Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 97 of 221
Found at i:29575255 original size:79 final size:79
Alignment explanation
Indices: 29575124--29575284 Score: 286
Period size: 79 Copynumber: 2.0 Consensus size: 79
29575114 AGAGAAACCA
**
29575124 TGAAATTCGCAAGTGTGTTGCAGTATAGCGTAATTAAGGTGTGGGTCCTAACTCATTGATGGCTA
1 TGAAATTCGCAAGTGTGTTGCAGTATAGCGTAATTAAAATGTGGGTCCTAACTCATTGATGGCTA
29575189 AGATTGATATTATT
66 AGATTGATATTATT
*
29575203 TGAAATTCGCAAGTGTGTTGCAGTGTAGCGTAATTAAAATGTGGGTCCTAACTCATTGATGGCTA
1 TGAAATTCGCAAGTGTGTTGCAGTATAGCGTAATTAAAATGTGGGTCCTAACTCATTGATGGCTA
*
29575268 ATATTGATATTATT
66 AGATTGATATTATT
29575282 TGA
1 TGA
29575285 TATTATTTGG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.36
Consensus pattern (79 bp):
TGAAATTCGCAAGTGTGTTGCAGTATAGCGTAATTAAAATGTGGGTCCTAACTCATTGATGGCTA
AGATTGATATTATT
Found at i:29584360 original size:40 final size:40
Alignment explanation
Indices: 29584316--29584619 Score: 431
Period size: 40 Copynumber: 7.7 Consensus size: 40
29584306 GCTCCTCGTT
* * *
29584316 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
29584356 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
29584396 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
29584436 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
29584476 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
29584516 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * *
29584555 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGAT-TTAGTAAC-TCGCA
*
29584596 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
29584620 CAGCATTCAA
Statistics
Matches: 246, Mismatches: 12, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
38 2 0.01
39 49 0.20
40 186 0.76
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:29587044 original size:38 final size:40
Alignment explanation
Indices: 29586878--29587138 Score: 419
Period size: 40 Copynumber: 6.7 Consensus size: 40
29586868 GCAAACACAT
* * *
29586878 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
29586918 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
29586958 TTGCCTTCGGGTCATAGCCCGGATAT-T-AAC-CGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29586995 TTGCCTTCGGGTCTTAGCCCGGATATAT-AACTCGCAT-A
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29587033 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
29587073 TTGCCTTCGGGT-TTAG-CCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29587111 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
29587139 TCCAATGCTC
Statistics
Matches: 207, Mismatches: 8, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
37 32 0.15
38 68 0.33
39 23 0.11
40 84 0.41
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:29587082 original size:115 final size:117
Alignment explanation
Indices: 29586878--29587138 Score: 422
Period size: 115 Copynumber: 2.2 Consensus size: 117
29586868 GCAAACACAT
* * *
29586878 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
*
29586943 TATCATCTCGCATAATTGCCTTCGGGTCATAGCCCGG-ATATTAAC-CGCATAA
66 TATCAACTCGCATAATTGCCTTCGGGT-ATAG-CCGGAATATTAACTCGCATAA
29586995 TTGCCTTCGGGTCTTAGCCCGGATATAT-AACTCGCAT-ATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
*
29587058 TATCAACTCGCATAATTGCCTTCGGGTTTAGCCGGATATATTAACTCGCATAA
66 TATCAACTCGCATAATTGCCTTCGGGTATAGCCGGA-ATATTAACTCGCATAA
29587111 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
29587139 TCCAATGCTC
Statistics
Matches: 136, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
113 4 0.03
114 3 0.02
115 60 0.44
116 43 0.32
117 26 0.19
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (117 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
TATCAACTCGCATAATTGCCTTCGGGTATAGCCGGAATATTAACTCGCATAA
Found at i:29595410 original size:119 final size:120
Alignment explanation
Indices: 29595194--29595540 Score: 554
Period size: 119 Copynumber: 2.9 Consensus size: 120
29595184 GCAAACACAC
* * * *
29595194 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCCTAATTGCCTTC-GGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
*** * *
29595258 TATCGTCTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
66 TATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
** * *
29595313 TTGCCTTCGGGTCTTAGCCCGGATATATCGTCTCGCATAATTGCCTTCGGGTCATAGCCCGGACA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
*
29595378 TATTAACTCGCATAATT-CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
66 TATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
29595432 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
29595497 TATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATT
66 TATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATT
29595541 CCAATGCTCA
Statistics
Matches: 207, Mismatches: 19, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
119 154 0.74
120 53 0.26
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.31
Consensus pattern (120 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
TATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
Found at i:29595483 original size:159 final size:159
Alignment explanation
Indices: 29595194--29595540 Score: 552
Period size: 159 Copynumber: 2.2 Consensus size: 159
29595184 GCAAACACAC
* * * *
29595194 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCCTAATTGCCTTCGGTCTTAGCCCGGATAT
