAACC
6232108 CTAACCCTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
40 37 0.88
41 3 0.07
42 2 0.05
ACGTcount: A:0.51, C:0.21, G:0.01, T:0.27
Consensus pattern (40 bp):
TAAACCTTAAACACTATAATCATATCATAAACCCTAAATA
Found at i:6232256 original size:21 final size:21
Alignment explanation
Indices: 6232232--6232327 Score: 70
Period size: 21 Copynumber: 4.4 Consensus size: 21
6232222 CCTTAAAATC
6232232 TAAACCCTAAAACCATAAAAA
1 TAAACCCTAAAACCATAAAAA
*
6232253 TAAACCTTAAAACCTATAATTAAACA
1 TAAACCCTAAAACC-AT-A--AAA-A
* * * *
6232279 TAAACCCTAAAGCTAGAATTAA
1 TAAACCCTAAAACCATAA-AAA
*
6232301 -AAACCCTAAAACC-TAAACA
1 TAAACCCTAAAACCATAAAAA
6232320 TAAACCCT
1 TAAACCCT
6232328 TATTATATCA
Statistics
Matches: 57, Mismatches: 11, Indels: 15
0.69 0.13 0.18
Matches are distributed among these distances:
19 1 0.02
20 9 0.16
21 24 0.42
22 4 0.07
23 2 0.04
24 1 0.02
25 4 0.07
26 12 0.21
ACGTcount: A:0.54, C:0.24, G:0.02, T:0.20
Consensus pattern (21 bp):
TAAACCCTAAAACCATAAAAA
Found at i:6232522 original size:7 final size:7
Alignment explanation
Indices: 6232498--6232610 Score: 86
Period size: 7 Copynumber: 16.4 Consensus size: 7
6232488 CCCTCATTAT
6232498 ACCATAA
1 ACCATAA
*
6232505 ACCCT-A
1 ACCATAA
6232511 ACCATAA
1 ACCATAA
6232518 ACCATAA
1 ACCATAA
6232525 ACCATAA
1 ACCATAA
*
6232532 ACCCTAA
1 ACCATAA
*
6232539 ATCATAA
1 ACCATAA
*
6232546 ACCCTAA
1 ACCATAA
*
6232553 ACCTTAA
1 ACCATAA
*
6232560 ACCCTAA
1 ACCATAA
*
6232567 GCC-TAA
1 ACCATAA
* *
6232573 AACACAA
1 ACCATAA
6232580 ACCATAA
1 ACCATAA
***
6232587 AGTTTAA
1 ACCATAA
*
6232594 ATCATAA
1 ACCATAA
*
6232601 ACCCTAA
1 ACCATAA
6232608 ACC
1 ACC
6232611 CTAATGAAAA
Statistics
Matches: 81, Mismatches: 23, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
6 9 0.11
7 72 0.89
ACGTcount: A:0.50, C:0.31, G:0.02, T:0.18
Consensus pattern (7 bp):
ACCATAA
Found at i:6232529 original size:14 final size:14
Alignment explanation
Indices: 6232465--6232764 Score: 129
Period size: 14 Copynumber: 21.1 Consensus size: 14
6232455 CCTTAACCAC
* *
6232465 AAACCCTAAAACCT
1 AAACCATAAACCCT
6232479 AAACC-TAAACCCT
1 AAACCATAAACCCT
6232492 CATTATACCATAAACCCT
1 -A--A-ACCATAAACCCT
*
6232510 -AACCATAAACCAT
1 AAACCATAAACCCT
6232523 AAACCATAAACCCT
1 AAACCATAAACCCT
*
6232537 AAATCATAAACCCT
1 AAACCATAAACCCT
*
6232551 AAACCTTAAACCCT
1 AAACCATAAACCCT
* *
6232565 AAGCC-TAAAACAC-
1 AAACCAT-AAACCCT
***
6232578 AAACCATAAAGTTT
1 AAACCATAAACCCT
*
6232592 AAATCATAAACCCT
1 AAACCATAAACCCT
**
6232606 AAACCCTAATGAAAAACT
1 AAA-CC--AT-AAACCCT
* *
6232624 AAACCACAAA-CAT
1 AAACCATAAACCCT
* *
6232637 AAACCCTTATTATAGCCT
1 AAA-CC--A-TAAACCCT
*
6232655 AAACCAT-AACCTT
1 AAACCATAAACCCT
6232668 AAA-CACTAAACCCT
1 AAACCA-TAAACCCT
* ***
6232682 AAACCTTAAATATT
1 AAACCATAAACCCT
*
6232696 AAACCTTAAA-CCT
1 AAACCATAAACCCT
*
6232709 AAA-C-TCAAACACT
1 AAACCAT-AAACCCT
6232722 AAATCC-TAAACCCT
1 AAA-CCATAAACCCT
* *
6232736 AAA-CACAAACCTT
1 AAACCATAAACCCT
*
6232749 AAACCCTAAACCCT
