Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 286 of 316
Found at i:94798142 original size:3 final size:3
Alignment explanation
Indices: 94798134--94798172 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
94798124 GAATGGTAAG
94798134 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
94798173 GGTATTGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:94798508 original size:48 final size:48
Alignment explanation
Indices: 94798456--94798563 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 48
94798446 GTGTCGCCAT
* * * *
94798456 ACTGTGACTGTTTCGGATTCGTTCCGATGAGGTACTTAGTGTACCGTG
1 ACTGTGACTGTTCCAGATGCATTCCGATGAGGTACTTAGTGTACCGTG
* * *
94798504 ACTGTGACTGTTCCAGATGCATTCTGATGAGGTACTTTGTGTACTGTG
1 ACTGTGACTGTTCCAGATGCATTCCGATGAGGTACTTAGTGTACCGTG
* *
94798552 ATTGAGACTGTT
1 ACTGTGACTGTT
94798564 ACCGTTACGG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.37
Consensus pattern (48 bp):
ACTGTGACTGTTCCAGATGCATTCCGATGAGGTACTTAGTGTACCGTG
Found at i:94800085 original size:42 final size:43
Alignment explanation
Indices: 94799988--94800141 Score: 156
Period size: 43 Copynumber: 3.6 Consensus size: 43
94799978 TGTTATCGTA
* *
94799988 TAAGACCACGTCT-GGACGTTGGCATCG--ACTTATGATTTACGTG
1 TAAGACCATGTCTGGGACGTTGGCATCGATAC-T-TGATTT-CATG
* *
94800031 TAAGACCATGTCTGGGACGTTAGCATC-CTACTTGATTTCATG
1 TAAGACCATGTCTGGGACGTTGGCATCGATACTTGATTTCATG
** * *
94800073 TAAGACTTTGTCTGGGACAG-TGGCATCGATATTTGATTACATG
1 TAAGACCATGTCTGGGAC-GTTGGCATCGATACTTGATTTCATG
*
94800116 TAAGACCACGTCTGGGACGTTGGCAT
1 TAAGACCATGTCTGGGACGTTGGCAT
94800142 TATACTAGCT
Statistics
Matches: 93, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
42 26 0.28
43 52 0.56
44 13 0.14
45 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACGTTGGCATCGATACTTGATTTCATG
Found at i:94803855 original size:2 final size:2
Alignment explanation
Indices: 94803848--94803872 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
94803838 ATGCCGATTT
94803848 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
94803873 TATCTCACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:94804307 original size:31 final size:31
Alignment explanation
Indices: 94804269--94804341 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
94804259 TAATCTCATC
*
94804269 AATTTTAGTCTCTATACTTTCCAAATTG-GTA
1 AATTTTAGTCTCTATACTTTCCAAAATGTG-A
*
94804300 AATTTTAGTCTCTATACTTTTCAAAATGTGA
1 AATTTTAGTCTCTATACTTTCCAAAATGTGA
*
94804331 AATTTTTGTCT
1 AATTTTAGTCT
94804342 TGAAACAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 37 0.97
32 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.48
Consensus pattern (31 bp):
AATTTTAGTCTCTATACTTTCCAAAATGTGA
Found at i:94822549 original size:24 final size:23
Alignment explanation
Indices: 94822522--94822566 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
94822512 ATATTTAATT
94822522 TTATATAATAAAAAATAAAAATAA
1 TTATATAATAAAAAA-AAAAATAA
* *
94822546 TTATATATTAAATAAAAAAAT
1 TTATATAATAAAAAAAAAAAT
94822567 TCAATTCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
TTATATAATAAAAAAAAAAATAA
Found at i:94825092 original size:30 final size:29
Alignment explanation
Indices: 94825047--94825124 Score: 102
Period size: 31 Copynumber: 2.6 Consensus size: 29
94825037 TTTTTACTAA
*
94825047 AAAAATTATAATTTAATTATTAAACTATTT
1 AAAAATT-TTATTTAATTATTAAACTATTT
* *
94825077 AAAATTTTTTATTTAAATTATTAAATTATTT
1 AAAA-ATTTTATTT-AATTATTAAACTATTT
94825108 AAAAATTTTATTTAATT
1 AAAAATTTTATTTAATT
94825125 CAATCTATTG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 4 0.10
30 17 0.40
31 21 0.50
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (29 bp):
AAAAATTTTATTTAATTATTAAACTATTT
Found at i:94829975 original size:48 final size:48
Alignment explanation
Indices: 94829904--94829995 Score: 175
Period size: 48 Copynumber: 1.9 Consensus size: 48
94829894 AAGATGTTTG
*
94829904 GATTTTAGTTTATAGATTTGTGACTTCAAAATGTTTTTTGAAAATTTA
1 GATTTTAGTTTATAGATTTGTGACTTCAAAATGTTTTATGAAAATTTA
94829952 GATTTTAGTTTATAGATTTGTGACTTCAAAATGTTTTATGAAAA
1 GATTTTAGTTTATAGATTTGTGACTTCAAAATGTTTTATGAAAA
94829996 AACTAAACTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (48 bp):
GATTTTAGTTTATAGATTTGTGACTTCAAAATGTTTTATGAAAATTTA
Found at i:94834830 original size:163 final size:164
Alignment explanation
Indices: 94834543--94834873 Score: 610
Period size: 163 Copynumber: 2.0 Consensus size: 164
94834533 TCATGTCGAA
94834543 AATATAAAATGTAACTTTTCATTTTTATATATTTATAAGTTTTTAAGTTAAAATATTAAAAAAAA
1 AATATAAAATGTAACTTTTCATTTTTATATATTTATAAGTTTTTAAGTTAAAATATT-AAAAAAA
*
94834608 ACTCTCAACTTTATCATATTATTTACAGTATAGATATTAAAATCATATAATTTGATTTGTATTTA
65 ACTCTCAACTTTATCATATTATTTACAGTATAAATATTAAAATCATATAATTTGATTTGTATTTA
94834673 AATAAGTAGACTTAACTAGGTATAAATTTAAAGTC
130 AATAAGTAGACTTAACTAGGTATAAATTTAAAGTC
* *
94834708 AATATAAAATGTAACTTTTCATTTTTATATATTTATAATTTTTTAAGTTAAAATATT-AGAAAAA
1 AATATAAAATGTAACTTTTCATTTTTATATATTTATAAGTTTTTAAGTTAAAATATTAAAAAAAA
*
94834772 CTCTCAACTTTATCATATTATTTACTGTATAAATATTAAAATCATATAATTTGATTTGTATTTAA
66 CTCTCAACTTTATCATATTATTTACAGTATAAATATTAAAATCATATAATTTGATTTGTATTTAA
94834837 ATAAGTAGACTTAACTAGGTATAAATTTAAAGTC
131 ATAAGTAGACTTAACTAGGTATAAATTTAAAGTC
94834871 AAT
1 AAT
94834874 GATTTATAAA
Statistics
Matches: 162, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
163 106 0.65
165 56 0.35
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (164 bp):
AATATAAAATGTAACTTTTCATTTTTATATATTTATAAGTTTTTAAGTTAAAATATTAAAAAAAA
CTCTCAACTTTATCATATTATTTACAGTATAAATATTAAAATCATATAATTTGATTTGTATTTAA
ATAAGTAGACTTAACTAGGTATAAATTTAAAGTC
Found at i:94836140 original size:41 final size:41
Alignment explanation
Indices: 94836095--94836177 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
94836085 AAACAAGGAC
94836095 TTAGTTTATTTGATAGACAAATATCATGTTTCTGTAGTGAA
1 TTAGTTTATTTGATAGACAAATATCATGTTTCTGTAGTGAA
*
94836136 TTAGTTTATTTGGTAGACAAATATCATGTTTCTGTAGTGAA
1 TTAGTTTATTTGATAGACAAATATCATGTTTCTGTAGTGAA
94836177 T
1 T
94836178 AAAATGAGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.45
Consensus pattern (41 bp):
TTAGTTTATTTGATAGACAAATATCATGTTTCTGTAGTGAA
Found at i:94836172 original size:21 final size:21
Alignment explanation
Indices: 94836108--94836172 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
94836098 GTTTATTTGA
94836108 TAGACAAATATCATGTTTCTG
1 TAGACAAATATCATGTTTCTG
** * * * *
94836129 TAGTGAATTAGT-TTATTT-GG
1 TAGACAAATA-TCATGTTTCTG
94836149 TAGACAAATATCATGTTTCTG
1 TAGACAAATATCATGTTTCTG
94836170 TAG
1 TAG
94836173 TGAATAAAAT
Statistics
Matches: 29, Mismatches: 12, Indels: 6
0.62 0.26 0.13
Matches are distributed among these distances:
19 1 0.03
20 12 0.41
21 15 0.52
22 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (21 bp):
TAGACAAATATCATGTTTCTG
Found at i:94836244 original size:24 final size:20
Alignment explanation
Indices: 94836179--94836235 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
94836169 GTAGTGAATA
*
94836179 AAATGAGAAGAGAGAAAAAT
1 AAATGGGAAGAGAGAAAAAT
94836199 AAATGGGAAGAGAGAAAAAT
1 AAATGGGAAGAGAGAAAAAT
94836219 AAATGGGAAGA-AGAAAA
1 AAATGGGAAGAGAGAAAA
94836236 GGAAAATAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
19 6 0.17
20 30 0.83
ACGTcount: A:0.63, C:0.00, G:0.28, T:0.09
Consensus pattern (20 bp):
AAATGGGAAGAGAGAAAAAT
Found at i:94839982 original size:54 final size:54
Alignment explanation
Indices: 94839871--94839983 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 54
94839861 CCAAGACAAC
* **
94839871 TTTTTTTTCTTTTGGAACATTAATGGCCGACACCACCTTTTTCGAGTCTTGAAT
1 TTTTTTTTCTTCTGGAACATTAATGGCCGACACCACCTTTTTCGAGTCTCCAAT
* * * * *
94839925 TTTTTTTTGTTCTGGGACATTGATGGCC-AGCATCACCTTTTTCGGGTC-CCAAT
1 TTTTTTTTCTTCTGGAACATTAATGGCCGA-CACCACCTTTTTCGAGTCTCCAAT
94839978 TTTTTT
1 TTTTTT
94839984 CCTTTTTCTC
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
53 10 0.20
54 40 0.80
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (54 bp):
TTTTTTTTCTTCTGGAACATTAATGGCCGACACCACCTTTTTCGAGTCTCCAAT
Found at i:94845098 original size:44 final size:45
Alignment explanation
Indices: 94845045--94845147 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
94845035 TGTCTTTGAC
* * *
94845045 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
94845089 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
*
94845135 AAGGACTTACATG
1 ATGGACTTACATG
94845148 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 33 0.66
46 17 0.34
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:94845150 original size:46 final size:44
Alignment explanation
Indices: 94845064--94845152 Score: 133
Period size: 46 Copynumber: 2.0 Consensus size: 44
94845054 CATGAATTAT
* *
94845064 TCCTGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAA
1 TCCTGTCTCCAAAGCCATATATAATAAGGACTTACATGGCTCAA
*
94845108 TCCTGTCTCCAAAGCCATATTTCTAATAAGGACTTACATGGCTCA
1 TCCTGTCTCCAAAGCCATA--TATAATAAGGACTTACATGGCTCA
94845153 TTTCTGTTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 18 0.45
46 22 0.55
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.31
Consensus pattern (44 bp):
TCCTGTCTCCAAAGCCATATATAATAAGGACTTACATGGCTCAA
Found at i:94849322 original size:14 final size:17
Alignment explanation
Indices: 94849291--94849327 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
94849281 ATTATAAAGG
94849291 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
94849308 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
94849322 ATATTA
1 ATATTA
94849328 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:94849503 original size:14 final size:14
Alignment explanation
Indices: 94849477--94849527 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
94849467 GAAAACAAAA
94849477 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
94849491 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
94849505 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
94849520 G-AATAAAA
1 GAAATAAAA
94849528 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:94849538 original size:17 final size:16
Alignment explanation
Indices: 94849516--94849549 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
94849506 AAGTTAAAAT
94849516 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
94849533 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
