Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 38 of 222
Found at i:11234427 original size:17 final size:17
Alignment explanation
Indices: 11234394--11234427 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11234384 GGCCTAGACT
*
11234394 GTGTGTCATACACGGCC
1 GTGTGTCACACACGGCC
*
11234411 GTGTGTCACACATGGCC
1 GTGTGTCACACACGGCC
11234428 ATGCGGCGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.29, G:0.29, T:0.24
Consensus pattern (17 bp):
GTGTGTCACACACGGCC
Found at i:11237600 original size:16 final size:16
Alignment explanation
Indices: 11237581--11237611 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11237571 AATTTATCCA
11237581 TTTATTTTTATTTCTT
1 TTTATTTTTATTTCTT
*
11237597 TTTATTTTTGTTTCT
1 TTTATTTTTATTTCT
11237612 AGTTTAATTT
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:0.10, C:0.06, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTATTTTTATTTCTT
Found at i:11237641 original size:19 final size:18
Alignment explanation
Indices: 11237595--11237642 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
11237585 TTTTTATTTC
*
11237595 TTTTTATTTTTGTTTCTAG
1 TTTTT-TTTTTGTTTCTAA
*
11237614 TTTAATTTTTTGTTTTCTAA
1 TTT-TTTTTTTG-TTTCTAA
11237634 TTTTTTTTT
1 TTTTTTTTT
11237643 AATTTGCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.12, C:0.04, G:0.06, T:0.77
Consensus pattern (18 bp):
TTTTTTTTTTGTTTCTAA
Found at i:11237642 original size:20 final size:19
Alignment explanation
Indices: 11237595--11237642 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
11237585 TTTTTATTTC
* *
11237595 TTTTTATTTTTGTTTCTAG
1 TTTTTTTTTTTGTTTCTAA
**
11237614 TTTAATTTTTTGTTTTCTAA
1 TTTTTTTTTTTG-TTTCTAA
11237634 TTTTTTTTT
1 TTTTTTTTT
11237643 AATTTGCTTC
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.12, C:0.04, G:0.06, T:0.77
Consensus pattern (19 bp):
TTTTTTTTTTTGTTTCTAA
Found at i:11242799 original size:6 final size:6
Alignment explanation
Indices: 11242788--11242826 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
11242778 AGTCCATTTG
* *
11242788 TTTTAT TTTTAT TTTTAT TTTTAT GTTTAT TGTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
11242827 CTTAGACTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:11249729 original size:13 final size:14
Alignment explanation
Indices: 11249711--11249741 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
11249701 GTGTCATGCC
11249711 AAAAATCCAAAA-T
1 AAAAATCCAAAACT
11249724 AAAAATCCAAAACT
1 AAAAATCCAAAACT
11249738 AAAA
1 AAAA
11249742 TGATCCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.71, C:0.16, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAATCCAAAACT
Found at i:11251305 original size:17 final size:17
Alignment explanation
Indices: 11251279--11251313 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11251269 AATAAACTAA
*
11251279 AATAAAAATAACAAATT
1 AATAAAAATAAAAAATT
*
11251296 AATAACAATAAAAAATT
1 AATAAAAATAAAAAATT
11251313 A
1 A
11251314 TCAGCCATCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (17 bp):
AATAAAAATAAAAAATT
Found at i:11256422 original size:5 final size:5
Alignment explanation
Indices: 11256414--11256460 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
11256404 CTTCTCTTCT
*
11256414 TTTTC TTTTTT TTTTC TTTTC TTTTC -TTT- TTTTC TTTTC TTTT- TTTT
1 TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
11256461 ATGAGCATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
4 10 0.27
5 23 0.62
6 4 0.11
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (5 bp):
TTTTC
Found at i:11256430 original size:22 final size:23
Alignment explanation
Indices: 11256405--11256460 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 23
11256395 ATGTATGCTC
11256405 TTCTCTTCTTTTTCTTTTTTT-T
1 TTCTCTTCTTTTTCTTTTTTTCT
*
11256427 TTCTTTTC-TTTTCTTTTTTTCT
1 TTCTCTTCTTTTTCTTTTTTTCT
*
11256449 TT-TCTTTTTTTT
1 TTCTCTTCTTTTT
11256461 ATGAGCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (23 bp):
TTCTCTTCTTTTTCTTTTTTTCT
Found at i:11256445 original size:18 final size:17
Alignment explanation
Indices: 11256414--11256460 Score: 78
Period size: 18 Copynumber: 2.8 Consensus size: 17
11256404 CTTCTCTTCT
11256414 TTTTC-TTTTTTTTTTC
1 TTTTCTTTTTTTTTTTC
11256430 TTTTCTTTTCTTTTTTTC
1 TTTTCTTTT-TTTTTTTC
11256448 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
11256461 ATGAGCATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.17
17 7 0.24
18 17 0.59
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (17 bp):
TTTTCTTTTTTTTTTTC
Found at i:11265205 original size:14 final size:14
Alignment explanation
Indices: 11265186--11265212 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11265176 TAAGTTTGAA
11265186 AGTGCTCTAGTAGT
1 AGTGCTCTAGTAGT
11265200 AGTGCTCTAGTAG
1 AGTGCTCTAGTAG
11265213 CACCTCCCAC
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:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (14 bp):
AGTGCTCTAGTAGT
Found at i:11269660 original size:24 final size:23
Alignment explanation
Indices: 11269594--11269665 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 23
11269584 ATATATGTTT
*
11269594 TCAAATGCAATTCAAATACAGAT
1 TCAAATGCAATTCAAATACAGAA
** * *
11269617 TCAAATATAACCTCAGATACAGAA
1 TCAAATGCAA-TTCAAATACAGAA
*
11269641 TCATATGCAATGTCAAATACAGAA
1 TCAAATGCAAT-TCAAATACAGAA
11269665 T
1 T
11269666 TAGTTCCTAC
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
23 8 0.22
24 29 0.78
ACGTcount: A:0.47, C:0.18, G:0.10, T:0.25
Consensus pattern (23 bp):
TCAAATGCAATTCAAATACAGAA
Found at i:11273796 original size:73 final size:73
Alignment explanation
Indices: 11273677--11273823 Score: 276
Period size: 73 Copynumber: 2.0 Consensus size: 73
11273667 AATATGTTAG
11273677 TAATGGCATGTACATAAAGACTTAGAACCTTGAGGATTTTGTAATTATTTGTTTTATGCTAATAA
1 TAATGGCATGTACATAAAGACTTAGAACCTTGAGGATTTTGTAATTATTTGTTTTATGCTAATAA
11273742 GTAAAAAA
66 GTAAAAAA
* *
11273750 TAATGGCATGTACATAAAGGCTTAGAACCTTGAGGATTTTGTAATTATTTGTTTTATGCTATTAA
1 TAATGGCATGTACATAAAGACTTAGAACCTTGAGGATTTTGTAATTATTTGTTTTATGCTAATAA
11273815 GTAAAAAA
66 GTAAAAAA
11273823 T
1 T
11273824 GAATTTAAAT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (73 bp):
TAATGGCATGTACATAAAGACTTAGAACCTTGAGGATTTTGTAATTATTTGTTTTATGCTAATAA
GTAAAAAA
Found at i:11274821 original size:93 final size:93
Alignment explanation
Indices: 11274656--11274928 Score: 467
Period size: 93 Copynumber: 2.9 Consensus size: 93
11274646 GGACTTATCC
* * *
11274656 TGTTTACAAGGAATACAAGTACAGCAAATTTGCTC-TACTAATTTATACATGTTAGGTAAAAAAT
1 TGTTTACAAGGAATACAAGTAGAGCAAATTTTCTCGTACTAATTTATGCATGTTAGGTAAAAAAT
11274720 TGCTCATGTAAGATGTCATAAGCCTTAG
66 TGCTCATGTAAGATGTCATAAGCCTTAG
*
11274748 TGTTTACAAGGAATACAAGTAGAGCAAATTTTCTCGTACTAATTTGTGCATGTTAGGTAAAAAAT
1 TGTTTACAAGGAATACAAGTAGAGCAAATTTTCTCGTACTAATTTATGCATGTTAGGTAAAAAAT
*
11274813 TGCTCATGTAAGATGTCATAAGTCTTAG
66 TGCTCATGTAAGATGTCATAAGCCTTAG
* *
11274841 TGTTTACAAGGAATGCAAGTAGAGCAAATTTTCTTGTACTAATTTATGCATGTTAGGTAAAAAAT
1 TGTTTACAAGGAATACAAGTAGAGCAAATTTTCTCGTACTAATTTATGCATGTTAGGTAAAAAA-
11274906 TTGCTCATGTAAGATGTCATAAG
65 TTGCTCATGTAAGATGTCATAAG
11274929 TTTTAGTGAT
Statistics
Matches: 171, Mismatches: 8, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
92 33 0.19
93 115 0.67
94 23 0.13
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (93 bp):
TGTTTACAAGGAATACAAGTAGAGCAAATTTTCTCGTACTAATTTATGCATGTTAGGTAAAAAAT
TGCTCATGTAAGATGTCATAAGCCTTAG
Found at i:11281447 original size:19 final size:19
Alignment explanation
Indices: 11281423--11281459 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11281413 AATAAAATTC
*
11281423 GATTTTATTTTTATATATT
1 GATTTTAGTTTTATATATT
*
11281442 GATTTTGGTTTTATATAT
1 GATTTTAGTTTTATATAT
11281460 ATATATTGAA
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:0.24, C:0.00, G:0.11, T:0.65
Consensus pattern (19 bp):
GATTTTAGTTTTATATATT
Found at i:11285913 original size:40 final size:37
Alignment explanation
Indices: 11285856--11286139 Score: 228
Period size: 40 Copynumber: 7.1 Consensus size: 37
11285846 TTGAATGATG
* * *
11285856 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGC-GAGT-ACTA-A
11285896 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAG-TACTAA
* * *
11285935 TTCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAAA
1 -TCCGGACTAAGTCCGAAGGCATTTGTGCGAG-TACT-AA
11285975 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAG-TACT-AA
**
11286015 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAG-TACT-AA
**
11286055 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAG-TACTA-A
* * * * **
11286095 ACCGGGCTATGCCCCGAAGGCATTTGAACGAGTAGCTATA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTA-CTA-A
11286135 TCCGG
1 TCCGG
11286140 TTAAATTCCG
Statistics
Matches: 215, Mismatches: 19, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
39 37 0.17
40 169 0.79
41 9 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (37 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTACTAA
Found at i:11286080 original size:80 final size:80
Alignment explanation
Indices: 11285856--11286120 Score: 367
Period size: 80 Copynumber: 3.3 Consensus size: 80
11285846 TTGAATGATG
* * * *
11285856 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
* *
11285920 TGTGCGAGATACTAAT
65 TGTGCGAGTTACTAAA
*
11285936 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
11286000 GTGCGAGTTACTAAA
66 GTGCGAGTTACTAAA
* **
11286015 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATT
11286079 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTA-AA
* *
11286096 -CCGGGCTATGCCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
11286121 AACGAGTAGC
Statistics
Matches: 167, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
79 65 0.39
80 100 0.60
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:11286127 original size:80 final size:77
Alignment explanation
Indices: 11285857--11286153 Score: 312
Period size: 80 Copynumber: 3.7 Consensus size: 77
11285847 TGAATGATGT
* * * * * **
11285857 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAG-CCCGAAGGCATTTGTAC-GAGTTACTAAATCCGGGTTAAG-TCCGAAGGCATTT
* *
11285921 GTGCGAGATACTAATT
63 GTGCGAGTTACTAA-A
**
11285937 CCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAG-TCCGAAGGCATTTGT
11286002 GCGAGTTACTAAA
65 GCGAGTTACTAAA
* *
11286015 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 -CCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGT-CCGAAGGCATTT
11286080 GTGCGAGTTACTATAA
63 GTGCGAGTTACTA-AA
* * * *
11286096 CCGGGCTATGCCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTA-CTAAATCCGGGTT-AAGTCCGAAGG
11286154 TACGTGATTT
Statistics
Matches: 192, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
79 77 0.40
80 113 0.59
81 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (77 bp):
CCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAAA
Found at i:11286127 original size:120 final size:118
Alignment explanation
Indices: 11285909--11286153 Score: 323
Period size: 120 Copynumber: 2.1 Consensus size: 118
11285899 GGACTAAGAT
*
11285909 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
* ** *
11285974 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTC
66 ATCCGGACTAAGACCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAATC
* * *
11286028 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTA
* * * * *
11286093 TAA-CCGGGCTATGCCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT
65 -AATCCGGACTAAGACCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
11286147 CCGAAGG
1 CCGAAGG
11286154 TACGTGATTT
Statistics
Matches: 110, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
119 51 0.46
120 57 0.52
121 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
ATCCGGACTAAGACCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
Found at i:11301235 original size:44 final size:45
Alignment explanation
Indices: 11301140--11301236 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 45
11301130 GAATAGAGGC
* *
11301140 GTAATGAAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAAT
1 GTAATGGAATAGAAGCGTAATAGCAATTCAATTGTTTGGTTGAAT
* *
11301185 GTAATGGAATAGAAGCGTAATAG-TATTC-TTGTGTTTGGTTGAAT
1 GTAATGGAATAGAAGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
11301229 GTAATGGA
1 GTAATGGA
11301237 GGTGTAATAG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 1 0.02
44 25 0.53
45 21 0.45
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (45 bp):
GTAATGGAATAGAAGCGTAATAGCAATTCAATTGTTTGGTTGAAT
Found at i:11301414 original size:18 final size:17
Alignment explanation
Indices: 11301393--11301427 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11301383 TTATTATTAA
*
11301393 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11301411 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11301428 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11301534 original size:18 final size:17
Alignment explanation
Indices: 11301513--11301547 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11301503 TTATTATTAA
*
11301513 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11301531 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11301548 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11301586 original size:120 final size:120
Alignment explanation
Indices: 11301373--11301692 Score: 615
Period size: 120 Copynumber: 2.7 Consensus size: 120
11301363 TTAATCATAT
11301373 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
11301438 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
11301493 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
11301558 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
* *
11301613 TTTAACATAATTATTATTAAATATATTTCAATTAAAATACATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
11301678 CAATATTCTTA-ATAA
66 CAATATTCTTATATAA
11301693 TCAATATTCT
Statistics
Matches: 198, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
119 4 0.02
120 194 0.98
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
Found at i:11301687 original size:16 final size:16
Alignment explanation
Indices: 11301666--11301704 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
11301656 ATTTAATAAA
11301666 ATTCTTAATAATCAAT
1 ATTCTTAATAATCAAT
11301682 ATTCTTAATAATCAAT
1 ATTCTTAATAATCAAT
11301698 ATTCTTA
1 ATTCTTA
11301705 TAACAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTCTTAATAATCAAT
Found at i:11311298 original size:27 final size:27
Alignment explanation
Indices: 11311239--11311299 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
11311229 ATTTAACAGA
* * *
11311239 ACCATTCCTTCAAAGTTTGCCATACTT
1 ACCATTCCTTCAAAATTAGCCATACAT
* * *
11311266 ATCATTCCTTCAAAATTAGCCGTTCAT
1 ACCATTCCTTCAAAATTAGCCATACAT
11311293 ACCATTC
1 ACCATTC
11311300 TCTCGGAGTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.36
Consensus pattern (27 bp):
ACCATTCCTTCAAAATTAGCCATACAT
Found at i:11311451 original size:28 final size:28
Alignment explanation
Indices: 11311420--11311475 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
11311410 TTCTTTTCCT
* *
11311420 TAGATCGCCAAAAATGCCTCCATTTTCA
1 TAGATCACCAAAAAGGCCTCCATTTTCA
* * *
11311448 TAGATTACCATAAAGGCTTCCATTTTCA
1 TAGATCACCAAAAAGGCCTCCATTTTCA
11311476 CACATTTTCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (28 bp):
TAGATCACCAAAAAGGCCTCCATTTTCA
Found at i:11312935 original size:44 final size:44
Alignment explanation
Indices: 11312853--11312937 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
11312843 TAATTGTAAT
* * **
11312853 TTAAATTGTAATTCTTTTTAAATGTGTAATTAGTACAACTTTGA
1 TTAAATTATAATTATTTTTAAATGAATAATTAGTACAACTTTGA
*
11312897 TTAAATTATAATTATTTTTAAATGAATATTTA-TAACAACTT
1 TTAAATTATAATTATTTTTAAATGAATAATTAGT-ACAACTT
11312938 CTATTATATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 1 0.03
44 34 0.97
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (44 bp):
TTAAATTATAATTATTTTTAAATGAATAATTAGTACAACTTTGA
Found at i:11314072 original size:11 final size:11
Alignment explanation
Indices: 11314056--11314088 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
11314046 AATAAACTTT
11314056 GTAATTTTATA
1 GTAATTTTATA
*
11314067 GTAATTTTATT
1 GTAATTTTATA
11314078 GTAATTTTATA
1 GTAATTTTATA
11314089 TTTTCTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (11 bp):
GTAATTTTATA
Found at i:11314266 original size:358 final size:347
Alignment explanation
Indices: 11313620--11314326 Score: 1315
Period size: 358 Copynumber: 2.0 Consensus size: 347
11313610 ACAAGTTACA
11313620 ATTTTTGAGTTAATTGACATGTTTTTATAAATTTTATAGTTTTATATTTTTATTTTTATTTTTGA
1 ATTTTTGAGTTAATTGACATGTTTTTATAAATTTTATAGTTTTATATTTTTATTTTTATTTTTGA
11313685 AAATTTGTTTCTAAAATAAACTTTGTAATTTTATAGTAATTTTATATTTTCTTTGTTTTCTTTTT
66 AAATTTGTTTCTAAAATAAACTTTGTAATTTTATAGTAATTTTATATTTTCTTTGTTTTCTTTTT
11313750 TTAATATTTCTTAATTACTTGTCATTCGCTACATCATCAACCAAGTCAGAATAAATTTAATCGTG
131 TTAATATTTCTTAATTACTTGTCATTCGCTACATCATCAACCAAGTCAGAATAAATTTAATCGTG
11313815 TTCCACTAAACAAAGAAAATAAATTATTAAAGGGTAAATTACACCAACACTCACTCAACTTTGGG
196 TTCCACTAAACAAAGAAAATAAATTATTAAAGGGTAAATTACACCAACACTCACTCAACTTTGGG
11313880 GTAGCTGACAAAACAATCACATTGGTTTCATTTCAGTCACTCAACTTTAGACAAATGACAAAACA
261 GTAGCTGACAAAACAATCACATTGGTTTCATTTCAGTCACTCAACTTTAGACAAATGACAAAACA
11313945 ATCCTTTTTGTCGTTTTCCGTT
326 ATCCTTTTTGTCGTTTTCCGTT
11313967 ATTTTTGAGTTAATTGACATGTTTTTATAAATTTTATAGTTTTATATTTTTATTTTTATTTTTGA
1 ATTTTTGAGTTAATTGACATGTTTTTATAAATTTTATAGTTTTATATTTTTATTTTTATTTTTGA
11314032 AAATTTGTTTCTAAAATAAACTTTGTAATTTTATAGTAATTTTATTGTAATTTTATATTTTCTTT
66 AAATTTGTTTCTAAAATAAACTTTGTAA--TT-T--T-A---TA--GTAATTTTATATTTTCTTT
11314097 GTTTTCTTTTTTTAATATTTCTTAATTACTTGTCATTCGCTACATCATCAACCAAGTCAGAATAA
120 GTTTTCTTTTTTTAATATTTCTTAATTACTTGTCATTCGCTACATCATCAACCAAGTCAGAATAA
11314162 ATTTAATCGTGTTCCACTAAACAAAGAAAATAAATTATTAAAGGGTAAATTACACCAACACTCAC
185 ATTTAATCGTGTTCCACTAAACAAAGAAAATAAATTATTAAAGGGTAAATTACACCAACACTCAC
11314227 TCAACTTTGGGGTAGCTGACAAAACAATCACATTGGTTTCATTTCAGTCACTCAACTTTAGACAA
250 TCAACTTTGGGGTAGCTGACAAAACAATCACATTGGTTTCATTTCAGTCACTCAACTTTAGACAA
11314292 ATGACAAAACAATCCTTTTTGTCGTTTTCCGTT
315 ATGACAAAACAATCCTTTTTGTCGTTTTCCGTT
11314325 AT
1 AT
11314327 AGACGTAACA
Statistics
Matches: 349, Mismatches: 0, Indels: 11
0.97 0.00 0.03
Matches are distributed among these distances:
347 93 0.27
349 2 0.01
350 1 0.00
352 1 0.00
353 1 0.00
356 2 0.01
358 249 0.71
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.44
Consensus pattern (347 bp):
ATTTTTGAGTTAATTGACATGTTTTTATAAATTTTATAGTTTTATATTTTTATTTTTATTTTTGA
AAATTTGTTTCTAAAATAAACTTTGTAATTTTATAGTAATTTTATATTTTCTTTGTTTTCTTTTT
TTAATATTTCTTAATTACTTGTCATTCGCTACATCATCAACCAAGTCAGAATAAATTTAATCGTG
TTCCACTAAACAAAGAAAATAAATTATTAAAGGGTAAATTACACCAACACTCACTCAACTTTGGG
GTAGCTGACAAAACAATCACATTGGTTTCATTTCAGTCACTCAACTTTAGACAAATGACAAAACA
ATCCTTTTTGTCGTTTTCCGTT
Found at i:11314454 original size:3 final size:3
Alignment explanation
Indices: 11314446--11314504 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
11314436 TTTATGCAAT
11314446 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
11314494 ATA AG- AGA AGA
1 AGA AGA AGA AGA
11314505 GAAAAAATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:11320194 original size:30 final size:30
Alignment explanation
Indices: 11320157--11320272 Score: 101
Period size: 30 Copynumber: 3.8 Consensus size: 30
11320147 GATAAAAATG
11320157 ATAAAATTTATTAAATTTATAAAAAAATAT
1 ATAAAATTTATTAAATTTATAAAAAAATAT
* * *
11320187 TTAAAATTTATTAAAAATTA-AAAAATATAT
1 ATAAAATTTATT-AAATTTATAAAAAAATAT
* * * *
11320217 ATAAAATGTATAGAAATGTAGAAAAAAAT-T
1 ATAAAATTTAT-TAAATTTATAAAAAAATAT
** *
11320247 ATAAAATTATAAAAAAGTTATAAAAA
1 ATAAAATT-TATTAAATTTATAAAAA
11320273 TTGTAAAGAA
Statistics
Matches: 67, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
30 52 0.78
31 15 0.22
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (30 bp):
ATAAAATTTATTAAATTTATAAAAAAATAT
Found at i:11320267 original size:11 final size:10
Alignment explanation
Indices: 11320173--11320289 Score: 50
Period size: 10 Copynumber: 11.7 Consensus size: 10
11320163 TTTATTAAAT
11320173 TTATAAAAAA
1 TTATAAAAAA
* * *
11320183 ATATTTAAAAT
1 TTA-TAAAAAA
*
11320194 TTATTAAAAA
1 TTATAAAAAA
11320204 -T-TAAAAAA
1 TTATAAAAAA
*
11320212 TATATATAAAA
1 T-TATAAAAAA
*
11320223 TGTAT-AGAAA
1 T-TATAAAAAA
*
11320233 TGTAGAAAAAAA
1 T-TA-TAAAAAA
11320245 TTAT--AAAA
1 TTATAAAAAA
11320253 TTATAAAAAA
1 TTATAAAAAA
11320263 GTTAT-AAAAA
1 -TTATAAAAAA
*
11320273 TTGTAAAGAAA
1 TTATAAA-AAA
11320284 -TATAAA
1 TTATAAA
11320290 TTTCATAAAA
Statistics
Matches: 81, Mismatches: 15, Indels: 22
0.69 0.13 0.19
Matches are distributed among these distances:
8 14 0.17
9 4 0.05
10 32 0.40
11 26 0.32
12 5 0.06
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:11321647 original size:125 final size:125
Alignment explanation
Indices: 11321282--11321697 Score: 586
Period size: 125 Copynumber: 3.3 Consensus size: 125
11321272 CGTGGACACA
* * * * *
11321282 AAGAATTTGTGAAATCGTGCCCTCCTGGACGCGTTTTTGCTACAGTTGGTCCTGAAAGAAATAAT
1 AAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAAT
*
11321347 TTCGAGTTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTACTAGGATGCTTTATGAG
66 TTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACTAGGATGCTTTATGAG
* * * * * * *
11321407 AAGAATTTGTTAAATCGCACCCACGTGGACTCGCTTTTGCTACAGTAGGTCAT-GAAAAAATTAT
1 AAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAAT
* * * * *
11321471 TTTGAGTTTACGTTTCTGAGCAAATAGTATAAAAACGCTTCAAGC-AGGATGCTATT-TAAG
66 TTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTA-CTAGGATGCT-TTATGAG
* * *
11321531 AAGCATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAAT
1 AAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAAT
* *
11321596 TTCGAGTTGATGTTTCTGAACAAATAGTATAAAATCGCTTCTACTAGGATGCTTTATGAG
66 TTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACTAGGATGCTTTATGAG
11321656 AAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTA
1 AAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTA
11321698 TAGTAACATG
Statistics
Matches: 248, Mismatches: 38, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
124 105 0.42
125 143 0.58
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.32
Consensus pattern (125 bp):
AAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAAT
TTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACTAGGATGCTTTATGAG
Found at i:11324242 original size:45 final size:45
Alignment explanation
Indices: 11324186--11324301 Score: 180
Period size: 45 Copynumber: 2.6 Consensus size: 45
11324176 TAAGCTCATG
*
11324186 TTATTACATCAAATAATTTCAAAATAACTCAAAA-AAATTTCTATT
1 TTATTACATCAAATAATATCAAAATAACTCAAAACAAA-TTCTATT
* *
11324231 TTATTATATCAAATAATATCGAAATAACTCAAAACAAATTCTATT
1 TTATTACATCAAATAATATCAAAATAACTCAAAACAAATTCTATT
*
11324276 TTATTACATAAAATAATATCAAAATA
1 TTATTACATCAAATAATATCAAAATA
11324302 TTCAAAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 61 0.95
46 3 0.05
ACGTcount: A:0.51, C:0.12, G:0.01, T:0.36
Consensus pattern (45 bp):
TTATTACATCAAATAATATCAAAATAACTCAAAACAAATTCTATT
Found at i:11326614 original size:51 final size:51
Alignment explanation
Indices: 11326553--11326650 Score: 128
Period size: 51 Copynumber: 1.9 Consensus size: 51
11326543 AATTATTTAA
11326553 AAATAGGGATTTAAGAG-AAATTT-AAGAAGAACTTGAGAGCAAATTGAAATT
1 AAATAGGGATTTAAGAGAAAATTTGAAG--GAACTTGAGAGCAAATTGAAATT
* * * *
11326604 AAATATGGATTTGAGAGAAAATTTGAAGGAATTTGATAGCAAATTGA
1 AAATAGGGATTTAAGAGAAAATTTGAAGGAACTTGAGAGCAAATTGA
11326651 GAGGAAATTG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
51 32 0.78
52 6 0.15
53 3 0.07
ACGTcount: A:0.47, C:0.03, G:0.22, T:0.28
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAAATTTGAAGGAACTTGAGAGCAAATTGAAATT
Found at i:11326637 original size:22 final size:23
Alignment explanation
Indices: 11326612--11326676 Score: 80
Period size: 22 Copynumber: 2.9 Consensus size: 23
11326602 TTAAATATGG
11326612 ATTTGAGAGAAAATTTGA-AGGA
1 ATTTGAGAGAAAATTTGAGAGGA
* *
11326634 ATTTGATAGCAAA-TTGAGAGGA
1 ATTTGAGAGAAAATTTGAGAGGA
* *
11326656 AATTGAGAGGAAATTTGAGAG
1 ATTTGAGAGAAAATTTGAGAG
11326677 AGGATTAGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 4 0.11
22 25 0.69
23 7 0.19
ACGTcount: A:0.43, C:0.02, G:0.29, T:0.26
Consensus pattern (23 bp):
ATTTGAGAGAAAATTTGAGAGGA
Found at i:11326680 original size:14 final size:11
Alignment explanation
Indices: 11326614--11326676 Score: 65
Period size: 11 Copynumber: 5.6 Consensus size: 11
11326604 AAATATGGAT
*
11326614 TTGAGAGAAAA
1 TTGAGAGGAAA
*
11326625 TTTGA-AGGAAT
1 -TTGAGAGGAAA
* *
11326636 TTGATAGCAAA
1 TTGAGAGGAAA
11326647 TTGAGAGGAAA
1 TTGAGAGGAAA
11326658 TTGAGAGGAAA
1 TTGAGAGGAAA
11326669 TTTGAGAG
1 -TTGAGAG
11326677 AGGATTAGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
10 4 0.09
11 28 0.65
12 11 0.26
ACGTcount: A:0.43, C:0.02, G:0.30, T:0.25
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:11330269 original size:94 final size:94
Alignment explanation
Indices: 11330159--11330343 Score: 352
Period size: 94 Copynumber: 2.0 Consensus size: 94
11330149 ATCCATTGCG
*
11330159 GATGTACTCTATATATTTAAAAGATCATAATCTCATTTTCATATCAAGTGTGTTGAACTTGAATG
1 GATGTACTCTATATATTTAAAAGATCATAATCTCATTTTCATATCAAGCGTGTTGAACTTGAATG
*
11330224 CCTTTGGACTCAACTAGTAACTTTGGCAA
66 CCTTTGGACTCAACTAATAACTTTGGCAA
11330253 GATGTACTCTATATATTTAAAAGATCATAATCTCATTTTCATATCAAGCGTGTTGAACTTGAATG
1 GATGTACTCTATATATTTAAAAGATCATAATCTCATTTTCATATCAAGCGTGTTGAACTTGAATG
11330318 CCTTTGGACTCAACTAATAACTTTGG
66 CCTTTGGACTCAACTAATAACTTTGG
11330344 TTACCATTGT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 89 1.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (94 bp):
GATGTACTCTATATATTTAAAAGATCATAATCTCATTTTCATATCAAGCGTGTTGAACTTGAATG
CCTTTGGACTCAACTAATAACTTTGGCAA
Found at i:11337945 original size:12 final size:13
Alignment explanation
Indices: 11337930--11337958 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
11337920 TTAGTCCTAT
11337930 TATTATTATTA-C
1 TATTATTATTACC
11337942 TATTATTATTACC
1 TATTATTATTACC
11337955 TATT
1 TATT
11337959 TATTTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (13 bp):
TATTATTATTACC
Found at i:11338531 original size:34 final size:34
Alignment explanation
Indices: 11338478--11338560 Score: 132
Period size: 34 Copynumber: 2.4 Consensus size: 34
11338468 TTTATTTCAT
11338478 TTTGTTATTA-TTTGAATGAATGATTTAACTTTA
1 TTTGTTATTATTTTGAATGAATGATTTAACTTTA
11338511 TTTGTTATTATTTTGAATGAATGATTTAACTTTA
1 TTTGTTATTATTTTGAATGAATGATTTAACTTTA
* *
11338545 TTCGTTTTTTATTTTG
1 TTTG-TTATTATTTTG
11338561 TTATTTTGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
33 10 0.22
34 26 0.57
35 10 0.22
ACGTcount: A:0.25, C:0.04, G:0.12, T:0.59
Consensus pattern (34 bp):
TTTGTTATTATTTTGAATGAATGATTTAACTTTA
Found at i:11349393 original size:1 final size:1
Alignment explanation
Indices: 11349387--11349426 Score: 71
Period size: 1 Copynumber: 40.0 Consensus size: 1
11349377 TTTGCTTCCT
*
11349387 AAAAAAAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11349427 CTTTGGAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:11350799 original size:44 final size:44
Alignment explanation
Indices: 11350749--11351342 Score: 237
Period size: 44 Copynumber: 13.7 Consensus size: 44
11350739 TTTCAGATCT
* *
11350749 TATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTGGTAATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTGGTAATCC
* *** *
11350793 TATCT-CCTGAGATTACAGTGGAGCGGATTAGAATAAAGG--ATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATT-GAA-GCTGGTAATCC
* * * * * * *
11350836 TATCTCTCTGA-AGTTACAGTAGAGTAGATCGCACCAGG---T-C
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTGGTAATCC
* * ** * * *
11350876 TATTTCCCTGAGATTACAGTGGAACAGACCGAAGAAT-TTCAAATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CTGGT--AATCC
* *
11350922 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTGGTAATCC
* * * ** *
11350966 TATCTCTCTGAGATTACAGTGGAGCGGATT-AA-AT-AAAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTGGTA-ATCC
* * * * * * *
11351008 TATCTCTCTGA-AGTTACAGTAGAGTAGATCGCACCAGG---TCC
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTGGTAATCC
* * ** ** * *
11351049 TATTTCCCTGAGATTACAGTGGAACAGACCGAAAAT-TTCAAATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTGGT--AATCC
* *
11351094 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTGGTAATCC
* * *** *
11351138 TATCTCTCTGAGATTACAGTGGAGCGGATTAGAATAAAGG--ATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATT-GAA-GCTGGTAATCC
* * * * * * *
11351182 TATCTCTCTGA-AGTTACAGTAGAGTAGATCGCACCAGG---TCC
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTGGTAATCC
* * ** * * *
11351223 TATTTCCCTGAGATTACAGTGGAACAGACCGAAGAAT-TTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CTGGT-A-ATCC
* *
11351269 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTGGTAATCC
* * *
11351313 TATCTCCCTGAGATTATAATGGAGCGGATT
1 TATCTCCCTGAGATTACAGTGGAGCAGATT
11351343 AAAATAAAAG
Statistics
Matches: 401, Mismatches: 113, Indels: 72
0.68 0.19 0.12
Matches are distributed among these distances:
40 24 0.06
41 56 0.14
42 36 0.09
43 38 0.09
44 143 0.36
45 40 0.10
46 64 0.16
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTGGTAATCC
Found at i:11351117 original size:172 final size:175
Alignment explanation
Indices: 11350732--11351386 Score: 1178
Period size: 172 Copynumber: 3.8 Consensus size: 175
11350722 ATAAGTAGAT
* * *
11350732 CGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTGGTAATCCTATC
1 CGAAGAATTTCAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC
11350797 TC-CTGAGATTACAGTGGAGCGGATTAGAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
66 TCTCTGAGATTACAGTGGAGCGGATTAGAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
11350861 AGATCGCACCAGGT-CTATTTCCCTGAGATTACAGTGGAACAGAC
131 AGATCGCACCAGGTCCTATTTCCCTGAGATTACAGTGGAACAGAC
11350905 CGAAGAATTTCAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC
1 CGAAGAATTTCAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC
11350970 TCTCTGAGATTACAGTGGAGCGGATTA-AATAAA-GATCTTATCTCTCTGAAGTTACAGTAGAGT
66 TCTCTGAGATTACAGTGGAGCGGATTAGAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
11351033 AGATCGCACCAGGTCCTATTTCCCTGAGATTACAGTGGAACAGAC
131 AGATCGCACCAGGTCCTATTTCCCTGAGATTACAGTGGAACAGAC
11351078 CGAA-AATTTCAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC
1 CGAAGAATTTCAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC
11351142 TCTCTGAGATTACAGTGGAGCGGATTAGAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
66 TCTCTGAGATTACAGTGGAGCGGATTAGAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
11351207 AGATCGCACCAGGTCCTATTTCCCTGAGATTACAGTGGAACAGAC
131 AGATCGCACCAGGTCCTATTTCCCTGAGATTACAGTGGAACAGAC
*
11351252 CGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC
1 CGAAGAATTTCAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC
* * * * * *
11351317 TCCCTGAGATTATAATGGAGCGGATTAAAATAAAAGATCTTAT-TCTCTGAGGTTACAGTAGAGT
66 TCTCTGAGATTACAGTGGAGCGGATTAGAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
11351381 AGATCG
131 AGATCG
11351387 TTTCAGATCT
Statistics
Matches: 467, Mismatches: 10, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
172 131 0.28
173 110 0.24
174 129 0.28
175 97 0.21
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (175 bp):
CGAAGAATTTCAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC
TCTCTGAGATTACAGTGGAGCGGATTAGAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
AGATCGCACCAGGTCCTATTTCCCTGAGATTACAGTGGAACAGAC
Found at i:11353024 original size:12 final size:12
Alignment explanation
Indices: 11352995--11353029 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
11352985 GAATTAGTCC
*
11352995 TATTATTATTAT
1 TATTACTATTAT
11353007 TATTACTATTAT
1 TATTACTATTAT
11353019 TATTACCTATT
1 TATTA-CTATT
11353030 TATTTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTACTATTAT
Found at i:11353597 original size:35 final size:34
Alignment explanation
Indices: 11353547--11353633 Score: 138
Period size: 35 Copynumber: 2.5 Consensus size: 34
11353537 TTATTTATTC
11353547 ATTTTTTATTATTTTGAATGAATGATTTAACTTT
1 ATTTTTTATTATTTTGAATGAATGATTTAACTTT
11353581 ATTTTGTTATTATTTTGAATGAATGATTTAACTTT
1 ATTTT-TTATTATTTTGAATGAATGATTTAACTTT
*
11353616 ATTCGTTTTTTTATTTTG
1 ATT--TTTTATTATTTTG
11353634 TTATTTTGTA
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
34 5 0.10
35 32 0.65
36 10 0.20
37 2 0.04
ACGTcount: A:0.25, C:0.03, G:0.10, T:0.61
