Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 107 of 290
Found at i:36572006 original size:11 final size:11
Alignment explanation
Indices: 36571990--36572014 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36571980 AAGAAGAGAG
36571990 AAAAAGAAAAA
1 AAAAAGAAAAA
36572001 AAAAAGAAAAA
1 AAAAAGAAAAA
36572012 AAA
1 AAA
36572015 GAAAGTGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:36575469 original size:15 final size:16
Alignment explanation
Indices: 36575442--36575472 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
36575432 ATTTTATTTT
36575442 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
36575458 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
36575473 CAATGTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:36575530 original size:15 final size:15
Alignment explanation
Indices: 36575510--36575566 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
36575500 ATTCAATATT
36575510 AATATTTTAATAATA
1 AATATTTTAATAATA
*
36575525 AATATTTATTTCAATTATA
1 AATA--T-TTT-AATAATA
*
36575544 AATATATTAATAATA
1 AATATTTTAATAATA
*
36575559 AATGTTTT
1 AATATTTT
36575567 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 2 0.06
18 3 0.09
19 10 0.30
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:36575544 original size:19 final size:19
Alignment explanation
Indices: 36575512--36575548 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36575502 TCAATATTAA
*
36575512 TATTTTAATAATAAATATT
1 TATTTCAATAATAAATATT
*
36575531 TATTTCAATTATAAATAT
1 TATTTCAATAATAAATAT
36575549 ATTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTTCAATAATAAATATT
Found at i:36576000 original size:18 final size:20
Alignment explanation
Indices: 36575968--36576005 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
36575958 AAACAACAGC
36575968 AAAAAAATATTAATT-TTTTT
1 AAAAAAATA-TAATTATTTTT
36575988 AAAAAAATA-AATTATTTT
1 AAAAAAATATAATTATTTT
36576006 CCGGAAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAAAAATATAATTATTTTT
Found at i:36577790 original size:20 final size:19
Alignment explanation
Indices: 36577764--36577820 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
36577754 CATGTTTTTT
36577764 AATTTTTAAAAAATAAAAA
1 AATTTTTAAAAAATAAAAA
* *
36577783 ATATTTTTTAGAAATAGAAAA
1 A-ATTTTTAAAAAATA-AAAA
* *
36577804 AATTTTCAAAAACTAAA
1 AATTTTTAAAAAATAAA
36577821 TGAAGCTGGA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 3 0.10
20 22 0.73
21 5 0.17
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (19 bp):
AATTTTTAAAAAATAAAAA
Found at i:36601223 original size:19 final size:19
Alignment explanation
Indices: 36601195--36601231 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36601185 GGAATAATAT
*
36601195 ATATAGTAAAATATATAAC
1 ATATAATAAAATATATAAC
*
36601214 ATATAATAAAATTTATAA
1 ATATAATAAAATATATAA
36601232 ATAAAATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
ATATAATAAAATATATAAC
Found at i:36601251 original size:21 final size:23
Alignment explanation
Indices: 36601227--36601291 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 23
36601217 TAATAAAATT
36601227 TATAAATAAAATG-T--ATAATAA
1 TATAAATAAAATGATAAATAAT-A
*
36601248 TATAAATAACATGATAAATAATA
1 TATAAATAAAATGATAAATAATA
*
36601271 TATAAATAAAAATAATAAATA
1 TATAAAT-AAAATGATAAATA
36601292 TACTATTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 12 0.32
22 1 0.03
23 8 0.22
24 16 0.43
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (23 bp):
TATAAATAAAATGATAAATAATA
Found at i:36601256 original size:12 final size:12
Alignment explanation
Indices: 36601142--36601291 Score: 54
Period size: 12 Copynumber: 13.1 Consensus size: 12
36601132 GTAATTAATG
36601142 AATAATA-AAAT
1 AATAATATAAAT
*
36601153 AAT-ATATAATT
1 AATAATATAAAT
*
36601164 TATAATA-AAAT
1 AATAATATAAAT
* **
36601175 AA-AAAATTAAGG
1 AATAATA-TAAAT
*
36601187 AATAATATATAT
1 AATAATATAAAT
* * *
36601199 AGTAAAATATAT
1 AATAATATAAAT
*
36601211 AA-CATAT-AAT
1 AATAATATAAAT
36601221 AA-AATTTATAAAT
1 AATAA--TATAAAT
*
36601234 AA-AATGT--AT
1 AATAATATAAAT
36601243 AATAATATAAAT
1 AATAATATAAAT
*
36601255 AA-CATGATAAAT
1 AATAAT-ATAAAT
36601267 AAT-ATATAAAT
1 AATAATATAAAT
*
36601278 AAAAATAATAAAT
1 AATAAT-ATAAAT
36601291 A
1 A
36601292 TACTATTTTT
Statistics
Matches: 102, Mismatches: 22, Indels: 28
0.67 0.14 0.18
Matches are distributed among these distances:
9 4 0.04
10 15 0.15
11 27 0.26
12 39 0.38
13 17 0.17
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (12 bp):
AATAATATAAAT
Found at i:36601292 original size:21 final size:22
Alignment explanation
Indices: 36601216--36601293 Score: 65
Period size: 21 Copynumber: 3.6 Consensus size: 22
36601206 TATATAACAT
* *
36601216 ATAATAAAATTTATAAAT-AAA
1 ATAATATAATATATAAATAAAA
* *
36601237 AT-GTATAATAATATAAATAACATG
1 ATAATATAAT-ATATAAATAA-A-A
36601261 ATAA-ATAATATATAAATAAAA
1 ATAATATAATATATAAATAAAA
36601282 ATAATA-AATATA
1 ATAATATAATATA
36601294 CTATTTTTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
20 5 0.11
21 19 0.42
22 3 0.07
23 11 0.24
24 7 0.16
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (22 bp):
ATAATATAATATATAAATAAAA
Found at i:36602554 original size:44 final size:44
Alignment explanation
Indices: 36602483--36603242 Score: 996
Period size: 44 Copynumber: 17.2 Consensus size: 44
36602473 CAGATCTGGT
* * *
36602483 ATCTTCGATCTGCTCCCTGTCTAATACAGAGACACCAAGTCTGTC
1 ATCTTCGATCTGCTCTCTGTC-AATACAGAGACGCCAAATCTGTC
* * * * * *
36602528 ATCTTCAACCTGCCCTCTATCAATACAGAGACTCCAAATCTGTT
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* *
36602572 ATCTTCGATCTGCTCTTTGTCAATACAGAGATGCCAAATCTGTTC
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTG-TC
* *
36602617 -TCTTCGATCTGCTCTCTGTCAATACAAAGATGCCAAATCTG-C
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* * *
36602659 TATCTTCGATCTGCTTTCTGTCAATATAGAGACGCCAAATCTGTT
1 -ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* *
36602704 ATCTTCGATTTGCTCTCTGTCAATACAGAGACGCCAAATC-GGC
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* * * *
36602747 TATTTTTGATCTGCTCTCTGTCAATACAGATACGCCAAATCTGTT
1 -ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* *
36602792 ATCTTTGATCTGCTCTCTGTCAATATAGAGACGCCAAATCTGTC
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* * * *
36602836 ATCTTCGATCCGCTCTCTGTCAATAAAGAGATGTCAAATCTG-C
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* *
36602879 TATCTTCGATCTGCTCTCTGTTAATACAGAGACGCCAAATCTGTT
1 -ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
*
36602924 ATCTTCGATCTACTCTCTGTCAATACAGAGACGCCAAATCTG-C
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
36602967 TATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
1 -ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
** *
36603012 ATCTTTAATCTGCTCTCTGTCAATACAGAGACGCCAAATTTG-C
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
36603055 TATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTG-C
1 -ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
36603099 TATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTG-C
1 -ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* * * * * *
36603143 TATCTTTGATCTACTTTTTGTCAATACAGAGACACCAAATCTGTT
1 -ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* * *
36603188 ATTTTCGATATGCTCTCTGTCAATACAGAGACGCCAAATCTGTT
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
36603232 ATCTTCGATCT
1 ATCTTCGATCT
36603243 ACATTGTCCC
Statistics
Matches: 629, Mismatches: 74, Indels: 25
0.86 0.10 0.03
Matches are distributed among these distances:
42 1 0.00
43 3 0.00
44 606 0.96
45 19 0.03
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (44 bp):
ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
Found at i:36615407 original size:19 final size:19
Alignment explanation
Indices: 36615379--36615415 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36615369 GGAATAATAT
*
36615379 ATATAGTAAAATATATAAC
1 ATATAATAAAATATATAAC
*
36615398 ATATAATAAAATTTATAA
1 ATATAATAAAATATATAA
36615416 ATAAAATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
ATATAATAAAATATATAAC
Found at i:36615435 original size:21 final size:23
Alignment explanation
Indices: 36615411--36615465 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 23
36615401 TAATAAAATT
36615411 TATAAATAAAATG-T--ATAATAA
1 TATAAATAAAATGATAAATAAT-A
*
36615432 TATAAATAACATGATAAATAATA
1 TATAAATAAAATGATAAATAATA
36615455 TATAAATAAAA
1 TATAAATAAAA
36615466 ATAATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 12 0.41
22 1 0.03
23 11 0.38
24 5 0.17
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (23 bp):
TATAAATAAAATGATAAATAATA
Found at i:36615469 original size:21 final size:20
Alignment explanation
Indices: 36615388--36615477 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 20
36615378 TATATAGTAA
*
36615388 AATATATAACAT-ATAATAA-
1 AATATATAA-ATAAAAATAAT
* *
36615407 AATTTATAAAT-AAAATGTAT
1 AATATATAAATAAAAAT-AAT
*
36615427 AATAATATAAATAACATGATAAAT
1 AAT-ATATAAATAA-A-AAT-AAT
36615451 AATATATAAATAAAAATAAT
1 AATATATAAATAAAAATAAT
36615471 -ATATATA
1 AATATATA
36615478 CTATTTTTAC
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
18 6 0.11
19 16 0.28
20 6 0.11
21 9 0.16
22 2 0.04