94849549 A
1 A
94849550 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:94850700 original size:37 final size:39
Alignment explanation
Indices: 94850641--94850736 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
94850631 CGGATAGATT
* * * *
94850641 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
94850678 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
94850717 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
94850737 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:94853337 original size:35 final size:35
Alignment explanation
Indices: 94853247--94853377 Score: 101
Period size: 35 Copynumber: 3.8 Consensus size: 35
94853237 ACCTATAGTT
* *
94853247 CAAATTCAATA-GAACATCACATATAGCCGAATATG
1 CAAATTCAATATAAACATCACATATA-CCGAATATA
* * *
94853282 CACATTCAAGT-T-AACTTCACATATGACCGAATACA
1 CAAATTCAA-TATAAACATCACATAT-ACCGAATATA
* * *
94853317 CAAATTCAATATAAAC-TCACATGTAATCGAATATT
1 CAAATTCAATATAAACATCACATAT-ACCGAATATA
* *
94853352 CAAGTTCAATATAAGC-TCACATATAC
1 CAAATTCAATATAAACATCACATATAC
94853378 TTACCTACGT
Statistics
Matches: 77, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
34 2 0.03
35 70 0.91
36 5 0.06
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (35 bp):
CAAATTCAATATAAACATCACATATACCGAATATA
Found at i:94866188 original size:27 final size:28
Alignment explanation
Indices: 94866158--94866212 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
94866148 TTTAAATATT
94866158 TTTAA-ATTTT-CATAATTTTTAAAAAAA
1 TTTAATATTTTGCA-AATTTTTAAAAAAA
* *
94866185 TTTAATGTTTTGCAATTTTTTAAAAAAA
1 TTTAATATTTTGCAAATTTTTAAAAAAA
94866213 ATAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.21
28 17 0.71
29 2 0.08
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (28 bp):
TTTAATATTTTGCAAATTTTTAAAAAAA
Found at i:94869534 original size:41 final size:42
Alignment explanation
Indices: 94869469--94869561 Score: 134
Period size: 41 Copynumber: 2.2 Consensus size: 42
94869459 CGGGTTTCCT
* * ** *
94869469 AATTGTTTTTGGACTTTGAGCTTTTGGACTTTATTTAGATAA
1 AATTATTTTTGGACTTTGAACTTTTCAACTTTAATTAGATAA
94869511 AATTATTTTTGGA-TTTGAACTTTTCAACTTTAATTAGATAA
1 AATTATTTTTGGACTTTGAACTTTTCAACTTTAATTAGATAA
94869552 AATTATTTTT
1 AATTATTTTT
94869562 TAGATTTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 34 0.74
42 12 0.26
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (42 bp):
AATTATTTTTGGACTTTGAACTTTTCAACTTTAATTAGATAA
Found at i:94877318 original size:6 final size:6
Alignment explanation
Indices: 94877307--94877399 Score: 179
Period size: 6 Copynumber: 15.7 Consensus size: 6
94877297 TGATTAATAT
94877307 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
94877355 ATATAC ATATAC A-ATAC ATATAC ATATAC ATATAC ATATAC ATAT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
94877400 GTGTGTATGT
Statistics
Matches: 86, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.06
6 81 0.94
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:94880690 original size:27 final size:27
Alignment explanation
Indices: 94880637--94880692 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
94880627 TACTGCATTC
* *
94880637 ATTTGTTTTTGTTTTGATGTATCAAAA
1 ATTTGTATTTGTTTTGATGTATAAAAA
* *
94880664 ATTTGTATTTGTTTTGATTTTTAAAAA
1 ATTTGTATTTGTTTTGATGTATAAAAA
94880691 AT
1 AT
94880693 GAGCTTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (27 bp):
ATTTGTATTTGTTTTGATGTATAAAAA
Found at i:94880753 original size:19 final size:19
Alignment explanation
Indices: 94880717--94880753 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
94880707 TATTTTTATT
* *
94880717 AAAAAAATTAATTTTTAAA
1 AAAAAAATTAAATATTAAA
94880736 AAAAAAATTAAATATTAA
1 AAAAAAATTAAATATTAA
94880754 TTCAACTAAT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAAAATTAAATATTAAA
Found at i:94887595 original size:21 final size:21
Alignment explanation
Indices: 94887570--94887675 Score: 84
Period size: 20 Copynumber: 5.3 Consensus size: 21
94887560 TAGCCTTCAG
*
94887570 GCTTCTGTTTAGCACTTGTGT
1 GCTTCAGTTTAGCACTTGTGT
94887591 GCTTCAG-TTAGC-CTTCG-G-
1 GCTTCAGTTTAGCACTT-GTGT
*
94887609 GCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTTAGCACTTGTGT
*
94887630 GCTTCA-ATTAGC-CTTCG-G-
1 GCTTCAGTTTAGCACTT-GTGT
* * *
94887648 GCTTCCGTTCAGCACTTATGT
1 GCTTCAGTTTAGCACTTGTGT
94887669 GCTTCAG
1 GCTTCAG
94887676 CTAGACTTCG
Statistics
Matches: 66, Mismatches: 9, Indels: 20
0.69 0.09 0.21
Matches are distributed among these distances:
18 11 0.17
19 18 0.27
20 20 0.30
21 17 0.26
ACGTcount: A:0.12, C:0.25, G:0.24, T:0.39
Consensus pattern (21 bp):
GCTTCAGTTTAGCACTTGTGT
Found at i:94887598 original size:39 final size:39
Alignment explanation
Indices: 94887552--94887691 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 39
94887542 CCTCTGATGA
* *
94887552 GCTTCAGTTAGCCTTCAGGCTTCTGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
94887591 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* * *
94887630 GCTTCAATTAGCCTTCGGGCTTCCGTTCAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
94887669 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
94887692 AAATCATGAT
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.13, C:0.26, G:0.24, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
Found at i:94889831 original size:64 final size:64
Alignment explanation
Indices: 94889730--94889850 Score: 224
Period size: 64 Copynumber: 1.9 Consensus size: 64
94889720 ATAGGGGTTG
*
94889730 CACGGGTGAGAACGTAGACTGGGACAGACCGTATGTCCCTAGTTCGAAGGTTACACTAGAGTCA
1 CACGGGTGAGAACATAGACTGGGACAGACCGTATGTCCCTAGTTCGAAGGTTACACTAGAGTCA
*
94889794 CACGGGTGAGGACATAGACTGGGACAGACCGTATGTCCCTAGTTCGAAGGTTACACT
1 CACGGGTGAGAACATAGACTGGGACAGACCGTATGTCCCTAGTTCGAAGGTTACACT
94889851 GCCTGAGACA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (64 bp):
CACGGGTGAGAACATAGACTGGGACAGACCGTATGTCCCTAGTTCGAAGGTTACACTAGAGTCA
Found at i:94892736 original size:20 final size:20
Alignment explanation
Indices: 94892711--94892753 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
94892701 TATATTACAT
94892711 CAAATCTTAATTTGACAATG
1 CAAATCTTAATTTGACAATG
*
94892731 CAAATCTTAATTTGATAATG
1 CAAATCTTAATTTGACAATG
94892751 CAA
1 CAA
94892754 TTTGGGGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (20 bp):
CAAATCTTAATTTGACAATG
Found at i:94922523 original size:18 final size:18
Alignment explanation
Indices: 94922500--94922562 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
94922490 TATCGTGATT
94922500 TGAAGCCCGAAGTCTAAC
1 TGAAGCCCGAAGTCTAAC
**
94922518 TGAAGCACATAAGTGCTAAAC
1 TGAAGC-CCGAAGT-CT-AAC
* *
94922539 GGAAGCCCGAAGGCTAAC
1 TGAAGCCCGAAGTCTAAC
*
94922557 TAAAGC
1 TGAAGC
94922563 ACACAAGTGT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
18 13 0.38
19 7 0.21
20 6 0.18
21 8 0.24
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.14
Consensus pattern (18 bp):
TGAAGCCCGAAGTCTAAC
Found at i:94922543 original size:21 final size:21
Alignment explanation
Indices: 94922519--94922583 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
94922509 AAGTCTAACT
*
94922519 GAAGCACATAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
*
94922540 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACG
* *
94922558 AAAGCACACAAGTGTTAAACG
1 GAAGCACACAAGTGCTAAACG
94922579 GAAGC
1 GAAGC
94922584 CCGAAGGCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
18 7 0.21
19 7 0.21
20 7 0.21
21 12 0.36
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.12
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACG
Found at i:94922556 original size:39 final size:39
Alignment explanation
Indices: 94922501--94922601 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
94922491 ATCGTGATTT
* * *
94922501 GAAGCCCGAAGTCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGCTAAACG
*
94922540 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGTTAAACG
1 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGCTAAACG
94922579 GAAGCCCGAAGGCTAACTAAAGC
1 GAAGCCCGAAGGCTAACTAAAGC
94922602 TCATCAGAGC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.40, C:0.24, G:0.24, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTAAAGCACACAAGTGCTAAACG
Found at i:94924104 original size:26 final size:24
Alignment explanation
Indices: 94924063--94924110 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
94924053 AGTTGTATGA
*
94924063 AAAAATAATAACATATACCATAGT
1 AAAAATAATAAAATATACCATAGT
*
94924087 AAAAATAAATTAAAATATGCCATA
1 AAAAAT-AA-TAAAATATACCATA
94924111 TACGTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 2 0.10
26 12 0.60
ACGTcount: A:0.60, C:0.10, G:0.04, T:0.25
Consensus pattern (24 bp):
AAAAATAATAAAATATACCATAGT
Found at i:94925424 original size:180 final size:180
Alignment explanation
Indices: 94925127--94926101 Score: 1468
Period size: 180 Copynumber: 5.5 Consensus size: 180
94925117 AGATGAGATT
* * * ** **
94925127 AAATCTGCTCTATTGCCGATACATGGAAATAAAATT--CCAT-T-TTCA-ATCTGTTCCGCTGCA
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTACTCCGCTGCA
* * * *
94925187 ACTTCATGGAGACAAAATCTTCAGTTCTCAGTCTGCTTCCTTGTTACCTCAGGAAGATAAGACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
*
94925252 ATTCTTCAACCTGCTCTTTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
* * *
94925302 AAATCTGCTCCATTGCCAATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCTGCTGCA
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTACTCCGCTGCA
*
94925367 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCAACCTCAGGAAGATAAGACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
* * * ** * *
94925432 ATTTTTCAACCTGTTCTCCTGCTATTTTAGAGAGATAAGGC-T--TAGTA
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
* * *
94925479 AAATCTGCTCCATTGTCGATACATGGAGATAAGATTCACCATTTGTGAAGATCTGCTCCGCTGCA
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTACTCCGCTGCA
*
94925544 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
*
94925609 ATTCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
* *
94925659 AAATCTGCTCCATTGCTGATACATAGAGATAAGATTCACCATCTGTGAAGATCTACTCCGCTGCA
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTACTCCGCTGCA
* *
94925724 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCCGCTTCCTTGCTACCTCAGGAACATAAGACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