1 TTGCCTTCGGGTCTTAGCCCGGACATATTAACTCGCATAATTGCCTTCGGTCTTAGCCCGGATAT
** *
29595259 ATCGTCTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCGGG
66 ATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATCAACTCGCATAATTGCCTTCGGG
**
29595324 TCTTAGCCCGGATATATCGTCTCGCATAA
131 TCTTAGCCCGGATATATCAACTCGCATAA
*
29595353 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATT-CCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAGCCCGGACATATTAACTCGCATAATTGCCTTC-GGTCTTAGCCCGGATA
* *
29595417 TATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGG
65 TATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATCAACTCGCATAATTGCCTTCGG
*
29595482 GTCTTAGCCCGGATATATTAACTCGCATAA
130 GTCTTAGCCCGGATATATCAACTCGCATAA
*
29595512 TTGCCTTCGGGTCTTAGCCCGGATATATT
1 TTGCCTTCGGGTCTTAGCCCGGACATATT
29595541 CCAATGCTCA
Statistics
Matches: 172, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
158 5 0.03
159 167 0.97
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.31
Consensus pattern (159 bp):
TTGCCTTCGGGTCTTAGCCCGGACATATTAACTCGCATAATTGCCTTCGGTCTTAGCCCGGATAT
ATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATCAACTCGCATAATTGCCTTCGGG
TCTTAGCCCGGATATATCAACTCGCATAA
Found at i:29595540 original size:40 final size:40
Alignment explanation
Indices: 29595194--29595539 Score: 543
Period size: 40 Copynumber: 8.7 Consensus size: 40
29595184 GCAAACACAC
* * * *
29595194 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCCTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
**
29595234 TTGCCTTC-GGTCTTAGCCCGGATATATCGTCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
29595273 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
**
29595313 TTGCCTTCGGGTCTTAGCCCGGATATATCGTCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
29595353 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29595393 TT-CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29595432 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
29595472 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
29595512 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
29595540 TCCAATGCTC
Statistics
Matches: 279, Mismatches: 25, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
39 69 0.25
40 210 0.75
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:29611356 original size:40 final size:40
Alignment explanation
Indices: 29611312--29611560 Score: 403
Period size: 40 Copynumber: 6.2 Consensus size: 40
29611302 CCTCGTTCAG
* * *
29611312 ATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAA
1 ATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAA
29611352 ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAA
29611392 ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAA
29611432 ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAA
*
29611472 ATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAA
* * * *
29611512 ATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCACAA
1 ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAA
29611551 ATGCCTTCGG
1 ATGCCTTCGG
29611561 ATCTTAGTTC
Statistics
Matches: 199, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
39 33 0.17
40 164 0.82
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAA
Found at i:29612707 original size:13 final size:13
Alignment explanation
Indices: 29612689--29612713 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29612679 AGGATGAGCA
29612689 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
29612702 TTTTTTTTCTTT
1 TTTTTTTTCTTT
29612714 CTAGTTTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:29624510 original size:40 final size:40
Alignment explanation
Indices: 29624353--29624538 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
29624343 TTGAATGATG
* * *
29624353 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGT-ACTAAA
* * *
29624393 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGGTACTAAA
* * * *
29624433 TCCAGACTAAGAT-CCGAAGGCATTTGCGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGGTACTAAA
*
29624473 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGGTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGTACTA-AA
*
29624514 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29624539 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 113 0.90
41 12 0.10
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGTACTAAA
Found at i:29624545 original size:80 final size:79
Alignment explanation
Indices: 29624406--29624571 Score: 185
Period size: 80 Copynumber: 2.1 Consensus size: 79
29624396 GGACTAAGAT
* **
29624406 CCGAAGGCATTTGTACGAGTTACTAAATCCAGACTAAGATCCGAAGGCATTTGCGCGAGTTA-CT
1 CCGAAGGCATTTGTACGAGGTACTAAATCCAGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
*
29624470 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* * * *
29624486 CCGAAGGCATTTGTGCGAGGTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGC
1 CCGAAGGCATTTGTACGAGGTACTA-AATCCAGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
* *
29624549 TATATCCGGTTAAATT
64 TAAATCCGGTTAAATC
29624565 CCGAAGG
1 CCGAAGG
29624572 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
79 17 0.23
80 54 0.74
81 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGGTACTAAATCCAGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:29632636 original size:40 final size:40