23 11 0.19
24 7 0.12
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AATATATAAATAAAAATAAT
Found at i:36627491 original size:82 final size:82
Alignment explanation
Indices: 36627354--36627517 Score: 310
Period size: 82 Copynumber: 2.0 Consensus size: 82
36627344 CTGATGGGTT
36627354 TCTTCTAGTTGTAAACTATAAAAACCTACCAAAAGTAAGAACAAGAAAATTTAGTAAATAAAAAC
1 TCTTCTAGTTGTAAACTATAAAAACCTACCAAAAGTAAGAACAAGAAAATTTAGTAAATAAAAAC
36627419 AAAATTAAATAAAAATA
66 AAAATTAAATAAAAATA
* *
36627436 TCTTCTAGTTGTAAACTATAAAAACCTGCCAAAAGTAAGAACAAGAAAATTTAGTAAATAAAAAG
1 TCTTCTAGTTGTAAACTATAAAAACCTACCAAAAGTAAGAACAAGAAAATTTAGTAAATAAAAAC
36627501 AAAATTAAATAAAAATA
66 AAAATTAAATAAAAATA
36627518 AAAATAATGG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.57, C:0.10, G:0.09, T:0.24
Consensus pattern (82 bp):
TCTTCTAGTTGTAAACTATAAAAACCTACCAAAAGTAAGAACAAGAAAATTTAGTAAATAAAAAC
AAAATTAAATAAAAATA
Found at i:36627511 original size:16 final size:16
Alignment explanation
Indices: 36627490--36627520 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36627480 GAAAATTTAG
36627490 TAAATAAAAAGAAAAT
1 TAAATAAAAAGAAAAT
*
36627506 TAAATAAAAATAAAA
1 TAAATAAAAAGAAAA
36627521 ATAATGGCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (16 bp):
TAAATAAAAAGAAAAT
Found at i:36629845 original size:26 final size:26
Alignment explanation
Indices: 36629773--36629847 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
36629763 TTAGCTCTTA
*
36629773 TGAGCTTCCCGATTACG-GCTCTTCG
1 TGAGCTTCCCGATTATGTGCTCTTCG
* * * *
36629798 TGAGCTTCTCAATAAT-TGGCTCTTTG
1 TGAGCTTCCCGATTATGT-GCTCTTCG
*
36629824 TGAGCTTCCCGTTTATGTGCTCTT
1 TGAGCTTCCCGATTATGTGCTCTT
36629848 ACAAGCACTT
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
25 12 0.32
26 25 0.66
27 1 0.03
ACGTcount: A:0.13, C:0.25, G:0.21, T:0.40
Consensus pattern (26 bp):
TGAGCTTCCCGATTATGTGCTCTTCG
Found at i:36639205 original size:33 final size:33
Alignment explanation
Indices: 36639163--36639230 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
36639153 TAAACATAAC
36639163 TTAACTTACTCATTATCATCTACTCAAGTCTCA
1 TTAACTTACTCATTATCATCTACTCAAGTCTCA
* * *
36639196 TTAACTTACTCATTATCTTTTACTCGAGTCTCA
1 TTAACTTACTCATTATCATCTACTCAAGTCTCA
36639229 TT
1 TT
36639231 TTCTAAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.26, C:0.25, G:0.04, T:0.44
Consensus pattern (33 bp):
TTAACTTACTCATTATCATCTACTCAAGTCTCA
Found at i:36639555 original size:47 final size:44
Alignment explanation
Indices: 36639442--36639610 Score: 155
Period size: 47 Copynumber: 3.7 Consensus size: 44
36639432 TATGCGTGCA
*
36639442 GATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTTAGCC
* * * *
36639486 GATGCGTGTCCCAGACACGTCTTACACTGGC-TATCTCTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACAACTCT-T--A-GCC
* *
36639533 GATGCATGTCCTC-GACATGTCTTACTCTGGCACTCATCTCTGT-GCC
1 GATGCATGTCC-CAGACATGTCTTACACTGGCA--CAACTCT-TAGCC
*
36639579 GATGCCATGTTCCAGACATGGTCTTACACTGG
1 GATG-CATGTCCCAGACAT-GTCTTACACTGG
36639611 ACCTCATAAT
Statistics
Matches: 103, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
43 5 0.05
44 29 0.28
46 9 0.09
47 40 0.39
48 12 0.12
50 8 0.08
ACGTcount: A:0.20, C:0.31, G:0.21, T:0.28
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTTAGCC
Found at i:36640673 original size:38 final size:38
Alignment explanation
Indices: 36640622--36640698 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
36640612 TAAAAAGGGT
*
36640622 GTAATTTCCCTTTAAAAGCCCTCAATTTTGATTCTCTA
1 GTAATTGCCCTTTAAAAGCCCTCAATTTTGATTCTCTA
36640660 GTAATTGCCCTTTAAAAGCCCTCAATTTTGATTCTCTA
1 GTAATTGCCCTTTAAAAGCCCTCAATTTTGATTCTCTA
36640698 G
1 G
36640699 CTATTTAACA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.40
Consensus pattern (38 bp):
GTAATTGCCCTTTAAAAGCCCTCAATTTTGATTCTCTA
Found at i:36642845 original size:27 final size:28
Alignment explanation
Indices: 36642802--36642856 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
36642792 GAGTGTTGCC
* *
36642802 ATTGATGAATATGTATG-ATTTTTGATG
1 ATTGATGAAGATGTATGAATATTTGATG
36642829 ATTGATGATAGAT-TATGAATATTTGATG
1 ATTGATGA-AGATGTATGAATATTTGATG
36642857 TTAGTTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.45
Consensus pattern (28 bp):
ATTGATGAAGATGTATGAATATTTGATG
Found at i:36643467 original size:41 final size:40
Alignment explanation
Indices: 36643380--36643500 Score: 125
Period size: 41 Copynumber: 3.0 Consensus size: 40
36643370 TGCGATTCGG
* * * *
36643380 AATAGCTTCGGCTATATACGGCACTTAGTGTGCAAGACTGA
1 AATAGCTTTGGCTATGTAAGGCACTTAGTGTGCGAGA-TGA
* * *
36643421 GATAGCTTTAGCTATGTAAGGCACTTAGTGTGCGAGATTA
1 AATAGCTTTGGCTATGTAAGGCACTTAGTGTGCGAGATGA
** *
36643461 TAATAGCTTTGGCTATGCTTTGGCACTTAGTGTGTGAGAT
1 -AATAGCTTTGGCTATG-TAAGGCACTTAGTGTGCGAGAT
36643501 ATTGAGTATT
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
40 2 0.03
41 45 0.68
42 19 0.29
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (40 bp):
AATAGCTTTGGCTATGTAAGGCACTTAGTGTGCGAGATGA
Found at i:36651899 original size:20 final size:20
Alignment explanation
Indices: 36651874--36651919 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
36651864 CTGTCTACAA
36651874 GACACGGGAGTCGTGGACAT
1 GACACGGGAGTCGTGGACAT
36651894 GACACGGGAGTCGTGGACAT
1 GACACGGGAGTCGTGGACAT
36651914 GACACG
1 GACACG
36651920 AGCGTGGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.22, G:0.39, T:0.13
Consensus pattern (20 bp):
GACACGGGAGTCGTGGACAT
Found at i:36654074 original size:12 final size:12
Alignment explanation
Indices: 36654057--36654125 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
36654047 TTTAAGTCCA
36654057 TTTATTTTTCAC-
1 TTTATTTTTC-CT
36654069 TTTATTTTTCCT
1 TTTATTTTTCCT
*
36654081 TTTA-TTTTCTT
1 TTTATTTTTCCT
* ***
36654092 TTTCTTTTTAGG
1 TTTATTTTTCCT
**
36654104 TTTATTTTTGTT
1 TTTATTTTTCCT
36654116 TTTATTTTTC
1 TTTATTTTTC
36654126 ATGCTCTTAA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
11 10 0.22
12 35 0.78
ACGTcount: A:0.10, C:0.10, G:0.04, T:0.75
Consensus pattern (12 bp):
TTTATTTTTCCT
Found at i:36666909 original size:20 final size:20
Alignment explanation
Indices: 36666886--36666925 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
36666876 TGAAATTCTA
36666886 AAAGATAAAT-ACAAATAAAT
1 AAAGATAAATGA-AAATAAAT
36666906 AAAGATAAATGAAAATAAAT
1 AAAGATAAATGAAAATAAAT
36666926 CCTAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAGATAAATGAAAATAAAT
Found at i:36672156 original size:20 final size:20
Alignment explanation
Indices: 36672133--36672172 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
36672123 TGAAATTCTA
36672133 AAAGATAAAT-ACAAATAAAT
1 AAAGATAAATGA-AAATAAAT
36672153 AAAGATAAATGAAAATAAAT
1 AAAGATAAATGAAAATAAAT
36672173 CCTAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAGATAAATGAAAATAAAT
Found at i:36673174 original size:13 final size:13
Alignment explanation
Indices: 36673156--36673209 Score: 108
Period size: 13 Copynumber: 4.2 Consensus size: 13
36673146 ACTCGACAGG
36673156 GACACGCCCGTGT
1 GACACGCCCGTGT
36673169 GACACGCCCGTGT
1 GACACGCCCGTGT
36673182 GACACGCCCGTGT
1 GACACGCCCGTGT
36673195 GACACGCCCGTGT
1 GACACGCCCGTGT
36673208 GA
1 GA
36673210 GTCGTGCTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.17, C:0.37, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:36677622 original size:27 final size:27
Alignment explanation
Indices: 36677587--36677644 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
36677577 TAGAGAATAA
*
36677587 AGAATAAAGAAAATATAAAAGCAACAG
1 AGAACAAAGAAAATATAAAAGCAACAG
36677614 AGAACAAAGAAAATATAAAAGCAACAG
1 AGAACAAAGAAAATATAAAAGCAACAG
36677641 AGAA
1 AGAA
36677645 TGTGCTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.67, C:0.09, G:0.16, T:0.09
Consensus pattern (27 bp):
AGAACAAAGAAAATATAAAAGCAACAG
Found at i:36688236 original size:18 final size:18
Alignment explanation
Indices: 36688198--36688232 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
36688188 GTGTGGACTA
*
36688198 CCCGTGTGGGCCCATACG
1 CCCGTGTGGGCCCACACG
36688216 CCCGTGT-GGCCCACACG
1 CCCGTGTGGGCCCACACG
36688233 GCCCAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.11, C:0.43, G:0.31, T:0.14
Consensus pattern (18 bp):
CCCGTGTGGGCCCACACG
Found at i:36692922 original size:37 final size:37
Alignment explanation
Indices: 36692881--36692956 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
36692871 AAGGATGGCC
*
36692881 AAAAGGAGGAACTAGTTGCAGTTTCTTACCTTGCTAA
1 AAAAGGAGGAACTAGTCGCAGTTTCTTACCTTGCTAA
36692918 AAAAGGAGGAACTAGTCGCAGTTTCTTACCTTGCTAA
1 AAAAGGAGGAACTAGTCGCAGTTTCTTACCTTGCTAA
36692955 AA
1 AA
36692957 GATGCTTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (37 bp):
AAAAGGAGGAACTAGTCGCAGTTTCTTACCTTGCTAA
Found at i:36697315 original size:20 final size:19
Alignment explanation
Indices: 36697273--36697315 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
36697263 TAACTACAAA
36697273 ATATT-TTTTAAAATATTT
1 ATATTATTTTAAAATATTT
*
36697291 A-ATTATTTTAGAATCATTT
1 ATATTATTTTAAAAT-ATTT
36697310 ATATTA
1 ATATTA
36697316 ATGTTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 3 0.14
18 9 0.43
19 5 0.24
20 4 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
ATATTATTTTAAAATATTT