1 AAACCATAAACCCT
6232763 AA
1 AA
6232765 CAAAAAACTT
Statistics
Matches: 217, Mismatches: 42, Indels: 54
0.69 0.13 0.17
Matches are distributed among these distances:
11 1 0.00
12 7 0.03
13 55 0.25
14 114 0.53
15 6 0.03
16 2 0.01
17 11 0.05
18 21 0.10
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.20
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:6232582 original size:55 final size:55
Alignment explanation
Indices: 6232462--6232610 Score: 158
Period size: 55 Copynumber: 2.7 Consensus size: 55
6232452 AAACCTTAAC
* * *
6232462 CACAAACCCTAAAACCTAAA-CCTAAACCCTCATTATACCATAAACCCTAACCATAAAC
1 CACAAACCATAAAACCTAAATCATAAACCCT-A--A-ACCATAAACCCTAACCATAAAA
* * *
6232520 CATAAACCATAAACCCTAAATCATAAACCCTAAACCTTAAACCCTAAGCC-TAAAA
1 CACAAACCATAAAACCTAAATCATAAACCCTAAACCATAAACCCTAA-CCATAAAA
***
6232575 CACAAACCATAAAGTTTAAATCATAAACCCTAAACC
1 CACAAACCATAAAACCTAAATCATAAACCCTAAACC
6232611 CTAATGAAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
55 49 0.62
56 3 0.04
58 18 0.23
59 9 0.11
ACGTcount: A:0.48, C:0.32, G:0.01, T:0.18
Consensus pattern (55 bp):
CACAAACCATAAAACCTAAATCATAAACCCTAAACCATAAACCCTAACCATAAAA
Found at i:6232678 original size:20 final size:21
Alignment explanation
Indices: 6232653--6232881 Score: 84
Period size: 21 Copynumber: 10.9 Consensus size: 21
6232643 TTATTATAGC
6232653 CTAAACCAT-AACCTTAAACA
1 CTAAACCATAAACCTTAAACA
* *
6232673 CTAAACCCTAAACCTTAAATA
1 CTAAACCATAAACCTTAAACA
* *
6232694 TTAAACCTTAAACCTAAACTCAAACA
1 CTAAACCATAAACCT----T-AAACA
* * *
6232720 CTAAATCCTAAACCCTAAACA
1 CTAAACCATAAACCTTAAACA
* * *
6232741 C-AAACCTTAAACCCTAAACC
1 CTAAACCATAAACCTTAAACA
* * *
6232761 CT-AA-CAAAAAACTTAACCA
1 CTAAACCATAAACCTTAAACA
*
6232780 -TAAA-CATAAACCCTAAA-A
1 CTAAACCATAAACCTTAAACA
* * *
6232798 C-ATAAGCATAAACCCTTATTATA
1 CTA-AACCATAAA-CCTTA-AACA
* *
6232821 TCTAAAACCAT-AACCCTAAACC
1 -CT-AAACCATAAACCTTAAACA
*
6232843 CTAAACTC-TAAACCTTAAACT
1 CTAAAC-CATAAACCTTAAACA
* *
6232864 GTAAACCTTAAA-CTTAAA
1 CTAAACCATAAACCTTAAA
6232882 ACCATAAATA
Statistics
Matches: 157, Mismatches: 32, Indels: 40
0.69 0.14 0.17
Matches are distributed among these distances:
18 3 0.02
19 22 0.14
20 45 0.29
21 54 0.34
22 3 0.02
23 5 0.03
24 3 0.02
25 6 0.04
26 16 0.10
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.22
Consensus pattern (21 bp):
CTAAACCATAAACCTTAAACA
Found at i:6232683 original size:7 final size:7
Alignment explanation
Indices: 6232652--6232764 Score: 81
Period size: 7 Copynumber: 16.7 Consensus size: 7
6232642 CTTATTATAG
6232652 CCTAAAC
1 CCTAAAC
*
6232659 CAT-AAC
1 CCTAAAC
*
6232665 CTTAAAC
1 CCTAAAC
*
6232672 ACTAAAC
1 CCTAAAC
6232679 CCTAAAC
1 CCTAAAC
* *
6232686 CTTAAAT
1 CCTAAAC
**
6232693 ATTAAAC
1 CCTAAAC
*
6232700 CTTAAA-
1 CCTAAAC
6232706 CCTAAAC
1 CCTAAAC
*
6232713 TC-AAAC
1 CCTAAAC
* *
6232719 ACTAAAT
1 CCTAAAC
6232726 CCTAAAC
1 CCTAAAC
6232733 CCTAAAC
1 CCTAAAC
*
6232740 AC-AAAC
1 CCTAAAC
*
6232746 CTTAAAC
1 CCTAAAC
6232753 CCTAAAC