Consensus pattern (34 bp):
ATTTTTTATTATTTTGAATGAATGATTTAACTTT
Found at i:11360213 original size:19 final size:19
Alignment explanation
Indices: 11360166--11360213 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
11360156 AGGAATTAAG
* *
11360166 AAAATATTTTTTTATAATT
1 AAAATATATTTATATAATT
*
11360185 AAAATA-ATTTATATTATT
1 AAAATATATTTATATAATT
*
11360203 TAAATATATTT
1 AAAATATATTT
11360214 TAATCTTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
AAAATATATTTATATAATT
Found at i:11361080 original size:122 final size:121
Alignment explanation
Indices: 11360834--11361070 Score: 325
Period size: 122 Copynumber: 2.0 Consensus size: 121
11360824 TTTATTCATT
* *
11360834 ATTTAATATATTTTTATTTTAATATTGTACATATTTCATTTATTATTATGATTAATTAGCTTCAA
1 ATTTAATATATTTTTATTTTAATATTGTACATATTTCATGTATTATTATGATTAATTAACTTCAA
** *
11360899 ACCATACAGTTCATTAATTATTGTATGTTATCTTTAAATAAACATCTATAATAATA
66 ACCATACAGTTCATTAATTATTACATGTTATCTTTAAACAAACATCTATAATAATA
* * *
11360955 ATTTAATCTATTTTTTATTTTAATATTGTACATATATT-ATGTGTTATTATGATTAATTAATTTC
1 ATTTAATATA-TTTTTATTTTAATATTGTACATAT-TTCATGTATTATTATGATTAATTAACTTC
* * * *
11361019 AAACCATA-TGTTTTATTAATTATTACATGTTATTTTTAAACATACATCTATA
64 AAACCATACAG-TTCATTAATTATTACATGTTATCTTTAAACAAACATCTATA
11361071 TTTTAAATTT
Statistics
Matches: 101, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
121 10 0.10
122 89 0.88
123 2 0.02
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (121 bp):
ATTTAATATATTTTTATTTTAATATTGTACATATTTCATGTATTATTATGATTAATTAACTTCAA
ACCATACAGTTCATTAATTATTACATGTTATCTTTAAACAAACATCTATAATAATA
Found at i:11364487 original size:10 final size:10
Alignment explanation
Indices: 11364472--11364501 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
11364462 GAGTCAACTG
11364472 TTAATTTTTT
1 TTAATTTTTT
11364482 TTAATTTTTT
1 TTAATTTTTT
11364492 TTAATTTTTT
1 TTAATTTTTT
11364502 ATTTAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (10 bp):
TTAATTTTTT
Found at i:11375471 original size:20 final size:20
Alignment explanation
Indices: 11375446--11375495 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
11375436 TGCTTGTACA
11375446 TGTTTGCACTTTGATGCCTC
1 TGTTTGCACTTTGATGCCTC
* *
11375466 TGTTTGCACTTTGGTGCCTT
1 TGTTTGCACTTTGATGCCTC
*
11375486 TGTTTTCACT
1 TGTTTGCACT
11375496 ACGGTGTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.08, C:0.22, G:0.20, T:0.50
Consensus pattern (20 bp):
TGTTTGCACTTTGATGCCTC
Found at i:11381816 original size:62 final size:62
Alignment explanation
Indices: 11381719--11381843 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
11381709 AAAGCTTTCG
11381719 GTTCATTTTCAATACCTAAATGCATCTCACCATGTTCAGCAGGTGGTGATGATGATGAAGAA
1 GTTCATTTTCAATACCTAAATGCATCTCACCATGTTCAGCAGGTGGTGATGATGATGAAGAA
11381781 GTTCATTTTCAATACCTAAATGCATCTCACCATGTTCAGCAGGTGGTGATGATGATGAAGAA
1 GTTCATTTTCAATACCTAAATGCATCTCACCATGTTCAGCAGGTGGTGATGATGATGAAGAA
11381843 G
1 G
11381844 AAGATGAAGG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (62 bp):
GTTCATTTTCAATACCTAAATGCATCTCACCATGTTCAGCAGGTGGTGATGATGATGAAGAA
Found at i:11382846 original size:27 final size:26
Alignment explanation
Indices: 11382816--11382874 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
11382806 AACTAAATTA
*
11382816 CTTTTTCTTAATAATATTACATTTAGT
1 CTTTTT-TTAATAATATTACATTTAGG
* * * *
11382843 CTTTTTTTTATTATTTTATATTTAGG
1 CTTTTTTTAATAATATTACATTTAGG
11382869 CTTTTT
1 CTTTTT
11382875 AATTATAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.22, C:0.08, G:0.05, T:0.64
Consensus pattern (26 bp):
CTTTTTTTAATAATATTACATTTAGG
Found at i:11383834 original size:40 final size:41
Alignment explanation
Indices: 11383790--11383869 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 41
11383780 ATTCAATACA
*
11383790 AAAATATATATTATATTTAT-TTA-TGTTTTTTTAATATAAT
1 AAAATATATATTATATTTATGGTAGTG-TTTTTTAATATAAT
*
11383830 AAAATATTTATTATATTTATGGTAGTGTTTTTTAATATAA
1 AAAATATATATTATATTTATGGTAGTGTTTTTTAATATAA
11383870 ATTATTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 19 0.53
41 15 0.42
42 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (41 bp):
AAAATATATATTATATTTATGGTAGTGTTTTTTAATATAAT
Found at i:11397336 original size:30 final size:30
Alignment explanation
Indices: 11397302--11397361 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
11397292 AGAGACAGGA
11397302 GCGTGTGTTTTAG-CTGTGTATGACACACGG
1 GCGTGTGTTTT-GCCTGTGTATGACACACGG
11397332 GCGTGTGTTTTGCCTGTGTATGACACACGG
1 GCGTGTGTTTTGCCTGTGTATGACACACGG
11397362 CATGTGGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.15, C:0.18, G:0.33, T:0.33
Consensus pattern (30 bp):
GCGTGTGTTTTGCCTGTGTATGACACACGG
Found at i:11397379 original size:29 final size:30
Alignment explanation
Indices: 11397315--11397381 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
11397305 TGTGTTTTAG
* *
11397315 CTGTGTATGACACACGGGCGTGTGTTTTGC
1 CTGTGTATGACACACGGGCATGTGTTTGGC
11397345 CTGTGTATGACACAC-GGCATGTGGTTTGGC
1 CTGTGTATGACACACGGGCATGT-GTTTGGC
11397375 CGTGTGT
1 C-TGTGT
11397382 CCCCTGTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 6 0.18
30 22 0.67
31 5 0.15
ACGTcount: A:0.13, C:0.19, G:0.34, T:0.33
Consensus pattern (30 bp):
CTGTGTATGACACACGGGCATGTGTTTGGC
Found at i:11401030 original size:9 final size:9
Alignment explanation
Indices: 11401016--11401040 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11401006 GTTTTCGAAT
11401016 TCGAATAAC
1 TCGAATAAC
11401025 TCGAATAAC
1 TCGAATAAC
11401034 TCGAATA
1 TCGAATA
11401041 TTAAACTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (9 bp):
TCGAATAAC
Found at i:11407476 original size:41 final size:41
Alignment explanation
Indices: 11407360--11407477 Score: 143
Period size: 40 Copynumber: 2.9 Consensus size: 41
11407350 TGATTTGGTA
* ** *
11407360 CACCGG-AATGAAGCCTGCTAGACATAAAGTTTGAAATAATT
1 CACCGGCAAT-AAGCCTGCTAGACACAAAGCCTGAATTAATT
* *
11407401 CACCGGCAAT-AGCTTGCTAGTCACAAAGCCTGAATTAATT
1 CACCGGCAATAAGCCTGCTAGACACAAAGCCTGAATTAATT
11407441 CACCGGCAATAAGCCTGCTA-AGCACAAAGCCTGAATT
1 CACCGGCAATAAGCCTGCTAGA-CACAAAGCCTGAATT
11407478 TCACTGATAC
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
40 34 0.52
41 29 0.44
42 3 0.05
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.22
Consensus pattern (41 bp):
CACCGGCAATAAGCCTGCTAGACACAAAGCCTGAATTAATT
Found at i:11410941 original size:169 final size:169
Alignment explanation
Indices: 11410656--11410994 Score: 615
Period size: 169 Copynumber: 2.0 Consensus size: 169
11410646 TGATGGCTCG
*
11410656 AGAGTGAGTATTTATATGAGATATGAGATAGAGGTGGTTTCAACCACGTATTGGCACTTAGTGTG
1 AGAGTGAGTATCTATATGAGATATGAGATAGAGGTGGTTTCAACCACGTATTGGCACTTAGTGTG
*
11410721 CGAGATACCCGAGTATCCGATAGTATTCCAAATGGTTCAACGAGCACAGTGATGATTTGAGGTTA
66 CGAGATACCCGAGTATCCGATAGTATTCCAAATGGTTCAACGAGCACAGTGATGATTTAAGGTTA
*
11410786 CATGAGTTCGATTCAAACTAGTACAGGTGTTTATGTGAA
131 CATGAGTTCGATTCAAACTAGTACAGGTATTTATGTGAA
*
11410825 AGAGTGAGTATCTATATGAGATATGAGATAGAGGTGGTTTCGACCACGTATTGGCACTTAGTGTG
1 AGAGTGAGTATCTATATGAGATATGAGATAGAGGTGGTTTCAACCACGTATTGGCACTTAGTGTG
* *
11410890 CGAGATACCCGAGTATCCGATAGTATTCCAAATGGTTCAACGGGTACAGTGATGATTTAAGGTTA
66 CGAGATACCCGAGTATCCGATAGTATTCCAAATGGTTCAACGAGCACAGTGATGATTTAAGGTTA
*
11410955 CATGAGTTCGATTCGAACTAGTACAGGTATTTATGTGAA
131 CATGAGTTCGATTCAAACTAGTACAGGTATTTATGTGAA
11410994 A
1 A
11410995 TACGCGAAGT
Statistics
Matches: 163, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
169 163 1.00
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (169 bp):
AGAGTGAGTATCTATATGAGATATGAGATAGAGGTGGTTTCAACCACGTATTGGCACTTAGTGTG
CGAGATACCCGAGTATCCGATAGTATTCCAAATGGTTCAACGAGCACAGTGATGATTTAAGGTTA
CATGAGTTCGATTCAAACTAGTACAGGTATTTATGTGAA
Found at i:11412605 original size:46 final size:46
Alignment explanation
Indices: 11412527--11412688 Score: 267
Period size: 46 Copynumber: 3.6 Consensus size: 46
11412517 TACGTATGAT
* *
11412527 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGTTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
11412571 CACTTATCACTTTGTCACTTGACCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
11412617 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
11412663 CACTTATCACTTTGCCAC-TGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
11412689 AGTACTCAAA
Statistics
Matches: 111, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
44 10 0.09
45 13 0.12
46 88 0.79
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:11420652 original size:5 final size:5
Alignment explanation
Indices: 11420642--11420670 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
11420632 TATCATAATA
11420642 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
11420671 AACATTATAG
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:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:11422917 original size:21 final size:21
Alignment explanation
Indices: 11422891--11422951 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
11422881 TTTGGGTGGA
11422891 TCAGCTCTCACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
*
11422912 TCAGCTCTAACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
*
11422933 TCAGCTTTCACGAGCTTCT
1 TCAGCTCTCACGAGCTTCT
11422952 ATTGACGTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.16, C:0.31, G:0.18, T:0.34
Consensus pattern (21 bp):
TCAGCTCTCACGAGCTTCTGT
Found at i:11424466 original size:251 final size:251
Alignment explanation
Indices: 11424023--11424534 Score: 920
Period size: 251 Copynumber: 2.0 Consensus size: 251
11424013 AATGTTGGCT
11424023 TATATGTATTTGTTGAGTTTAGCCACTCATTTGGCTTATGTTTTGGTATTTTAGTATGTGCATAA
1 TATATGTATTTGTTGAGTTTAGCCACTCATTTGGCTTATGTTTTGGTATTTTAGTATGTGCATAA
*
11424088 TTTACTTTAAAATGTTGATGTGTGGAATGATTTGTGGTTGAATGATGAAAGGTAAAATAGTAGTT
66 TTTACTTTAAAATGTTGATGTGTGGAATGATTTGTAGTTGAATGATGAAAGGTAAAATAGTAGTT
11424153 GAAAATGCATATGAGGTACGTTTTCTAACTTGGTCTGATTTGGTACTATGCTATAGTAAGTGTAT
131 GAAAATGCATATGAGGTACGTTTTCTAACTTGGTCTGATTTGGTACTATGCTATAGTAAGTGTAT
11424218 ATGTATTTGATGCTATTGAATAAGTAGTACAATTGGTACCAAATGGTAAGTTTTAG
196 ATGTATTTGATGCTATTGAATAAGTAGTACAATTGGTACCAAATGGTAAGTTTTAG
11424274 TATATGTATTTGTTGAGTTTAGCCACTCATTTGGCTTATGTTTTGGTATTTT-GATATGTGCATA
1 TATATGTATTTGTTGAGTTTAGCCACTCATTTGGCTTATGTTTTGGTATTTTAG-TATGTGCATA
* *
11424338 ATTTGCTTTAAAATGTTGATGTGTGGAATGATTTGTAGTTTAATGATGAAAGGTAAAATAGTAGT
65 ATTTACTTTAAAATGTTGATGTGTGGAATGATTTGTAGTTGAATGATGAAAGGTAAAATAGTAGT
* * *
11424403 TGAAAATGCATATGAGGTACTTTTTCTAACTTGGTGTGATTTGTTACTATGCTATAGTAAGTGTA
130 TGAAAATGCATATGAGGTACGTTTTCTAACTTGGTCTGATTTGGTACTATGCTATAGTAAGTGTA
**
11424468 TATGTATTTGATGCTATTGAATAAGTAGTATGATTGGTACCAAATGGTAAGTTTTAG
195 TATGTATTTGATGCTATTGAATAAGTAGTACAATTGGTACCAAATGGTAAGTTTTAG
*
11424525 TAAATG-ATTT
1 TATATGTATTT
11424535 ACATGTCGTG
Statistics
Matches: 251, Mismatches: 9, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