Found at i:36700813 original size:41 final size:41
Alignment explanation
Indices: 36700766--36700846 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
36700756 CATATAAGCA
*
36700766 AATTATGACACATTTTCCATTTTCAATTTTGATATATATAT
1 AATTATGACACATTTTCCATTTTCAAATTTGATATATATAT
36700807 AATTATGACACATTTTCCATTTTCAAATTTGATATATATA
1 AATTATGACACATTTTCCATTTTCAAATTTGATATATATA
36700847 CACTTATTGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.47
Consensus pattern (41 bp):
AATTATGACACATTTTCCATTTTCAAATTTGATATATATAT
Found at i:36704114 original size:486 final size:485
Alignment explanation
Indices: 36703203--36704172 Score: 1832
Period size: 486 Copynumber: 2.0 Consensus size: 485
36703193 AGCATTGTCC
*
36703203 CATTTTTGTCTTTCTCGGGTTGCAGCAACAGATTCATTTTCATTCTCTTCAGGTCTTGGAGTATC
1 CATTTTTGTCTTTCTCGGGTTGCAGCAACAGATTCATTTTCAGTCTCTTCAGGTCTTGGAGTATC
*
36703268 CAAAACATAAGCAATCTTCAAAGTTGATAACAAAAAGTGCATCTTTTTCTGCCATCGTCGAAAAT
66 CAAAACATAAGCAATCTTCAAAGTTGATAACAAAAAGTGCATCTTTTTCTGCCATCGCCGAAAAT
* *
36703333 TGCCACCATCAAAACGATCAAGTTTAACAAAGTTGGAAGCCAACTCCCTTAGTGTTCCACTTTCA
131 TGCCACCATCAAAACAATCAAGTTTAACAAAATTGGAAGCCAACTCCCTTAGTGTTCCACTTTCA
36703398 TGTGTTGTGGTAGTCATCATGAAATATAACCTTAAAATTGTTAGTACAAATCTCCGGTGAGGAAA
196 TGTGTTGTGGTAGTCATCATGAAATATAACCTTAAAATTGTTAGTACAAATCTCCGGTGAGGAAA
36703463 ATCTTGAACATACGAACGGAACTCGAACAGAAGAAGAAATAGGATAAGGCTCCAAGGCGTGTATC
261 ATCTTGAACATACGAACGGAACTCGAACAGAAGAAGAAATAGGATAAGGCTCCAAGGCGTGTATC
36703528 AAGCCACTATCGTTAAGGTTACATTTGCCCCCACCTATCTTCGGTGTGCAAACGAGTTTCAAGCA
326 AAGCCACTATCGTTAAGGTTACATTTGCCCCCACCTATCTTCGGTGTGCAAACGAGTTTCAAGCA
36703593 AATTAACCTCGAGGATACAATGAAGCCAATGGGTATTTGCGTTTTGCACTGACGAGAATAGCCCA
391 AATTAACCTCGAGGATACAATGAAGCCAATGGGTATTTGCGTTTTGCACTGACGAGAATAGCCCA
36703658 CTACACACTGAGCAATGTATGACAAGAAANT
456 CTACACACTGAGCAATGTATGACAAGAAA-T
**
36703689 CATTTTTGTCTTTCTCGGGTTGCAGCAACAGATTTGTTTTCAGTCTCTTCAGGTCTTGGAGTATC
1 CATTTTTGTCTTTCTCGGGTTGCAGCAACAGATTCATTTTCAGTCTCTTCAGGTCTTGGAGTATC
* **
36703754 CAAAACATAAGCAATCTTCAAAGTTGATAATAAGGAGTGCATCTTTTTCTGCCATCGCCGAAAAT
66 CAAAACATAAGCAATCTTCAAAGTTGATAACAAAAAGTGCATCTTTTTCTGCCATCGCCGAAAAT
* *
36703819 TGCCACCATCAAATCAATCAAGTTTGACAAAATTGGAAGCCAACTCCCTTAGTGTTCCACTTTCA
131 TGCCACCATCAAAACAATCAAGTTTAACAAAATTGGAAGCCAACTCCCTTAGTGTTCCACTTTCA
36703884 TGTGTTGTGGTAGTCATCATGAAATATAACCTTAAAATTGTTAGTACAAATCTCCGGTGAGGAAA
196 TGTGTTGTGGTAGTCATCATGAAATATAACCTTAAAATTGTTAGTACAAATCTCCGGTGAGGAAA
36703949 ATCTTGAACATACGAACGGAACTCGAACAGAAGAAGAAATAGGATAAGGCTCCAAGGCGTGTATC
261 ATCTTGAACATACGAACGGAACTCGAACAGAAGAAGAAATAGGATAAGGCTCCAAGGCGTGTATC
36704014 AAGCCACTATCGTTAAGGTTACATTTGCCCCCACCTATCTTCGGTGTGCAAACGAGTTTCAAGCA
326 AAGCCACTATCGTTAAGGTTACATTTGCCCCCACCTATCTTCGGTGTGCAAACGAGTTTCAAGCA
36704079 AATTAACCTCGAGGATACAATGAAGCCAATGGGTATTTGCGTTTTGCACTGACGAGAATAGCCCA
391 AATTAACCTCGAGGATACAATGAAGCCAATGGGTATTTGCGTTTTGCACTGACGAGAATAGCCCA
36704144 CTACACACTGAGCAATGTATGACAAGAAA
456 CTACACACTGAGCAATGTATGACAAGAAA
36704173 CTCAATTTCT
Statistics
Matches: 473, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
486 473 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (485 bp):
CATTTTTGTCTTTCTCGGGTTGCAGCAACAGATTCATTTTCAGTCTCTTCAGGTCTTGGAGTATC
CAAAACATAAGCAATCTTCAAAGTTGATAACAAAAAGTGCATCTTTTTCTGCCATCGCCGAAAAT
TGCCACCATCAAAACAATCAAGTTTAACAAAATTGGAAGCCAACTCCCTTAGTGTTCCACTTTCA
TGTGTTGTGGTAGTCATCATGAAATATAACCTTAAAATTGTTAGTACAAATCTCCGGTGAGGAAA
ATCTTGAACATACGAACGGAACTCGAACAGAAGAAGAAATAGGATAAGGCTCCAAGGCGTGTATC
AAGCCACTATCGTTAAGGTTACATTTGCCCCCACCTATCTTCGGTGTGCAAACGAGTTTCAAGCA
AATTAACCTCGAGGATACAATGAAGCCAATGGGTATTTGCGTTTTGCACTGACGAGAATAGCCCA
CTACACACTGAGCAATGTATGACAAGAAAT
Found at i:36707564 original size:26 final size:27
Alignment explanation
Indices: 36707528--36707585 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
36707518 ACATTAATAA
36707528 AAAATGAAACCAAAATCAAAATAACCC
1 AAAATGAAACCAAAATCAAAATAACCC
* *
36707555 AAAAT-AAACCTAAATCGAAATAACCC
1 AAAATGAAACCAAAATCAAAATAACCC
*
36707581 TAAAT
1 AAAAT
36707586 CTAAAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 23 0.82
27 5 0.18
ACGTcount: A:0.60, C:0.21, G:0.03, T:0.16
Consensus pattern (27 bp):
AAAATGAAACCAAAATCAAAATAACCC
Found at i:36707575 original size:16 final size:16
Alignment explanation
Indices: 36707556--36707586 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36707546 AAATAACCCA
36707556 AAATAAACCTAAATCG
1 AAATAAACCTAAATCG
*
36707572 AAATAACCCTAAATC
1 AAATAAACCTAAATC
36707587 TAAAAAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.23, G:0.03, T:0.19
Consensus pattern (16 bp):
AAATAAACCTAAATCG
Found at i:36708346 original size:21 final size:20
Alignment explanation
Indices: 36708322--36708360 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36708312 AAAAAAATTG
36708322 ATAATAAAATCTAAAAAATAA
1 ATAATAAAAT-TAAAAAATAA
* *
36708343 ATAATTACATTAAAAAAT
1 ATAATAAAATTAAAAAAT
36708361 TAATCATGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAATAAAATTAAAAAATAA
Found at i:36709309 original size:11 final size:11
Alignment explanation
Indices: 36709295--36709367 Score: 51
Period size: 11 Copynumber: 6.6 Consensus size: 11
36709285 TTTTTTTTAA
36709295 TATTATTTTCT
1 TATTATTTTCT
*
36709306 TATTGTTTTCT
1 TATTATTTTCT
36709317 TATTAGTTTTC-
1 TATTA-TTTTCT
** *
36709328 TACCATTTTAT
1 TATTATTTTCT
*
36709339 TATTATGTTGC-
1 TATTAT-TTTCT
* *
36709350 TACTATTTTAT
1 TATTATTTTCT
36709361 TATTATT
1 TATTATT
36709368 ATTGGGATAT
Statistics
Matches: 45, Mismatches: 13, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
10 6 0.13
11 32 0.71
12 7 0.16
ACGTcount: A:0.21, C:0.10, G:0.05, T:0.64
Consensus pattern (11 bp):
TATTATTTTCT
Found at i:36709327 original size:12 final size:12
Alignment explanation
Indices: 36709295--36709328 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
36709285 TTTTTTTTAA
36709295 TATTA-TTTTCT
1 TATTAGTTTTCT
36709306 TATT-GTTTTCT
1 TATTAGTTTTCT
36709317 TATTAGTTTTCT
1 TATTAGTTTTCT
36709329 ACCATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.15, C:0.09, G:0.06, T:0.71
Consensus pattern (12 bp):
TATTAGTTTTCT
Found at i:36709430 original size:30 final size:31
Alignment explanation
Indices: 36709396--36709453 Score: 109
Period size: 30 Copynumber: 1.9 Consensus size: 31
36709386 ACTTATTTTA
36709396 TTGTTAATTTTGTTATTATTTTA-AAGACAT
1 TTGTTAATTTTGTTATTATTTTAGAAGACAT
36709426 TTGTTAATTTTGTTATTATTTTAGAAGA
1 TTGTTAATTTTGTTATTATTTTAGAAGA
36709454 GACATTTGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (31 bp):
TTGTTAATTTTGTTATTATTTTAGAAGACAT
Found at i:36712879 original size:16 final size:17
Alignment explanation
Indices: 36712843--36712879 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
36712833 TTTGGGTTTA
36712843 AATTTTTTTAAATTTGT
1 AATTTTTTTAAATTTGT
*
36712860 AATTTTTTTAGATTTG-
1 AATTTTTTTAAATTTGT
36712876 AATT
1 AATT
36712880 CGGACTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (17 bp):
AATTTTTTTAAATTTGT
Found at i:36713378 original size:11 final size:11
Alignment explanation
Indices: 36713336--36713384 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
36713326 ACTTAATAAA
36713336 AATAATATTTT
1 AATAATATTTT
* *
36713347 AATAAGATATT
1 AATAATATTTT
*
36713358 --GAAT-TTTT
1 AATAATATTTT
36713366 AATAATATTTT
1 AATAATATTTT
36713377 AATAATAT
1 AATAATAT
36713385 CATAAACTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
8 3 0.10
9 2 0.07
10 3 0.10
11 21 0.72
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (11 bp):
AATAATATTTT
Found at i:36716858 original size:35 final size:34
Alignment explanation
Indices: 36716818--36716901 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 34
36716808 TTGATTTGCA
* *
36716818 AATCTGTATCTGTATCTG-AGATGGGCTTAGGCACG
1 AATCTGTATCTGTATCTGTA-ATGAGCTTAGGC-CC
* *
36716853 AATCTGTATCTGCATCTGTAATGAGCTTATGCCC
1 AATCTGTATCTGTATCTGTAATGAGCTTAGGCCC
*
36716887 AATGTGTATCTGTAT
1 AATCTGTATCTGTAT
36716902 GATGTTTGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
34 14 0.33
35 27 0.64
36 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.36
Consensus pattern (34 bp):
AATCTGTATCTGTATCTGTAATGAGCTTAGGCCC
Found at i:36718020 original size:25 final size:25
Alignment explanation
Indices: 36717954--36718022 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 25
36717944 ATATTCTCCC
36717954 ATTACAATTTGTAAGCAACAACAAT
1 ATTACAATTTGTAAGCAACAACAAT
*** *
36717979 ATTACAA--AACATG-AACAACAAT
1 ATTACAATTTGTAAGCAACAACAAT
36718001 ATTACAATTTGTAAGCAACAAC
1 ATTACAATTTGTAAGCAACAAC
36718023 CACATATTCT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
22 16 0.48
23 2 0.06
24 2 0.06
25 13 0.39
ACGTcount: A:0.51, C:0.17, G:0.07, T:0.25
Consensus pattern (25 bp):
ATTACAATTTGTAAGCAACAACAAT
Found at i:36721606 original size:21 final size:21
Alignment explanation
Indices: 36721576--36721664 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
36721566 CTCACAAAGA
* *
36721576 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
36721596 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
36721617 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
36721638 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
36721662 AAA
1 AAA
36721665 TCTTTTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 1 0.02