1 CCTAAAC
6232760 CCTAA
1 CCTAA
6232765 CAAAAAACTT
Statistics
Matches: 82, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
6 19 0.23
7 63 0.77
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (7 bp):
CCTAAAC
Found at i:6232683 original size:27 final size:26
Alignment explanation
Indices: 6232652--6232764 Score: 99
Period size: 27 Copynumber: 4.2 Consensus size: 26
6232642 CTTATTATAG
6232652 CCTAAAC-CATAACCTTAAACACTAAAC
1 CCTAAACACA-AACCTTAAAC-CTAAAC
**
6232679 CCTAAAC-CTTAAATATTAAACCTTAAA-
1 CCTAAACAC--AAACCTTAAACC-TAAAC
*
6232706 CCTAAACTCAAACAC-TAAATCCTAAAC
1 CCTAAACACAAAC-CTTAAA-CCTAAAC
6232733 CCTAAACACAAACCTTAAACCCTAAAC
1 CCTAAACACAAACCTTAAA-CCTAAAC
6232760 CCTAA
1 CCTAA
6232765 CAAAAAACTT
Statistics
Matches: 72, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
26 12 0.17
27 46 0.64
28 13 0.18
29 1 0.01
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (26 bp):
CCTAAACACAAACCTTAAACCTAAAC
Found at i:6232772 original size:27 final size:26
Alignment explanation
Indices: 6232665--6232784 Score: 79
Period size: 27 Copynumber: 4.5 Consensus size: 26
6232655 AAACCATAAC
* *
6232665 CTTAAACACTAAACCCTAAACCTTAAATA
1 CTTAAACCCTAAACCCTAAA-C--AAAAA
* *
6232694 -TTAAACCTTAAA-CCTAAACTCAAACA
1 CTTAAACCCTAAACCCTAAA--CAAAAA
* *
6232720 C-TAAATCCTAAACCCTAAACACAAAC
1 CTTAAACCCTAAACCCTAAACA-AAAA
6232746 CTTAAACCCTAAACCCT-AACAAAAAA
1 CTTAAACCCTAAACCCTAAAC-AAAAA
*
6232772 CTT-AACCATAAAC
1 CTTAAACCCTAAAC
6232785 ATAAACCCTA
Statistics
Matches: 74, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
25 11 0.15
26 25 0.34
27 27 0.36
28 11 0.15
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (26 bp):
CTTAAACCCTAAACCCTAAACAAAAA
Found at i:6232884 original size:14 final size:14
Alignment explanation
Indices: 6232836--6232881 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
6232826 AACCATAACC
*
6232836 CTAAACCCTAAACT
1 CTAAACCTTAAACT
6232850 CTAAACCTTAAACT
1 CTAAACCTTAAACT
*
6232864 GTAAACCTTAAACT
1 CTAAACCTTAAACT
6232878 -TAAA
1 CTAAA
6232882 ACCATAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
13 4 0.13
14 26 0.87
ACGTcount: A:0.46, C:0.26, G:0.02, T:0.26
Consensus pattern (14 bp):
CTAAACCTTAAACT
Found at i:6232889 original size:14 final size:14
Alignment explanation
Indices: 6232825--6232889 Score: 62
Period size: 14 Copynumber: 4.7 Consensus size: 14
6232815 ATTATATCTA
*
6232825 AAACCAT-AACCCT
1 AAACCATAAACTCT
*
6232838 AAACCCTAAACTCT
1 AAACCATAAACTCT
* *
6232852 AAACCTTAAACTGT
1 AAACCATAAACTCT
*
6232866 AAACCTTAAACT-T
1 AAACCATAAACTCT
6232879 AAAACCATAAA
1 -AAACCATAAA
6232890 TATAAACTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
13 7 0.16
14 38 0.84
ACGTcount: A:0.49, C:0.28, G:0.02, T:0.22
Consensus pattern (14 bp):
AAACCATAAACTCT
Found at i:6232997 original size:28 final size:28
Alignment explanation
Indices: 6232965--6233034 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 28
6232955 AATTATACAA