250 5 0.02
251 246 0.98
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (251 bp):
TATATGTATTTGTTGAGTTTAGCCACTCATTTGGCTTATGTTTTGGTATTTTAGTATGTGCATAA
TTTACTTTAAAATGTTGATGTGTGGAATGATTTGTAGTTGAATGATGAAAGGTAAAATAGTAGTT
GAAAATGCATATGAGGTACGTTTTCTAACTTGGTCTGATTTGGTACTATGCTATAGTAAGTGTAT
ATGTATTTGATGCTATTGAATAAGTAGTACAATTGGTACCAAATGGTAAGTTTTAG
Found at i:11434453 original size:20 final size:19
Alignment explanation
Indices: 11434428--11434479 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 19
11434418 ATATATATTT
11434428 TTTAAAATAATATTGATAAA
1 TTTAAAA-AATATTGATAAA
*
11434448 TTTAAAACATATTGATAATAA
1 TTTAAAAAATATTGAT-A-AA
11434469 TTTTAAAAAAT
1 -TTTAAAAAAT
11434480 GTATTATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 8 0.30
20 8 0.30
21 2 0.07
22 9 0.33
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (19 bp):
TTTAAAAAATATTGATAAA
Found at i:11434473 original size:22 final size:21
Alignment explanation
Indices: 11434427--11434476 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
11434417 TATATATATT
11434427 TTTTAAAATAATATTGATAAA
1 TTTTAAAATAATATTGATAAA
*
11434448 -TTTAAAA-CATATTGATAATAA
1 TTTTAAAATAATATTGAT-A-AA
11434469 TTTTAAAA
1 TTTTAAAA
11434477 AATGTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 8 0.32
20 8 0.32
21 2 0.08
22 7 0.28
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (21 bp):
TTTTAAAATAATATTGATAAA
Found at i:11436592 original size:46 final size:46
Alignment explanation
Indices: 11436454--11436625 Score: 148
Period size: 46 Copynumber: 3.7 Consensus size: 46
11436444 CAGGGCTTAA
* * * * *
11436454 TATTTTTGTATTCTCAAGTTCGCAATAG-ATGCAGGAACTTGGAACC
1 TATTCTTGTATTCTCGAGTACGCAA-CGTATGCAGGAGCTTGGAACC
* * * * * ***
11436500 TATTTTTGTATTCTCAAGTTCGCAATGTATGTAGGAGCTCAAAACC
1 TATTCTTGTATTCTCGAGTACGCAACGTATGCAGGAGCTTGGAACC
* * *
11436546 TAATCCTATATTCTCGAGTACGCAACGTATGCAGGAGCTTGGAACC
1 TATTCTTGTATTCTCGAGTACGCAACGTATGCAGGAGCTTGGAACC
* * * *
11436592 TATTCTTGCATTCTCGAGTCCACAACATATGCAG
1 TATTCTTGTATTCTCGAGTACGCAACGTATGCAG
11436626 TAGTTCGAAA
Statistics
Matches: 101, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
45 1 0.01
46 100 0.99
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (46 bp):
TATTCTTGTATTCTCGAGTACGCAACGTATGCAGGAGCTTGGAACC
Found at i:11437986 original size:15 final size:15
Alignment explanation
Indices: 11437948--11437987 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
11437938 TCCACCACTT
*
11437948 GATGAAGAAGACGAG
1 GATGAAGATGACGAG
11437963 GATGAAGATGACGAG
1 GATGAAGATGACGAG
11437978 GATGAAGATG
1 GATGAAGATG
11437988 TTGGGTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.42, C:0.05, G:0.40, T:0.12
Consensus pattern (15 bp):
GATGAAGATGACGAG
Found at i:11438411 original size:20 final size:19
Alignment explanation
Indices: 11438359--11438411 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
11438349 ACAATATTGA
11438359 TTTACCAATATTTATAAGAC
1 TTTA-CAATATTTATAAGAC
* *
11438379 TTTACTAAAATTTATAAGAT
1 TTTAC-AATATTTATAAGAC
11438399 TTTATCAATATTT
1 TTTA-CAATATTT
11438412 CCAAATTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (19 bp):
TTTACAATATTTATAAGAC
Found at i:11438781 original size:40 final size:40
Alignment explanation
Indices: 11438694--11438782 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 40
11438684 TCCAATGACT
* * ** *
11438694 TACCAAAATATCTAACAATTTATCGAAATTTATATTGTTT
1 TACCAATATATCTAACAACTTATCGAAATTTATATCATTA
*
11438734 TACCAATATATCTAACAACTTATC-AATATTTCTATCATTA
1 TACCAATATATCTAACAACTTATCGAA-ATTTATATCATTA
*
11438774 TATCAATAT
1 TACCAATAT
11438783 TTATGAGGCT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.05
40 39 0.95
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.42
Consensus pattern (40 bp):
TACCAATATATCTAACAACTTATCGAAATTTATATCATTA
Found at i:11438899 original size:20 final size:20
Alignment explanation
Indices: 11438876--11438951 Score: 100
Period size: 20 Copynumber: 3.9 Consensus size: 20
11438866 TTTTTTTAAA
*
11438876 GATTTACCAATATTTCTAAG
1 GATTTACCAAAATTTCTAAG
* * *
11438896 GA-TTCCCAAAATATCTAAC
1 GATTTACCAAAATTTCTAAG
*
11438915 GATTTACCAAAATTTTTAAG
1 GATTTACCAAAATTTCTAAG
11438935 GATTTACCAAAATTTCT
1 GATTTACCAAAATTTCT
11438952 GTCATTTTAC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
19 15 0.33
20 31 0.67
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (20 bp):
GATTTACCAAAATTTCTAAG
Found at i:11438961 original size:40 final size:39
Alignment explanation
Indices: 11438876--11438969 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 39
11438866 TTTTTTTAAA
*
11438876 GATTTACCAATATTTCTAAGGATTCCCAAAATATCTAAC
1 GATTTACCAATATTTCTAAGGATTACCAAAATATCTAAC
* * * **
11438915 GATTTACCAAAATTTTTAAGGATTTACCAAAATTTCTGTC
1 GATTTACCAATATTTCTAAGGA-TTACCAAAATATCTAAC
11438955 -ATTTTACCAATATTT
1 GA-TTTACCAATATTT
11438970 ATGAGACTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
39 21 0.46
40 25 0.54
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.39
Consensus pattern (39 bp):
GATTTACCAATATTTCTAAGGATTACCAAAATATCTAAC
Found at i:11438980 original size:20 final size:19
Alignment explanation
Indices: 11438957--11439009 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
11438947 TTTCTGTCAT
*
11438957 TTTACCAATATTTATGAGAC
1 TTTACCAATATTTA-AAGAC
* *
11438977 TTTACCGAAAATTTAAAGAT
1 TTTACC-AATATTTAAAGAC
*
11438997 TTTATCAATATTT
1 TTTACCAATATTT
11439010 TCAAATTTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 6 0.22
20 14 0.52
21 7 0.26
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (19 bp):
TTTACCAATATTTAAAGAC
Found at i:11439070 original size:20 final size:19
Alignment explanation
Indices: 11439045--11439119 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
11439035 GTATTAACAA
11439045 TTACCAAAATTTCTATAACT
1 TTACCAAAATTTCTA-AACT
* *
11439065 TTACCATAATATCTAAGGA-T
1 TTACCAAAATTTCTAA--ACT
* *
11439085 TTACCAATATTTCTAAGCAT
1 TTACCAAAATTTCTAAAC-T
*
11439105 TTACCAAAAATTCTA
1 TTACCAAAATTTCTA
11439120 TCTTTTTACC
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
19 1 0.02
20 41 0.95
21 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.04, T:0.37
Consensus pattern (19 bp):
TTACCAAAATTTCTAAACT
Found at i:11439070 original size:186 final size:186
Alignment explanation
Indices: 11438761--11439113 Score: 405
Period size: 186 Copynumber: 1.9 Consensus size: 186
11438751 ACTTATCAAT
* * *
11438761 ATTTCTATCATTATATCAATATTTATGAGGCTTTACCAAAATTCTAATATTCTACCAATATTTCC
1 ATTTCTATCATTATACCAATATTTATGAGACTTTACCAAAATTCTAAGATTCTACCAATATTTCC
* * * * * * *
11438826 AAAATTTCTAAATCCTATATCAAGTCCTAATAGTTACAAATTTTTTTAAAGATTTACCA-ATATT
66 AAAATTTCTAAATCCTATACCAAGTACTAACAATTACAAATTTCTATAAAGATTTACCATA-ATA
*
11438890 TCTAAGGA-TTCCCAAAATATCTAA-CGATTTACCAAAATTTTTAAGGATTTACCAAA
130 TCTAAGGATTTACCAAAATATCTAAGC-ATTTACCAAAATTTTTAAGGATTTACCAAA
* * * *
11438946 ATTTCTGTCATTTTACCAATATTTATGAGACTTTACCGAAAATT-TAAAGATTTTATCAATATTT
1 ATTTCTATCATTATACCAATATTTATGAGACTTTACC-AAAATTCT-AAGATTCTACCAATATTT
* * * *
11439010 TCAAATTTTCTAAA-CCTTATACCAAGTATTAACAATTACCAAAATTTCTAT-AA-CTTTACCAT
64 CCAAAATTTCTAAATCC-TATACCAAGTACTAACAATTA-C-AAATTTCTATAAAGATTTACCAT
* *
11439072 AATATCTAAGGATTTACCAATATTTCTAAGCATTTACCAAAA
126 AATATCTAAGGATTTACCAAAATATCTAAGCATTTACCAAAA
11439114 ATTCTATCTT
Statistics
Matches: 139, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
185 36 0.26
186 66 0.47
187 28 0.20
188 9 0.06
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.39
Consensus pattern (186 bp):
ATTTCTATCATTATACCAATATTTATGAGACTTTACCAAAATTCTAAGATTCTACCAATATTTCC
AAAATTTCTAAATCCTATACCAAGTACTAACAATTACAAATTTCTATAAAGATTTACCATAATAT
CTAAGGATTTACCAAAATATCTAAGCATTTACCAAAATTTTTAAGGATTTACCAAA
Found at i:11439084 original size:147 final size:146
Alignment explanation
Indices: 11438917--11439298 Score: 377
Period size: 147 Copynumber: 2.6 Consensus size: 146
11438907 TATCTAACGA
* * * *
11438917 TTTACCAAAATTTTTAAGGATTTACCAAAATTTCT-GTCATTTTACC-AATATT-TATGAGACTT
1 TTTACCAAAATATCTAAGGATTTACCAAAATTTCTAG-CA-TTTACCAAAAATTCTAT--CACTT
* * *
11438979 TACCGAAAATTTA-AAGATTTTATCAATATTTTCAAATTTTCTAAAC-CTTATACCAAGT-ATTA
62 TACC-AAAATTTATAAGACTTTACCAATATTTCCAAATTTTCTAAACAC-TATACCAAGTCA-TA
11439041 ACAATTACCAAAATTTCTATAAC
124 ACAATTACCAAAATTTCTATAAC
* * **
11439064 TTTACCATAATATCTAAGGATTTACCAATATTTCTAAGCATTTACCAAAAATTCTATCTTTTTAC
1 TTTACCAAAATATCTAAGGATTTACCAAAATTTCT-AGCATTTACCAAAAATTCTATCACTTTAC
* * * *
11439129 CAATATTTATGAGACTTTACCAATATTTCCAATTTTTCTAAACACTATACCAAGTCATAATAATT
65 CAAAATTTATAAGACTTTACCAATATTTCCAAATTTTCTAAACACTATACCAAGTCATAACAATT
* *
11439194 ACTAAAATTTCTATGAC
130 ACCAAAATTTCTATAAC
* ** * * * *
11439211 TTTACCAAAATGTCTAATAATTTACCAAAATTTCTAAGGATTTACC-AATATATCTAACAATTTA
1 TTTACCAAAATATCTAAGGATTTACCAAAATTTCT-AGCATTTACCAAAAAT-TCTATCACTTTA
11439275 CCAATAATTT-TAAGGA-TTTACCAA
64 CCAA-AATTTATAA-GACTTTACCAA
11439299 AATATCTAAC
Statistics
Matches: 196, Mismatches: 29, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
146 11 0.06
147 166 0.85
148 15 0.08
149 4 0.02
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.39
Consensus pattern (146 bp):
TTTACCAAAATATCTAAGGATTTACCAAAATTTCTAGCATTTACCAAAAATTCTATCACTTTACC
AAAATTTATAAGACTTTACCAATATTTCCAAATTTTCTAAACACTATACCAAGTCATAACAATTA
CCAAAATTTCTATAAC
Found at i:11439128 original size:60 final size:60
Alignment explanation
Indices: 11439045--11439157 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 60
11439035 GTATTAACAA
*
11439045 TTACCAAAATTTCTATAACTTTACCATAATATCTAAG-GA-TTTACCAATATTTCTAAGCAT
1 TTACCAAAAATTCTATAACTTTACC--AATATCTAAGAGACTTTACCAATATTTCTAAGCAT
*** * *
11439105 TTACCAAAAATTCTATCTTTTTACCAATATTTATGAGACTTTACCAATATTTC
1 TTACCAAAAATTCTATAACTTTACCAATATCTAAGAGACTTTACCAATATTTC
11439158 CAATTTTTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
58 8 0.18
59 2 0.04
60 35 0.78
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.41
Consensus pattern (60 bp):
TTACCAAAAATTCTATAACTTTACCAATATCTAAGAGACTTTACCAATATTTCTAAGCAT
Found at i:11439241 original size:40 final size:40
Alignment explanation
Indices: 11439192--11439523 Score: 271
Period size: 40 Copynumber: 8.3 Consensus size: 40
11439182 GTCATAATAA
* * * *
11439192 TTACTAAAATTTCT-ATGACTTTACCAAAATGTCTAATAAT
1 TTACCAAAATTTCTAAGGA-TTTACCAAAATATCTAACAAT
*
11439232 TTACCAAAATTTCTAAGGATTTACCAATATATCTAACAAT
1 TTACCAAAATTTCTAAGGATTTACCAAAATATCTAACAAT
*
11439272 TTACCAATAATTT-TAAGGATTTACCAAAATATCTAACAGT
1 TTACCAA-AATTTCTAAGGATTTACCAAAATATCTAACAAT
* ** * * * ***
11439312 TTTCCAAAATTTCTATCGATTTACCAATACT-TGTGAGGTT
1 TTACCAAAATTTCTAAGGATTTACCAA-AATATCTAACAAT
* * * * *
11439352 TTACCAATATTTCTAAGGATTTACCAATATATCCAATAGT
1 TTACCAAAATTTCTAAGGATTTACCAAAATATCTAACAAT
* * * * * *
11439392 TTACCAAAATTTCTAAGAAATTATCGATATATCTAACAAA
1 TTACCAAAATTTCTAAGGATTTACCAAAATATCTAACAAT
* * *