Alignment explanation
Indices: 29632407--29632629 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
29632397 AATGATGTCT
* * * *
29632407 GGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAATCC
* * *
29632447 GGACTAAGAT-CCTAAGGCATTTGTACGAGTTACTAAATCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
29632487 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
29632527 GGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
29632567 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
29632607 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
29632630 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 153 0.93
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:29632647 original size:80 final size:80
Alignment explanation
Indices: 29632411--29632662 Score: 273
Period size: 80 Copynumber: 3.2 Consensus size: 80
29632401 ATGTCTGGGC
* * * * * *
29632411 TAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATATCCGGACTAAGAT-CCTAAGGCATTTGTACG
1 TAAGTCCCGAAGGCATTTGTGCGA-GTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGTACG
**
29632474 AGTTACTAAATCCGGAC
64 AGTTACTAAATCCGGGT
* **
29632491 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATTTGTGTG
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTTGTACG
29632554 AGTTACTAAATCCGGGT
64 AGTTACTAAATCCGGGT
* *
29632571 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAG
*
29632636 -TAGCTATATCC-GGT
66 TTA-CTAAATCCGGGT
* *
29632650 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
29632663 TACGTGATTT
Statistics
Matches: 146, Mismatches: 19, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
79 19 0.13
80 116 0.79
81 11 0.08
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (80 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAG
TTACTAAATCCGGGT
Found at i:29637072 original size:17 final size:17
Alignment explanation
Indices: 29637050--29637082 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29637040 CATTAACATG
*
29637050 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
29637067 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
29637083 GTATCTTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:29647129 original size:13 final size:15
Alignment explanation
Indices: 29647091--29647131 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 15
29647081 CCCTTCCTCC
29647091 CTCTTTCTCCCATTTAT
1 CTCTTTCT--CATTTAT
29647108 CTCTTTCTCATTT-T
1 CTCTTTCTCATTTAT
29647122 CT-TTTCTCAT
1 CTCTTTCTCAT
29647132 CTATTTTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 8 0.33
14 3 0.12
15 5 0.21
17 8 0.33
ACGTcount: A:0.10, C:0.32, G:0.00, T:0.59
Consensus pattern (15 bp):
CTCTTTCTCATTTAT
Found at i:29647635 original size:16 final size:16
Alignment explanation
Indices: 29647614--29647646 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
29647604 ATATATTTTG
29647614 ATATGTATGTGAATAT
1 ATATGTATGTGAATAT
29647630 ATATGTATGTGAATAT
1 ATATGTATGTGAATAT
29647646 A
1 A
29647647 CTTGTGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (16 bp):
ATATGTATGTGAATAT
Found at i:29652909 original size:69 final size:69
Alignment explanation
Indices: 29652783--29653289 Score: 396
Period size: 69 Copynumber: 7.4 Consensus size: 69
29652773 TTTTTAGAAT
** * * * * * * * *
29652783 TCTTCGCCCGCGAACCTTGATTTTGCAGCTGGTAGTTTTGCTCTCGCTAACTATTTTGGAGGTTA
1 TCTTCGCCTACGAACCTTGACTTTACAGCTGGGAGCTTTGCTCGCACTAACTATTTTGAAGGTTG
29652848 CGGC
66 CGGC
* * * * * * *
29652852 TCTTGGCCTACGAATCTTGACTTTATAGTTGGGAGCTTTGCTCGCATTAATTATTTTGAAGGCTG
1 TCTTCGCCTACGAACCTTGACTTTACAGCTGGGAGCTTTGCTCGCACTAACTATTTTGAAGGTTG
29652917 CGGC
66 CGGC
* * * * ** * * *
29652921 TCTACAG-CTACGAACCTTGATTTTATAGCTGGGAGATTTGCTTACGCTAACT-GTTTGGAGGTT
1 TCTTC-GCCTACGAACCTTGACTTTACAGCTGGGAGCTTTGCTCGCACTAACTATTTTGAAGGTT
**
29652984 GATGC
65 GCGGC
* * * * ** * *
29652989 TTTTCGCCTACAAACCTTGACTTCACAGCTGGGAGCTTTGCTTGTGCTAATTGTTTTGAAGGTTG
1 TCTTCGCCTACGAACCTTGACTTTACAGCTGGGAGCTTTGCTCGCACTAACTATTTTGAAGGTTG
29653054 CGAG-
66 CG-GC
* * ** * * *
29653058 TCTTTGCCTACGAA-GTTTTCTTTTACAACTGGGAGCTTTGCTCACACTAACTGTTTTGAAGGTT
1 TCTTCGCCTACGAACCTTGAC-TTTACAGCTGGGAGCTTTGCTCGCACTAACTATTTTGAAGGTT
*
29653122 GTGGC
65 GCGGC
* * * * * *
29653127 TCTTTGCCTGCGAACATTG-CTTTTACAGCTGGGAGCTTTGCTCTCACTAATTGTTTT-AGAGGT
1 TCTTCGCCTACGAACCTTGAC-TTTACAGCTGGGAGCTTTGCTCGCACTAACTATTTTGA-AGGT
*
29653190 TGCGGG
64 TGCGGC
** ** *
29653196 TCTTCGCCTGTGAACCTTGACTTTACAATTGGGAGCTTTGCTCTCACTAACTATTTTGAAGGTTG
1 TCTTCGCCTACGAACCTTGACTTTACAGCTGGGAGCTTTGCTCGCACTAACTATTTTGAAGGTTG
29653261 CGGC
66 CGGC
* **
29653265 TCTTCACCTGTGAACCTTGACTTTA
1 TCTTCGCCTACGAACCTTGACTTTA
29653290 TCAACGATAG
Statistics
Matches: 350, Mismatches: 78, Indels: 20
0.78 0.17 0.04
Matches are distributed among these distances:
67 1 0.00
68 56 0.16
69 287 0.82
70 6 0.02
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.37
Consensus pattern (69 bp):
TCTTCGCCTACGAACCTTGACTTTACAGCTGGGAGCTTTGCTCGCACTAACTATTTTGAAGGTTG
CGGC
Found at i:29654661 original size:39 final size:39
Alignment explanation
Indices: 29654609--29654729 Score: 217
Period size: 39 Copynumber: 3.1 Consensus size: 39
29654599 AAAGCATACC
29654609 TACCTCAAAGCATACCTCTACTTGGTCTCATTATAAACA
1 TACCTCAAAGCATACCTCTACTTGGTCTCATTATAAACA