6232965 TAAACCCTAAATCTCAAAACCTTTAAA-C
1 TAAACCCTAAATCT-AAAACCTTTAAACC
*
6232993 TAAACTACC-AAATCTTAAACCTTTAAACCC
1 TAAAC--CCTAAATCTAAAACCTTTAAA-CC
6233023 TAAAACCCTAAA
1 T-AAACCCTAAA
6233035 ATCCCAAACC
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
28 16 0.46
29 8 0.23
30 7 0.20
31 4 0.11
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (28 bp):
TAAACCCTAAATCTAAAACCTTTAAACC
Found at i:6233140 original size:20 final size:20
Alignment explanation
Indices: 6233107--6233186 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 20
6233097 CCCTAAATGA
* *
6233107 TAAACTATAGACCCTAAACT
1 TAAACAATAAACCCTAAACT
6233127 TAAACAATAAACCCTAAA-T
1 TAAACAATAAACCCTAAACT
* *
6233146 ATAAACCATAAACCCTAAATCC
1 -TAAACAATAAACCCTAAA-CT
*
6233168 TAAA-AACTAAACCTTAAAC
1 TAAACAA-TAAACCCTAAAC
6233187 ACTAAACCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
19 1 0.02
20 35 0.70
21 14 0.28
ACGTcount: A:0.53, C:0.25, G:0.01, T:0.21
Consensus pattern (20 bp):
TAAACAATAAACCCTAAACT
Found at i:6233144 original size:7 final size:7
Alignment explanation
Indices: 6233134--6233315 Score: 59
Period size: 7 Copynumber: 26.4 Consensus size: 7
6233124 ACTTAAACAA
6233134 TAAACCC
1 TAAACCC
**
6233141 TAAA-TA
1 TAAACCC
*
6233147 TAAACCA
1 TAAACCC
6233154 TAAACCC
1 TAAACCC
*
6233161 TAAATCC
1 TAAACCC
**
6233168 TAAAAAC
1 TAAACCC
*
6233175 TAAACCT
1 TAAACCC
*
6233182 TAAACAC
1 TAAACCC
6233189 TAAACCC
1 TAAACCC
* *
6233196 TAATCAC
1 TAAACCC
***
6233203 -AAAAAA
1 TAAACCC
6233209 TAAA--C
1 TAAACCC
* *
6233214 TATACACA
1 TAAAC-CC
*
6233222 TAAACCT
1 TAAACCC
*
6233229 TAAACTC
1 TAAACCC
6233236 TAAACCC
1 TAAACCC
**
6233243 TAAACTA
1 TAAACCC
*
6233250 AAAACCC
1 TAAACCC
*
6233257 TAAAACC
1 TAAACCC
* **
6233264 TATA-TA
1 TAAACCC
* *
6233270 TGAACCA
1 TAAACCC
6233277 TAAACCC
1 TAAACCC
*
6233284 TAAAACC
1 TAAACCC
*
6233291 TAAACCT
1 TAAACCC
6233298 TAAAACCC
1 T-AAACCC
6233306 TAAACCC
1 TAAACCC
6233313 TAA
1 TAA
6233316 TGAAAAACTA
Statistics
Matches: 123, Mismatches: 45, Indels: 14
0.68 0.25 0.08
Matches are distributed among these distances:
5 3 0.02
6 9 0.07
7 101 0.82
8 10 0.08
ACGTcount: A:0.52, C:0.28, G:0.01, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:6233178 original size:34 final size:34
Alignment explanation
Indices: 6233140--6233232 Score: 95
Period size: 34 Copynumber: 2.7 Consensus size: 34
6233130 ACAATAAACC
6233140 CTAAA-TATAAACCATAAACCCTAAATC-CTAAAAA
1 CTAAACTATAAA-CATAAACCCTAAATCAC-AAAAA
6233174 CTAAACCT-TAAACACTAAACCCT-AATCACAAAAA
1 CTAAA-CTATAAACA-TAAACCCTAAATCACAAAAA
* * *
6233208 ATAAACTATACACATAAACCTTAAA
1 CTAAACTATAAACATAAACCCTAAA
6233233 CTCTAAACCC
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
33 9 0.18
34 27 0.54
35 13 0.26
36 1 0.02
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.20
Consensus pattern (34 bp):
CTAAACTATAAACATAAACCCTAAATCACAAAAA
Found at i:6233351 original size:14 final size:14
Alignment explanation
Indices: 6233275--6233353 Score: 61