*
94925789 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTT-GTAGTG
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
* * * * * *
94925838 AAATCTGCTCCATTGCCGATATATGAAGATAAGATT--CCATCTGCGAGGATCTATTCCACTGCA
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTACTCCGCTGCA
* * *
94925901 ACTTCAGGGAAATAAAATCTTCAATTCTCAGTCCGCTTCCTTGCTACCTCAGGAAGATAAAACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
* *
94925966 ATTCTTCAACCTGCTCCCTTGCTACTTCAGAGAGATGAGGCTTGGTAGTA
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
*
94926016 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTACTCCACTGCA
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTACTCCGCTGCA
94926081 ACTTCAGGGAGATAAAATCTT
66 ACTTCAGGGAGATAAAATCTT
94926102 TAATCTTTAC
Statistics
Matches: 724, Mismatches: 65, Indels: 17
0.90 0.08 0.02
Matches are distributed among these distances:
175 32 0.04
177 292 0.40
178 41 0.06
179 40 0.06
180 319 0.44
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (180 bp):
AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTACTCCGCTGCA
ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTA
Found at i:94925902 original size:357 final size:354
Alignment explanation
Indices: 94925127--94926101 Score: 1515
Period size: 357 Copynumber: 2.7 Consensus size: 354
94925117 AGATGAGATT
* * *
94925127 AAATCTGCTCTATTGCCGATACATGGAA-ATAAAATTCCATTTTC-A-ATCTGTTCCGCTGCAAC
1 AAATCTGCTCCATTGCCGATACAT-GAAGATAAGATTCCATTTGCGAGATCTGTTCCGCTGCAAC
* * * *
94925189 TTCATGGAGACAAAATCTTCAGTTCTCAGTCTGCTTCCTTGTTACCTCAGGAAGATAAGACTCAT
65 TTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAT
**
94925254 TCTTCAACCTGCTCTTTTGCTACCTCAGAGAGATGAGGCTTGGTAGTAAAATCTGCTCCATTGCC
130 TCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTAAAATCTGCTCCATTGCC
* * *
94925319 AATACATGGAGATAAGATTCACCATCTGTGAAGATCTGCTCTGCTGCAACTTCAGGGAGATAAAA
195 GATACATGGAGATAAGATTCACCATCTGTGAAGATCTACTCCGCTGCAACTTCAGGGAGATAAAA
* * * *
94925384 TCTTCAATTCTCAGTCTGCTTCCTTGCAACCTCAGGAAGATAAGACTCATTTTTCAACCTGTTCT
260 TCTTCAATTCTCAGTCCGCTTCCTTGCAACCTCAGGAACATAAGACTCATTCTTCAACCTGCTCT
** *
94925449 CCTGCTATTTTAGAGAGATAAGGCTTAGTA
325 CCTGCTACCTCAGAGAGATAAGGCTTAGTA
* * * *
94925479 AAATCTGCTCCATTGTCGATACATGGAGATAAGATTCACCATTTGTGAAGATCTGCTCCGCTGCA
1 AAATCTGCTCCATTGCCGATACATGAAGATAAGATT--CCATTTGCG-AGATCTGTTCCGCTGCA
*
94925544 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTC
63 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
94925609 ATTCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTAAAATCTGCTCCATTG
128 ATTCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTAAAATCTGCTCCATTG
* *
94925674 CTGATACATAGAGATAAGATTCACCATCTGTGAAGATCTACTCCGCTGCAACTTCAGGGAGATAA
193 CCGATACATGGAGATAAGATTCACCATCTGTGAAGATCTACTCCGCTGCAACTTCAGGGAGATAA
*
94925739 AATCTTCAATTCTCAGTCCGCTTCCTTGCTACCTCAGGAACATAAGACTCATTCTTCAACCTGCT
258 AATCTTCAATTCTCAGTCCGCTTCCTTGCAACCTCAGGAACATAAGACTCATTCTTCAACCTGCT
* * *
94925804 CTCTTGCTACCTCAGAGAGATGAGGCTTGTAGTG
323 CTCCTGCTACCTCAGAGAGATAAGGC-T-TAGTA
* * * *
94925838 AAATCTGCTCCATTGCCGATATATGAAGATAAGATTCCATCTGCGAGGATCTATTCCACTGCAAC
1 AAATCTGCTCCATTGCCGATACATGAAGATAAGATTCCATTTGCGA-GATCTGTTCCGCTGCAAC
* * *
94925903 TTCAGGGAAATAAAATCTTCAATTCTCAGTCCGCTTCCTTGCTACCTCAGGAAGATAAAACTCAT
65 TTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAT
*
94925968 TCTTCAACCTGCTCCCTTGCTACTTCAGAGAGATGAGGCTTGGTAGTAAAATCTGCTCCATTGCC
130 TCTTCAACCTGCTCCCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTAAAATCTGCTCCATTGCC
*
94926033 GATACATGGAGATAAGATTCACCATCTGTGAAGATCTACTCCACTGCAACTTCAGGGAGATAAAA
195 GATACATGGAGATAAGATTCACCATCTGTGAAGATCTACTCCGCTGCAACTTCAGGGAGATAAAA
94926098 TCTT
260 TCTT
94926102 TAATCTTTAC
Statistics
Matches: 568, Mismatches: 46, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
351 2 0.00
352 29 0.05
354 6 0.01
356 2 0.00
357 491 0.86
358 1 0.00
359 37 0.07
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (354 bp):
AAATCTGCTCCATTGCCGATACATGAAGATAAGATTCCATTTGCGAGATCTGTTCCGCTGCAACT
TCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATT
CTTCAACCTGCTCCCTTGCTACCTCAGAGAGATGAGGCTTGGTAGTAAAATCTGCTCCATTGCCG
ATACATGGAGATAAGATTCACCATCTGTGAAGATCTACTCCGCTGCAACTTCAGGGAGATAAAAT
CTTCAATTCTCAGTCCGCTTCCTTGCAACCTCAGGAACATAAGACTCATTCTTCAACCTGCTCTC
CTGCTACCTCAGAGAGATAAGGCTTAGTA
Found at i:94937432 original size:26 final size:25
Alignment explanation
Indices: 94937390--94937446 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
94937380 CAAAGCTTGT
* *
94937390 TTTTTCTTATATTATGTACTT-TAAA
1 TTTTTATTATATCATGTA-TTCTAAA
*
94937415 TTTTTATTATCATCATGTATTCTAAG
1 TTTTTATTAT-ATCATGTATTCTAAA
94937441 TTTTTA
1 TTTTTA
94937447 CATATTTTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.26, C:0.09, G:0.05, T:0.60
Consensus pattern (25 bp):
TTTTTATTATATCATGTATTCTAAA
Found at i:94943254 original size:21 final size:21
Alignment explanation
Indices: 94943230--94943294 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
94943220 AAGTCTAGCT
*
94943230 GAAGCACATAAGTGTTAAACG
1 GAAGCACACAAGTGTTAAACG
* *
94943251 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGTTAAACG
*
94943269 AAAGCACACAAGTGTTAAACG
1 GAAGCACACAAGTGTTAAACG
94943290 GAAGC
1 GAAGC
94943295 CTGAAGGCTA
Statistics
Matches: 32, Mismatches: 7, Indels: 10
0.65 0.14 0.20
Matches are distributed among these distances:
18 7 0.22
19 6 0.19
20 7 0.22
21 12 0.38
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.14
Consensus pattern (21 bp):
GAAGCACACAAGTGTTAAACG
Found at i:94943274 original size:39 final size:39
Alignment explanation
Indices: 94943212--94943312 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 39
94943202 ATCATGATTT
* * * *
94943212 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGTTAAACG
1 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGTTAAACG
94943251 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGTTAAACG
1 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGTTAAACG
*
94943290 GAAGCCTGAAGGCTAACTAAAGC
1 GAAGCCCGAAGGCTAACTAAAGC
94943313 TCATCAGAGC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.39, C:0.22, G:0.25, T:0.15
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTAAAGCACACAAGTGTTAAACG
Found at i:94944814 original size:26 final size:24
Alignment explanation
Indices: 94944773--94944820 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
94944763 AGTTATATGA
*
94944773 AAAAATAATAACATATACCATAGT
1 AAAAATAATAAAATATACCATAGT
*
94944797 AAAAATAAATTAAAATATGCCATA
1 AAAAAT-AA-TAAAATATACCATA
94944821 TACGTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 2 0.10
26 12 0.60
ACGTcount: A:0.60, C:0.10, G:0.04, T:0.25
Consensus pattern (24 bp):
AAAAATAATAAAATATACCATAGT
Found at i:94955103 original size:30 final size:30
Alignment explanation
Indices: 94955067--94955194 Score: 229
Period size: 30 Copynumber: 4.3 Consensus size: 30
94955057 AGGTACAAGT
*
94955067 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
94955097 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
94955127 GGTAGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
94955157 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
94955187 GGTGGTGG
1 GGTGGTGG
94955195 CAAAGGCTAG
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 94 1.00
ACGTcount: A:0.20, C:0.06, G:0.50, T:0.24
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:94962373 original size:29 final size:29
Alignment explanation
Indices: 94962340--94962397 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
94962330 AAGGTTTTCA
94962340 AGCTTTTAGTTTCATTTTCAAGTAAGTCG
1 AGCTTTTAGTTTCATTTTCAAGTAAGTCG
94962369 AGCTTTTAGTTTCATTTTCAAGTAAGTCG
1 AGCTTTTAGTTTCATTTTCAAGTAAGTCG
94962398 TTACCTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.45
Consensus pattern (29 bp):
AGCTTTTAGTTTCATTTTCAAGTAAGTCG
Found at i:94969344 original size:24 final size:25
Alignment explanation
Indices: 94969317--94969363 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
94969307 AATTATAGGG
94969317 TAAAATT-AAAATAAATAAACAATA
1 TAAAATTGAAAATAAATAAACAATA
*
94969341 TAAAATTGAAATTAAATAAACAA
1 TAAAATTGAAAATAAATAAACAA
94969364 AGGATTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (25 bp):
TAAAATTGAAAATAAATAAACAATA
Found at i:94969577 original size:311 final size:310
Alignment explanation
Indices: 94969014--94969646 Score: 1022
Period size: 311 Copynumber: 2.0 Consensus size: 310
94969004 ATAAATAAAT
*
94969014 AAATAAATAAACAATATAAAATTGAAATTAAATAGACAGGATTTAATTGAAATCTAAACGAAATT
1 AAATAAATAAACAATATAAAATTGAAATTAAATAAACAGGATTTAATTGAAATCTAAACGAAATT
*
94969079 AGGGGGTCATAAATTGCAAAAATAATAAAAAATAGATTGATAAGGATCAATGTGCAACGCGCTAA
66 AGGGGGTCATAAATTGC-AAAATAATAAAAAATAGACTGATAAGGATCAATGTGCAACGCGCTAA
* *
94969144 AAAGGATAGGGATCGAATAGGAAAATATCTCTTGTCTTTATGTACACCATTTCCCAAAAGGACTA
130 AAAAGATAGGGACCGAATAGGAAAATATCTCTTGTCTTTATGTACACCATTTCCCAAAAGGACTA
* * * *
94969209 AAATATAGCACACGTGAAAGTGCGAGGACCAATTGGGAAATTATTTCTTGTCCCCAAAACGAAGT
195 AAATATAGCACACGTGAAAGTGCGAGGACCAACTGGAAAATTATTCCCTGTCCCCAAAACGAAGT
* ** * *
94969274 TGTT-CCTCATTGTGTTAAAATGAAATAAAATAAAATTATAGGGTAAAATTA
260 CGTTCCCT-AGGGAGCTAAAATGAAATAAAATAAAATTATAGGGTAAAATTA
* *
94969325 AAATAAATAAACAATATAAAATTGAAATTAAATAAACAAAGGATTTAATTGAAATTTAAATGAAA
1 AAATAAATAAACAATATAAAATTGAAATTAAATAAAC--AGGATTTAATTGAAATCTAAACGAAA
94969390 TTAGGGGGTCATAAATTGC-AAATAATAAAAAATAGACTGATAAGGATCAATGTGCAACGCGCTA
64 TTAGGGGGTCATAAATTGCAAAATAATAAAAAATAGACTGATAAGGATCAATGTGCAACGCGCTA
*
94969454 AAAAAGATAGGGACCGAATAGGAAAATATTTCTTGTCTTTATGTACACCATTTCCCAAAAGGACT
129 AAAAAGATAGGGACCGAATAGGAAAATATCTCTTGTCTTTATGTACACCATTTCCCAAAAGGACT
* *
94969519 AAAATATAGCACACGTGAAAGTGC-AGGGACTAACTGGAAAATTATTCCCTGTCCCCAAAATGAA
194 AAAATATAGCACACGTGAAAGTGCGA-GGACCAACTGGAAAATTATTCCCTGTCCCCAAAACGAA
94969583 GTCGTTCCCTAGGGAGCTAAAATGAAATAAAATAAAATTATAGGGTAAAATTA
258 GTCGTTCCCTAGGGAGCTAAAATGAAATAAAATAAAATTATAGGGTAAAATTA
*
94969636 AAAGAAA-AAAC
1 AAATAAATAAAC
94969647 GAAATATGAC
Statistics
Matches: 299, Mismatches: 19, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
310 5 0.02
311 248 0.83
312 3 0.01
313 43 0.14
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (310 bp):