24 15 0.26
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:36721657 original size:24 final size:21
Alignment explanation
Indices: 36721576--36721644 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
36721566 CTCACAAAGA
* * *
36721576 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
36721596 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
36721617 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
36721638 AAAAAGA
1 AAAAAGA
36721645 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:36725826 original size:14 final size:14
Alignment explanation
Indices: 36725807--36725835 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
36725797 TACAATATAT
36725807 ATAAGAATTATACG
1 ATAAGAATTATACG
36725821 ATAAGAATTATACG
1 ATAAGAATTATACG
36725835 A
1 A
36725836 ATCCATCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:36726903 original size:24 final size:22
Alignment explanation
Indices: 36726852--36726903 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 22
36726842 TATATTTGAT
*
36726852 AAATTAAACATAAAATTAAATA
1 AAATTAAACATAAAATTAAACA
* *
36726874 ATATTAAACCATAAAAATTATACA
1 AAATTAAA-CAT-AAAATTAAACA
36726898 AAATTA
1 AAATTA
36726904 TTTGATTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 7 0.29
23 3 0.12
24 14 0.58
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (22 bp):
AAATTAAACATAAAATTAAACA
Found at i:36731569 original size:11 final size:11
Alignment explanation
Indices: 36731504--36731563 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
36731494 TATGAGTAAT
36731504 ATAATAACAAA
1 ATAATAACAAA
* *
36731515 ATAGTAGCAAA
1 ATAATAACAAA
* * *
36731526 ACAACATCAAA
1 ATAATAACAAA
* *
36731537 ATGACAAC-AA
1 ATAATAACAAA
36731547 ATAATAACAAA
1 ATAATAACAAA
36731558 ATAATA
1 ATAATA
36731564 GTAAAAATTT
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
10 8 0.22
11 29 0.78
ACGTcount: A:0.65, C:0.13, G:0.05, T:0.17
Consensus pattern (11 bp):
ATAATAACAAA
Found at i:36731744 original size:21 final size:23
Alignment explanation
Indices: 36731703--36731744 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
36731693 TAAACGGGCT
*
36731703 TGAACAATTAATCTATAAAATCG
1 TGAAAAATTAATCTATAAAATCG
36731726 TGAAAAATTAAT-T-TAAAAT
1 TGAAAAATTAATCTATAAAAT
36731745 TTATTTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 1 0.06
23 11 0.61
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (23 bp):
TGAAAAATTAATCTATAAAATCG
Found at i:36732424 original size:18 final size:18
Alignment explanation
Indices: 36732388--36732422 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
36732378 ATCAAATAGT
36732388 TATTATATAGAATTTAAA
1 TATTATATAGAATTTAAA
*
36732406 TATTAT-TATAATTTAAA
1 TATTATATAGAATTTAAA
36732423 ATGCCTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TATTATATAGAATTTAAA
Found at i:36734558 original size:26 final size:26
Alignment explanation
Indices: 36734495--36734559 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
36734485 TTGACCTCTA
* *
36734495 GTAAAATTTTAACAATTTTACCCTTT
1 GTAAAATTTTGACAATTTTACACTTT
* *
36734521 GTAAATTTTTTGACGATTTTA-ACTTT
1 GTAAA-ATTTTGACAATTTTACACTTT
36734547 GGTAAAATTTTGA
1 -GTAAAATTTTGA
36734560 GAAAATATGT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
26 15 0.47
27 17 0.53
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (26 bp):
GTAAAATTTTGACAATTTTACACTTT
Found at i:36736663 original size:17 final size:18
Alignment explanation
Indices: 36736621--36736664 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
36736611 ATAGTGACTA
36736621 CTTCATTATTTATTTACG
1 CTTCATTATTTATTTACG
*
36736639 C-TCATTATTTGTTTAC-
1 CTTCATTATTTATTTACG
*
36736655 CTTCTTTATT
1 CTTCATTATT
36736665 CAGTTGTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.04
17 21 0.91
18 1 0.04
ACGTcount: A:0.18, C:0.18, G:0.05, T:0.59
Consensus pattern (18 bp):
CTTCATTATTTATTTACG
Found at i:36736757 original size:161 final size:161
Alignment explanation
Indices: 36736492--36736796 Score: 502
Period size: 161 Copynumber: 1.9 Consensus size: 161
36736482 ATTTTGTTCC
* *
36736492 ACCTTCTTTATTCGGGTGTATAAATATAGAAGTATTGTGTTAACCTTGGGGGCGACGTCCATTAC
1 ACCTTCTTTATTCAGGTGTACAAATATAGAAGTATTGTGTTAACCTTGGGGGCGACGTCCATTAC
* * * *
36736557 TCGACTACATCAATTAGGGCAAATTCACTTTTAAGGCAGTTGTTCTTCCATGACATAGTGACTAC
66 TCGACTACACCAATCAGGGCAAATTCACTTTTAAGGCAGTTGTTCTTCCACGACACAGTGACTAC
36736622 TTCATTATTTATTTACGCTCATTATTTGTTT
131 TTCATTATTTATTTACGCTCATTATTTGTTT
* * *
36736653 ACCTTCTTTATTCAGTTGTACAGATATAGAAGTATTGTGTTAACCTTGGGGGCGACGTCTATTAC
1 ACCTTCTTTATTCAGGTGTACAAATATAGAAGTATTGTGTTAACCTTGGGGGCGACGTCCATTAC
* **
36736718 TCGACTACACCAATCAGGGCGAATTCACTTTTAAGGCAGTTGTTCTTCCACGACACAGTGGTTAC
66 TCGACTACACCAATCAGGGCAAATTCACTTTTAAGGCAGTTGTTCTTCCACGACACAGTGACTAC
36736783 TTCATTATTTATTT
131 TTCATTATTTATTT
36736797 TTCCAACAAA
Statistics
Matches: 132, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
161 132 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (161 bp):
ACCTTCTTTATTCAGGTGTACAAATATAGAAGTATTGTGTTAACCTTGGGGGCGACGTCCATTAC
TCGACTACACCAATCAGGGCAAATTCACTTTTAAGGCAGTTGTTCTTCCACGACACAGTGACTAC
TTCATTATTTATTTACGCTCATTATTTGTTT
Found at i:36747548 original size:13 final size:13
Alignment explanation
Indices: 36747530--36747559 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
36747520 AGGTGCTGTG
36747530 AAGTACTTTTAAA
1 AAGTACTTTTAAA
36747543 AAGTACTTTTAAA
1 AAGTACTTTTAAA
36747556 AAGT
1 AAGT
36747560 TTGGTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.37
Consensus pattern (13 bp):
AAGTACTTTTAAA
Found at i:36747631 original size:20 final size:18
Alignment explanation
Indices: 36747596--36747634 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
36747586 TTGCTGTCAA
36747596 AAAATACTTTTAAAAAAT
1 AAAATACTTTTAAAAAAT
*
36747614 AAAATATCTATTTTAAAAAT
1 AAAATA-CT-TTTAAAAAAT
36747634 A
1 A
36747635 CTATTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 10 0.56
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATACTTTTAAAAAAT
Found at i:36747833 original size:20 final size:21
Alignment explanation
Indices: 36747805--36747855 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
36747795 GTAAAATTTA
36747805 ATTAGAATATATAAACTAT-ATT
1 ATTA-AATATATAAA-TATAATT
*
36747827 -TTAAATATTTAAATATAATT
1 ATTAAATATATAAATATAATT
36747847 ATTAAATAT
1 ATTAAATAT
36747856 TTGTAATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 12 0.46
21 11 0.42
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTAAATATATAAATATAATT
Found at i:36747853 original size:21 final size:21
Alignment explanation
Indices: 36747805--36747857 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
36747795 GTAAAATTTA
*
36747805 ATTAGAATATATAAACTATATT
1 ATTA-AATATTTAAACTATATT
36747827 -TTAAATATTTAAA-TATAATT
1 ATTAAATATTTAAACTAT-ATT
36747847 ATTAAATATTT
1 ATTAAATATTT
36747858 GTAATTAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 3 0.11
20 12 0.43
21 13 0.46
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTAAATATTTAAACTATATT
Found at i:36753677 original size:23 final size:23
Alignment explanation
Indices: 36753638--36753687 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
36753628 TGAAATTCAT
*
36753638 TTTATTTATTTTTATTTTAAAAAA
1 TTTAGTTATTTTTATTTT-AAAAA
*
36753662 TTTAGTTA-TTTTATTTTTAAAA
1 TTTAGTTATTTTTATTTTAAAAA
36753684 TTTA
1 TTTA
36753688 AAATTCAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 8 0.33
23 9 0.38
24 7 0.29
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
TTTAGTTATTTTTATTTTAAAAA
Found at i:36754946 original size:16 final size:16
Alignment explanation
Indices: 36754927--36754957 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
36754917 TGAATATACA
36754927 AAAAGTATAAGGATTT
1 AAAAGTATAAGGATTT
36754943 AAAAGTATAAGGATT
1 AAAAGTATAAGGATT
36754958 AAATTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (16 bp):
AAAAGTATAAGGATTT
Found at i:36755829 original size:14 final size:13
Alignment explanation
Indices: 36755810--36755843 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
36755800 CTTTTACTAT
*
36755810 TTTTTAAAAATTA
1 TTTTTAAAAAATA
36755823 TTATTTAAAAAATA
1 TT-TTTAAAAAATA
36755837 TTTTTAA
1 TTTTTAA
36755844 TCAAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTTTAAAAAATA
Found at i:36764379 original size:20 final size:20
Alignment explanation
Indices: 36764351--36764388 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
36764341 TTTTAAAATA
* *
36764351 TTAACTTTTTTTATATATTT
1 TTAAATTTTTTTAAATATTT
36764371 TTAAATTTTTTTAAATAT
1 TTAAATTTTTTTAAATAT
36764389 AAATTTTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (20 bp):
TTAAATTTTTTTAAATATTT
Found at i:36764394 original size:24 final size:24
Alignment explanation
Indices: 36764362--36764412 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
36764352 TAACTTTTTT
* * * *
36764362 TATATATTTTTAAATTTTTTTAAA
1 TATAAATTTTGAAATTGTTATAAA
36764386 TATAAATTTTGAAATTGTTATAAA
1 TATAAATTTTGAAATTGTTATAAA
36764410 TAT
1 TAT
36764413 TTTGAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (24 bp):
TATAAATTTTGAAATTGTTATAAA
Found at i:36766833 original size:9 final size:9
Alignment explanation