Period size: 14 Copynumber: 5.4 Consensus size: 14
6233265 ATATATGAAC
6233275 CATAAACCCTAAAA
1 CATAAACCCTAAAA
* *
6233289 CCTAAACCTTAAAA
1 CATAAACCCTAAAA
*
6233303 CCCTAAACCCTAATGAAA
1 -CATAAACCCT-A--AAA
* *
6233321 AACTAAACCAT-AAA
1 CA-TAAACCCTAAAA
6233335 CATAAACCCTAAAA
1 CATAAACCCTAAAA
6233349 CATAA
1 CATAA
6233354 GCATAAACCC
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
13 7 0.14
14 24 0.47
15 9 0.18
16 1 0.02
18 10 0.20
ACGTcount: A:0.54, C:0.28, G:0.01, T:0.16
Consensus pattern (14 bp):
CATAAACCCTAAAA
Found at i:6233352 original size:20 final size:20
Alignment explanation
Indices: 6233275--6233364 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 20
6233265 ATATATGAAC
*
6233275 CATAAACCCTAAAACCTAAA
1 CATAAACCCTAAAACATAAA
* * * *
6233295 CCTTAAAACCCTAAACCCTAAT
1 -CAT-AAACCCTAAAACATAAA
* * *
6233317 GA-AAA-ACTAAACCATAAA
1 CATAAACCCTAAAACATAAA
*
6233335 CATAAACCCTAAAACATAAG
1 CATAAACCCTAAAACATAAA
6233355 CATAAACCCT
1 CATAAACCCT
6233365 TATTATATCC
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
18 11 0.20
19 6 0.11
20 20 0.37
21 2 0.04
22 15 0.28
ACGTcount: A:0.52, C:0.29, G:0.02, T:0.17
Consensus pattern (20 bp):
CATAAACCCTAAAACATAAA
Found at i:6233519 original size:20 final size:19
Alignment explanation
Indices: 6233467--6233506 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
6233457 TTAACCTTAC
6233467 AATTAAACATAAACCCTAA
1 AATTAAACATAAACCCTAA
*
6233486 AATTACAACCTAAACCCTAA
1 AATTA-AACATAAACCCTAA
6233506 A
1 A
6233507 CTTTAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.20
Consensus pattern (19 bp):
AATTAAACATAAACCCTAA
Found at i:6233757 original size:20 final size:18
Alignment explanation
Indices: 6233713--6233769 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 18
6233703 AATTAAATTT
6233713 TAAACCCTAAACTAAAAC
1 TAAACCCTAAACTAAAAC
*
6233731 TACAAACCTTAAACATAAAACC
1 T--AAACCCTAAAC-TAAAA-C
*
6233753 TAAACACTAAATCTAAA
1 TAAACCCTAAA-CTAAA
6233770 CTTTAAGCCC
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
18 1 0.03
20 22 0.71
21 6 0.19
22 2 0.06
ACGTcount: A:0.56, C:0.25, G:0.00, T:0.19
Consensus pattern (18 bp):
TAAACCCTAAACTAAAAC
Found at i:6234072 original size:20 final size:20
Alignment explanation
Indices: 6234018--6234072 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
6234008 TAAAAACTAG
* *
6234018 ACCCTAAATGATAAACTATAA
1 ACCCTAAA-CATAAACAATAA
*
6234039 ACCCTAAACTTAAACAATAA
1 ACCCTAAACATAAACAATAA
*
6234059 ACCCTAACCATAAA
1 ACCCTAAACATAAA
6234073 TTCTAAATCC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 21 0.72
21 8 0.28
ACGTcount: A:0.53, C:0.25, G:0.02, T:0.20
Consensus pattern (20 bp):
ACCCTAAACATAAACAATAA
Found at i:6234280 original size:27 final size:27
Alignment explanation
Indices: 6234237--6234289 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
6234227 CCCTAAAATA
*
6234237 AAAACCTAAGATAAAACTAGAAACCTT
1 AAAACCTAAGATAAAACCAGAAACCTT
* *
6234264 AAAACCT-ATATATAAACCATAAACCT