29654648 TACCTCAAAGCATACCTCCT-CTTGGTCTCATTATAAACA
1 TACCTCAAAGCATACCT-CTACTTGGTCTCATTATAAACA
*
29654687 TACCTCAAAGCATACCTCCACTTGGTCTCATTATAAACA
1 TACCTCAAAGCATACCTCTACTTGGTCTCATTATAAACA
29654726 TACC
1 TACC
29654730 AAATGGTCGT
Statistics
Matches: 79, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
38 1 0.01
39 76 0.96
40 2 0.03
ACGTcount: A:0.32, C:0.31, G:0.07, T:0.30
Consensus pattern (39 bp):
TACCTCAAAGCATACCTCTACTTGGTCTCATTATAAACA
Found at i:29656819 original size:19 final size:19
Alignment explanation
Indices: 29656795--29656834 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
29656785 TAATTTAGAC
29656795 TGTAAAATAATGTACTTTA
1 TGTAAAATAATGTACTTTA
29656814 TGTAAAATAATGTACTTTA
1 TGTAAAATAATGTACTTTA
29656833 TG
1 TG
29656835 CAATTTAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.42
Consensus pattern (19 bp):
TGTAAAATAATGTACTTTA
Found at i:29657954 original size:69 final size:69
Alignment explanation
Indices: 29657843--29657980 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
29657833 TGTGGCCCCG
29657843 AAGCCATTATTTTCGACACCACTGAAAAATGAGCTATTACGACTCTCCCTCTTACAAAAATTTCG
1 AAGCCATTATTTTCGACACCACTGAAAAATGAGCTATTACGACTCTCCCTCTTACAAAAATTTCG
29657908 TCTT
66 TCTT
29657912 AAGCCATTATTTTCGACACCACTGAAAAATGAGCTATTACGACTCTCCCTCTTACAAAAATTTCG
1 AAGCCATTATTTTCGACACCACTGAAAAATGAGCTATTACGACTCTCCCTCTTACAAAAATTTCG
29657977 TCTT
66 TCTT
29657981 CGAAATTTTT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.32
Consensus pattern (69 bp):
AAGCCATTATTTTCGACACCACTGAAAAATGAGCTATTACGACTCTCCCTCTTACAAAAATTTCG
TCTT
Found at i:29659747 original size:137 final size:138
Alignment explanation
Indices: 29659493--29659761 Score: 328
Period size: 137 Copynumber: 2.0 Consensus size: 138
29659483 TATATGGGTA
* * * * *
29659493 TGCTCACACAAGCTATCGGTCGGAATGTAAGCTACACAATGCTTCTCACACAAGTTGTCGAGTAT
1 TGCTCACACAAGCTACCGGTCGGAATGTAAGCTACACAATACTGCTCACACAAGCTGTCAAGTAT
* * * ** * *
29659558 CTGCAACTAATGTCAGACCTCAGCCATCGGTCGGACATTCAAGACAAACACCCGAAACATGGTAA
66 CTGCAACTAATGCCAGAACTCAGCCACCAATAGGACATTCAAGACAAACACCCAAAACATGGTAA
29659623 CCTTGGTC
131 CCTTGGTC
* * *
29659631 TGCTCACACAAGTTGCCGGTCGGAATGT-AGCTACACGATACTGCTCACACAAGCTGTCAAGTAT
1 TGCTCACACAAGCTACCGGTCGGAATGTAAGCTACACAATACTGCTCACACAAGCTGTCAAGTAT
* * * *
29659695 CTGCAAC-ACATGCCGGAAGTCAGCCACCAATAGGACATT-AAGGACCAGCACCCAAAACATGGT
66 CTGCAACTA-ATGCCAGAACTCAGCCACCAATAGGACATTCAA-GACAAACACCCAAAACATGGT
29659758 AACC
129 AACC
29659762 CTAATGACAC
Statistics
Matches: 110, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
136 3 0.03
137 82 0.75
138 25 0.23
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (138 bp):
TGCTCACACAAGCTACCGGTCGGAATGTAAGCTACACAATACTGCTCACACAAGCTGTCAAGTAT
CTGCAACTAATGCCAGAACTCAGCCACCAATAGGACATTCAAGACAAACACCCAAAACATGGTAA
CCTTGGTC
Found at i:29661859 original size:12 final size:12
Alignment explanation
Indices: 29661839--29661870 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
29661829 CATTCCGAAG
*
29661839 TATATATATATA
1 TATACATATATA
29661851 TATACATATATA
1 TATACATATATA
29661863 TATACATA
1 TATACATA
29661871 AGTATGCCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (12 bp):
TATACATATATA
Found at i:29662401 original size:27 final size:28
Alignment explanation
Indices: 29662317--29662414 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
29662307 CATGAGATTG
* * * *
29662317 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
29662346 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
29662374 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
29662401 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
29662415 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:29662425 original size:27 final size:27
Alignment explanation
Indices: 29662345--29662427 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
29662335 TAAATTGTAC
* *
29662345 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
29662373 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
29662400 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
29662427 A
1 A
29662428 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:29670881 original size:20 final size:20
Alignment explanation
Indices: 29670856--29670908 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
29670846 AAATGTCCGT
29670856 AGGTATCGATACTGACATTA
1 AGGTATCGATACTGACATTA
* *
29670876 AGGTATCGATA-TTACTTTA
1 AGGTATCGATACTGACATTA
29670895 ACTGGTATCGATAC
1 A--GGTATCGATAC
29670909 CACTTGGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 7 0.25
20 11 0.39
21 10 0.36
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (20 bp):
AGGTATCGATACTGACATTA
Found at i:29677174 original size:314 final size:314
Alignment explanation
Indices: 29676605--29677235 Score: 1199
Period size: 314 Copynumber: 2.0 Consensus size: 314
29676595 GGAAAATTAA
29676605 GGTAGGCAAACAAGTTAATATAAGTGCTTCCTATAGTGTTATTATTTTGAGACAAGTTCCTCAGA
1 GGTAGGCAAACAAGTTAATATAAGTGCTTCCTATAGTGTTATTATTTTGAGACAAGTTCCTCAGA
*
29676670 AATTGAAAGACCATGAAGTTTTACTATTCCCATAGAGATAGAGAGCATTCACTTTTATAAAGCTC
66 AATTGAAAGACCATGAAGTTTTACTATTCCCATAGAGATAGAGAGCATTCACTTTAATAAAGCTC
29676735 TATGTGATGTAGAAGCTAGTATTAATTTATCGCCTTTATCCATTTTTGAATAACTTGGGTTAGGG
131 TATGTGATGTAGAAGCTAGTATTAATTTATCGCCTTTATCCATTTTTGAATAACTTGGGTTAGGG
*