11439432 TTACCAAAAAATT-TAAAG-TGTTACCAAAACATCTAACAAT
1 TTACC-AAAATTTCTAAGGAT-TTACCAAAATATCTAACAAT
* * * *
11439472 TTACCAAAAATTTC-AATGTTTTATCAAAATATCTAACGAT
1 TTACC-AAAATTTCTAAGGATTTACCAAAATATCTAACAAT
11439512 TTACCAAAATTT
1 TTACCAAAATTT
11439524 TTATTGAATT
Statistics
Matches: 232, Mismatches: 51, Indels: 19
0.77 0.17 0.06
Matches are distributed among these distances:
39 13 0.06
40 202 0.87
41 17 0.07
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.36
Consensus pattern (40 bp):
TTACCAAAATTTCTAAGGATTTACCAAAATATCTAACAAT
Found at i:11439296 original size:80 final size:80
Alignment explanation
Indices: 11439211--11439823 Score: 346
Period size: 80 Copynumber: 7.6 Consensus size: 80
11439201 TTTCTATGAC
* *
11439211 TTTACCAAAATGTCTAATAATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACAATTTAC
1 TTTACCAAAATATCTAATAATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACGATTTAC
11439276 CAATAATTTTAAGGA
66 CAATAATTTTAAGGA
* * * ** * * * *
11439291 TTTACCAAAATATCTAACAGTTTTCCAAAATTTCTATCGATTTACCAATACT-TGTGAGGTTTTA
1 TTTACCAAAATATCTAATAATTTACCAAAATTTCTAAGGATTTACCAATA-TATCTAACGATTTA
11439355 CCAAT-ATTTCTAAGGA
65 CCAATAATTT-TAAGGA
* * * * * * * * *
11439371 TTTACCAATATATCCAATAGTTTACCAAAATTTCTAAGAAATTATCGATATATCTAACAAATTAC
1 TTTACCAAAATATCTAATAATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACGATTTAC
* * *
11439436 CAAAAAATTTAAAG-
66 CAATAATTTTAAGGA
* * * * * *
11439450 TGTTACCAAAACATCTAACAATTTACCAAAAATTTC-AATGTTTTATCAAAATATCTAACGATTT
1 T-TTACCAAAATATCTAATAATTTACC-AAAATTTCTAAGGATTTACCAATATATCTAACGATTT
**
11439514 ACCAA-AATTTTTATTGA
64 ACCAATAA-TTTTAAGGA
* * * * * * * * * * * * ***
11439531 ATTACCAATATTTATGAGACTTTACCAATATTTTCTAA-AATTTTACCGATATTTTTAAATTTTC
1 TTTACCAAAATATCTAATAATTTACCAA-AATTTCTAAGGA-TTTACCAATATATCTAACGATT-
* *
11439595 TAAACCTTATACCAAGTTTTAA-CA
63 T--ACC--A-A-TAA-TTTTAAGGA
* * * * * * * * * *
11439619 ATTACCGAAATTTCT-ATGACTTTACCAAAATATCTAAGGATATACTAGTATATCTAACGTTTTC
1 TTTACCAAAATATCTAAT-AATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACGATTTA
11439683 CCAAT-ATTTCTAAGGA
65 CCAATAATTT-TAAGGA
* * * * * * * *
11439699 TTTACCAAAATGTCTAATGATTTACTAAAATTTTTAAGGATTTACCAAAATATTTGATGATTTAC
1 TTTACCAAAATATCTAATAATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACGATTTAC
* *
11439764 TAATATTTTTAAGGA
66 CAATAATTTTAAGGA
* * * *
11439779 ATTACCAACATATTTAACAATTTACCAAAATTTCTATA-GATTTAC
1 TTTACCAAAATATCTAATAATTTACCAAAATTTCTA-AGGATTTAC
11439824 GAAAATTTAT
Statistics
Matches: 394, Mismatches: 113, Indels: 52
0.70 0.20 0.09
Matches are distributed among these distances:
78 3 0.01
79 14 0.04
80 279 0.71
81 35 0.09
82 2 0.01
84 5 0.01
86 2 0.01
87 23 0.06
88 24 0.06
89 7 0.02
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (80 bp):
TTTACCAAAATATCTAATAATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACGATTTAC
CAATAATTTTAAGGA
Found at i:11439521 original size:20 final size:20
Alignment explanation
Indices: 11439211--11439521 Score: 159
Period size: 20 Copynumber: 15.6 Consensus size: 20
11439201 TTTCTATGAC
* **
11439211 TTTACCAAAATGTCTAATAA
1 TTTACCAAAATATCTAACGA
* *
11439231 TTTACCAAAATTTCTAAGGA
1 TTTACCAAAATATCTAACGA
* *
11439251 TTTACCAATATATCTAACAA
1 TTTACCAAAATATCTAACGA
* *
11439271 TTTACCAATAAT-TTTAAGGA
1 TTTACCAA-AATATCTAACGA
11439291 TTTACCAAAATATCTAAC-A
1 TTTACCAAAATATCTAACGA
* * *
11439310 GTTTTCCAAAATTTCTATCGA
1 -TTTACCAAAATATCTAACGA
* * * * *
11439331 TTTACCAATACT-TGTGAGGT
1 TTTACCAA-AATATCTAACGA
* * *
11439351 TTTACCAATATTTCTAAGGA
1 TTTACCAAAATATCTAACGA
* * *
11439371 TTTACCAATATATCCAA-TA
1 TTTACCAAAATATCTAACGA
*
11439390 GTTTACCAAAATTTCTAA-GAA
1 -TTTACCAAAATATCTAACG-A
* * * * *
11439411 ATTATCGATATATCTAACAA
1 TTTACCAAAATATCTAACGA
* * * *
11439431 ATTACCAAAAAATTTAAAG-
1 TTTACCAAAATATCTAACGA
* *
11439450 TGTTACCAAAACATCTAACAA
1 T-TTACCAAAATATCTAACGA
* * *
11439471 TTTACCAAAA-ATTTCAATGT
1 TTTACCAAAATATCT-AACGA
*
11439491 TTTATCAAAATATCTAACGA
1 TTTACCAAAATATCTAACGA
11439511 TTTACCAAAAT
1 TTTACCAAAAT
11439522 TTTTATTGAA
Statistics
Matches: 216, Mismatches: 62, Indels: 26
0.71 0.20 0.09
Matches are distributed among these distances:
19 9 0.04
20 197 0.91
21 10 0.05
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.35
Consensus pattern (20 bp):
TTTACCAAAATATCTAACGA
Found at i:11439577 original size:21 final size:19
Alignment explanation
Indices: 11439532--11439593 Score: 61
Period size: 21 Copynumber: 3.1 Consensus size: 19
11439522 TTTTATTGAA
* * *
11439532 TTACCAATATTTATGAGACT
1 TTACCAATATTT-TTAAATT
11439552 TTACCAATATTTTCTAAAATT
1 TTACCAATATTTT-T-AAATT
*
11439573 TTACCGATATTTTTAAATT
1 TTACCAATATTTTTAAATT
11439592 TT
1 TT
11439594 CTAAACCTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 8 0.22
20 13 0.36
21 15 0.42
ACGTcount: A:0.34, C:0.13, G:0.05, T:0.48
Consensus pattern (19 bp):
TTACCAATATTTTTAAATT
Found at i:11439706 original size:20 final size:20
Alignment explanation
Indices: 11439620--11439831 Score: 126
Period size: 20 Copynumber: 10.6 Consensus size: 20
11439610 GTTTTAACAA
* *
11439620 TTACCGAAATTTCT-ATGACT
1 TTACCAAAATTTCTAAGGA-T
*
11439640 TTACCAAAATATCTAAGGAT
1 TTACCAAAATTTCTAAGGAT
* * ** * * *
11439660 ATACTAGTATATCTAACGTT
1 TTACCAAAATTTCTAAGGAT
* *
11439680 TTCCCAATATTTCTAAGGAT
1 TTACCAAAATTTCTAAGGAT
* *
11439700 TTACCAAAATGTCTAATGAT
1 TTACCAAAATTTCTAAGGAT
* *
11439720 TTACTAAAATTTTTAAGGAT
1 TTACCAAAATTTCTAAGGAT
* *
11439740 TTACCAAAATATT-TGATGAT
1 TTACCAAAAT-TTCTAAGGAT
* * * *
11439760 TTACTAATATTTTTAAGGAA
1 TTACCAAAATTTCTAAGGAT
* **
11439780 TTACCAACATATT-TAACAAT
1 TTACCAAAAT-TTCTAAGGAT
11439800 TTACCAAAATTTCTATA-GAT
1 TTACCAAAATTTCTA-AGGAT
*
11439820 TTACGAAAATTT
1 TTACCAAAATTT
11439832 ATGAGATTTT
Statistics
Matches: 146, Mismatches: 40, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
19 4 0.03
20 134 0.92
21 8 0.05
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (20 bp):
TTACCAAAATTTCTAAGGAT
Found at i:11439715 original size:40 final size:40
Alignment explanation
Indices: 11439639--11439829 Score: 141
Period size: 40 Copynumber: 4.8 Consensus size: 40
11439629 TTTCTATGAC
* * * ** * *
11439639 TTTACCAAAATATCTAAGGATATACTAGTATATCTAACGT
1 TTTACCAAAATTTCTAAGGATTTACCAAAATGTCTAACGA
* * *
11439679 TTTCCCAATATTTCTAAGGATTTACCAAAATGTCTAATGA
1 TTTACCAAAATTTCTAAGGATTTACCAAAATGTCTAACGA
* * * * * *
11439719 TTTACTAAAATTTTTAAGGATTTACCAAAATATTTGATGA
1 TTTACCAAAATTTCTAAGGATTTACCAAAATGTCTAACGA
* * * * * * * *
11439759 TTTACTAATATTTTTAAGGAATTACCAACATATTTAACAA
1 TTTACCAAAATTTCTAAGGATTTACCAAAATGTCTAACGA
*
11439799 TTTACCAAAATTTCTATA-GATTTACGAAAAT
1 TTTACCAAAATTTCTA-AGGATTTACCAAAAT
11439830 TTATGAGATT
Statistics
Matches: 121, Mismatches: 29, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
40 120 0.99
41 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (40 bp):
TTTACCAAAATTTCTAAGGATTTACCAAAATGTCTAACGA
Found at i:11439829 original size:80 final size:80
Alignment explanation
Indices: 11439678--11439852 Score: 194
Period size: 80 Copynumber: 2.2 Consensus size: 80
11439668 ATATCTAACG
* * * ** * *
11439678 TTTTCCCAATATTTCTAAGGATTTACCAAAATGTCTAATGATTTACTAAAATTTTTAAGGATTTA
1 TTTTACCAATATTTCTAAGGAATTACCAAAATATCTAACAATTTACCAAAATTTCTAAGGATTTA
11439743 CCAAAATATT-TGATGA
66 CCAAAAT-TTATGA-GA
* * * *
11439759 -TTTACTAATATTTTTAAGGAATTACCAACATATTTAACAATTTACCAAAATTTCTATA-GATTT
1 TTTTACCAATATTTCTAAGGAATTACCAAAATATCTAACAATTTACCAAAATTTCTA-AGGATTT
*
11439822 ACGAAAATTTATGAGA
65 ACCAAAATTTATGAGA
11439838 TTTTACCAATATTTC
1 TTTTACCAATATTTC
11439853 CAAAATTTCT
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
79 4 0.05
80 72 0.94
81 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (80 bp):
TTTTACCAATATTTCTAAGGAATTACCAAAATATCTAACAATTTACCAAAATTTCTAAGGATTTA
CCAAAATTTATGAGA
Found at i:11439840 original size:19 final size:20
Alignment explanation
Indices: 11439683--11439852 Score: 72
Period size: 20 Copynumber: 8.5 Consensus size: 20
11439673 TAACGTTTTC
*
11439683 CCAATATTTCTA-AGGATTTA
1 CCAAAATTTCTATA-GATTTA
*
11439703 CCAAAATGTCTA-ATGATTTA
1 CCAAAATTTCTATA-GATTTA
* *
11439723 CTAAAATTTTTA-AGGATTTA
1 CCAAAATTTCTATA-GATTTA
11439743 CCAAAATATT-TGAT-GATTTA
1 CCAAAAT-TTCT-ATAGATTTA
* * * *
11439763 CTAATATTTTTA-AGGAATTA
1 CCAAAATTTCTATA-GATTTA
* *
11439783 CCAACATATT-TA-ACAATTTA
1 CCAAAAT-TTCTATA-GATTTA
11439803 CCAAAATTTCTATAGATTTA
1 CCAAAATTTCTATAGATTTA
*
11439823 CGAAAA-TT-TATGAGATTTTA
1 CCAAAATTTCTAT-AGA-TTTA
*
11439843 CCAATATTTC
1 CCAAAATTTC
11439853 CAAAATTTCT
Statistics
Matches: 116, Mismatches: 21, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
18 3 0.03
19 10 0.09
20 95 0.82
21 8 0.07
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.40
Consensus pattern (20 bp):
CCAAAATTTCTATAGATTTA
Found at i:11442323 original size:7 final size:7
Alignment explanation
Indices: 11442311--11442335 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11442301 AAACACAACG
11442311 AATAATT
1 AATAATT
11442318 AATAATT
1 AATAATT
11442325 AATAATT
1 AATAATT
11442332 AATA
1 AATA
11442336 TGAAAGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AATAATT
Found at i:11442328 original size:27 final size:26
Alignment explanation
Indices: 11442264--11442329 Score: 62
Period size: 28 Copynumber: 2.4 Consensus size: 26
11442254 AAAATTTTTT
*
11442264 TAATTAATATAACACAAAATAAATTAG
1 TAATTAATA-AACACAAAATAAATTAA
*
11442291 TATATAAAATAAACACAACGAAT-AATTAA
1 TA-AT-TAATAAACACAA--AATAAATTAA
11442320 TAATTAATAA
1 TAATTAATAA
11442330 TTAATATGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
27 7 0.22
28 11 0.34
29 11 0.34
30 3 0.09
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.29
Consensus pattern (26 bp):
TAATTAATAAACACAAAATAAATTAA
Found at i:11443854 original size:21 final size:21
Alignment explanation
Indices: 11443830--11443879 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
11443820 GTTCAACATT
11443830 GCGACTTCAAAGGATGGTGTC
1 GCGACTTCAAAGGATGGTGTC
* * *
11443851 GCGACATCCAATGGGTGGTGTC
1 GCGAC-TTCAAAGGATGGTGTC
*
11443873 GTGACTT
1 GCGACTT
11443880 TGAAGGCAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (21 bp):
GCGACTTCAAAGGATGGTGTC
Found at i:11448427 original size:26 final size:26
Alignment explanation
Indices: 11448370--11448430 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
11448360 AACACAAGAA
* *
11448370 GAGAAAATATTTTCTTTACTTTTAGT
1 GAGAAAATATTTTCTTTACTTTCAAT
11448396 GAGAAAATATTTTCTTTACTTTCAAT
1 GAGAAAATATTTTCTTTACTTTCAAT
*
11448422 GGGAAAATA
1 GAGAAAATA
11448431 ACACTTTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (26 bp):
GAGAAAATATTTTCTTTACTTTCAAT
Found at i:11451079 original size:21 final size:21
Alignment explanation
Indices: 11451052--11451147 Score: 75
Period size: 21 Copynumber: 4.6 Consensus size: 21
11451042 AGCTTTATTA
*
11451052 AGCTTCTGTTTAACCCTTATG