1 AAAACCTAAGATA-AAACCAGAAACCT
6234290 AAACTCGAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.55, C:0.21, G:0.04, T:0.21
Consensus pattern (27 bp):
AAAACCTAAGATAAAACCAGAAACCTT
Found at i:6234294 original size:40 final size:40
Alignment explanation
Indices: 6234189--6234294 Score: 94
Period size: 40 Copynumber: 2.6 Consensus size: 40
6234179 AAACCTTCAT
*
6234189 TATATCATAAACCATAAACATAAAC-ACAAAACCTTAAACCC
1 TATAT-ATAAACCATAAAC-TAAACTACAAAACCTTAAAACC
* * *
6234230 TAAAATAAAAACC-TAAGA-TAAAACTA-GAAACCTTAAAACC
1 T-ATATATAAACCATAA-ACT-AAACTACAAAACCTTAAAACC
6234270 TATATATAAACCATAAACCTAAACT
1 TATATATAAACCATAAA-CTAAACT
6234295 CGAACACTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
39 11 0.21
40 28 0.54
41 10 0.19
42 3 0.06
ACGTcount: A:0.56, C:0.22, G:0.02, T:0.21
Consensus pattern (40 bp):
TATATATAAACCATAAACTAAACTACAAAACCTTAAAACC
Found at i:6234307 original size:7 final size:7
Alignment explanation
Indices: 6234297--6234348 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
6234287 CCTAAACTCG
6234297 AACACTA
1 AACACTA
6234304 AACACTA
1 AACACTA
*
6234311 AACCCTA
1 AACACTA
6234318 AACAC-A
1 AACACTA
6234324 AAC-CTTA
1 AACAC-TA
*
6234331 AACCCTA
1 AACACTA
*
6234338 AACCCTA
1 AACACTA
6234345 AACA
1 AACA
6234349 TTATAATTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
5 1 0.03
6 4 0.10
7 33 0.85
8 1 0.03
ACGTcount: A:0.52, C:0.35, G:0.00, T:0.13
Consensus pattern (7 bp):
AACACTA
Found at i:6234320 original size:14 final size:14
Alignment explanation
Indices: 6234301--6234348 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
6234291 AACTCGAACA
6234301 CTAAACACTAAACC
1 CTAAACACTAAACC
6234315 CTAAACAC-AAACC
1 CTAAACACTAAACC
* *
6234328 TTAAACCCTAAACC
1 CTAAACACTAAACC
6234342 CTAAACA
1 CTAAACA
6234349 TTATAATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 11 0.38
14 18 0.62
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (14 bp):
CTAAACACTAAACC
Found at i:6234326 original size:20 final size:21
Alignment explanation
Indices: 6234297--6234347 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
6234287 CCTAAACTCG
6234297 AACACTAAACAC-TAAACCCTA
1 AACACTAAAC-CTTAAACCCTA
6234318 AACAC-AAACCTTAAACCCTA
1 AACACTAAACCTTAAACCCTA
*
6234338 AACCCTAAAC
1 AACACTAAAC
6234348 ATTATAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 1 0.04
20 17 0.63
21 9 0.33
ACGTcount: A:0.51, C:0.35, G:0.00, T:0.14
Consensus pattern (21 bp):
AACACTAAACCTTAAACCCTA
Found at i:6234427 original size:40 final size:41
Alignment explanation
Indices: 6234337--6234427 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 41
6234327 CTTAAACCCT
* * ** *
6234337 AAACCCTAAACATTATAATTATATTATAAACCCTAAGTATC
1 AAACCCTAAACACTATAATTATATCATAAACAATAAATATC
*
6234378 -AACCTTAAACACTATAATTATATCATAAACAATAAATA-C
1 AAACCCTAAACACTATAATTATATCATAAACAATAAATATC
*
6234417 AAACCGTAAAC
1 AAACCCTAAAC
6234428 CCTAATGAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.02
40 41 0.98