29676800 GACCTCAAAAATACCTAGATAACACTACAGTTGGTCGAAAGATCCTCAGTGCATCCGAAAGGAGT
196 GACCTAAAAAATACCTAGATAACACTACAGTTGGTCGAAAGATCCTCAGTGCATCCGAAAGGAGT
* **
29676865 ATTGGAAGATGTGTTAGCCAAAGTGCGTCGTTTTATCATCCCAACAGATTTTAT
261 ATTGGAAGATATGTTAGCCAAAGTGCGTCACTTTATCATCCCAACAGATTTTAT
29676919 GGTAGGCAAACAAGTTAATATAAGTGCTTCCTATAGTGTTATTATTTTGAGACAAGTTCCTCAGA
1 GGTAGGCAAACAAGTTAATATAAGTGCTTCCTATAGTGTTATTATTTTGAGACAAGTTCCTCAGA
29676984 AATTGAAAGACCATGAAGTTTTACTATTCCCATAGAGATAGAGAGCATTCACTTTAATAAAGCTC
66 AATTGAAAGACCATGAAGTTTTACTATTCCCATAGAGATAGAGAGCATTCACTTTAATAAAGCTC
* *
29677049 TATGTGATGTAGAAGCTAGTCTTAATTTATTGCCTTTATCCATTTTTGAATAACTTGGGTTAGGG
131 TATGTGATGTAGAAGCTAGTATTAATTTATCGCCTTTATCCATTTTTGAATAACTTGGGTTAGGG
29677114 GACCTAAAAAATACCTAGATAACACTACAGTTGGTCGAAAGATCCTCAGTGCATCCGAAAGGAGT
196 GACCTAAAAAATACCTAGATAACACTACAGTTGGTCGAAAGATCCTCAGTGCATCCGAAAGGAGT
29677179 ATTGGAAGATATGTTAGCCAAAGTGCGTCACTTTATCATCCCAACAGATTTTAT
261 ATTGGAAGATATGTTAGCCAAAGTGCGTCACTTTATCATCCCAACAGATTTTAT
29677233 GGT
1 GGT
29677236 TCTGGACTTT
Statistics
Matches: 310, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
314 310 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (314 bp):
GGTAGGCAAACAAGTTAATATAAGTGCTTCCTATAGTGTTATTATTTTGAGACAAGTTCCTCAGA
AATTGAAAGACCATGAAGTTTTACTATTCCCATAGAGATAGAGAGCATTCACTTTAATAAAGCTC
TATGTGATGTAGAAGCTAGTATTAATTTATCGCCTTTATCCATTTTTGAATAACTTGGGTTAGGG
GACCTAAAAAATACCTAGATAACACTACAGTTGGTCGAAAGATCCTCAGTGCATCCGAAAGGAGT
ATTGGAAGATATGTTAGCCAAAGTGCGTCACTTTATCATCCCAACAGATTTTAT
Found at i:29682967 original size:14 final size:14
Alignment explanation
Indices: 29682950--29682978 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
29682940 TGTCACTCAT
29682950 ATGCCTAATGTCTC
1 ATGCCTAATGTCTC
29682964 ATGCCTAATGTCTC
1 ATGCCTAATGTCTC
29682978 A
1 A
29682979 CCCTCAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (14 bp):
ATGCCTAATGTCTC
Found at i:29687974 original size:556 final size:555
Alignment explanation
Indices: 29686520--29688486 Score: 3052
Period size: 555 Copynumber: 3.6 Consensus size: 555
29686510 GTCTAAAAAT
*
29686520 TTTAATTTTTGTTCAAATCTAATTTATT-TTTTTCTATTTGTCTATATTTTTGCAGAATAATTAA
1 TTTAATTTTTGTTCAAATCTAATTTATTCTTTTTCTATTTGTCTATATTTTTGCAGAATAATTAG
*
29686584 GCACCATTGTCGACGCACTTGGGTTTTATTGTCAACGTAGTTCGTACTATTGTACTGTCACGTCT
66 GCACCATTGTCGACGCACTTGGGCTTTATTGTCAACGTAGTTCGTACTATTGTACTGTCACGTCT
* *
29686649 GACTCAGCAAAATTGAGGATAGATCAAAAATTTCCA-ATCCTACCGTTTGATCAAAAGCAACCTG
131 GACTCAGCAAAAATGAGGATAGATCAAAAATTT-CAGATCCTACCGTTTGATCAAAAGCAACCTA
* * *
29686713 GCCGTGTGATTTTTCTGAGCGGGCACAATTCTCATTTGGCGTAATTATTCCCGCCAGCTTTATAT
195 GCCGTGTGATTTGTCTGAGCGGGCACAATTCTCATTGGGCATAATTATTCCCGCCAGCTTTATAT
* * * *
29686778 CCCCTCACAGAAATCACGTCTTTCCAGCTTTTTCTTTCACTCACTATAAACCCCTCTTCACTATG
260 CCCTTCACAAAAATCACGTCTTTCCAGCTTCTTCTTTCACTCACTATAAACCCCTCTTCACTGTG
* * * *
29686843 CTAAAGCTGCACTTGGGTAAATTGTGCTCTCATCGGTCTGGACCTTTCAAACTTGTTGAAGTATT
325 CTAAAGCTGCA-TCGGGTAAATTGTGCTCTCGTTGGTCTGGACCTTTCCAACTTGTTGAAGTATT
29686908 TTCTCATGGTGCAGTCACAATCAGAGATTTAAATAATGGACACCAATTCAAAGTGAATGGCCAGC
389 TTCTCATGGTGCAGTCACAATCAGAGATTTAAATAATGGACACCAATTCAAAGTGAATGGCCAGC
* * *
29686973 GATTGAAACATTATCTTGGGTATACTGATCACAAGCAGGTAGAGACCATTAGACTGGTCTAAAAA
454 GATTGAAACATTATCTTGGGAATACTGATCACAAGCAGGTAGAGACCATTAAACTGGTCGAAAAA
29687038 TTTTAATTTTTAGTGAATTTATCATTATGTTATTTTA
519 TTTTAATTTTTAGTGAATTTATCATTATGTTATTTTA
* * *
29687075 TTTCATTTTTGTTCAAATCTGATTTATTCTTTTTCTATTT-TCTATATTTTTGCAAAATAATTAG
1 TTTAATTTTTGTTCAAATCTAATTTATTCTTTTTCTATTTGTCTATATTTTTGCAGAATAATTAG
* * *
29687139 GCACAATTGTCGACGCACTTGGGCTTTATTGTCAACGTAGTTTGTACTATTGTACTGTTACGTCT
66 GCACCATTGTCGACGCACTTGGGCTTTATTGTCAACGTAGTTCGTACTATTGTACTGTCACGTCT
* *
29687204 GACTTAGCAAAAATGAGGATAGATCAAAAATTTCATATCCTACCGTTTGATCAAAAGCAACCTAG
131 GACTCAGCAAAAATGAGGATAGATCAAAAATTTCAGATCCTACCGTTTGATCAAAAGCAACCTAG
* * * *
29687269 CAGTGTGATTTGTCTGAGTGGGCAGAATTCTCATTGGGCATAATTATTCCAGCCAGCTTTATATC
196 CCGTGTGATTTGTCTGAGCGGGCACAATTCTCATTGGGCATAATTATTCCCGCCAGCTTTATATC
* *
29687334 CATTCACAAAAATCACGTCTTTCTAGCTTCTTCTTTCACTCACTATAAACCCCTCTTCACTGTGC
261 CCTTCACAAAAATCACGTCTTTCCAGCTTCTTCTTTCACTCACTATAAACCCCTCTTCACTGTGC
* *
29687399 TAAAGCTGCACCTGGGTAAATTGTGCTCTCGTTGGTCTGGACCTTTCCAACTTGTTGAAGCATTT
326 TAAAGCTGCATC-GGGTAAATTGTGCTCTCGTTGGTCTGGACCTTTCCAACTTGTTGAAGTATTT
*
29687464 TCTCATGGTGCAATCACAATCAGAGATTTAAATAATGGACACCAATTCAAAGTGAATGGCCAGCG
390 TCTCATGGTGCAGTCACAATCAGAGATTTAAATAATGGACACCAATTCAAAGTGAATGGCCAGCG
*
29687529 ATTGAAACATTATCTTGGGAATACTGATCACAAGCAGGTATAGACCATTAAACTGGTCGAAAAAT
455 ATTGAAACATTATCTTGGGAATACTGATCACAAGCAGGTAGAGACCATTAAACTGGTCGAAAAAT
29687594 TTTAATTTTTAGTGAATTTATCATTATGTTATTTTA
520 TTTAATTTTTAGTGAATTTATCATTATGTTATTTTA
*
29687630 TTTAATTTTTGTTCAAATCTAATTTATTCTTTTTCTATTTGTCAATATTTTTGCAGAATAATTAG
1 TTTAATTTTTGTTCAAATCTAATTTATTCTTTTTCTATTTGTCTATATTTTTGCAGAATAATTAG
*
29687695 GCACCATTGTCGACGCACTTGGGCTTTATTGTCAACGTAGTTCGTACTATTGTACTGTCACGTAT
66 GCACCATTGTCGACGCACTTGGGCTTTATTGTCAACGTAGTTCGTACTATTGTACTGTCACGTCT
* * *
29687760 GACTTAGCAAAAATGAGGATAGATCAAAAATTTCAGATCCTATCGTTTGATCAAAAGAAACCTAG
131 GACTCAGCAAAAATGAGGATAGATCAAAAATTTCAGATCCTACCGTTTGATCAAAAGCAACCTAG
* * * *
29687825 CTGTGTGATTTGACTGAGCGGGCACAATTCTCATTGGGCGTAATTATTCCCGCTAGCTTTATATC
196 CCGTGTGATTTGTCTGAGCGGGCACAATTCTCATTGGGCATAATTATTCCCGCCAGCTTTATATC