Indices: 36766821--36767212 Score: 101
Period size: 9 Copynumber: 41.6 Consensus size: 9
36766811 AAAAAAAGAA
36766821 AAAAATTAT
1 AAAAATTAT
* *
36766830 AAAAATCAG
1 AAAAATTAT
36766839 AAAAA-TAT
1 AAAAATTAT
*
36766847 ATAAATTAT
1 AAAAATTAT
36766856 --AAATTATT
1 AAAAATTA-T
*
36766864 AAAGA-T-T
1 AAAAATTAT
36766871 AAAAA-TATT
1 AAAAATTA-T
*
36766880 AAAATTTAT
1 AAAAATTAT
*
36766889 ATAAACTTAT
1 A-AAAATTAT
36766899 AAAAATTA-
1 AAAAATTAT
36766907 AAAAATATAT
1 AAAAAT-TAT
36766917 AAAAATGTTAT
1 AAAAA--TTAT
36766928 AATAAATTAT
1 AA-AAATTAT
*
36766938 -AAAATAAAT
1 AAAAAT-TAT
*
36766947 AAAAATATTT
1 AAAAAT-TAT
*
36766957 AAAATTTTATAT
1 AAAA--AT-TAT
36766969 AAAAATGTAT
1 AAAAAT-TAT
*
36766979 AAAAATTGT
1 AAAAATTAT
*
36766988 AATAAATCAT
1 AA-AAATTAT
**
36766998 AAAAAAAATT
1 AAAAATTA-T
* *
36767008 TAAAACTAT
1 AAAAATTAT
*
36767017 AAAAACGTA-
1 AAAAA-TTAT
36767026 AAAAATTAT
1 AAAAATTAT
*
36767035 AAATATTA-
1 AAAAATTAT
*
36767043 AAAAA-AAGT
1 AAAAATTA-T
*
36767052 -AAAATTGAC
1 AAAAATT-AT
*
36767061 ATAAACTT-T
1 A-AAAATTAT
*
36767070 TAAAATTAT
1 AAAAATTAT
*
36767079 AAAAAATCAT
1 -AAAAATTAT
*
36767089 AAAAACTAAT
1 AAAAA-TTAT
* *
36767099 AAATATCAT
1 AAAAATTAT
*
36767108 AAAAAATAT
1 AAAAATTAT
*
36767117 AAAAATTCT
1 AAAAATTAT
*
36767126 AAAAAAATAT
1 -AAAAATTAT
* *
36767136 AAAACTAAT
1 AAAAATTAT
36767145 AAAAAATATATTT
1 -AAAAAT-TA--T
*
36767158 AAAATTTGTAT
1 AAAA-AT-TAT
36767169 AAAAACTTAT
1 AAAAA-TTAT
*
36767179 GAATAA-TAT
1 -AAAAATTAT
*
36767188 AATAAATTGT
1 AA-AAATTAT
36767198 AAAAATTATT
1 AAAAATTA-T
36767208 AAAAA
1 AAAAA
36767213 AAATCATTTA
Statistics
Matches: 281, Mismatches: 61, Indels: 81
0.66 0.14 0.19
Matches are distributed among these distances:
7 13 0.05
8 33 0.12
9 97 0.35
10 97 0.35
11 21 0.07
12 16 0.06
13 4 0.01
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:36766881 original size:16 final size:15
Alignment explanation
Indices: 36766839--36766885 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
36766829 TAAAAATCAG
36766839 AAAAATA-TATAAATT
1 AAAAATATTA-AAATT
*
36766854 ATAAATTATTAAAGATT
1 A-AAAATATTAAA-ATT
36766871 AAAAATATTAAAATT
1 AAAAATATTAAAATT
36766886 TATATAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 4 0.15
16 17 0.63
17 6 0.22
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (15 bp):
AAAAATATTAAAATT
Found at i:36766888 original size:26 final size:25
Alignment explanation
Indices: 36766839--36766920 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 25
36766829 TAAAAATCAG
* *
36766839 AAAAATATATAAATTATAAATTAT-T
1 AAAATTATAAAAATTA-AAATTATAT
36766864 AAAGATTA-AAAATATTAAAATTTATAT
1 AAA-ATTATAAAA-ATTAAAA-TTATAT
* *
36766891 AAACTTATAAAAATTAAAAAATATAT
1 AAAATTATAAAAATT-AAAATTATAT
36766917 AAAA
1 AAAA
36766921 ATGTTATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
25 9 0.20
26 25 0.54
27 12 0.26
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (25 bp):
AAAATTATAAAAATTAAAATTATAT
Found at i:36766922 original size:10 final size:10
Alignment explanation
Indices: 36766870--36766984 Score: 73
Period size: 10 Copynumber: 11.7 Consensus size: 10
36766860 TATTAAAGAT
36766870 TAAAAATAT-
1 TAAAAATATA
*
36766879 T-AAAATTTA
1 TAAAAATATA
*
36766888 TATAAACT-TA
1 TA-AAAATATA
36766898 TAAAAAT-TA
1 TAAAAATATA
36766907 -AAAAATATA
1 TAAAAATATA
*
36766916 TAAAAATGTTA
1 TAAAAAT-ATA
36766927 TAATAAAT-TA
1 TAA-AAATATA
*
36766937 T-AAAATAAA
1 TAAAAATATA
*
36766946 TAAAAATATT
1 TAAAAATATA
*
36766956 TAAAATTTTATA
1 TAAAA--ATATA
*
36766968 TAAAAATGTA
1 TAAAAATATA
36766978 TAAAAAT
1 TAAAAAT
36766985 TGTAATAAAT
Statistics
Matches: 84, Mismatches: 11, Indels: 21
0.72 0.09 0.18
Matches are distributed among these distances:
8 16 0.19
9 13 0.15
10 34 0.40
11 9 0.11
12 12 0.14
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.36
Consensus pattern (10 bp):
TAAAAATATA
Found at i:36766942 original size:30 final size:29
Alignment explanation
Indices: 36766895--36766960 Score: 89
Period size: 30 Copynumber: 2.3 Consensus size: 29
36766885 TTATATAAAC
*
36766895 TTATAAAAATTAAAAAATATATAAAAATG
1 TTATAAAAATTAAAAAATAAATAAAAATG
* *
36766924 TTATAATAAATTATAAAATAAATAAAAATA
1 TTATAA-AAATTAAAAAATAAATAAAAATG
36766954 TT-TAAAA
1 TTATAAAA
36766961 TTTTATATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 2 0.06
29 9 0.27
30 22 0.67
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (29 bp):
TTATAAAAATTAAAAAATAAATAAAAATG
Found at i:36766992 original size:22 final size:21
Alignment explanation
Indices: 36766896--36766993 Score: 73
Period size: 22 Copynumber: 4.8 Consensus size: 21
36766886 TATATAAACT
36766896 TATAAAAAT-T-A-AAAAATA
1 TATAAAAATGTAATAAAAATA
*
36766914 TATAAAAATGTTATAATAAAT-
1 TATAAAAATGTAATAA-AAATA
*
36766935 TAT-AAAAT-AAATAAAAATA
1 TATAAAAATGTAATAAAAATA
* * * *
36766954 TTTAAAATTTTATATAAAAATG
1 TATAAAAATGTA-ATAAAAATA
36766976 TATAAAAATTGTAATAAA
1 TATAAAAA-TGTAATAAA
36766994 TCATAAAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
18 13 0.21
19 7 0.11
20 10 0.16
21 6 0.10
22 23 0.37
23 3 0.05
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
TATAAAAATGTAATAAAAATA
Found at i:36767003 original size:52 final size:52
Alignment explanation
Indices: 36766912--36767012 Score: 127
Period size: 52 Copynumber: 1.9 Consensus size: 52
36766902 AATTAAAAAA
*
36766912 TATATAAAAATGTTATAATAAATTATAAAATAAATAAAAATATTTAAAATTT
1 TATATAAAAATGTTATAATAAATTATAAAATAAATAAAAAAATTTAAAATTT
* *
36766964 TATATAAAAATG-TATAA-AAATTGTAATAA-ATCATAAAAAAAATTTAAAA
1 TATATAAAAATGTTATAATAAATTATAA-AATA-AAT-AAAAAAATTTAAAA
36767013 CTATAAAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
50 9 0.21
51 9 0.21
52 25 0.58
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (52 bp):
TATATAAAAATGTTATAATAAATTATAAAATAAATAAAAAAATTTAAAATTT
Found at i:36767093 original size:19 final size:19
Alignment explanation
Indices: 36767071--36767154 Score: 75
Period size: 19 Copynumber: 4.5 Consensus size: 19
36767061 ATAAACTTTT
*
36767071 AAAATTATAAAAAATCATA
1 AAAAATATAAAAAATCATA
* *
36767090 AAAACTA-ATAAATATCATA
1 AAAAATATA-AAAAATCATA
*
36767109 AAAAATATAAAAATTC-TA
1 AAAAATATAAAAAATCATA
* *
36767127 AAAAA-ATATAAAACTAATA
1 AAAAATATA-AAAAATCATA
36767146 AAAAATATA
1 AAAAATATA
36767155 TTTAAAATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
17 3 0.06
18 13 0.25
19 33 0.62
20 4 0.08
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAAATATAAAAAATCATA
Found at i:36767094 original size:28 final size:27
Alignment explanation
Indices: 36767063--36767129 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
36767053 AAATTGACAT
* *
36767063 AAACTTTTAAAATTATAAAAAATCATAA
1 AAACTTATAAAATCATAAAAAAT-ATAA
*
36767091 AAACTAATAAATATCATAAAAAATATAA
1 AAACTTATAAA-ATCATAAAAAATATAA
*
36767119 AAA-TTCTAAAA
1 AAACTTATAAAA
36767130 AAATATAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
26 1 0.03
27 5 0.15
28 16 0.48
29 11 0.33
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.28
Consensus pattern (27 bp):
AAACTTATAAAATCATAAAAAATATAA
Found at i:36767138 original size:37 final size:38
Alignment explanation
Indices: 36767071--36767154 Score: 93
Period size: 37 Copynumber: 2.2 Consensus size: 38
36767061 ATAAACTTTT
* * *
36767071 AAAATTATAAAAAATCATAAAAACTAATAAATA-TCATA
1 AAAAATATAAAAAATCATAAAAAATAATAAA-ACTAATA
*
36767109 AAAAATATAAAAATTC-TAAAAAA-ATATAAAACTAATA
1 AAAAATATAAAAAATCATAAAAAATA-ATAAAACTAATA
36767146 AAAAATATA
1 AAAAATATA
36767155 TTTAAAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
36 2 0.05
37 24 0.60
38 14 0.35
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (38 bp):
AAAAATATAAAAAATCATAAAAAATAATAAAACTAATA
Found at i:36767799 original size:10 final size:10
Alignment explanation
Indices: 36767784--36767853 Score: 60
Period size: 9 Copynumber: 7.3 Consensus size: 10
36767774 ATATCACTTT
36767784 TAATATTTTA
1 TAATATTTTA
36767794 TAATATTTTA
1 TAATATTTTA
36767804 CT-AT-TTTTA
1 -TAATATTTTA
*
36767813 TAA-GTTTTA
1 TAATATTTTA
*
36767822 TAAAATTTTA
1 TAATATTTTA
36767832 -AATATGTTTA
1 TAATAT-TTTA
*
36767842 TTA-ATTTTA
1 TAATATTTTA
36767851 TAA
1 TAA
36767854 AAAATATAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
8 1 0.02
9 24 0.48
10 23 0.46
11 2 0.04
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (10 bp):
TAATATTTTA
Found at i:36767851 original size:29 final size:27
Alignment explanation
Indices: 36767788--36767855 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 27
36767778 CACTTTTAAT
* * *
36767788 ATTTTATAATATTTTACTATTTTTATA
1 ATTTTATAAAATTTTAATATGTTTATA
36767815 AGTTTTATAAAATTTTAAATATGTTTATTA
1 A-TTTTATAAAATTTT-AATATGTTTA-TA
36767845 ATTTTATAAAA
1 ATTTTATAAAA
36767856 AATATAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 1 0.03
28 13 0.37
29 18 0.51
30 3 0.09
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (27 bp):
ATTTTATAAAATTTTAATATGTTTATA
Found at i:36767904 original size:25 final size:25
Alignment explanation
Indices: 36767874--36767922 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
36767864 TTATTACAAT
36767874 TTATTAGATTTCTATAATATTTATG
1 TTATTAGATTTCTATAATATTTATG
** * *
36767899 TTATTATTTTTTTATAATTTTTAT
1 TTATTAGATTTCTATAATATTTAT
36767923 AAATTTACAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (25 bp):