1 AGCTTCTGTTCAACCCTTATG
* * * **
11451073 AGTTTCTGTTCAGCTCTTGCG
1 AGCTTCTGTTCAACCCTTATG
11451094 AGCTTCTGTTCAACCCTTATG
1 AGCTTCTGTTCAACCCTTATG
* * * * * * *
11451115 GGTTTTTGTTTAGCTCTAATG
1 AGCTTCTGTTCAACCCTTATG
11451136 AGCTTCTGTTCA
1 AGCTTCTGTTCA
11451148 GATTTTGAGC
Statistics
Matches: 53, Mismatches: 22, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.44
Consensus pattern (21 bp):
AGCTTCTGTTCAACCCTTATG
Found at i:11451130 original size:42 final size:42
Alignment explanation
Indices: 11450995--11451147 Score: 144
Period size: 42 Copynumber: 3.6 Consensus size: 42
11450985 GTTTACTTTT
* * * * * *
11450995 TGTTTAGCTCTCACGAGCATCTGTTTAACTCATATGAGTTTC
1 TGTTCAGCTCTAACGAGCTTCTGTTCAACCCTTATGAGTTTC
* * *** *
11451037 CGTTCAGCTTTATTAAGCTTCTGTTTAACCCTTATGAGTTTC
1 TGTTCAGCTCTAACGAGCTTCTGTTCAACCCTTATGAGTTTC
** * *
11451079 TGTTCAGCTCTTGCGAGCTTCTGTTCAACCCTTATGGGTTTT
1 TGTTCAGCTCTAACGAGCTTCTGTTCAACCCTTATGAGTTTC
* *
11451121 TGTTTAGCTCTAATGAGCTTCTGTTCA
1 TGTTCAGCTCTAACGAGCTTCTGTTCA
11451148 GATTTTGAGC
Statistics
Matches: 88, Mismatches: 23, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.43
Consensus pattern (42 bp):
TGTTCAGCTCTAACGAGCTTCTGTTCAACCCTTATGAGTTTC
Found at i:11456901 original size:27 final size:27
Alignment explanation
Indices: 11456819--11456915 Score: 95
Period size: 27 Copynumber: 3.6 Consensus size: 27
11456809 ATCTAATCAA
* * * *
11456819 AGTATGCCATAAAGGTGATCCATATAG
1 AGTACGCCACAAAGGCGATTCATATAG
* * ** *
11456846 GGTATGCCACAAAGGCGATTCCCACAG
1 AGTACGCCACAAAGGCGATTCATATAG
*
11456873 AGTACGCCACAAAGGCGATTCATTTAG
1 AGTACGCCACAAAGGCGATTCATATAG
*
11456900 AGTACGCCGCAAAGGC
1 AGTACGCCACAAAGGC
11456916 TGACATGATG
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.19
Consensus pattern (27 bp):
AGTACGCCACAAAGGCGATTCATATAG
Found at i:11458153 original size:45 final size:45
Alignment explanation
Indices: 11458095--11458181 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 45
11458085 TCTTTTTTAC
* * * *
11458095 CATGATGCCATAGCGTTTTTCAGCCATGGTCTTACTCATTTTCGT
1 CATGATGCCATAGCATCTTTCAACCATGATCTTACTCATTTTCGT
** * *
11458140 CATGATGTTATAGCATCTTTCAACTATGATCTTACTTATTTT
1 CATGATGCCATAGCATCTTTCAACCATGATCTTACTCATTTT
11458182 TACGCCTATA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.44
Consensus pattern (45 bp):
CATGATGCCATAGCATCTTTCAACCATGATCTTACTCATTTTCGT
Found at i:11465033 original size:24 final size:24
Alignment explanation
Indices: 11465006--11465053 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
11464996 AGACGAAAAC
*
11465006 AAAGTCGA-ATGTGGGGATGAAGAT
1 AAAGTCGAGA-GTGGAGATGAAGAT
11465030 AAAGTCGAGAGTGGAGATGAAGAT
1 AAAGTCGAGAGTGGAGATGAAGAT
11465054 GACTATGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.40, C:0.04, G:0.38, T:0.19
Consensus pattern (24 bp):
AAAGTCGAGAGTGGAGATGAAGAT
Found at i:11465261 original size:20 final size:19
Alignment explanation
Indices: 11465217--11465274 Score: 73
Period size: 20 Copynumber: 3.1 Consensus size: 19
11465207 ATTTATTTTG
11465217 TTTTATTATAATAT-AATA
1 TTTTATTATAATATAAATA
**
11465235 TAATATTATAATATAACATA
1 TTTTATTATAATATAA-ATA
*
11465255 TTTTATTATAATATATATA
1 TTTTATTATAATATAAATA
11465274 T
1 T
11465275 ATTAAATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
18 12 0.36
19 5 0.15
20 16 0.48
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTTATTATAATATAAATA
Found at i:11469142 original size:37 final size:40
Alignment explanation
Indices: 11469049--11469142 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
11469039 AACACACCAG
* * *
11469049 TTTGGCACCTAGTGCCTCATTGGATAATTCGAAGTAATAA
1 TTTGGCACCCAGTGTCTCATTGGATAAATCGAAGTAATAA
* * * *
11469089 TTTGACACCCAATGTCTCTTTGGTTAAATCGAAGT-A-AA
1 TTTGGCACCCAGTGTCTCATTGGATAAATCGAAGTAATAA
11469127 -TTGGCACCCAGTGTCT
1 TTTGGCACCCAGTGTCT
11469143 GATCAAATTA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
37 14 0.31
38 2 0.04
39 1 0.02
40 28 0.62
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (40 bp):
TTTGGCACCCAGTGTCTCATTGGATAAATCGAAGTAATAA
Found at i:11469350 original size:11 final size:9
Alignment explanation
Indices: 11469312--11469348 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
11469302 ATTCATTTCA
11469312 ATTCAA-AT
1 ATTCAATAT
*
11469320 AATCAATAT
1 ATTCAATAT
11469329 ATTCAATAT
1 ATTCAATAT
11469338 ATTCAATAT
1 ATTCAATAT
11469347 AT
1 AT
11469349 ATACCAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 5 0.19
9 21 0.81
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.41
Consensus pattern (9 bp):
ATTCAATAT
Found at i:11470103 original size:13 final size:13
Alignment explanation
Indices: 11470085--11470115 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
11470075 TCTTTCCTTT
11470085 TTTCTTTTTTGTC
1 TTTCTTTTTTGTC
*
11470098 TTTCTTTTTTTTC
1 TTTCTTTTTTGTC
11470111 TTTCT
1 TTTCT
11470116 GTTTCGTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (13 bp):
TTTCTTTTTTGTC
Found at i:11475642 original size:12 final size:13
Alignment explanation
Indices: 11475624--11475653 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
11475614 CCATAATTCA
11475624 TGATGGATGGATG
1 TGATGGATGGATG
11475637 -GATGGATGGATG
1 TGATGGATGGATG
11475649 TGATG
1 TGATG
11475654 CCATCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.23, C:0.00, G:0.47, T:0.30
Consensus pattern (13 bp):
TGATGGATGGATG
Found at i:11477703 original size:12 final size:12
Alignment explanation
Indices: 11477688--11477713 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11477678 TCAGCAACAA
11477688 CAACAGCAGCAG
1 CAACAGCAGCAG
11477700 CAACAGCAGCAG
1 CAACAGCAGCAG
11477712 CA
1 CA
11477714 GTTGCTCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.35, G:0.23, T:0.00
Consensus pattern (12 bp):
CAACAGCAGCAG
Found at i:11480578 original size:11 final size:11
Alignment explanation
Indices: 11480562--11480587 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11480552 GTTGTGTTTT
11480562 TTAACTGGTTA
1 TTAACTGGTTA
11480573 TTAACTGGTTA
1 TTAACTGGTTA
11480584 TTAA
1 TTAA
11480588 TAGCGTGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (11 bp):
TTAACTGGTTA
Found at i:11508685 original size:21 final size:18
Alignment explanation
Indices: 11508668--11508785 Score: 80
Period size: 17 Copynumber: 6.3 Consensus size: 18
11508658 ACCAAAAATT
11508668 TATTTTAAAAATTAAAAA
1 TATTTTAAAAATTAAAAA
11508686 TATTTTAAAATATTTTAAAAA
1 TATTTTAAAA-A--TTAAAAA
11508707 TATTTT-AAAATTAAAAAA
1 TATTTTAAAAATT-AAAAA
****
11508725 TAAAAAAAAAGTATTTTAAAAA
1 TATTTTAAAA--A--TTAAAAA
*
11508747 TATTTT-ACAATTAAAAA
1 TATTTTAAAAATTAAAAA
* *
11508764 AATTTTAAAAA-TAAATA
1 TATTTTAAAAATTAAAAA
11508781 TATTT
1 TATTT
11508786 ATTACATTGG
Statistics
Matches: 77, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
17 23 0.30
18 20 0.26
19 6 0.08
20 3 0.04
21 16 0.21
22 7 0.09
23 2 0.03
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (18 bp):
TATTTTAAAAATTAAAAA
Found at i:11508695 original size:11 final size:11
Alignment explanation
Indices: 11508679--11508716 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
11508669 ATTTTAAAAA
11508679 TTAAAAATATT
1 TTAAAAATATT
11508690 TT-AAAATATT
1 TTAAAAATATT
11508700 TTAAAAATATT
1 TTAAAAATATT
11508711 TTAAAA
1 TTAAAA
11508717 TTAAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:11508697 original size:10 final size:10
Alignment explanation
Indices: 11508668--11508717 Score: 68
Period size: 10 Copynumber: 5.1 Consensus size: 10
11508658 ACCAAAAATT
11508668 TATTTTAAAA
1 TATTTTAAAA
*
11508678 -A-TTAAAAA
1 TATTTTAAAA
11508686 TATTTTAAAA
1 TATTTTAAAA
11508696 TATTTTAAAAA
1 TATTTT-AAAA
11508707 TATTTTAAAA
1 TATTTTAAAA
11508717 T
1 T
11508718 TAAAAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
8 6 0.17
9 2 0.06
10 17 0.49
11 10 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TATTTTAAAA
Found at i:11508774 original size:40 final size:39
Alignment explanation
Indices: 11508668--11508776 Score: 132
Period size: 40 Copynumber: 2.8 Consensus size: 39
11508658 ACCAAAAATT
*
11508668 TATTTTAAAAATTAAAAATATTTT-AAAATATTTTAAAAA
1 TATTTT-AAAATTAAAAAAATTTTAAAAATATTTTAAAAA
***
11508707 TATTTTAAAATT-AAAAAATAAAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAAT-TTTAAAAA-TATTTTAAAAA
*
11508747 TATTTTACAATTAAAAAAATTTTAAAAATA
1 TATTTTAAAATTAAAAAAATTTTAAAAATA
11508777 AATATATTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
37 6 0.10
38 6 0.10
39 12 0.21
40 27 0.47
41 7 0.12
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.39
Consensus pattern (39 bp):
TATTTTAAAATTAAAAAAATTTTAAAAATATTTTAAAAA
Found at i:11509200 original size:22 final size:22
Alignment explanation
Indices: 11509170--11509212 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11509160 CTTTTCCTTT
* *
11509170 TTCTCTTTTATATTAGTTTTTA
1 TTCTCTTTTAAATTACTTTTTA
*
11509192 TTCTTTTTTAAATTACTTTTT
1 TTCTCTTTTAAATTACTTTTT
11509213 TTGACATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (22 bp):
TTCTCTTTTAAATTACTTTTTA
Found at i:11512968 original size:18 final size:17
Alignment explanation
Indices: 11512945--11512988 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
11512935 TTTATATTTT
11512945 TAAAAATATTAATTACT-A
1 TAAAAATATTAA-T-CTGA
11512963 TAAAAATTATTAATCTGA
1 TAAAAA-TATTAATCTGA
11512981 TAAAAATA
1 TAAAAATA
11512989 ATTTCTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.17
18 14 0.58
19 6 0.25
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (17 bp):
TAAAAATATTAATCTGA
Found at i:11518324 original size:35 final size:38
Alignment explanation
Indices: 11518285--11518356 Score: 114
Period size: 35 Copynumber: 2.0 Consensus size: 38
11518275 TTTAATAAAT
*
11518285 AAATATTTTTTA-TTTTTTATTTT-AAAAT-ATTTTTA
1 AAATACTTTTTATTTTTTTATTTTAAAAATAATTTTTA
11518320 AAATACTTTTTATTTTTTTATTTTAAAAATAATTTTT
1 AAATACTTTTTATTTTTTTATTTTAAAAATAATTTTT
11518357 TGGTGTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 11 0.33
36 11 0.33
37 5 0.15
38 6 0.18
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (38 bp):
AAATACTTTTTATTTTTTTATTTTAAAAATAATTTTTA
Found at i:11522132 original size:20 final size:20
Alignment explanation
Indices: 11522109--11522215 Score: 56
Period size: 20 Copynumber: 5.3 Consensus size: 20
11522099 GTATGTGTGT
*
11522109 TCAGGGGTATCGAAGTACAA
1 TCAGGGGTACCGAAGTACAA
* * * * *
11522129 TCAGTGGCA-CGTATGTGCAT
1 TCAGGGGTACCG-AAGTACAA
* *
11522149 TCAGGGGTACCAAAATACAA
1 TCAGGGGTACCGAAGTACAA
* * * * * *
11522169 TCAGAGGCA-TGTATGTGCAT
1 TCAGGGGTACCG-AAGTACAA
11522189 TCAGGGGTACCGAAGTACAA
1 TCAGGGGTACCGAAGTACAA
11522209 TCAGGGG
1 TCAGGGG
11522216 CATGCATGTA
Statistics
Matches: 57, Mismatches: 26, Indels: 8
0.63 0.29 0.09
Matches are distributed among these distances:
19 2 0.04
20 53 0.93
21 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.30, T:0.21
Consensus pattern (20 bp):