* *
29687890 CCTTCACAAAAATCACATATTTCCAGCTTCTTCTTTCACTCACTATAAACCCCTCTTCACTGTGC
261 CCTTCACAAAAATCACGTCTTTCCAGCTTCTTCTTTCACTCACTATAAACCCCTCTTCACTGTGC
29687955 TAAAGCTGCATACGGGTAAATTGTGCTCTCGTTGGTCTGGACCTTTCCAACTTGTTGAAGTATTT
326 TAAAGCTGCAT-CGGGTAAATTGTGCTCTCGTTGGTCTGGACCTTTCCAACTTGTTGAAGTATTT
*
29688020 TCTCATGGTGTAGTCACAATCAGAGATTTAAATAATGGACACCAATTCAAAGTGAATGG-C--C-
390 TCTCATGGTGCAGTCACAATCAGAGATTTAAATAATGGACACCAATTCAAAGTGAATGGCCAGCG
29688081 A--G---------C-----AAT--TGA--ACAAGCAGGTAGAGACCATTAAACTGGTCGAAAAAT
455 ATTGAAACATTATCTTGGGAATACTGATCACAAGCAGGTAGAGACCATTAAACTGGTCGAAAAAT
* *
29688126 TTCAATTTTTAGTGAATTTATCATTTTGTTATTTTA
520 TTTAATTTTTAGTGAATTTATCATTATGTTATTTTA
* * * *
29688162 TTTTATTTTTGTTCAAATCTGATTTATTCTTTTTCTATTTGTCTATATATTTGTAGAATAATTAG
1 TTTAATTTTTGTTCAAATCTAATTTATTCTTTTTCTATTTGTCTATATTTTTGCAGAATAATTAG
*
29688227 GCACCATTGTCGACGCACTTGGGCTTTATTGTCAACGTAGTTTGTACTATTGTACTGTCACGTCT
66 GCACCATTGTCGACGCACTTGGGCTTTATTGTCAACGTAGTTCGTACTATTGTACTGTCACGTCT
* * * * * *
29688292 CACTCAGCAAAAATGAAGACAGATTAAAAATTTTAGATCCTATCGTTTGATCAAAAGCAACCTAG
131 GACTCAGCAAAAATGAGGATAGATCAAAAATTTCAGATCCTACCGTTTGATCAAAAGCAACCTAG
* * * * * *
29688357 CCATCTAATTTGTCTAAGCGGGCACAATTCTCATTGGACATAATTATTCCCACCAGCTTTATATC
196 CCGTGTGATTTGTCTGAGCGGGCACAATTCTCATTGGGCATAATTATTCCCGCCAGCTTTATATC
* * * ** *
29688422 CCTTCACAAAAATCATGTCTTTCCATCTTCTTCTTTCAGTCACTATAAACCTTTCTTCATTGTGC
261 CCTTCACAAAAATCACGTCTTTCCAGCTTCTTCTTTCACTCACTATAAACCCCTCTTCACTGTGC
29688487 CGACTGTAAA
Statistics
Matches: 1311, Mismatches: 96, Indels: 33
0.91 0.07 0.02
Matches are distributed among these distances:
532 362 0.28
534 3 0.00
536 3 0.00
541 1 0.00
550 1 0.00
552 1 0.00
553 1 0.00
554 2 0.00
555 543 0.41
556 393 0.30
557 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (555 bp):
TTTAATTTTTGTTCAAATCTAATTTATTCTTTTTCTATTTGTCTATATTTTTGCAGAATAATTAG
GCACCATTGTCGACGCACTTGGGCTTTATTGTCAACGTAGTTCGTACTATTGTACTGTCACGTCT
GACTCAGCAAAAATGAGGATAGATCAAAAATTTCAGATCCTACCGTTTGATCAAAAGCAACCTAG
CCGTGTGATTTGTCTGAGCGGGCACAATTCTCATTGGGCATAATTATTCCCGCCAGCTTTATATC
CCTTCACAAAAATCACGTCTTTCCAGCTTCTTCTTTCACTCACTATAAACCCCTCTTCACTGTGC
TAAAGCTGCATCGGGTAAATTGTGCTCTCGTTGGTCTGGACCTTTCCAACTTGTTGAAGTATTTT
CTCATGGTGCAGTCACAATCAGAGATTTAAATAATGGACACCAATTCAAAGTGAATGGCCAGCGA
TTGAAACATTATCTTGGGAATACTGATCACAAGCAGGTAGAGACCATTAAACTGGTCGAAAAATT
TTAATTTTTAGTGAATTTATCATTATGTTATTTTA
Found at i:29690479 original size:16 final size:16
Alignment explanation
Indices: 29690458--29690488 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29690448 GTTAGTGCAC
*
29690458 ATTGTCATTGCATTTT
1 ATTGTCATCGCATTTT
29690474 ATTGTCATCGCATTT
1 ATTGTCATCGCATTT
29690489 AATGTTAGTG
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:0.19, C:0.16, G:0.13, T:0.52
Consensus pattern (16 bp):
ATTGTCATCGCATTTT
Found at i:29697954 original size:21 final size:20
Alignment explanation
Indices: 29697911--29697954 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
29697901 TTTTTATGGA
*
29697911 TTTTTTTTAAAACATGGTCT
1 TTTTTTTTAAAACAAGGTCT
29697931 TTTTTTTTAAAACCAAGGT-T
1 TTTTTTTTAAAA-CAAGGTCT
29697951 TTTT
1 TTTT
29697955 GTAAATAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.57
Consensus pattern (20 bp):
TTTTTTTTAAAACAAGGTCT
Found at i:29708827 original size:40 final size:40
Alignment explanation
Indices: 29708657--29708838 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 40
29708647 AATGATGTCT
* * * *
29708657 GGGCTAAGTCCCGAAGGC-TTT-TGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
* * *
29708696 GGACTAAGAT-CAGAAGGCATTTGTACGAGTTACTAAATCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
29708736 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
29708776 GTGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
* *
29708816 GGGCTATGTCCCGAAGACATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
29708839 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
39 15 0.12
40 103 0.84
41 4 0.03
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:29708845 original size:80 final size:79
Alignment explanation
Indices: 29708708--29708871 Score: 190
Period size: 80 Copynumber: 2.1 Consensus size: 79
29708698 ACTAAGATCA
* **
29708708 GAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAA
1 GAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGACATTTGAACGAG-TAGCTAA
*
29708772 ATCCGTGTTAAGTCCC
65 ATCCG-GTTAAATCCC
* * *
29708788 GAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGACATTTGAACGAGTAGCTA
1 GAAGGCATTTGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGACATTTGAACGAGTAGCTA
* *
29708851 TATCCGGTTAAATTCC
64 AATCCGGTTAAATCCC
29708867 GAAGG
1 GAAGG
29708872 TACGTGATTT
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
79 16 0.22
80 54 0.75
81 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (79 bp):
GAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGACATTTGAACGAGTAGCTAAA
TCCGGTTAAATCCC
Found at i:29709132 original size:47 final size:47
Alignment explanation
Indices: 29709063--29709371 Score: 528
Period size: 47 Copynumber: 6.6 Consensus size: 47
29709053 AAGGGTTGGT
29709063 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
29709110 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