TTATTAGATTTCTATAATATTTATG
Found at i:36767927 original size:10 final size:9
Alignment explanation
Indices: 36767784--36767988 Score: 57
Period size: 10 Copynumber: 22.0 Consensus size: 9
36767774 ATATCACTTT
36767784 TAATATTTTA
1 TAAT-TTTTA
36767794 TAATATTTTA
1 TAAT-TTTTA
36767804 CT-ATTTTTA
1 -TAATTTTTA
*
36767813 TAAGTTTTA
1 TAATTTTTA
*
36767822 TAAAATTTTA
1 T-AATTTTTA
36767832 -AATATGTTTA
1 TAAT-T-TTTA
36767842 TTAA-TTTTA
1 -TAATTTTTA
****
36767851 TAAAAAATA
1 TAATTTTTA
36767860 TAATTTATTA
1 TAATTT-TTA
*
36767870 CAATTTATTA
1 TAATTT-TTA
* *
36767880 -GATTTCTA
1 TAATTTTTA
*
36767888 TAATATTTA
1 TAATTTTTA
* *
36767897 T-GTTATTA
1 TAATTTTTA
*
36767905 T-TTTTTTA
1 TAATTTTTA
36767913 TAATTTTTA
1 TAATTTTTA
**
36767922 TAAATTTACA
1 T-AATTTTTA
*
36767932 TCAATTTTAA
1 T-AATTTTTA
36767942 TATATATTTT-
1 TA-AT-TTTTA
*
36767952 TAATATTTAA
1 TAAT-TTTTA
36767962 TAATTTTTA
1 TAATTTTTA
36767971 T-ATTTTTAA
1 TAATTTTT-A
*
36767980 TTATTTTTA
1 TAATTTTTA
36767989 ATCATTTTCA
Statistics
Matches: 148, Mismatches: 30, Indels: 35
0.69 0.14 0.16
Matches are distributed among these distances:
8 25 0.17
9 54 0.36
10 63 0.43
11 4 0.03
12 2 0.01
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (9 bp):
TAATTTTTA
Found at i:36767939 original size:31 final size:29
Alignment explanation
Indices: 36767904--36767973 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 29
36767894 TTATGTTATT
*
36767904 ATTTTTTTATA-ATTTTTATAAATTTACATCA
1 ATTTTTATATATATTTTTA-AAATTTA-AT-A
* *
36767935 ATTTTAATATATATTTTTAATATTTAATA
1 ATTTTTATATATATTTTTAAAATTTAATA
36767964 ATTTTTATAT
1 ATTTTTATAT
36767974 TTTTAATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 10 0.29
30 2 0.06
31 15 0.44
32 7 0.21
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (29 bp):
ATTTTTATATATATTTTTAAAATTTAATA
Found at i:36767978 original size:18 final size:17
Alignment explanation
Indices: 36767947--36767995 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
36767937 TTTAATATAT
36767947 ATTTTTAATATTTAATA
1 ATTTTTAATATTTAATA
* *
36767964 ATTTTTATATTTTTAATT
1 ATTTTTA-ATATTTAATA
36767982 ATTTTTAATCATTT
1 ATTTTTAAT-ATTT
36767996 TCATGAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTTAATATTTAATA
Found at i:36773444 original size:60 final size:60
Alignment explanation
Indices: 36773316--36773484 Score: 178
Period size: 60 Copynumber: 2.8 Consensus size: 60
36773306 TCGCTTACCC
* * * * * * * * *
36773316 TTCTATGAGACTGCACAATATAGGTTCGCACCGTCATATAGG-AAACTCACATTGTATAA
1 TTCTATGAGACCGTACGATGTAAGTTCGCACCATCATATAGGCGAACCCACATTGCATAA
*
36773375 TTCTATGAGACCGTATGATGTAAGTTCGCACCATCATATAGGCGAACCCACATTGCATAA
1 TTCTATGAGACCGTACGATGTAAGTTCGCACCATCATATAGGCGAACCCACATTGCATAA
* * ** ** *
36773435 TTCTATGAGATCGTACGATGTAGGTTCAAATTATCATATAGCCGAACCCA
1 TTCTATGAGACCGTACGATGTAAGTTCGCACCATCATATAGGCGAACCCA
36773485 TATCGTATGA
Statistics
Matches: 91, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
59 35 0.38
60 56 0.62
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (60 bp):
TTCTATGAGACCGTACGATGTAAGTTCGCACCATCATATAGGCGAACCCACATTGCATAA
Found at i:36773837 original size:5 final size:5
Alignment explanation
Indices: 36773827--36773855 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
36773817 TGGATTTATA
36773827 TATTT TATTT TATTT TATTT TATTT TATT
1 TATTT TATTT TATTT TATTT TATTT TATT
36773856 ATGCATTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:36775383 original size:18 final size:17
Alignment explanation
Indices: 36775360--36775393 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
36775350 TTTTGAATTT
36775360 TATTATTTATTTAATATA
1 TATTA-TTATTTAATATA
*
36775378 TATTATTATTTTATAT
1 TATTATTATTTAATAT
36775394 TAAAATTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTATTATTTAATATA
Found at i:36776608 original size:18 final size:17
Alignment explanation
Indices: 36776585--36776618 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
36776575 TTTTGAATTT
36776585 TATTATTTATTTAATATA
1 TATTA-TTATTTAATATA
*
36776603 TATTATTATTTTATAT
1 TATTATTATTTAATAT
36776619 TAAAATTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTATTATTTAATATA
Found at i:36776900 original size:17 final size:17
Alignment explanation
Indices: 36776878--36776930 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
36776868 GTTTTCATAT
36776878 TATTTTATTACATATTA
1 TATTTTATTACATATTA
* * *
36776895 TATTTTACTCCATATGA
1 TATTTTATTACATATTA
*
36776912 TATTTT-TTATATATTA
1 TATTTTATTACATATTA
36776928 TAT
1 TAT
36776931 ACATACATTT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 9 0.31
17 20 0.69
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (17 bp):
TATTTTATTACATATTA
Found at i:36779070 original size:14 final size:14
Alignment explanation
Indices: 36779051--36779077 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36779041 AAAAACATGA
36779051 AAAGAAATAAAAAG
1 AAAGAAATAAAAAG
36779065 AAAGAAATAAAAA
1 AAAGAAATAAAAA
36779078 ATAAAAAAAT
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:0.81, C:0.00, G:0.11, T:0.07
Consensus pattern (14 bp):
AAAGAAATAAAAAG
Found at i:36783863 original size:22 final size:23
Alignment explanation
Indices: 36783838--36783880 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
36783828 TTCGATTGAA
*
36783838 TTGAATAAA-AAAAATTTAGAGC
1 TTGAAGAAATAAAAATTTAGAGC
*
36783860 TTGAAGAAATAAAAGTTTAGA
1 TTGAAGAAATAAAAATTTAGA
36783881 AGGAAAGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.53, C:0.02, G:0.16, T:0.28
Consensus pattern (23 bp):
TTGAAGAAATAAAAATTTAGAGC
Found at i:36783973 original size:21 final size:21
Alignment explanation
Indices: 36783944--36783986 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
36783934 GGAAAGTAAA
* *
36783944 AAAGAAAAAGATTTTGAGGGG
1 AAAGAAAAAAAGTTTGAGGGG
*
36783965 AAAGTAAAAAAGTTTGAGGGG
1 AAAGAAAAAAAGTTTGAGGGG
36783986 A
1 A
36783987 TGGGTTAGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.33, T:0.19
Consensus pattern (21 bp):
AAAGAAAAAAAGTTTGAGGGG
Found at i:36786943 original size:18 final size:19
Alignment explanation
Indices: 36786909--36786950 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
36786899 TTCAATAAAA
36786909 AAAATCATAAAAATTTA-G
1 AAAATCATAAAAATTTATG
*
36786927 AAAAT-ATATAAATTTTATG
1 AAAATCATA-AAAATTTATG
36786946 AAAAT
1 AAAAT
36786951 TTCCAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 12 0.57
19 6 0.29
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (19 bp):
AAAATCATAAAAATTTATG
Found at i:36790561 original size:21 final size:22
Alignment explanation
Indices: 36790522--36790566 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
36790512 TTTCTATTAG
*
36790522 TTTAGTCATTTTTTATTTTCAT
1 TTTAGTCATTTTTTATTTTAAT
36790544 TTTAGT-ATTTTTGT-TTTTAAT
1 TTTAGTCATTTTT-TATTTTAAT
36790565 TT
1 TT
36790567 AATTTTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.18, C:0.04, G:0.07, T:0.71
Consensus pattern (22 bp):
TTTAGTCATTTTTTATTTTAAT
Found at i:36793527 original size:15 final size:15
Alignment explanation
Indices: 36793507--36793536 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36793497 TTGTTGTAAA
*
36793507 TGGACCCTTAATATT
1 TGGACCATTAATATT
36793522 TGGACCATTAATATT
1 TGGACCATTAATATT
36793537 ATTTTGGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (15 bp):
TGGACCATTAATATT
Found at i:36797014 original size:46 final size:46
Alignment explanation
Indices: 36796961--36797055 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
36796951 AAGAGTGAAT
*
36796961 ATGTTATTGTGACTTTGTCAGAATATGGCTATGAATGTATTATAAC
1 ATGTTATTGTGACTTTATCAGAATATGGCTATGAATGTATTATAAC
* *
36797007 ATGTTATTGTGACTTTATTAGAATATGGCTGTGAATGTATTATAAC
1 ATGTTATTGTGACTTTATCAGAATATGGCTATGAATGTATTATAAC
36797053 ATG
1 ATG
36797056 CTCTTGTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (46 bp):
ATGTTATTGTGACTTTATCAGAATATGGCTATGAATGTATTATAAC
Found at i:36797047 original size:22 final size:22
Alignment explanation
Indices: 36796980--36797048 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
36796970 TGACTTTGTC
*
36796980 AGAATATGGCTATGAATGTATT
1 AGAATATGGCTGTGAATGTATT
* * ** * *
36797002 ATAACATGTTATTGTGACTTTATT
1 AGAATATG--GCTGTGAATGTATT
36797026 AGAATATGGCTGTGAATGTATT
1 AGAATATGGCTGTGAATGTATT
36797048 A
1 A
36797049 TAACATGCTC
Statistics
Matches: 32, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
22 17 0.53
24 15 0.47
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (22 bp):
AGAATATGGCTGTGAATGTATT
Found at i:36799682 original size:6 final size:6
Alignment explanation
Indices: 36799671--36799695 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
36799661 TTTTATTATG
36799671 TATGTA TATGTA TATGTA TATGTA T
1 TATGTA TATGTA TATGTA TATGTA T
36799696 TTAATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (6 bp):
TATGTA
Found at i:36802120 original size:3 final size:3
Alignment explanation
Indices: 36802112--36802212 Score: 66
Period size: 3 Copynumber: 33.3 Consensus size: 3
36802102 AATTTTGCCA
* * *
36802112 TAT TAT TAT TA- TAT TAT TGT TATT TAT TAT TAT TTT TTT TAT GTAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TAT
* * * *
36802158 ATAT TA- TAC TA- TACT TAA TAT TAT TGT TAT TAT TAT TA- TATT TAC