AAATAAATAAACAATATAAAATTGAAATTAAATAAACAGGATTTAATTGAAATCTAAACGAAATT
AGGGGGTCATAAATTGCAAAATAATAAAAAATAGACTGATAAGGATCAATGTGCAACGCGCTAAA
AAAGATAGGGACCGAATAGGAAAATATCTCTTGTCTTTATGTACACCATTTCCCAAAAGGACTAA
AATATAGCACACGTGAAAGTGCGAGGACCAACTGGAAAATTATTCCCTGTCCCCAAAACGAAGTC
GTTCCCTAGGGAGCTAAAATGAAATAAAATAAAATTATAGGGTAAAATTA
Found at i:94975668 original size:43 final size:43
Alignment explanation
Indices: 94975611--94975754 Score: 200
Period size: 43 Copynumber: 3.3 Consensus size: 43
94975601 TTTATGTAAG
*
94975611 AAAACGCCGCTAAAGAACGTGACCTTTAGCTGCGCTTTTTGTA
1 AAAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTTGTA
* *
94975654 AAAACACCACTAAAGAACGTGACCTTTAGCGGCGCTTTTTGTA
1 AAAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTTGTA
* * * *
94975697 CAAATGCCGCTAAAGAACTTGACCTTTAGCGGCGCTTTTCT-TC
1 AAAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTT-TGTA
*
94975740 AAAACGTCGCTAAAG
1 AAAACGCCGCTAAAG
94975755 GTTACGTTCT
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 87 0.99
44 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (43 bp):
AAAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTTGTA
Found at i:94976197 original size:21 final size:21
Alignment explanation
Indices: 94976173--94976212 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
94976163 CTTCCCTCGC
*
94976173 TGCTGCCTCCTCTTTAAGTGA
1 TGCTGCCTCCGCTTTAAGTGA
94976194 TGCTGCCTCCGCTTTAAGT
1 TGCTGCCTCCGCTTTAAGT
94976213 TAAGCAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.30, G:0.20, T:0.38
Consensus pattern (21 bp):
TGCTGCCTCCGCTTTAAGTGA
Found at i:94976605 original size:13 final size:14
Alignment explanation
Indices: 94976579--94976607 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
94976569 ACTAACGACA
94976579 AATTAAACCATTAT
1 AATTAAACCATTAT
94976593 AATTAAA-CATTAT
1 AATTAAACCATTAT
94976606 AA
1 AA
94976608 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:94979595 original size:16 final size:17
Alignment explanation
Indices: 94979576--94979610 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
94979566 ATTATTTAAT
94979576 ATATAAATT-AAAAACA
1 ATATAAATTAAAAAACA
94979592 ATATAAATTAAAAAACA
1 ATATAAATTAAAAAACA
94979609 AT
1 AT
94979611 CAGTTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
ATATAAATTAAAAAACA
Found at i:94979741 original size:16 final size:16
Alignment explanation
Indices: 94979720--94979773 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
94979710 AGAATTAGAT
94979720 AAAATTTGAAATCTTG
1 AAAATTTGAAATCTTG
94979736 AAAA-TT---A--TTG
1 AAAATTTGAAATCTTG
*
94979746 AAAATTTGAAATCTTT
1 AAAATTTGAAATCTTG
94979762 AAAATTTGAAAT
1 AAAATTTGAAAT
94979774 TATTTAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
10 7 0.23
11 2 0.06
12 1 0.03
14 1 0.03
15 2 0.06
16 18 0.58
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (16 bp):
AAAATTTGAAATCTTG
Found at i:94979966 original size:7 final size:7
Alignment explanation
Indices: 94979954--94980100 Score: 91
Period size: 7 Copynumber: 20.4 Consensus size: 7
94979944 TCTAATTCTA
94979954 AAACCAT
1 AAACCAT
94979961 AAACCAT
1 AAACCAT
94979968 AAACCAT
1 AAACCAT
*
94979975 AAATCAT
1 AAACCAT
*
94979982 AAATCCTT
1 AAA-CCAT
*
94979990 AAACCTT
1 AAACCAT
94979997 AAAATCC-T
1 -AAA-CCAT
**
94980005 AAACCCC
1 AAACCAT
* *
94980012 AACCCTT
1 AAACCAT
94980019 AAACCAT
1 AAACCAT
94980026 AAACCAT
1 AAACCAT
*
94980033 AATTCC-T
1 AA-ACCAT
94980040 AAACCCAT
1 AAA-CCAT
*
94980048 AATCCAT
1 AAACCAT
*
94980055 AATCCAT
1 AAACCAT
*
94980062 AAACCTT
1 AAACCAT
**
94980069 AAAATAT
1 AAACCAT
*
94980076 TAACTCAT
1 AAAC-CAT
94980084 AAACCAT
1 AAACCAT
*
94980091 AAACCCT
1 AAACCAT
94980098 AAA
1 AAA
94980101 AGATATGCCC
Statistics
Matches: 110, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
6 2 0.02
7 87 0.79
8 19 0.17
9 2 0.02
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (7 bp):
AAACCAT
Found at i:94979977 original size:22 final size:21
Alignment explanation
Indices: 94979954--94980100 Score: 91
Period size: 22 Copynumber: 6.8 Consensus size: 21
94979944 TCTAATTCTA
94979954 AAACCATAAACCATAAACCAT
1 AAACCATAAACCATAAACCAT
* * *
94979975 AAATCATAAATCCTTAAACCTT
1 AAACCATAAA-CCATAAACCAT
** * *
94979997 AAAATCC-TAAACCCCAACCCTT
1 -AAA-CCATAAACCATAAACCAT
*
94980019 AAACCATAAACCATAATTCC-T
1 AAACCATAAACCATAA-ACCAT
* *
94980040 AAACCCATAATCCATAATCCAT
1 AAA-CCATAAACCATAAACCAT
* ** *
94980062 AAACCTTAAAATATTAACTCAT
1 AAACCATAAACCATAAAC-CAT
*
94980084 AAACCATAAACCCTAAA
1 AAACCATAAACCATAAA
94980101 AGATATGCCC
Statistics
Matches: 96, Mismatches: 22, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
20 2 0.02
21 36 0.38
22 50 0.52
23 7 0.07
24 1 0.01
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (21 bp):
AAACCATAAACCATAAACCAT
Found at i:94979984 original size:29 final size:29
Alignment explanation
Indices: 94979951--94980101 Score: 103
Period size: 29 Copynumber: 5.2 Consensus size: 29
94979941 ACCTCTAATT
94979951 CTAAAACCATAAACCATAAACCATAAATC
1 CTAAAACCATAAACCATAAACCATAAATC
* * * *
94979980 ATAAATCCTTAAACCTTAAAATCC-TAAA-C
1 CTAAAACCATAAACCAT-AAA-CCATAAATC
** * * *
94980009 CCCAACCCTTAAACCATAAACCATAATTC
1 CTAAAACCATAAACCATAAACCATAAATC
* * *
94980038 CTAAACCCATAATCCATAATCCATAAA-C
1 CTAAAACCATAAACCATAAACCATAAATC
* * *
94980066 CTTAAAA-TATTAACTCATAAACCATAAACC
1 C-TAAAACCATAAAC-CATAAACCATAAATC
94980096 CTAAAA
1 CTAAAA
94980102 GATATGCCCT
Statistics
Matches: 94, Mismatches: 21, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
27 2 0.02
28 12 0.13
29 69 0.73
30 9 0.10
31 2 0.02
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (29 bp):
CTAAAACCATAAACCATAAACCATAAATC
Found at i:94980128 original size:14 final size:14
Alignment explanation
Indices: 94980059--94980128 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
94980049 ATCCATAATC
*
94980059 CATAAACCTTAAAA
1 CATAAACCCTAAAA
* * * *
94980073 TATTAACTCATAAAC
1 CATAAAC-CCTAAAA
94980088 CATAAACCCTAAAA
1 CATAAACCCTAAAA
* **
94980102 GATATGCCCTAAAA
1 CATAAACCCTAAAA
*
94980116 CATAAACCTTAAA
1 CATAAACCCTAAA
94980129 CTATAATGAT
Statistics
Matches: 40, Mismatches: 15, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
14 30 0.75
15 10 0.25
ACGTcount: A:0.51, C:0.23, G:0.03, T:0.23
Consensus pattern (14 bp):
CATAAACCCTAAAA
Found at i:94980279 original size:29 final size:28
Alignment explanation
Indices: 94980245--94980309 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 28
94980235 AGCTTTAAAA
94980245 TTATTTTAA-ATAATAGTATTTTAAAT-TTT
1 TTATTTTAACAT-ATA-T-TTTTAAATGTTT
*
94980274 TTATTTTTAACATATATTTTTATATGTTT
1 TTA-TTTTAACATATATTTTTAAATGTTT
94980303 TTATTTT
1 TTATTTT
94980310 CAATTTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
28 11 0.34
29 10 0.31
30 9 0.28
31 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (28 bp):
TTATTTTAACATATATTTTTAAATGTTT
Found at i:94980639 original size:115 final size:116
Alignment explanation
Indices: 94980430--94980676 Score: 372
Period size: 115 Copynumber: 2.1 Consensus size: 116
94980420 TAAAAGGTTT
* * *
94980430 TTTGCGGCGTTTTTTGACAAAGCGCCACTAAAGCTCGATCTATAGCAGCGTTTTTCAAAAAGCGC
1 TTTGCGGCGTTTTTTGAAAAAACGCCACTAAAGCTCGATCTATAGCAGCATTTTTCAAAAAGCGC
*
94980495 CGCTAATGCCATTAAGGCTCAACAAAAAACGACGGCGTGTTGATGAATTAA
66 CGCTAATGCCACTAAGGCTCAACAAAAAACGACGGCGTGTTGATGAATTAA
* *
94980546 TTTGCGGCGTTTTTT-AAAAAACGCCATTAATGCTCGATCTATAG-AGACATTTTTCAAAAAGCG
1 TTTGCGGCGTTTTTTGAAAAAACGCCACTAAAGCTCGATCTATAGCAG-CATTTTTCAAAAAGCG
* * * *
94980609 CCGCTAATGTCACTAATGCTCAACAAAAAACGACGGTGTGTTGATGAATTAT
65 CCGCTAATGCCACTAAGGCTCAACAAAAAACGACGGCGTGTTGATGAATTAA
*
94980661 TTTGCGGCGTTGTTTG
1 TTTGCGGCGTTTTTTG
94980677 CTTGATCAAT
Statistics
Matches: 118, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
114 2 0.02
115 101 0.86
116 15 0.13
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (116 bp):
TTTGCGGCGTTTTTTGAAAAAACGCCACTAAAGCTCGATCTATAGCAGCATTTTTCAAAAAGCGC
CGCTAATGCCACTAAGGCTCAACAAAAAACGACGGCGTGTTGATGAATTAA
Found at i:94981646 original size:19 final size:20
Alignment explanation
Indices: 94981622--94981661 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
94981612 GTATTCATTA
94981622 TATTA-TTATCGTT-TTATTT
1 TATTATTTAT-GTTGTTATTT
94981641 TATTATTTATGTTGTTATTT
1 TATTATTTATGTTGTTATTT
94981661 T
1 T
94981662 GTTAATGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (20 bp):
TATTATTTATGTTGTTATTT
Found at i:94984334 original size:20 final size:20
Alignment explanation
Indices: 94984311--94984372 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
94984301 TAATTAAAAA
94984311 ATAAATGGTTAAATTATACC
1 ATAAATGGTTAAATTATACC
**
94984331 ATAAATTTTTTAAA--A-A--
1 ATAAA-TGGTTAAATTATACC
94984347 ATAAATGGTTAAATTATACC
1 ATAAATGGTTAAATTATACC
94984367 ATAAAT
1 ATAAAT
94984373 TTTTATATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
15 6 0.19
16 5 0.16
17 1 0.03
18 2 0.06
19 1 0.03
20 11 0.34
21 6 0.19
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.37
Consensus pattern (20 bp):
ATAAATGGTTAAATTATACC
Found at i:94984344 original size:36 final size:36
Alignment explanation
Indices: 94984304--94984376 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
94984294 TTAATCCTAA
94984304 TTAAAAAATAAATGGTTAAATTATACCATAAATTTT
1 TTAAAAAATAAATGGTTAAATTATACCATAAATTTT
94984340 TTAAAAAATAAATGGTTAAATTATACCATAAATTTT
1 TTAAAAAATAAATGGTTAAATTATACCATAAATTTT
94984376 T
1 T
94984377 ATATTCTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.40
Consensus pattern (36 bp):
TTAAAAAATAAATGGTTAAATTATACCATAAATTTT
Found at i:94984698 original size:7 final size:7
Alignment explanation
Indices: 94984686--94984710 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
94984676 ATACTAAAAC
94984686 TAAATTT
1 TAAATTT
94984693 TAAATTT
1 TAAATTT
94984700 TAAATTT
1 TAAATTT
94984707 TAAA
1 TAAA
94984711 AAATATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TAAATTT
Found at i:94994210 original size:90 final size:90
Alignment explanation
Indices: 94994078--94994338 Score: 267
Period size: 90 Copynumber: 2.9 Consensus size: 90
94994068 CGGAAATTGT
* * *
94994078 AGGTTAATATGCTAACAAATGGTTGTGAATGCGCAACT-TATTTGCAAATGAA-AGCTGCCA-AA
1 AGGTTAATATGCTGACAGATGGTTGTGAATGCACAA-TGTATTTGCAAAT-AAGAGCTGCCAGAA
*
94994140 ATGTGGGTGGATGAACCAACAATGTTGC
64 A-ATGGGTGGATGAACCAACAATGTTGC