ACGTcount: A:0.51, C:0.20, G:0.02, T:0.27
Consensus pattern (41 bp):
AAACCCTAAACACTATAATTATATCATAAACAATAAATATC
Found at i:6234509 original size:14 final size:15
Alignment explanation
Indices: 6234490--6234518 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6234480 CTAATTATAT
6234490 CCTAAACC-TTAAAC
1 CCTAAACCATTAAAC
6234504 CCTAAACCATTAAAC
1 CCTAAACCATTAAAC
6234519 ATTATACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (15 bp):
CCTAAACCATTAAAC
Found at i:6234547 original size:20 final size:20
Alignment explanation
Indices: 6234452--6234577 Score: 64
Period size: 20 Copynumber: 6.3 Consensus size: 20
6234442 AAACCATAAT
* *
6234452 CATAAACCCTAAA-ATATAAG
1 CATAAACCCTAAACTTA-AAC
*
6234472 CATAAACCCT-AA-TTATATC
1 CATAAACCCTAAACTTA-AAC
* *
6234491 C-TAAACCTTAAACCCTAAAC
1 CATAAACCCTAAA-CTTAAAC
** * *
6234511 CATTAAACATTATACTTAAAT
1 CA-TAAACCCTAAACTTAAAC
*
6234532 TATAAACCCTAAACTTAAAC
1 CATAAACCCTAAACTTAAAC
*
6234552 CATCAACCCTAAA-TATAAAC
1 CATAAACCCTAAACT-TAAAC
*
6234572 CTTAAA
1 CATAAA
6234578 TTCTAAATTA
Statistics
Matches: 81, Mismatches: 19, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
18 7 0.09
19 10 0.12
20 47 0.58
21 8 0.10
22 9 0.11
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.26
Consensus pattern (20 bp):
CATAAACCCTAAACTTAAAC
Found at i:6234644 original size:7 final size:6
Alignment explanation
Indices: 6234634--6234705 Score: 56
Period size: 7 Copynumber: 10.7 Consensus size: 6
6234624 AATTAAATTT
6234634 TAAACC ATAAACCC TAAACTC TAAACC TTAAACCC TAAACC TAAA-C TCAAACAC
1 TAAACC -TAAA-CC TAAAC-C TAAACC -TAAA-CC TAAACC TAAACC T-AAAC-C
6234688 TAAACC TTAAACTC TAAA
1 TAAACC -TAAAC-C TAAA
6234706 TATAAATCAT
Statistics
Matches: 56, Mismatches: 0, Indels: 18
0.76 0.00 0.24
Matches are distributed among these distances:
5 2 0.04
6 12 0.21
7 35 0.62
8 7 0.12
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.21
Consensus pattern (6 bp):
TAAACC
Found at i:6234651 original size:14 final size:13
Alignment explanation
Indices: 6234634--6234705 Score: 65
Period size: 14 Copynumber: 5.3 Consensus size: 13
6234624 AATTAAATTT
*
6234634 TAAACCATAAACCC
1 TAAACCCTAAA-CC
*
6234648 TAAACTCTAAACC
1 TAAACCCTAAACC
6234661 TTAAACCCTAAACC
1 -TAAACCCTAAACC
*
6234675 TAAACTC-AAACAC
1 TAAACCCTAAAC-C
*
6234688 TAAACCTTAAACTC
1 TAAACCCTAAAC-C
6234702 TAAA
1 TAAA
6234706 TATAAATCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
12 4 0.08
13 14 0.29
14 30 0.62
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.21
Consensus pattern (13 bp):
TAAACCCTAAACC
Found at i:6234658 original size:21 final size:20
Alignment explanation
Indices: 6234634--6234679 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
6234624 AATTAAATTT
6234634 TAAACCATAAACCCTAAACTC
1 TAAACCATAAACCCTAAAC-C
*
6234655 TAAACCTTAAACCCTAAACC
1 TAAACCATAAACCCTAAACC
6234675 TAAAC
1 TAAAC
6234680 TCAAACACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAACCATAAACCCTAAACC
Done.