1 -TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
36802203 TAT TAT TAT T
1 TAT TAT TAT T
36802213 TACAAATATT
Statistics
Matches: 79, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
2 8 0.10
3 58 0.73
4 13 0.16
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:36802314 original size:21 final size:21
Alignment explanation
Indices: 36802290--36802329 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36802280 AAAAACATTG
* *
36802290 TTATATTTACTATTTTATTTA
1 TTATATTTAATATATTATTTA
36802311 TTATATTTAATATATTATT
1 TTATATTTAATATATTATT
36802330 ATTCACTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (21 bp):
TTATATTTAATATATTATTTA
Found at i:36807339 original size:333 final size:333
Alignment explanation
Indices: 36806729--36807398 Score: 1333
Period size: 333 Copynumber: 2.0 Consensus size: 333
36806719 TTGGGTTCAC
36806729 TTGT-ATCAAAGTATTGACACTAAGTTAGCCCCCTTTTTGAAATCTCTATCTCGAAACGACAAAA
1 TTGTAATCAAAGTATTGACACTAAGTTAGCCCCCTTTTTGAAATCTCTATCTCGAAACGACAAAA
36806793 TGCTACATCCAGTAAGTTAGGACATATGGTTTTGCGGTCCCAAGACAGTCGCTTACGTTTTGAAA
66 TGCTACATCCAGTAAGTTAGGACATATGGTTTTGCGGTCCCAAGACAGTCGCTTACGTTTTGAAA
36806858 ACCTTTAAAAACTTAGAAGGATACTTGATTATTCGAACTTAACAAGAAGAGTCGCAACCCAATAA
131 ACCTTTAAAAACTTAGAAGGATACTTGATTATTCGAACTTAACAAGAAGAGTCGCAACCCAATAA
36806923 GTTAGGGCACTACTTTTTCGAAATTTCCAAACACCAAGCATTGCTTTTATATTTTCCGAAAATTT
196 GTTAGGGCACTACTTTTTCGAAATTTCCAAACACCAAGCATTGCTTTTATATTTTCCGAAAATTT
36806988 TGGAGCCTTGTCTTTTTAAAGATGATGCGTAGGGAATTGTATTACATTATAAATCATACATAGTA
261 TGGAGCCTTGTCTTTTTAAAGATGATGCGTAGGGAATTGTATTACATTATAAATCATACATAGTA
36807053 ACATATTA
326 ACATATTA
36807061 TTGTAATCAAAGTATTGACACTAAGTTAGCCCCCTTTTTGAAATCTCTATCTCGAAACGACAAAA
1 TTGTAATCAAAGTATTGACACTAAGTTAGCCCCCTTTTTGAAATCTCTATCTCGAAACGACAAAA
36807126 TGCTACATCCAGTAAGTTAGGACATATGGTTTTGCGGTCCCAAGACAGTCGCTTACGTTTTGAAA
66 TGCTACATCCAGTAAGTTAGGACATATGGTTTTGCGGTCCCAAGACAGTCGCTTACGTTTTGAAA
36807191 ACCTTTAAAAACTTAGAAGGATACTTGATTATTCGAACTTAACAAGAAGAGTCGCAACCCAATAA
131 ACCTTTAAAAACTTAGAAGGATACTTGATTATTCGAACTTAACAAGAAGAGTCGCAACCCAATAA
36807256 GTTAGGGCACTACTTTTTCGAAATTTCCAAACACCAAGCATTGCTTTTATATTTTCCGAAAATTT
196 GTTAGGGCACTACTTTTTCGAAATTTCCAAACACCAAGCATTGCTTTTATATTTTCCGAAAATTT
36807321 TGGAGCCTTGTCTTTTTAAAGATGATGCGTAGGGAATTGTATTACATTATAAATCATACATAGTA
261 TGGAGCCTTGTCTTTTTAAAGATGATGCGTAGGGAATTGTATTACATTATAAATCATACATAGTA
36807386 ACATATTA
326 ACATATTA
36807394 TTGTA
1 TTGTA
36807399 GTTGGTAAAT
Statistics
Matches: 337, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
332 4 0.01
333 333 0.99
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (333 bp):
TTGTAATCAAAGTATTGACACTAAGTTAGCCCCCTTTTTGAAATCTCTATCTCGAAACGACAAAA
TGCTACATCCAGTAAGTTAGGACATATGGTTTTGCGGTCCCAAGACAGTCGCTTACGTTTTGAAA
ACCTTTAAAAACTTAGAAGGATACTTGATTATTCGAACTTAACAAGAAGAGTCGCAACCCAATAA
GTTAGGGCACTACTTTTTCGAAATTTCCAAACACCAAGCATTGCTTTTATATTTTCCGAAAATTT
TGGAGCCTTGTCTTTTTAAAGATGATGCGTAGGGAATTGTATTACATTATAAATCATACATAGTA
ACATATTA
Found at i:36808084 original size:19 final size:19
Alignment explanation
Indices: 36808045--36808085 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
36808035 TATATAATAT
*
36808045 ATATAAAAAATAATAAGTA
1 ATATAAAAAATAATAACTA
36808064 ATATAAAAAATAA-AACCTA
1 ATATAAAAAATAATAA-CTA
36808083 ATA
1 ATA
36808086 AATGCTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (19 bp):
ATATAAAAAATAATAACTA
Found at i:36808205 original size:24 final size:23
Alignment explanation
Indices: 36808168--36808213 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
36808158 ATAAATGGTA
36808168 TTTTAGTAATAATATAAGTATATT
1 TTTTAGTAATAATA-AAGTATATT
*
36808192 TTTTA-TAATAAATAAATTATAT
1 TTTTAGTAAT-AATAAAGTATAT
36808214 AAAGAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
TTTTAGTAATAATAAAGTATATT
Found at i:36812851 original size:14 final size:15
Alignment explanation
Indices: 36812826--36812854 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36812816 TAAATTATTG
36812826 AAAAATCATAAAAAT
1 AAAAATCATAAAAAT
36812841 AAAAATC-TAAAAAT
1 AAAAATCATAAAAAT
36812855 TTTGATTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAATCATAAAAAT
Found at i:36818510 original size:17 final size:17
Alignment explanation
Indices: 36818469--36818511 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
36818459 TTTGTGGGAT
36818469 TAATATAGTGATAATGAC
1 TAAT-TAGTGATAATGAC
**
36818487 TCCTTAGTGATAATGAC
1 TAATTAGTGATAATGAC
36818504 TAATTAGT
1 TAATTAGT
36818512 TAACTGGAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (17 bp):
TAATTAGTGATAATGAC
Found at i:36818725 original size:23 final size:23
Alignment explanation
Indices: 36818697--36818742 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
36818687 GAAAATGTTA
36818697 AAAATCAAATCCTTATGCCAATT
1 AAAATCAAATCCTTATGCCAATT
*
36818720 AAAATCAAATCTTTATGCCAATT
1 AAAATCAAATCCTTATGCCAATT
36818743 CATAGTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (23 bp):
AAAATCAAATCCTTATGCCAATT
Found at i:36824249 original size:3 final size:3
Alignment explanation
Indices: 36824241--36824290 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
36824231 CAAATCTAAC
36824241 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
36824289 AT
1 AT
36824291 GTTGACAGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:36826682 original size:24 final size:24
Alignment explanation
Indices: 36826655--36826743 Score: 88
Period size: 24 Copynumber: 3.7 Consensus size: 24
36826645 GTCGTGTTTC
*
36826655 CTCGCACACATAGTGCTATATAAT
1 CTCGCACACATAGTGCCATATAAT
* *
36826679 CTCGCACACATAGTGCCATGTAGTT
1 CTCGCACACATAGTGCCATATA-AT
* * * ** *
36826704 TTTGCACACATAGTTCCGCATAAC
1 CTCGCACACATAGTGCCATATAAT
36826728 CTCGCACACATAGTGC
1 CTCGCACACATAGTGC
36826744 TGAAATTTCT
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 33 0.66
25 17 0.34
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (24 bp):
CTCGCACACATAGTGCCATATAAT
Found at i:36834075 original size:30 final size:30
Alignment explanation
Indices: 36834041--36834102 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
36834031 CTTAACAAGT
36834041 AAATGCCTCTAAAATAATAA-AAAATTTAAC
1 AAATGCCTCTAAAATAATAACAAAA-TTAAC
*
36834071 AAATGCCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
36834101 AA
1 AA
36834103 GAAAATAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 26 0.87
31 4 0.13
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:36834665 original size:17 final size:17
Alignment explanation
Indices: 36834635--36834667 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
36834625 TATGCTAGTG
36834635 ATTTTTTTATATAACAA
1 ATTTTTTTATATAACAA
36834652 ATTTGTTTTA-ATAACA
1 ATTT-TTTTATATAACA
36834668 TTTAAGATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (17 bp):
ATTTTTTTATATAACAA
Found at i:36849299 original size:17 final size:19
Alignment explanation
Indices: 36849267--36849310 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
36849257 AAAAATCATC
*
36849267 TAAAATATATGGTAAACTAA
1 TAAAATATAT-GTAAAATAA
36849287 -AAAATATAT-TAAAATAA
1 TAAAATATATGTAAAATAA
36849304 TAAAATA
1 TAAAATA
36849311 AACGAACCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.32
18 6 0.27
19 9 0.41
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (19 bp):
TAAAATATATGTAAAATAA
Found at i:36855831 original size:15 final size:15
Alignment explanation
Indices: 36855813--36855841 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
36855803 ACAAAAAACT
36855813 AAAAAAAGCTAGCAA
1 AAAAAAAGCTAGCAA
36855828 AAAAAAAGCTAGCA
1 AAAAAAAGCTAGCA
36855842 GATTGAGGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.14, G:0.14, T:0.07
Consensus pattern (15 bp):
AAAAAAAGCTAGCAA
Found at i:36856040 original size:25 final size:26
Alignment explanation
Indices: 36856006--36856059 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
36855996 AGTAAGGAGA
36856006 AGAAGAGAAAAA-AA-AATAGAAAAGG
1 AGAAGAGAAAAAGAAGAA-AGAAAAGG
*
36856031 AGAAGAGAAAAAGAAGAAAGAGAAGG
1 AGAAGAGAAAAAGAAGAAAGAAAAGG
36856057 AGA
1 AGA
36856060 GGGCGCGGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 12 0.46
26 12 0.46
27 2 0.08
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.02
Consensus pattern (26 bp):
AGAAGAGAAAAAGAAGAAAGAAAAGG
Found at i:36856054 original size:28 final size:28
Alignment explanation
Indices: 36855999--36856054 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
36855989 AAGAAGCAGT
*
36855999 AAGGAGAAGAAGAGAAAAAAAAATAGAA
1 AAGGAGAAGAAGAGAAAAAAAAAGAGAA
36856027 AAGGAGAAG-AGA-AAAAGAAGAAAGAGAA
1 AAGGAGAAGAAGAGAAAA-AA-AAAGAGAA
36856055 GGAGAGGGCG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 4 0.16
27 5 0.20
28 16 0.64
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.02
Consensus pattern (28 bp):
AAGGAGAAGAAGAGAAAAAAAAAGAGAA
Found at i:36856055 original size:20 final size:21
Alignment explanation
Indices: 36856003--36856055 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
36855993 AGCAGTAAGG
*
36856003 AGAAG-AAGAGAAAAAAAAAT
1 AGAAGAAAGAGAAGAAAAAAT
* *
36856023 AGAA-AAGGAGAAGAGAAAA-
1 AGAAGAAAGAGAAGAAAAAAT
36856042 AGAAGAAAGAGAAG
1 AGAAGAAAGAGAAG
36856056 GAGAGGGCGC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (21 bp):