TCAGGGGTACCGAAGTACAA
Found at i:11522168 original size:120 final size:120
Alignment explanation
Indices: 11521946--11522233 Score: 373
Period size: 120 Copynumber: 2.4 Consensus size: 120
11521936 CATTAAAACA
* * * * * *
11521946 CATTTAGGGGTACCGTAGTACAAACAAGGGCACGTATGCATGTTCAAGAGTACCGAAGTACAATC
1 CATTCAGGGGTACCGAAGTACAAACAGGGGCATGTATGTATGTTCAGGAGTACCGAAGTACAATC
* ** *
11522011 AAGGGCACGTATGTGCGTTCAGGAGTACTGAAGTACAATTAAG-GGCATGTATGTG
66 AAGGGCACGTATGTGCATTCAGGAGTACCAAAATACAA-TAAGAGGCATGTATGTG
* * * *
11522066 CATTCATGGGTACCGAAGTACAAACAGGGGCATGTATGTGTGTTCAGGGGTATCGAAGTACAATC
1 CATTCAGGGGTACCGAAGTACAAACAGGGGCATGTATGTATGTTCAGGAGTACCGAAGTACAATC
* *
11522131 -AGTGGCACGTATGTGCATTCAGGGGTACCAAAATACAATCAGAGGCATGTATGTG
66 AAG-GGCACGTATGTGCATTCAGGAGTACCAAAATACAATAAGAGGCATGTATGTG
* * *
11522186 CATTCAGGGGTACCGAAGTACAATCAGGGGCATGCATGTATATTCAGG
1 CATTCAGGGGTACCGAAGTACAAACAGGGGCATGTATGTATGTTCAGG
11522234 TTCATACCAT
Statistics
Matches: 145, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
119 5 0.03
120 140 0.97
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.24
Consensus pattern (120 bp):
CATTCAGGGGTACCGAAGTACAAACAGGGGCATGTATGTATGTTCAGGAGTACCGAAGTACAATC
AAGGGCACGTATGTGCATTCAGGAGTACCAAAATACAATAAGAGGCATGTATGTG
Found at i:11522218 original size:40 final size:40
Alignment explanation
Indices: 11521946--11522233 Score: 301
Period size: 40 Copynumber: 7.2 Consensus size: 40
11521936 CATTAAAACA
* * * * *
11521946 CATTTAGGGGTACCGTAGTACAAACAAGGGCACGTA--TG
1 CATTCAGGGGTACCGAAGTACAATCAGGGGCATGTATGTG
* * * *
11521984 CATGTTCAAGAGTACCGAAGTACAATCAAGGGCACGTATGTG
1 CA--TTCAGGGGTACCGAAGTACAATCAGGGGCATGTATGTG
* * * * *
11522026 CGTTCAGGAGTACTGAAGTACAATTAAGGGCATGTATGTG
1 CATTCAGGGGTACCGAAGTACAATCAGGGGCATGTATGTG
* *
11522066 CATTCATGGGTACCGAAGTACAAACAGGGGCATGTATGTG
1 CATTCAGGGGTACCGAAGTACAATCAGGGGCATGTATGTG
** * * *
11522106 TGTTCAGGGGTATCGAAGTACAATCAGTGGCACGTATGTG
1 CATTCAGGGGTACCGAAGTACAATCAGGGGCATGTATGTG
* * *
11522146 CATTCAGGGGTACCAAAATACAATCAGAGGCATGTATGTG
1 CATTCAGGGGTACCGAAGTACAATCAGGGGCATGTATGTG
* *
11522186 CATTCAGGGGTACCGAAGTACAATCAGGGGCATGCATGTA
1 CATTCAGGGGTACCGAAGTACAATCAGGGGCATGTATGTG
*
11522226 TATTCAGG
1 CATTCAGG
11522234 TTCATACCAT
Statistics
Matches: 209, Mismatches: 37, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
38 2 0.01
40 204 0.98
42 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.24
Consensus pattern (40 bp):
CATTCAGGGGTACCGAAGTACAATCAGGGGCATGTATGTG
Found at i:11524390 original size:16 final size:16
Alignment explanation
Indices: 11524371--11524403 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11524361 CGAACCCCCC
11524371 TTTTCTTCTTCCCCAT
1 TTTTCTTCTTCCCCAT
*
11524387 TTTTCTTCTTCTCCAT
1 TTTTCTTCTTCCCCAT
11524403 T
1 T
11524404 CTTATCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.33, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTCTTCTTCCCCAT
Found at i:11530272 original size:31 final size:31
Alignment explanation
Indices: 11530226--11530305 Score: 133
Period size: 31 Copynumber: 2.6 Consensus size: 31
11530216 GTCGAGCAAG
* *
11530226 TTTACAATTTGGTCACTCAATTATTAGTAAA
1 TTTACAATTTAGTCACTCAACTATTAGTAAA
*
11530257 TTTATAATTTAGTCACTCAACTATTAGTAAA
1 TTTACAATTTAGTCACTCAACTATTAGTAAA
11530288 TTTACAATTTAGTCACTC
1 TTTACAATTTAGTCACTC
11530306 TTTGCATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.42
Consensus pattern (31 bp):
TTTACAATTTAGTCACTCAACTATTAGTAAA
Found at i:11542643 original size:46 final size:46
Alignment explanation
Indices: 11542576--11542779 Score: 342
Period size: 46 Copynumber: 4.5 Consensus size: 46
11542566 TGATCAGTGA
*
11542576 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
*
11542622 CAAGTGACAAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
*
11542668 CAAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
11542714 CAAGTGACAAAGTGATAAGTGGTAGCC-TAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
* *
11542759 C-AGGGAC-AAGTGATAAATGGT
1 CAAGTGACAAAGTGATAAGTGGT
11542780 CATACGTAAG
Statistics
Matches: 151, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
43 13 0.09
44 5 0.03
45 19 0.13
46 114 0.75
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (46 bp):
CAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
Found at i:11547549 original size:46 final size:46
Alignment explanation
Indices: 11547448--11547708 Score: 447
Period size: 46 Copynumber: 5.7 Consensus size: 46
11547438 CTTACGTATG
* *
11547448 ACCACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAACT-AGGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
*
11547491 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
* *
11547537 ACCACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGTT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
11547583 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
*
11547629 ACCACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
11547675 ACCACTTATCACTTTGTCACTTGATCAGATAAGT
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGT
11547709 ACTCAAATCT
Statistics
Matches: 205, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
43 12 0.06
44 5 0.02
45 19 0.09
46 169 0.82
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCT
Found at i:11550664 original size:38 final size:37
Alignment explanation
Indices: 11550622--11550701 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 37
11550612 TTAATAAATT
*
11550622 ATTTTTATAAATTTTATGATTTTAATTAATTTCTAGTA
1 ATTTTTATAAATTTTATAATTTTAATTAATTTCTA-TA
* * *
11550660 ATTTTTATATATTTTATAATTTTAATTATTTTTTATA
1 ATTTTTATAAATTTTATAATTTTAATTAATTTCTATA
11550697 ATTTT
1 ATTTT
11550702 ATGCTTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
37 7 0.18
38 31 0.82
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.64
Consensus pattern (37 bp):
ATTTTTATAAATTTTATAATTTTAATTAATTTCTATA
Found at i:11550701 original size:9 final size:9
Alignment explanation
Indices: 11550622--11550717 Score: 70
Period size: 9 Copynumber: 10.4 Consensus size: 9
11550612 TTAATAAATT
11550622 ATTTTTATA
1 ATTTTTATA
* *
11550631 AATTTTATG
1 ATTTTTATA
*
11550640 ATTTTAATTA
1 ATTTTTA-TA
*
11550650 ATTTCTAGTA
1 ATTTTTA-TA
11550660 ATTTTTAT-
1 ATTTTTATA
11550668 ATATTTTATA
1 AT-TTTTATA
*
11550678 ATTTTAATTA
1 ATTTTTA-TA
*
11550688 TTTTTTATA
1 ATTTTTATA
*
11550697 A-TTTTATG
1 ATTTTTATA
*
11550705 CTTTTTATA
1 ATTTTTATA
11550714 ATTT
1 ATTT
11550718 CAAAATGTAA
Statistics
Matches: 65, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
8 8 0.12
9 34 0.52
10 23 0.35
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:11550710 original size:19 final size:19
Alignment explanation
Indices: 11550633--11550702 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
11550623 TTTTTATAAA
* *
11550633 TTTTATGATTTTAATTAAT
1 TTTTATAATTTTAATTATT
* * *
11550652 TTCTAGTAATTTTTA-TATA
1 TTTTA-TAATTTTAATTATT
11550671 TTTTATAATTTTAATTATT
1 TTTTATAATTTTAATTATT
11550690 TTTTATAATTTTA
1 TTTTATAATTTTA
11550703 TGCTTTTTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 8 0.20
19 26 0.63
20 7 0.17
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTAATTATT
Found at i:11554495 original size:24 final size:25
Alignment explanation
Indices: 11554455--11554516 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 25
11554445 TCAGGTAAAA
*
11554455 TTGAGTTTACAAA-GAAGAGAAA-AAC
1 TTGA-TTTTCAAAGGAAG-GAAAGAAC
11554480 -TGATTTTCAAAGGAAGGAAAGAAC
1 TTGATTTTCAAAGGAAGGAAAGAAC
*
11554504 TTTATTTTCAAAG
1 TTGATTTTCAAAG
11554517 AAAGCAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 11 0.34
24 10 0.31
25 11 0.34
ACGTcount: A:0.45, C:0.08, G:0.19, T:0.27
Consensus pattern (25 bp):
TTGATTTTCAAAGGAAGGAAAGAAC
Found at i:11560253 original size:17 final size:17
Alignment explanation
Indices: 11560228--11560276 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
11560218 CTGCAACATG
*
11560228 GTCTACCGCACGGTCGT
1 GTCTCCCGCACGGTCGT
11560245 GTCTCCCGCACGGTCGT
1 GTCTCCCGCACGGTCGT
* *
11560262 GTGTCCCACACGGTC
1 GTCTCCCGCACGGTC
11560277 ACCTTACACG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.10, C:0.39, G:0.29, T:0.22
Consensus pattern (17 bp):
GTCTCCCGCACGGTCGT
Found at i:11563678 original size:44 final size:43
Alignment explanation
Indices: 11563564--11563723 Score: 133
Period size: 44 Copynumber: 3.7 Consensus size: 43
11563554 GTTCGGTCCA
* * * * *
11563564 CTCCACTACAACTTTAGGGAGATAGGA-TTATTGAATTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTT--CTTCAATCTG
* * * *
11563608 CTCCACTGCAACCTCAAGGAGTTAAGATTTGCTTCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-TTCTTCAATCTG
** * * * *
11563652 CTCCACTGTGACTTCAGGGGGATAAGACTTGTTTTCTCAGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTCT-TCAATCTG
*
11563696 CTCCGCTGCAACTTCAGGGAGATAAGAC
1 CTCCACTGCAACTTCAGGGAGATAAGAC
11563724 CCGATGCGGT
Statistics
Matches: 91, Mismatches: 22, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
43 3 0.03
44 84 0.92
45 2 0.02
46 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTTCTTCAATCTG
Found at i:11564091 original size:87 final size:87
Alignment explanation
Indices: 11563969--11564387 Score: 703
Period size: 87 Copynumber: 4.8 Consensus size: 87
11563959 ACTAGTGCTT
* *
11563969 AGGAAGGCAAGATCTGCTATCTTTAACTAGCTCCACTACAACCGATTGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
*
11564034 CGATCTGCTTCGCTGTTAATGC
66 CGATCTGCTTCGCTGTTAACGC
* * * **
11564056 AGGAAGGAAAAATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAATGCTTCATTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
11564121 CGATCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
*
11564143 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
**
11564208 CGATCTGCTTCGCTGTTAATAC
66 CGATCTGCTTCGCTGTTAACGC
*
11564230 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTCGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
11564295 CGATCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* * *
11564317 AGGAAGGCAAGATCTGCTATATTTAACCAGCTCCACTGCAACCGATGGAAGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
11564382 CGATCT
66 CGATCT
11564388 TCACTGATCT
Statistics
Matches: 308, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 308 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (87 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
CGATCTGCTTCGCTGTTAACGC
Found at i:11566021 original size:27 final size:27
Alignment explanation
Indices: 11565976--11566027 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
11565966 TTCGCCTTGA
* *
11565976 CTTCTCCTTTTTCCTTTTTCTTTTTTT
1 CTTCTCCTTTTTCCATTTTCATTTTTT
* *
11566003 CTTCTCTTTTTTTCATTTTCATTTT
1 CTTCTCCTTTTTCCATTTTCATTTT
11566028 GACTTTGATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.73
Consensus pattern (27 bp):
CTTCTCCTTTTTCCATTTTCATTTTTT
Done.