* * * * *
94994168 AGGTTAATATGCGGCCAGATGGTTGTGAATGCACAATGTATTTGTAGATAAGAGCTGCTAGAAAA
1 AGGTTAATATGCTGACAGATGGTTGTGAATGCACAATGTATTTGCAAATAAGAGCTGCCAGAAAA
* *
94994233 TGGGTGGATGAACCACCAGTGTTGC
66 TGGGTGGATGAACCAACAATGTTGC
* * * * * * * *
94994258 AGGTTAATATACTGTCAGATGGTTGTGAATGAACAACGTATTTGTAGATAAGATCTGTCAAGAAA
1 AGGTTAATATGCTGACAGATGGTTGTGAATGCACAATGTATTTGCAAATAAGAGCTG-CCAGAAA
** *
94994323 ATCTGTGGATGTACCA
65 ATGGGTGGATGAACCA
94994339 CCAGAGTTGC
Statistics
Matches: 146, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
89 3 0.02
90 121 0.83
91 22 0.15
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (90 bp):
AGGTTAATATGCTGACAGATGGTTGTGAATGCACAATGTATTTGCAAATAAGAGCTGCCAGAAAA
TGGGTGGATGAACCAACAATGTTGC
Found at i:94994363 original size:91 final size:90
Alignment explanation
Indices: 94994145--94994365 Score: 255
Period size: 90 Copynumber: 2.4 Consensus size: 90
94994135 CCAAAATGTG
* * ** * * * *
94994145 GGTGGATGAACCAACA-ATGTTGCAGGTTAATATGCGGCCAGATGGTTGTGAATGCACAATGTAT
1 GGTGGATGAACCACCAGA-GTTGCAGATTAATAAACTGTCAGATGGTTGTGAATGAACAACGTAT
* *
94994209 TTGTAGATAAGAGCTGCTAGAAAATG
65 TTGTAGATAAGAGCTGCAAGAAAATC
* * *
94994235 GGTGGATGAACCACCAGTGTTGCAGGTTAATATACTGTCAGATGGTTGTGAATGAACAACGTATT
1 GGTGGATGAACCACCAGAGTTGCAGATTAATAAACTGTCAGATGGTTGTGAATGAACAACGTATT
*
94994300 TGTAGATAAGATCTGTCAAGAAAATC
66 TGTAGATAAGAGCTG-CAAGAAAATC
* * * *
94994326 TGTGGATGTACCACCAGAGTTGCATATTATTAAACTGTCA
1 GGTGGATGAACCACCAGAGTTGCAGATTAATAAACTGTCA
94994366 AAATTTCCTC
Statistics
Matches: 112, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
90 71 0.63
91 41 0.37
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (90 bp):
GGTGGATGAACCACCAGAGTTGCAGATTAATAAACTGTCAGATGGTTGTGAATGAACAACGTATT
TGTAGATAAGAGCTGCAAGAAAATC
Found at i:94996676 original size:23 final size:22
Alignment explanation
Indices: 94996641--94996685 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
94996631 TAAACCTTTT
*
94996641 AAAAATATTTTAACT-TTTTAAA
1 AAAAATATGTTAA-TATTTTAAA
94996663 AAAAATTATGTTAATATTTTAAA
1 AAAAA-TATGTTAATATTTTAAA
94996686 TTTAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
AAAAATATGTTAATATTTTAAA
Found at i:94998190 original size:22 final size:21
Alignment explanation
Indices: 94998165--94998205 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
94998155 GATCAGACTT
*
94998165 AAATTTTAAAATATAAAAAATA
1 AAATCTTAAAA-ATAAAAAATA
94998187 AAATCTTAAAAATAAAAAA
1 AAATCTTAAAAATAAAAAA
94998206 AATACAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AAATCTTAAAAATAAAAAATA
Found at i:95002227 original size:6 final size:6
Alignment explanation
Indices: 95002210--95002254 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
95002200 ATTAAACAAA
* * * *
95002210 AAAAAT AGAAAT AAAAAT AAAACT AAAACT AAAACT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
95002255 TTTAAAAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:95002261 original size:12 final size:12
Alignment explanation
Indices: 95002210--95002254 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
95002200 ATTAAACAAA
95002210 AAAAATAGAAA-T
1 AAAAATA-AAACT
95002222 AAAAATAAAACT
1 AAAAATAAAACT
*
95002234 AAAACTAAAACT
1 AAAAATAAAACT
95002246 AAAAATAAA
1 AAAAATAAA
95002255 TTTAAAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 3 0.10
12 27 0.90
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.16
Consensus pattern (12 bp):
AAAAATAAAACT
Found at i:95005584 original size:14 final size:14
Alignment explanation
Indices: 95005511--95005578 Score: 52
Period size: 13 Copynumber: 4.9 Consensus size: 14
95005501 ACATAGTTTT
* *
95005511 TTATTTTATTATTT
1 TTATTATATTATTA
95005525 TTATTAT-TT-TCTA
1 TTATTATATTAT-TA
* *
95005538 TTATTGTCATTACTA
1 TTATTAT-ATTATTA
*
95005553 TCA-TATATTATTA
1 TTATTATATTATTA
95005566 TTATTATATTATT
1 TTATTATATTATT
95005579 TCTATTTACA
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
12 1 0.02
13 17 0.41
14 17 0.41
15 6 0.15
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (14 bp):
TTATTATATTATTA
Found at i:95005736 original size:3 final size:3
Alignment explanation
Indices: 95005511--95005724 Score: 69
Period size: 3 Copynumber: 69.7 Consensus size: 3
95005501 ACATAGTTTT
* * * * * *
95005511 TTA TT- TTA TTA TTT TTA TTA TTT TCTA TTA TTG TCA TTA CTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * * *
95005556 TATA TTA TTA TTA TTA -TA TTA TT- TCTA TTTA CATG TTA TCA TTTC
1 T-TA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA -TTA TTA TTA -TTA
* * * * * * *
95005601 TTT TTC TTT TTA TTA CGTTC TTA TTA TTA CTA TTA TTA TAA TTT TTA
1 TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * *
95005648 TT- TTA TTA TTA TTA ACA TTA GTA TTA TTA TTTA TCT- TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA
* * * * *
95005693 TTA TTG TTC TTA TAA TTA TTA TAA CTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
95005725 CCTACTATTA
Statistics
Matches: 148, Mismatches: 49, Indels: 28
0.66 0.22 0.12
Matches are distributed among these distances:
2 8 0.05
3 125 0.84
4 12 0.08
5 3 0.02
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:95005823 original size:14 final size:16
Alignment explanation
Indices: 95005791--95005835 Score: 62
Period size: 14 Copynumber: 3.1 Consensus size: 16
95005781 ACTATTAGTA
95005791 TATTTTCATCTATATT
1 TATTTTCATCTATATT
95005807 TATTTT-ATCTA-ATT
1 TATTTTCATCTATATT
95005821 TATTTTC--CTATATT
1 TATTTTCATCTATATT
95005835 T
1 T
95005836 TTATTATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 3 0.11
14 13 0.48
15 5 0.19
16 6 0.22
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTTCATCTATATT
Found at i:95005964 original size:3 final size:3
Alignment explanation
Indices: 95005958--95006305 Score: 129
Period size: 3 Copynumber: 118.3 Consensus size: 3
95005948 TTTTTAACTA
*
95005958 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TCAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT
* * *
95006003 TAT TATT TAGT TA- TAT TAC TAT TAT TGT TA- TAT TAT TTT TAT TAT
1 TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * *
95006048 TAC TGT TAT TAT TAT TAC TAC AAC CAT TAT TAC TAT GAT TA- TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *** *
95006094 TCT TTT TA- TACT TAT T-T GCC TAT TAT TAT TA- CAT TAT TA- TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
95006136 CAT TAAT T-T TA- TAT TGT TAT TAT TA- TAA TAGT TAT TAT TAT TACT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T
* * * * * * *
95006181 T-T TAT TGT TA- TGT TGT T-T TTT TCCCT CTGT T-T TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T--AT -TAT TAT TAT TAT TAT TAT
* * * * * *
95006225 TAT TAT TAT TAT CAT TAT TAC TAT TAT TTT TAT TTT TAT TTT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
95006273 TAT TAT CT-T T-T TAT TAT TAC TAC TAC TAT TAT T
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT T
95006306 CTTTATTAAC
Statistics
Matches: 261, Mismatches: 57, Indels: 54
0.70 0.15 0.15
Matches are distributed among these distances:
2 32 0.12
3 209 0.80
4 18 0.07
5 1 0.00
6 1 0.00
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:95006000 original size:21 final size:20
Alignment explanation
Indices: 95005937--95006064 Score: 91
Period size: 21 Copynumber: 6.2 Consensus size: 20
95005927 CCTCTAACAC
*
95005937 TATTACTATTATTTTTAACTA-
1 TATTATTATTA-TTTTAA-TAT
*
95005958 TATTATTATTATTATTATTAT
1 TATTATTATTATT-TTAATAT
95005979 TATTATTATTATTTTCAATAT
1 TATTATTATTATTTT-AATAT
*
95006000 TATTATTATT-TAGTT-ATAT
1 TATTATTATTAT-TTTAATAT
* * * *
95006019 TACTATTATTGTTATATTAT
1 TATTATTATTATTTTAATAT
* * *
95006039 TTTTATTATTACTGTTATTAT
1 TATTATTATTA-TTTTAATAT
95006060 TATTA
1 TATTA
95006065 CTACAACCAT
Statistics
Matches: 86, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
19 14 0.16
20 19 0.22
21 53 0.62
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (20 bp):
TATTATTATTATTTTAATAT
Found at i:95010503 original size:15 final size:14
Alignment explanation
Indices: 95010483--95010531 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 14
95010473 ATAAAGAATT
95010483 AATAATAATAATCAA
1 AATAATAATAAT-AA
95010498 AATAATAATGAGAATAA
1 AATAATAAT---AATAA
95010515 ATATAATAATAATAA
1 A-ATAATAATAATAA
95010530 AA
1 AA
95010532 ATACTAAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
14 1 0.03
15 15 0.50
17 3 0.10
18 11 0.37
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (14 bp):
AATAATAATAATAA
Found at i:95011286 original size:20 final size:20
Alignment explanation
Indices: 95011258--95011306 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
95011248 TTTCTTCACT
* *
95011258 TCTCCCACGCTTGTGTGACC
1 TCTCACACGCTCGTGTGACC
*
95011278 TCTCACACGCTCGTGTGACT
1 TCTCACACGCTCGTGTGACC
95011298 TCTCACACG
1 TCTCACACG
95011307 GTCATGTGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.14, C:0.39, G:0.18, T:0.29
Consensus pattern (20 bp):
TCTCACACGCTCGTGTGACC
Found at i:95011315 original size:22 final size:21
Alignment explanation
Indices: 95011258--95011315 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
95011248 TTTCTTCACT
*
95011258 TCTCCCACGCT-TGTGTGACC
1 TCTCACACGCTCTGTGTGACC
*
95011278 TCTCACACGCTC-GTGTGACT
1 TCTCACACGCTCTGTGTGACC
*
95011298 TCTCACACGGTCATGTGT
1 TCTCACACGCTC-TGTGT
95011316 CTTGCCCGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 28 0.88
22 4 0.12
ACGTcount: A:0.14, C:0.34, G:0.21, T:0.31
Consensus pattern (21 bp):
TCTCACACGCTCTGTGTGACC
Found at i:95014465 original size:28 final size:29
Alignment explanation
Indices: 95014409--95014465 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
95014399 ATTTCACACT
* *
95014409 TTTAACCCCTCAATTTACACTTTTCTCAA
1 TTTAACCCCTCAATTGACACTTTTATCAA
* *
95014438 TTTAATCCCT-AATTGACATTTTTATCAA
1 TTTAACCCCTCAATTGACACTTTTATCAA
95014466 AAGTCACTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.30, C:0.25, G:0.02, T:0.44
Consensus pattern (29 bp):
TTTAACCCCTCAATTGACACTTTTATCAA
Found at i:95020580 original size:40 final size:40
Alignment explanation
Indices: 95020519--95020594 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
95020509 CGGTACTCTA
* * *
95020519 TGGTGTGTAGGGTTGGATGGGTTGATTTTATCCCCATATT
1 TGGTGTGCAGGGATGGATGGGTCGATTTTATCCCCATATT
95020559 TGGTGTGCAGGGAT-GAGTGGGTCGATTTTATCCCCA