AGAAGAAAGAGAAGAAAAAAT
Found at i:36856143 original size:28 final size:26
Alignment explanation
Indices: 36856082--36856144 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
36856072 GGTGAGGAAA
* * *
36856082 AAAAGAAAAAGAGAAGGAGAATATAG
1 AAAAGAGAAAGAGAAGGAAAAAATAG
**
36856108 AAGGGAGAAAGAGAAGGAAAAAAATTAG
1 AAAAGAGAAAGAGAAGG-AAAAAA-TAG
36856136 AAAAGAGAA
1 AAAAGAGAA
36856145 GGTATAATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
26 14 0.50
27 4 0.14
28 10 0.36
ACGTcount: A:0.65, C:0.00, G:0.29, T:0.06
Consensus pattern (26 bp):
AAAAGAGAAAGAGAAGGAAAAAATAG
Found at i:36856220 original size:13 final size:12
Alignment explanation
Indices: 36856193--36856574 Score: 72
Period size: 13 Copynumber: 32.8 Consensus size: 12
36856183 TATTGTGTTT
36856193 TTGTTGTTATTA
1 TTGTTGTTATTA
*
36856205 TTGTTGATTTTTA
1 TTGTTG-TTATTA
*
36856218 TTGTT-TT-TTG
1 TTGTTGTTATTA
* *
36856228 TTGCTAGTTAATA
1 TTG-TTGTTATTA
36856241 TTGTTAGTTATTA
1 TTGTT-GTTATTA
* *
36856254 TTATTGTTAGTA
1 TTGTTGTTATTA
******
36856266 AAAACCTTATTA
1 TTGTTGTTATTA
*
36856278 TTG-T-TAATTA
1 TTGTTGTTATTA
*
36856288 TTATTG-T-TT-
1 TTGTTGTTATTA
36856297 TTGTTGTTATTA
1 TTGTTGTTATTA
*
36856309 TTGTTGATTTTTA
1 TTGTTG-TTATTA
*
36856322 TTGTT-TT-TTG
1 TTGTTGTTATTA
* *
36856332 TTGCTAGTTAATA
1 TTG-TTGTTATTA
36856345 TTGTTAGTTATTA
1 TTGTT-GTTATTA
* *
36856358 TTATTGTTAGTA
1 TTGTTGTTATTA
******
36856370 AAAACCTTATTA
1 TTGTTGTTATTA
*
36856382 TTG-T-TAATTA
1 TTGTTGTTATTA
*
36856392 TTATTG-T-TT-
1 TTGTTGTTATTA
36856401 TTGTTGTTATTA
1 TTGTTGTTATTA
*
36856413 TTGTTGATTTTTA
1 TTGTTG-TTATTA
*
36856426 TTGTT-TT-TTG
1 TTGTTGTTATTA
* *
36856436 TTGCTAGTTAATA
1 TTG-TTGTTATTA
36856449 TTGTTAGTTATTA
1 TTGTT-GTTATTA
* *
36856462 TTATTGTTAGTA
1 TTGTTGTTATTA
******
36856474 AAAACCTTATTA
1 TTGTTGTTATTA
*
36856486 TTG-T-TAATTA
1 TTGTTGTTATTA
*
36856496 TTATTG-T-TT-
1 TTGTTGTTATTA
36856505 TTGTTGTTATTA
1 TTGTTGTTATTA
*
36856517 TTGTTGATTTTTA
1 TTGTTG-TTATTA
*
36856530 TTGTT-TT-TTG
1 TTGTTGTTATTA
* *
36856540 TTGCTAGTTAATA
1 TTG-TTGTTATTA
36856553 TTGTTAGTTATTA
1 TTGTT-GTTATTA
*
36856566 TTATTGTTA
1 TTGTTGTTA
36856575 GTAAAAACCT
Statistics
Matches: 258, Mismatches: 77, Indels: 70
0.64 0.19 0.17
Matches are distributed among these distances:
9 15 0.06
10 50 0.19
11 21 0.08
12 76 0.29
13 96 0.37
ACGTcount: A:0.22, C:0.03, G:0.14, T:0.61
Consensus pattern (12 bp):
TTGTTGTTATTA
Found at i:36856304 original size:22 final size:22
Alignment explanation
Indices: 36856275--36856326 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
36856265 AAAAACCTTA
36856275 TTATTGTTAATTATTATTG-TTT
1 TTATTGTT-ATTATTATTGATTT
* *
36856297 TTGTTGTTATTATTGTTGATTT
1 TTATTGTTATTATTATTGATTT
36856319 TTATTGTT
1 TTATTGTT
36856327 TTTTGTTGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.17, C:0.00, G:0.13, T:0.69
Consensus pattern (22 bp):
TTATTGTTATTATTATTGATTT
Found at i:36856330 original size:104 final size:104
Alignment explanation
Indices: 36856188--36856607 Score: 840
Period size: 104 Copynumber: 4.0 Consensus size: 104
36856178 ATTGTTATTG
36856188 TGTTTTTGTTGTTATTATTGTTGATTTTTATTGTTTTTTGTTGCTAGTTAATATTGTTAGTTATT
1 TGTTTTTGTTGTTATTATTGTTGATTTTTATTGTTTTTTGTTGCTAGTTAATATTGTTAGTTATT
36856253 ATTATTGTTAGTAAAAACCTTATTATTGTTAATTATTAT
66 ATTATTGTTAGTAAAAACCTTATTATTGTTAATTATTAT
36856292 TGTTTTTGTTGTTATTATTGTTGATTTTTATTGTTTTTTGTTGCTAGTTAATATTGTTAGTTATT
1 TGTTTTTGTTGTTATTATTGTTGATTTTTATTGTTTTTTGTTGCTAGTTAATATTGTTAGTTATT
36856357 ATTATTGTTAGTAAAAACCTTATTATTGTTAATTATTAT
66 ATTATTGTTAGTAAAAACCTTATTATTGTTAATTATTAT
36856396 TGTTTTTGTTGTTATTATTGTTGATTTTTATTGTTTTTTGTTGCTAGTTAATATTGTTAGTTATT
1 TGTTTTTGTTGTTATTATTGTTGATTTTTATTGTTTTTTGTTGCTAGTTAATATTGTTAGTTATT
36856461 ATTATTGTTAGTAAAAACCTTATTATTGTTAATTATTAT
66 ATTATTGTTAGTAAAAACCTTATTATTGTTAATTATTAT
36856500 TGTTTTTGTTGTTATTATTGTTGATTTTTATTGTTTTTTGTTGCTAGTTAATATTGTTAGTTATT
1 TGTTTTTGTTGTTATTATTGTTGATTTTTATTGTTTTTTGTTGCTAGTTAATATTGTTAGTTATT
36856565 ATTATTGTTAGTAAAAACCTTATTATTGTTAATTATTAT
66 ATTATTGTTAGTAAAAACCTTATTATTGTTAATTATTAT
36856604 TGTT
1 TGTT
36856608 AGTAAAAAAT
Statistics
Matches: 316, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 316 1.00
ACGTcount: A:0.23, C:0.03, G:0.14, T:0.61
Consensus pattern (104 bp):
TGTTTTTGTTGTTATTATTGTTGATTTTTATTGTTTTTTGTTGCTAGTTAATATTGTTAGTTATT
ATTATTGTTAGTAAAAACCTTATTATTGTTAATTATTAT
Found at i:36856408 original size:22 final size:22
Alignment explanation
Indices: 36856379--36856430 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
36856369 AAAAACCTTA
36856379 TTATTGTTAATTATTATTG-TTT
1 TTATTGTT-ATTATTATTGATTT
* *
36856401 TTGTTGTTATTATTGTTGATTT
1 TTATTGTTATTATTATTGATTT
36856423 TTATTGTT
1 TTATTGTT
36856431 TTTTGTTGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.17, C:0.00, G:0.13, T:0.69
Consensus pattern (22 bp):
TTATTGTTATTATTATTGATTT
Found at i:36856512 original size:22 final size:22
Alignment explanation
Indices: 36856483--36856534 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
36856473 AAAAACCTTA
36856483 TTATTGTTAATTATTATTG-TTT
1 TTATTGTT-ATTATTATTGATTT
* *
36856505 TTGTTGTTATTATTGTTGATTT
1 TTATTGTTATTATTATTGATTT
36856527 TTATTGTT
1 TTATTGTT
36856535 TTTTGTTGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.17, C:0.00, G:0.13, T:0.69
Consensus pattern (22 bp):
TTATTGTTATTATTATTGATTT
Found at i:36856632 original size:39 final size:37
Alignment explanation
Indices: 36856562--36856725 Score: 169
Period size: 39 Copynumber: 4.3 Consensus size: 37
36856552 ATTGTTAGTT
36856562 ATTATTATTGTTAGT-AAAAACC--TTATTATTGTTA
1 ATTATTATTGTTAGTAAAAAACCTATTATTATTGTTA
36856596 ATTATTATTGTTAGTAAAAAATCCTTATTATTATTGTTA
1 ATTATTATTGTTAGTAAAAAA-CC-TATTATTATTGTTA
*
36856635 GTTATTATTATTGTTAGTAAAAAA-CTATTATTATTGTTG
1 ---ATTATTATTGTTAGTAAAAAACCTATTATTATTGTTA
* *
36856674 GTTATTATTATTAGTAAAAAAATCCTA--ATTATTGTTA
1 ATTATTATTGTTAGT-AAAAAA-CCTATTATTATTGTTA
36856711 GGTATTATTATTGTT
1 ---ATTATTATTGTT
36856726 GATTTATATT
Statistics
Matches: 110, Mismatches: 6, Indels: 22
0.80 0.04 0.16
Matches are distributed among these distances:
34 15 0.14
35 5 0.05
36 15 0.14
37 15 0.14
39 28 0.25
40 11 0.10
42 21 0.19
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.51
Consensus pattern (37 bp):
ATTATTATTGTTAGTAAAAAACCTATTATTATTGTTA
Found at i:36856640 original size:36 final size:35
Alignment explanation
Indices: 36856559--36856719 Score: 164
Period size: 37 Copynumber: 4.4 Consensus size: 35
36856549 AATATTGTTA
36856559 GTTA-TTATTATTGTTAGT-AAAAACCTTATTATT
1 GTTAGTTATTATTGTTAGTAAAAAACCTTATTATT
*
36856592 GTTAATTATTATTGTTAGTAAAAAATCCTTATTATTATT
1 GTTAGTTATTATTGTTAGTAAAAAA-CC---TTATTATT
*
36856631 GTTAGTTATTATTATTGTTAGTAAAAAACTATTATTATT
1 GTTAG---TTATTATTGTTAGTAAAAAAC-CTTATTATT
* * *
36856670 GTTGGTTATTATTATTAGTAAAAAAATCCTAATTATT
1 GTTAGTTATTATTGTTAGT-AAAAAA-CCTTATTATT
*
36856707 GTTAGGTATTATT
1 GTTAGTTATTATT
36856720 ATTGTTGATT
Statistics
Matches: 108, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
33 4 0.04
34 14 0.13
35 5 0.05
36 15 0.14
37 24 0.22
38 1 0.01
39 24 0.22
41 1 0.01
42 20 0.19
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.50
Consensus pattern (35 bp):
GTTAGTTATTATTGTTAGTAAAAAACCTTATTATT
Found at i:36856641 original size:13 final size:13
Alignment explanation
Indices: 36856584--36856643 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 13
36856574 AGTAAAAACC
*
36856584 TTATTATTGTTAA
1 TTATTATTGTTAG
36856597 TTATTATTGTTAG
1 TTATTATTGTTAG
* ** **
36856610 TAAAAAATCCTTA-
1 T-TATTATTGTTAG
36856623 TTATTATTGTTAG
1 TTATTATTGTTAG
36856636 TTATTATT
1 TTATTATT
36856644 ATTGTTAGTA
Statistics
Matches: 34, Mismatches: 11, Indels: 4
0.69 0.22 0.08
Matches are distributed among these distances:
12 6 0.18
13 22 0.65
14 6 0.18
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.57
Consensus pattern (13 bp):
TTATTATTGTTAG
Found at i:36856641 original size:16 final size:16
Alignment explanation
Indices: 36856620--36856652 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
36856610 TAAAAAATCC
36856620 TTATTATTATTGTTAG
1 TTATTATTATTGTTAG
36856636 TTATTATTATTGTTAG
1 TTATTATTATTGTTAG
36856652 T
1 T
36856653 AAAAAACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (16 bp):
TTATTATTATTGTTAG
Found at i:36856648 original size:76 final size:76
Alignment explanation
Indices: 36856551--36856725 Score: 257
Period size: 76 Copynumber: 2.3 Consensus size: 76
36856541 TGCTAGTTAA
* *
36856551 TATTGTTAGTTATTATTATTGTTAGT-AAAAAC-CTTATTATTGTTAATTATTATTGTTAGT-AA
1 TATTGTTAGTTATTATTATTGTTAGTAAAAAACTATTATTATTGTTAATTATTATTATTAGTAAA
36856613 AAAATCCTTATTAT
66 AAAATCC-TA--AT
**
36856627 TATTGTTAGTTATTATTATTGTTAGTAAAAAACTATTATTATTGTTGGTTATTATTATTAGTAAA
1 TATTGTTAGTTATTATTATTGTTAGTAAAAAACTATTATTATTGTTAATTATTATTATTAGTAAA
36856692 AAAATCCTAAT
66 AAAATCCTAAT
*
36856703 TATTGTTAGGTATTATTATTGTT
1 TATTGTTAGTTATTATTATTGTT
36856726 GATTTATATT
Statistics
Matches: 91, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
76 50 0.55
77 6 0.07
78 26 0.29
79 9 0.10
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (76 bp):
TATTGTTAGTTATTATTATTGTTAGTAAAAAACTATTATTATTGTTAATTATTATTATTAGTAAA
AAAATCCTAAT
Done.