1 TGGTGTGCAGGGATGGA-TGGGTCGATTTTATCCCCA
95020595 CATAGTGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 2 0.06
40 30 0.94
ACGTcount: A:0.16, C:0.13, G:0.34, T:0.37
Consensus pattern (40 bp):
TGGTGTGCAGGGATGGATGGGTCGATTTTATCCCCATATT
Found at i:95026199 original size:5 final size:5
Alignment explanation
Indices: 95026185--95026222 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
95026175 CAATTTGTGA
95026185 AAAAT AAAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
95026223 GAACACACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 4 0.13
5 22 0.71
6 5 0.16
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:95026216 original size:9 final size:9
Alignment explanation
Indices: 95026192--95026222 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
95026182 TGAAAAATAA
95026192 AAATAAAAT
1 AAATAAAAT
95026201 AAAATAAAAT
1 -AAATAAAAT
95026211 AAATAAAAT
1 AAATAAAAT
95026220 AAA
1 AAA
95026223 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:95034569 original size:21 final size:22
Alignment explanation
Indices: 95034543--95034589 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
95034533 CTCTGCTCAA
*
95034543 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
95034564 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
95034586 ACTC
1 ACTC
95034590 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:95049020 original size:22 final size:22
Alignment explanation
Indices: 95048995--95049036 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
95048985 TTACAGAAGA
95048995 AGAAGAAAGAAAG-AAAGAAAGG
1 AGAAG-AAGAAAGAAAAGAAAGG
95049017 AGAAGAAGAAAGAAAAGAAA
1 AGAAGAAGAAAGAAAAGAAA
95049037 AAGGTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (22 bp):
AGAAGAAGAAAGAAAAGAAAGG
Found at i:95050066 original size:16 final size:17
Alignment explanation
Indices: 95050042--95050075 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
95050032 TGCATATTGA
*
95050042 TTAATTAATTT-TTTAT
1 TTAAGTAATTTATTTAT
95050058 TTAAGTAATTTATTTAT
1 TTAAGTAATTTATTTAT
95050075 T
1 T
95050076 GTTCGAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TTAAGTAATTTATTTAT
Found at i:95055946 original size:147 final size:146
Alignment explanation
Indices: 95055174--95056059 Score: 1197
Period size: 147 Copynumber: 6.1 Consensus size: 146
95055164 TATTTTAGTA
*
95055174 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTCG-----TATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
95055234 TTTAGTACATAATGTTTCAAATGTACTGTTTTTGTA-TTTTTTTATATTAATTTAATAAAAAACT
66 TTTAGTACATAATGTTTCAAATGTA-T-TATTT-TAGTTTTTTTATATTAATTTAGTAAAAAACT
*
95055298 CTGATTTTGACCGTTTGTTTT
128 CTGATTTTGGCCG-TT-TTTT
* * * *
95055319 TTTATTTTATTCTCGGATTTTACTTTTTAAAATAAACTATTTTCATATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
95055384 TTTAGTACATAATGTTCCAAATGTATTATTTTAGTTTTTTTATATTAATTTAATAAAAAAACTCT
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGT-AAAAAACTCT
*
95055449 GATTTTGGCGGTTTATTT
130 GATTTTGGCCGTTT-TTT
*
95055467 TTTATTTTATTTTCGGATTTTATTTTTTTAAAACATACTATTTTCGTATTTTATGTTTTTTATAT
1 TTTATTTTATTTTCGGATTTTA-TTTTTTAAAATATACTATTTTCGTATTTTA--TTTTTTATAT
* * * * *
95055532 TATTTTGGTACATAATTTTTAAAATGTATTATTTTAGTTTTTTTATATTAATATAGAAAAAAAAC
63 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAG-TAAAAAAC
*
95055597 TCTGATTTTGGCC--CTTTT
127 TCTGATTTTGGCCGTTTTTT
* *
95055615 ATT-TTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
95055679 TTTAGTACATAA-GTTTTC--ATGTATTATTTTAGTTTTTTTTATATTAATTTAGTAAAAATCTG
66 TTTAGTACATAATG-TTTCAAATGTATTATTTTAG-TTTTTTTATATTAATTTAGTAAAAAACTC
*
95055741 TGATTTTGGCCG-TTTTA
129 TGATTTTGGCCGTTTTTT
* * *
95055758 TTTATTTTGTTTTCGGATTTTATTTTTAAAAATATACTATTTTTGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* * *
95055823 TTTAGTACACAATGTTTCAAATGTATTATTTTAATTTTTTTATATTAATTTAGTAAAAAATTCTG
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
95055888 ATTTTGGCCGTTTGTTT
131 ATTTTGGCCGTTT-TTT
* * * *
95055905 TTTATTTTATTTTTGGATTTTATTTTTCAAAATATACTATTTTTGTATTTTATTTTTTTTATTAT
1 TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* * *
95055970 TTTAGTACATAATGTTTCATATGTATTATTTTAGTATATTTATATTAATTTAGTAAAAAAACTCT
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGT-AAAAAACTCT
*
95056035 GATTTTGACC-TTTTTAT
130 GATTTTGGCCGTTTTT-T
95056052 TTTATTTT
1 TTTATTTT
95056060 CGGATTTTTT
Statistics
Matches: 661, Mismatches: 57, Indels: 44
0.87 0.07 0.06
Matches are distributed among these distances:
142 32 0.05
143 23 0.03
144 99 0.15
145 79 0.12
146 46 0.07
147 144 0.22
148 73 0.11
149 47 0.07
150 39 0.06
151 79 0.12
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (146 bp):
TTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTG
ATTTTGGCCGTTTTTT
Found at i:95056080 original size:14 final size:14
Alignment explanation
Indices: 95056063--95056091 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
95056053 TTATTTTCGG
95056063 ATTTTTTAAAATAT
1 ATTTTTTAAAATAT
95056077 ATTTTTTAAAATAT
1 ATTTTTTAAAATAT
95056091 A
1 A
95056092 CTATTAAGCT
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTTTTAAAATAT
Found at i:95056418 original size:12 final size:13
Alignment explanation
Indices: 95056392--95056420 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
95056382 ATACCTTGCA
95056392 AAAAATTAAATTT
1 AAAAATTAAATTT
95056405 AAAAATTAAA-TT
1 AAAAATTAAATTT
95056417 AAAA
1 AAAA
95056421 TCAATCAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAATTAAATTT
Found at i:95056607 original size:6 final size:6
Alignment explanation
Indices: 95056584--95056648 Score: 53
Period size: 6 Copynumber: 11.2 Consensus size: 6
95056574 CCAATACCGC
* * * * *
95056584 CTCCTC CTCCTC CTCCTT CTCCTT CTTCTT CTTCTT CTTCTT CT-CTT
1 CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT
* *
95056631 CTCTTT CT-TTT CTCCTT C
1 CTCCTT CTCCTT CTCCTT C
95056649 CCCCTTTCTT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
5 10 0.19
6 43 0.81
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (6 bp):
CTCCTT
Found at i:95056665 original size:3 final size:3
Alignment explanation
Indices: 95056599--95056632 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
95056589 CCTCCTCCTC
*
95056599 CTT CTC CTT CTT CTT CTT CTT CTT CTT C-T CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
95056633 CTTTCTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:95056833 original size:27 final size:26
Alignment explanation
Indices: 95056789--95056840 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
95056779 AGGAGTCAGC
*
95056789 GGTGCCGCCTGTGAGGTACCCTCCACT
1 GGTGCCGCCTATGAGGTA-CCTCCACT
*
95056816 GGTGCCGCCTATGGGGTACCTCCAC
1 GGTGCCGCCTATGAGGTACCTCCAC
95056841 CCATATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.12, C:0.37, G:0.31, T:0.21
Consensus pattern (26 bp):
GGTGCCGCCTATGAGGTACCTCCACT
Found at i:95069545 original size:27 final size:28
Alignment explanation
Indices: 95069436--95069558 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
95069426 GAGATTGGCG
* * * *
95069436 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
95069465 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
95069493 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
95069521 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
95069548 CTGAGTGTGCG
1 CTAAGTGTGCG
95069559 GACTTAATAT
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.27
28 50 0.56
29 15 0.17
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:95069569 original size:27 final size:27
Alignment explanation
Indices: 95069461--95069572 Score: 143
Period size: 28 Copynumber: 4.0 Consensus size: 27
95069451 TAAATTGTAC
*
95069461 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
95069489 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
95069517 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
* *
95069544 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTGAT-TATAT
95069573 TTTTGAATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
27 23 0.29
28 50 0.64
29 5 0.06
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGATTATAT
Found at i:95069572 original size:56 final size:56
Alignment explanation
Indices: 95069436--95069572 Score: 170
Period size: 55 Copynumber: 2.4 Consensus size: 56
95069426 GAGATTGGCG
* * * *
95069436 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGCTT-AATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
* *
95069493 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGCTTAATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
*
95069548 CTGAGTGTGCG-GACTTAATATATAT
1 CTAAGTGTGCGAG-CTTAAT-TATAT
95069573 TTTTGAATCA
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
54 1 0.01
55 28 0.39
56 27 0.38
57 15 0.21
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGCTTAATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:95086519 original size:30 final size:30
Alignment explanation
Indices: 95086483--95086541 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
95086473 AAGATTAAAG
95086483 TTGCTAAAATAAAAAGCATAAAAATGGCTT
1 TTGCTAAAATAAAAAGCATAAAAATGGCTT
**
95086513 TTGCTAAAATAAAAAGTTTAAAAATGGCT
1 TTGCTAAAATAAAAAGCATAAAAATGGCT
95086542 CCAACCCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (30 bp):
TTGCTAAAATAAAAAGCATAAAAATGGCTT
Found at i:95088444 original size:27 final size:26
Alignment explanation
Indices: 95088387--95088445 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
95088377 TATTATGAAC
95088387 TAAACCCCCTAAATACCAAAGGGAGA
1 TAAACCCCCTAAATACCAAAGGGAGA
* *
95088413 TAAACCCCCTAAATACCTAAGGGATA
1 TAAACCCCCTAAATACCAAAGGGAGA
95088439 TGAAACC
1 T-AAACC
95088446 TAAGACAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 25 0.83
27 5 0.17
ACGTcount: A:0.44, C:0.27, G:0.14, T:0.15
Consensus pattern (26 bp):
TAAACCCCCTAAATACCAAAGGGAGA
Found at i:95098211 original size:35 final size:35
Alignment explanation
Indices: 95098165--95098235 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
95098155 AAATTTATCT
*
95098165 ACTTTTACAAGTACGTCCTCTATTATACCCCTAGG
1 ACTTTTACAAGTACGTCATCTATTATACCCCTAGG
*
95098200 ACTTTTACAAGTACGTCATCTATTATACCTCTAGG
1 ACTTTTACAAGTACGTCATCTATTATACCCCTAGG
95098235 A
1 A
95098236 TATTTAACAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.35
Consensus pattern (35 bp):
ACTTTTACAAGTACGTCATCTATTATACCCCTAGG
Found at i:95099049 original size:20 final size:19
Alignment explanation
Indices: 95099004--95099050 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
95098994 CCCTCTCTCC
95099004 CCTTCCTCCTCCCTTTCTGT
1 CCTTCC-CCTCCCTTTCTGT
* *
95099024 CTTTCCCCTTCCCTTTCTTT
1 CCTTCCCC-TCCCTTTCTGT
95099044 CCTTCCC
1 CCTTCCC
95099051 ACACCTTGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.00, C:0.51, G:0.02, T:0.47
Consensus pattern (19 bp):
CCTTCCCCTCCCTTTCTGT
Found at i:95099277 original size:28 final size:28
Alignment explanation
Indices: 95099225--95099279 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
95099215 TCATTTTTCT
*
95099225 TTAATTCTTTATTATATTCTTTTATTAC
1 TTAATTCTTTATTATATTCTATTATTAC
95099253 TTAATTTCTTT-TTATTATT-TATTATTA
1 TTAA-TTCTTTATTA-TATTCTATTATTA
95099280 TAATTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.67
Consensus pattern (28 bp):
TTAATTCTTTATTATATTCTATTATTAC
Found at i:95115445 original size:5 final size:6
Alignment explanation
Indices: 95115433--95115462 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
95115423 TACTTTACTA
95115433 TTATTT TTATTT TTATTT TTA-TT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT TTATTT T
95115463 GTCTCTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:95115448 original size:12 final size:11
Alignment explanation
Indices: 95115433--95115462 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
95115423 TACTTTACTA
95115433 TTATTTTTATTT
1 TTATTTTTA-TT
95115445 TTATTTTTATT
1 TTATTTTTATT
95115456 TTATTTT
1 TTATTTT
95115463 GTCTCTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:95116469 original size:4 final size:4
Alignment explanation
Indices: 95116462--95116502 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
95116452 CTTAAAAAAA
95116462 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
95116503 TTGGTAGTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:95117334 original size:30 final size:30
Alignment explanation
Indices: 95117298--95117354 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
95117288 TAGGCACTTC
95117298 CACACGGGTAAACCACACACCCGTGTGAGG
1 CACACGGGTAAACCACACACCCGTGTGAGG
* *
95117328 CACACGGGTAGACCACACGCCCGTGTG
1 CACACGGGTAAACCACACACCCGTGTG
95117355 TCATGGCCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.35, G:0.28, T:0.11
Consensus pattern (30 bp):
CACACGGGTAAACCACACACCCGTGTGAGG
Found at i:95120023 original size:18 final size:19
Alignment explanation
Indices: 95120002--95120042 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
95119992 TTGAATGTTT
*
95120002 TTCATTTCTCT-ATTTCTA
1 TTCATTTCGCTCATTTCTA
95120020 TTCATTTCGCTCATTTCTA
1 TTCATTTCGCTCATTTCTA
95120039 TTCA
1 TTCA
95120043 AACGTGCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.17, C:0.24, G:0.02, T:0.56
Consensus pattern (19 bp):
TTCATTTCGCTCATTTCTA
Found at i:95129624 original size:48 final size:48
Alignment explanation
Indices: 95129572--95130613 Score: 648
Period size: 48 Copynumber: 21.5 Consensus size: 48
95129562 AGGAGTCCCT
* * ** *
95129572 CCTTGGCTTGAACTCCCAATGAAAAAC-AATGATGGACTTCTATCCATC
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTG-TGGATTTCTATCCATC
* * *
95129620 CCTTGGATTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCATT
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * * *
95129668 CCTTGGCTTG-ACTTCTCAGGGAAAAGCTGTCGTGGATTTCTATCCATC
1 CCTTGGATTGAAC-TCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * *
95129716 CCTTGGATTGAAGTCCTAGTGAAAAACTGTTGTGGATTTGTATCCATC
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * * *
95129764 CCTTGGATTGACCTCCCAGTGAAAAACCGTTGCGGATTTGTATCCATT
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * * *
95129812 CCTTGGCTTG-ACTTCTCAGGGAAAAGCTGTCGTGGATTTCTATCCATC
1 CCTTGGATTGAAC-TCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * * * *
95129860 CCTTGGATTGAGCTCCCGGTGAAAAATTGTTGCGGATTTGTATCCATT
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * * *
95129908 CCTTGGCTTG-ACTTCTCAGGGAAAAGCTGTTGTGGATTTGTATCCATC
1 CCTTGGATTGAAC-TCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * *
95129956 CTTTGGATTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTATCCGTC
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * *
95130004 CCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGGTGTTGTGGATTTGTATCCATT
1 CCTTGGATTGAACTCCCAGTGAAAAAC---------TGTTGTGGATTTCTATCCATC
* * * *
95130061 CCTTGGCTTGAACTCCTAGTGAAAAAATGTTGTGGATTTGTATCCATC
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * *
95130109 CCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGATGTTGTGGATTCGTATCCATT
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGA-----T---TTC-TATCCATC
* * * *
95130166 CCTTGGCTTG-ACTTCTCATTG-AAAA--GTTGTGGATTTGTATCCATC
1 CCTTGGATTGAAC-TCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* *
95130211 CCTTGGATTGAACTCCCAGTGAATAACTGTGGTGGATGTTGTAGATTTGTATCCATC
1 CCTTGGATTGAACTCCCAGTGAAAAAC--T-GT---TG-TG--GATTTCTATCCATC
*
95130268 CCTTGGATTGAACTCCCAGTG---AA-----G-GGATTTGTATCCATC
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * * * * *
95130307 CCTTGGCTTGAACTTCTAGTGAAGAACTGTGGTGGA--TGT-T--GT-
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
*** * *** * **** *
95130349 -GGGGGAGTGAA-GAACTGTGGTGGA-TGTTGTGGATTTGTATCCATC
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * *
95130394 CCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGTATCCATT
1 CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* * * *
95130442 CCTTGGCTTGAACTTCCAGTACTGAAAAACTGTTGTGGATTTGTATCCATT
1 CCTTGGATTGAACTCCCAG---TGAAAAACTGTTGTGGATTTCTATCCATC
* * *
95130493 CCTT-GACTTGAACTCCCAG-GAAAAAACTGTTGTCGATTTGTATCCATT
1 CCTTGGA-TTGAACTCCCAGTG-AAAAACTGTTGTGGATTTCTATCCATC
* * * * * * * * *
95130541 TCTT-GACTTGAACTCCCAATGAAAAACTGTTTTGAATTTGTGTTCGTT
1 CCTTGGA-TTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
* *
95130589 CCTTGGCTTGAACTCCCAGGGAAAA
1 CCTTGGATTGAACTCCCAGTGAAAA
95130614 GCTGCTGGCA
Statistics
Matches: 786, Mismatches: 144, Indels: 128
0.74 0.14 0.12
Matches are distributed among these distances:
39 40 0.05
40 5 0.01
41 10 0.01
42 3 0.00
43 2 0.00
44 1 0.00
45 23 0.03
46 16 0.02
47 11 0.01
48 499 0.63
49 9 0.01
50 1 0.00
51 46 0.06
53 1 0.00
54 11 0.01
55 2 0.00
56 7 0.01
57 99 0.13
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (48 bp):
CCTTGGATTGAACTCCCAGTGAAAAACTGTTGTGGATTTCTATCCATC
Found at i:95130072 original size:57 final size:57
Alignment explanation
Indices: 95129983--95130291 Score: 338
Period size: 57 Copynumber: 5.8 Consensus size: 57
95129973 AGTGAAAAAC
* *
95129983 TGTTGTGGATTTGTATCCGTCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGG
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
* * * *
95130040 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCTAGTGAA-AA--------AA
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
95130088 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
* * * * *
95130145 TGTTGTGGATTCGTATCCATTCCTTGGCTTG-ACTTCTCATTG-A-AA---------A
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAAC-TCCCAGTGAAGAACTGTGGTGGA
*
95130191 -GTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAATAACTGTGGTGGA
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
*
95130247 TGTTGTAGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAG
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAG
95130292 GGATTTGTAT
Statistics
Matches: 207, Mismatches: 22, Indels: 46
0.75 0.08 0.17
Matches are distributed among these distances:
45 33 0.16
46 4 0.02
47 2 0.01
48 41 0.20
49 2 0.01
55 2 0.01
56 6 0.03
57 117 0.57
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (57 bp):
TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
Found at i:95130117 original size:105 final size:102
Alignment explanation
Indices: 95129935--95130350 Score: 578
Period size: 105 Copynumber: 4.1 Consensus size: 102
95129925 AGGGAAAAGC
95129935 TGTTGTGGATTTGTATCCA-TCCTTTGGATTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTAT
1 TGTTGTGGATTTGTATCCATTCC-TTGGATTGAACTCCTAGTG-AAAA--GTTGTGGATTTGTAT
* *
95129999 CCGTCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGG
62 CCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
*
95130040 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCTAGTGAAAAAATGTTGTGGATTTGTATC
1 TGTTGTGGATTTGTATCCATTCCTTGGATTGAACTCCTAGTG--AAAA-GTTGTGGATTTGTATC
95130105 CATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
63 CATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
* * * *
95130145 TGTTGTGGATTCGTATCCATTCCTTGGCTTG-ACTTCTCATTGAAAAGTTGTGGATTTGTATCCA
1 TGTTGTGGATTTGTATCCATTCCTTGGATTGAACTCCT-AGTGAAAAGTTGTGGATTTGTATCCA
*
95130209 TCCCTTGGATTGAACTCCCAGTGAATAACTGTGGTGGA
65 TCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
* * *
95130247 TGTTGTAGATTTGTATCCATCCCTTGGATTGAACTCCCAGTG--AA---G-GGATTTGTATCCAT
1 TGTTGTGGATTTGTATCCATTCCTTGGATTGAACTCCTAGTGAAAAGTTGTGGATTTGTATCCAT
* * *
95130306 CCCTTGGCTTGAACTTCTAGTGAAGAACTGTGGTGGA
66 CCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
95130343 TGTTGTGG
1 TGTTGTGG
95130351 GGGAGTGAAG
Statistics
Matches: 288, Mismatches: 19, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
96 54 0.19
97 1 0.00
100 2 0.01
102 85 0.30
103 8 0.03
104 5 0.02
105 125 0.43
106 8 0.03
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (102 bp):
TGTTGTGGATTTGTATCCATTCCTTGGATTGAACTCCTAGTGAAAAGTTGTGGATTTGTATCCAT
CCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
Found at i:95130308 original size:39 final size:39
Alignment explanation
Indices: 95130254--95130330 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
95130244 GGATGTTGTA
95130254 GATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGG
1 GATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGG
* * *
95130293 GATTTGTATCCATCCCTTGGCTTGAACTTCTAGTGAAG
1 GATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAG
95130331 AACTGTGGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (39 bp):
GATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGG
Found at i:95130360 original size:30 final size:30
Alignment explanation
Indices: 95130324--95130380 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
95130314 TTGAACTTCT
95130324 AGTGAAGAACTGTGGTGGATGTTGTGGGGG
1 AGTGAAGAACTGTGGTGGATGTTGTGGGGG
95130354 AGTGAAGAACTGTGGTGGATGTTGTGG
1 AGTGAAGAACTGTGGTGGATGTTGTGG
95130381 ATTTGTATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.21, C:0.04, G:0.47, T:0.28
Consensus pattern (30 bp):
AGTGAAGAACTGTGGTGGATGTTGTGGGGG
Found at i:95130551 original size:99 final size:95
Alignment explanation
Indices: 95130373--95130631 Score: 329
Period size: 99 Copynumber: 2.7 Consensus size: 95
95130363 CTGTGGTGGA
* *
95130373 TGTTGTGGATTTGTATCCATCCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGTATC
1 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCCAG-GAAAAACTGTTGTCGATTTGTATC
* *
95130438 CATTCCTTGGCTTGAACTTCCAGTACTGAAAAAC
65 CATTCCTTGACTTGAACTCCCA--A-TGAAAAAC
*
95130472 TGTTGTGGATTTGTATCCATTCCTTGACTTGAACTCCCAGGAAAAAACTGTTGTCGATTTGTATC
1 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCCAGG-AAAAACTGTTGTCGATTTGTATC
*
95130537 CATTTCTTGACTTGAACTCCCAATGAAAAAC
65 CATTCCTTGACTTGAACTCCCAATGAAAAAC
* * * * * * * * *
95130568 TGTTTTGAATTTGTGTTCGTTCCTTGGCTTGAACTCCCAGGGAAAAGCTGCTGGCAATTTGTAT
1 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCCA-GGAAAAACTGTTGTCGATTTGTAT
95130632 TCTGAATGAT
Statistics
Matches: 142, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
96 59 0.42
97 3 0.02
98 1 0.01
99 79 0.56
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (95 bp):
TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCCAGGAAAAACTGTTGTCGATTTGTATCC
ATTCCTTGACTTGAACTCCCAATGAAAAAC
Found at i:95133232 original size:24 final size:24
Alignment explanation
Indices: 95133204--95133255 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
95133194 TTAGTAGGTC
* *
95133204 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
95133228 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
95133252 AAAT
1 AAAT
95133256 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:95135831 original size:38 final size:39
Alignment explanation
Indices: 95135759--95135842 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 39
95135749 GATTTTACAT
*
95135759 GTTATATAACGAAATCTAGCATTTGTTATAGATTCTCGG
1 GTTATATAACGAAATCTAGCATTTGTTATAGATTCTCAG
* *
95135798 GTTATTTAAC-AAGATCTAGC-TTTGTTGCT-GATTCTCAG
1 GTTATATAACGAA-ATCTAGCATTTGTT-ATAGATTCTCAG
95135836 GTTATAT
1 GTTATAT
95135843 GTAACATAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
38 22 0.56
39 17 0.44
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (39 bp):
GTTATATAACGAAATCTAGCATTTGTTATAGATTCTCAG
Found at i:95137367 original size:51 final size:51
Alignment explanation
Indices: 95137312--95137414 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
95137302 TTCTCTAGTG
95137312 TAAGTCCTATTCCCTTCGTTCCCTTCAACTTTCTTGTTCGTTAAATATTGT
1 TAAGTCCTATTCCCTTCGTTCCCTTCAACTTTCTTGTTCGTTAAATATTGT
*
95137363 TAAGTCCTGTTCCCTTCGTTCCCTTCAACTTTCTTGTTCGTTAAATATTGT
1 TAAGTCCTATTCCCTTCGTTCCCTTCAACTTTCTTGTTCGTTAAATATTGT
95137414 T
1 T
95137415 CTTCACGTAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.17, C:0.25, G:0.11, T:0.48
Consensus pattern (51 bp):
TAAGTCCTATTCCCTTCGTTCCCTTCAACTTTCTTGTTCGTTAAATATTGT
Found at i:95138398 original size:18 final size:18
Alignment explanation
Indices: 95138375--95138409 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
95138365 TGCTTCTATA
*
95138375 ATCTAAATTTGAATCTGG
1 ATCTAAATCTGAATCTGG
95138393 ATCTAAATCTGAATCTG
1 ATCTAAATCTGAATCTG
95138410 AAACTGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (18 bp):
ATCTAAATCTGAATCTGG
Found at i:95141974 original size:50 final size:50
Alignment explanation
Indices: 95141916--95142014 Score: 198
Period size: 50 Copynumber: 2.0 Consensus size: 50
95141906 TGCTCAAAGT
95141916 GATAGTTCCTTTTATCAACGATCAAATTTATCTTTCATGATTTTCAATAA
1 GATAGTTCCTTTTATCAACGATCAAATTTATCTTTCATGATTTTCAATAA
95141966 GATAGTTCCTTTTATCAACGATCAAATTTATCTTTCATGATTTTCAATA
1 GATAGTTCCTTTTATCAACGATCAAATTTATCTTTCATGATTTTCAATA
95142015 TCCTTGATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.44
Consensus pattern (50 bp):
GATAGTTCCTTTTATCAACGATCAAATTTATCTTTCATGATTTTCAATAA
Found at i:95153029 original size:30 final size:30
Alignment explanation
Indices: 95152986--95153058 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
95152976 TTCAGTGCTT
* * * * *
95152986 CACACTCCTGTGTAAGACACACGGGTAGTC
1 CACACGCCCGTGTAAGACAAACAGGTAGGC
95153016 CACACGCCCGTGTAAGACAAACAGGTAGGC
1 CACACGCCCGTGTAAGACAAACAGGTAGGC
95153046 CACACGCCCGTGT
1 CACACGCCCGTGT
95153059 GTCATGGCCG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.27, C:0.33, G:0.25, T:0.15
Consensus pattern (30 bp):
CACACGCCCGTGTAAGACAAACAGGTAGGC
Found at i:95153396 original size:14 final size:14
Alignment explanation
Indices: 95153377--95153405 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
95153367 TTTGTTGTTT
95153377 TCCCAATTTTGAGA
1 TCCCAATTTTGAGA
95153391 TCCCAATTTTGAGA
1 TCCCAATTTTGAGA
95153405 T
1 T
95153406 GTTTTCCCCC
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:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (14 bp):
TCCCAATTTTGAGA
Found at i:95161831 original size:17 final size:17
Alignment explanation
Indices: 95161783--95161845 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
95161773 TTTTGAGTCC
*
95161783 TTTTATTTTCACTTTGT
1 TTTTATTTTCATTTTGT
** *
95161800 TTTTCCTTTCCTTTTGT
1 TTTTATTTTCATTTTGT
* *
95161817 TTTTATTTTTATTTTTAT
1 TTTTATTTTCA-TTTTGT
95161835 TTTTCATTTTC
1 TTTT-ATTTTC
95161846 TAAAAGACTT
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
17 20 0.59
18 9 0.26
19 5 0.15
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTTATTTTCATTTTGT
Found at i:95161845 original size:6 final size:6
Alignment explanation
Indices: 95161811--95161844 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
95161801 TTTCCTTTCC
*
95161811 TTTTGT TTTTAT TTTTAT TTTTAT TTTTCAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT-AT TTT
95161845 CTAAAAGACT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:95171437 original size:26 final size:25
Alignment explanation
Indices: 95171367--95171442 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 25
95171357 TCTCATCCCT
*
95171367 ATTTTACCCCTAATAAAATTTTGACA
1 ATTTTA-CCCTAATAAAATTTTGAAA
** *
95171393 ATTTTACACCCGATCAAATTTTGAAA
1 ATTTTAC-CCTAATAAAATTTTGAAA
*
95171419 ATTTTACCTCTTATAAAATTTTGA
1 ATTTTACC-CTAATAAAATTTTGA
95171443 GAAAATATGT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
25 2 0.05
26 39 0.95
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (25 bp):
ATTTTACCCTAATAAAATTTTGAAA
Found at i:95175607 original size:27 final size:26
Alignment explanation
Indices: 95175506--95175617 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
95175496 AGGAAGCATC
* * *
95175506 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
*
95175533 CTGGTGGCACTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
95175560 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
95175588 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
95175614 CTGG
1 CTGG
95175618 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.69
28 17 0.23
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:95175610 original size:54 final size:54
Alignment explanation
Indices: 95175506--95175617 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
95175496 AGGAAGCATC
*
95175506 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCACTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACACTGCCACATATATCTGTT
* * * * *
95175560 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACACTGCCACATATATCTGTT
95175614 CTGG
1 CTGG
95175618 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACACTGCCACATATATCTGTT
Found at i:95178407 original size:16 final size:16
Alignment explanation
Indices: 95178343--95178409 Score: 71
Period size: 16 Copynumber: 4.2 Consensus size: 16
95178333 GATTGAGGTG
*
95178343 AATGGAATAAAACTGT
1 AATGGAATAAAGCTGT
** *
95178359 AATGGAATTGAGATGT
1 AATGGAATAAAGCTGT
* *
95178375 AATAGAATAGAGCTGT
1 AATGGAATAAAGCTGT
*
95178391 AATGGAATAAAGTTGT
1 AATGGAATAAAGCTGT
95178407 AAT
1 AAT
95178410 CAATAATTCA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.45, C:0.03, G:0.24, T:0.28
Consensus pattern (16 bp):
AATGGAATAAAGCTGT
Found at i:95178843 original size:18 final size:17
Alignment explanation
Indices: 95178822--95178861 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
95178812 ATTTAAGTAA
*
95178822 ATATTATTTTTTATTATT
1 ATATTATTTATTA-TATT
95178840 ATATTATTTATTATATT
1 ATATTATTTATTATATT
95178857 A-ATTA
1 ATATTA
95178862 AATAAAGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 5 0.24
18 12 0.57
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATTATTTATTATATT
Found at i:95181308 original size:26 final size:26
Alignment explanation
Indices: 95181278--95181369 Score: 103
Period size: 26 Copynumber: 3.4 Consensus size: 26
95181268 GTTATTAAAT
95181278 TTTAATAAAATTATTATTAAATATAA
1 TTTAATAAAATTATTATTAAATATAA
* * * *
95181304 TTTAATAAAAATAAATAATTTAATCATAT
1 TTTAAT-AAAAT-TATTATTAAAT-ATAA
* *
95181333 TTTAACATAATTATTATTAAATATAA
1 TTTAATAAAATTATTATTAAATATAA
95181359 TTTAATAAAAT
1 TTTAATAAAAT
95181370 AATATATAAT
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
26 18 0.35
27 13 0.25
28 12 0.24
29 8 0.16
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (26 bp):
TTTAATAAAATTATTATTAAATATAA
Found at i:95181360 original size:55 final size:57
Alignment explanation
Indices: 95181276--95181391 Score: 191
Period size: 55 Copynumber: 2.1 Consensus size: 57
95181266 TTGTTATTAA
*
95181276 ATTTTAATAAAATTATTATTAAATATAATTTAAT-AAA-AATAAATAATTTAATCAT
1 ATTTTAACAAAATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATCAT
* *
95181331 ATTTTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATCAT
1 ATTTTAACAAAATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATCAT
95181388 ATTT
1 ATTT
95181392 CAATATATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
55 32 0.57
56 3 0.05
57 21 0.38
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (57 bp):
ATTTTAACAAAATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATCAT
Done.