29709157 AATGTGAAAGTGTATATATGTGATAAAGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
29709204 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
29709251 AATGTGAAAGTGTATATATGCGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
29709298 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
29709345 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
29709372 TTACGAAGGG
Statistics
Matches: 248, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 248 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:29710877 original size:40 final size:40
Alignment explanation
Indices: 29710822--29711081 Score: 475
Period size: 40 Copynumber: 6.5 Consensus size: 40
29710812 GAGAATTGAG
*
29710822 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
29710862 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
29710902 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
29710942 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
29710982 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
29711022 AGTGATATATCCGGGCTAAGTCCCGGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCC-GAGGAGCATTCGTGCT
*
29711063 AGTGATATATCCGTGCTAA
1 AGTGATATATCCGGGCTAA
29711082 ACCCCGAAGA
Statistics
Matches: 213, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
40 179 0.84
41 34 0.16
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:29715199 original size:40 final size:40
Alignment explanation
Indices: 29715155--29715308 Score: 172
Period size: 40 Copynumber: 3.9 Consensus size: 40
29715145 AAGTGACCAT
29715155 ATCCGGACTAAG-ATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGTA-CCGAAGGCATTTGTACGAGTTACTAA
*
29715195 ATCCGGACTAAG-ATCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGTA-CCGAAGGCATTTGTACGAGTTACTAA
** * *
29715235 ATCCGGGTTAAGTACCGAAGGCATTTGTGCAAGTTACTATA
1 ATCCGGACTAAGTACCGAAGGCATTTGTACGAGTTACTA-A
* * *
29715276 A-CC-GAGCTATGTCCCGAAGGCATTTGAACGAGT
1 ATCCGGA-CTAAGTACCGAAGGCATTTGTACGAGT
29715309 AGCTATATCC
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 96 0.96
41 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGACTAAGTACCGAAGGCATTTGTACGAGTTACTAA
Found at i:29715293 original size:80 final size:80
Alignment explanation
Indices: 29715120--29715301 Score: 203
Period size: 80 Copynumber: 2.3 Consensus size: 80
29715110 ATGATGTCTG
*
29715120 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTA
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTA
*
29715184 CGAGTTACTAAATCC
66 CAAGTTACTAAATCC
* * * **
29715199 GGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TACCGAAGGCATTT
1 GG-CTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTT
*
29715261 GTGCAAGTTACTATAA-CC
63 GTACAAGTTACTA-AATCC
*
29715279 GAGCTATGTCCCGAAGGCATTTG
1 G-GCTAAGTCCCGAAGGCATTTG
29715302 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
79 4 0.05
80 72 0.83
81 11 0.13
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTA
CAAGTTACTAAATCC
Found at i:29715308 original size:80 final size:79
Alignment explanation
Indices: 29715169--29715324 Score: 185
Period size: 80 Copynumber: 2.0 Consensus size: 79
29715159 GGACTAAGAT
* **
29715169 CCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTACAAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
29715233 AAATCCGGGTTAAGTA
65 AAATCC-GGTTAAGTA
* *
29715249 CCGAAGGCATTTGTGCAAGTTACTATAA-CC-GAGCTATG-TCCCGAAGGCATTTGAACGAGTAG
1 CCGAAGGCATTTGTACAAGTTACTA-AATCCGGA-CTAAGAT-CCGAAGGCATTTGAACGAGTAG
*
29715311 CTATATCCGGTTAA
63 CTAAATCCGGTTAA
29715325 ATTTCGAAGG
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
79 11 0.17
80 53 0.80
81 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTACAAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTA
Found at i:29715595 original size:47 final size:47
Alignment explanation
Indices: 29715526--29716316 Score: 1357
Period size: 47 Copynumber: 16.6 Consensus size: 47
29715516 AAGGGTTGGT
29715526 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
29715573 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
29715620 AATGTGAAAGTGTATATATGTGATAAGGTCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
29715667 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
29715714 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
29715761 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
29715808 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGTCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGG-C-------CGATGTGATG
29715863 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
29715910 AATGTGAAAGTGTATATATATGTGATAAGGTCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
29715959 AATGTAAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
29716008 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
29716055 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
29716102 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
29716149 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
29716196 AATGTGAAAGTGTATATATGCGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
29716243 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
29716290 GATGAGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
29716317 TCCCGAAGGG
Statistics
Matches: 715, Mismatches: 19, Indels: 20
0.95 0.03 0.03
Matches are distributed among these distances:
47 575 0.80
48 1 0.00
49 92 0.13
54 1 0.00
55 46 0.06
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:29731706 original size:50 final size:50
Alignment explanation
Indices: 29731636--29731971 Score: 363
Period size: 51 Copynumber: 6.6 Consensus size: 50
29731626 TATCATTCGA
* *
29731636 TACATGTAGTAGCCTTCACATAGTACTACACATGTGATCAAGTTTTACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAGTTTTACGG
* ** *
29731686 TTCACGTAGTAGCCTTCACATAGTACTACACACATGATCAAGTTTTACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAGTTTTACGG
* *
29731736 TTCACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCATTT-CGG
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACC-AAG-TTTTACGG
* * *** *
29731787 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAGTTTTA-CGG
* * * *
29731838 TTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGG
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACC-AAG-TTTTACGG
* * * * * *
29731889 TACACATTGTAGCCTTCACTTAGGACTACACATGTGACC-ATTATTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAGT-TTTA-CGG
*
29731940 TACACGTAGTAGCCTTCACACAGTACTACACA
1 TACACGTAGTAGCCTTCACATAGTACTACACA
29731972 CGTATTCATC
Statistics
Matches: 238, Mismatches: 39, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
48 1 0.00
49 7 0.03
50 83 0.35
51 141 0.59
52 4 0.02
53 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (50 bp):
TACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAGTTTTACGG
Found at i:29731875 original size:102 final size:101
Alignment explanation
Indices: 29731632--29731974 Score: 447
Period size: 102 Copynumber: 3.4 Consensus size: 101
29731622 CTTTTATCAT
* * * * * * *
29731632 TCGATACATGTAGTAGCCTTCACATAGTACTACACATGTGATC-AAGTTTTACGGTTCACGTAGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTT-CGGTACACATAGT
* ** * ***
29731696 AGCCTTCACATAGTACTACACACATGATCAAGTTTTA
65 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * *
29731733 -CGGTTCACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCATTTCGGTACACATAGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGC-TTTCGGTACACATAGT
29731797 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
65 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* *
29731834 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT-TCGGTACACATAGT
* *
29731899 AGCCTTCACTTAGGACTACACATGTGACCATTATTTA
65 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
29731936 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGT
29731975 ATTCATCGAT
Statistics
Matches: 217, Mismatches: 21, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
100 38 0.18
101 46 0.21
102 133 0.61
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (101 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTCGGTACACATAGTA
GCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:29732493 original size:30 final size:31
Alignment explanation
Indices: 29732445--29732503 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
29732435 GCTTTGACTC
29732445 AACTTTTGTCAAAATTACAATTTTGTCCCTA
1 AACTTTTGTCAAAATTACAATTTTGTCCCTA
* *
29732476 AACTTTTG-CATAATTACATTTTTGTCCC
1 AACTTTTGTCAAAATTACAATTTTGTCCC
29732504 CAATCTCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.44
Consensus pattern (31 bp):
AACTTTTGTCAAAATTACAATTTTGTCCCTA
Found at i:29735750 original size:16 final size:15
Alignment explanation
Indices: 29735717--29735758 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
29735707 AGATAATAAT
29735717 TATTAATATATAATTA
1 TATTAAT-TATAATTA
*
29735733 TATTCATTATAATATA
1 TATTAATTATAAT-TA
29735749 TATTAATTAT
1 TATTAATTAT
29735759 TATCAACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:29742890 original size:47 final size:47
Alignment explanation
Indices: 29742839--29742980 Score: 122
Period size: 47 Copynumber: 3.1 Consensus size: 47
29742829 TACTACATTT
29742839 ACCATAATGTTCACATACCACTCTCTTACTCAACAAATACCATCATG
1 ACCATAATGTTCACATACCACTCTCTTACTCAACAAATACCATCATG
** * * * *
29742886 ACC---AT-TTC-CATATTTA-TCATC-CACCTTAACAAATTTATCA-AAT-
1 ACCATAATGTTCACATA-CCACTC-TCTTA-CTCAACAAA--TACCATCATG
29742929 ACCATAATGTTCACATACCACTCTCTTACTCAACAAATACCATCATG
1 ACCATAATGTTCACATACCACTCTCTTACTCAACAAATACCATCATG
29742976 ACCAT
1 ACCAT
29742981 TTCCATATTT
Statistics
Matches: 69, Mismatches: 12, Indels: 28
0.63 0.11 0.26
Matches are distributed among these distances:
42 7 0.10
43 17 0.25
44 4 0.06
45 8 0.12
46 4 0.06
47 22 0.32
48 7 0.10
ACGTcount: A:0.37, C:0.30, G:0.03, T:0.30
Consensus pattern (47 bp):
ACCATAATGTTCACATACCACTCTCTTACTCAACAAATACCATCATG
Found at i:29742991 original size:90 final size:90
Alignment explanation
Indices: 29742838--29743017 Score: 360
Period size: 90 Copynumber: 2.0 Consensus size: 90
29742828 ATACTACATT
29742838 TACCATAATGTTCACATACCACTCTCTTACTCAACAAATACCATCATGACCATTTCCATATTTAT
1 TACCATAATGTTCACATACCACTCTCTTACTCAACAAATACCATCATGACCATTTCCATATTTAT
29742903 CATCCACCTTAACAAATTTATCAAA
66 CATCCACCTTAACAAATTTATCAAA
29742928 TACCATAATGTTCACATACCACTCTCTTACTCAACAAATACCATCATGACCATTTCCATATTTAT
1 TACCATAATGTTCACATACCACTCTCTTACTCAACAAATACCATCATGACCATTTCCATATTTAT
29742993 CATCCACCTTAACAAATTTATCAAA
66 CATCCACCTTAACAAATTTATCAAA
29743018 GGCAAAATAC
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.37, C:0.29, G:0.02, T:0.32
Consensus pattern (90 bp):
TACCATAATGTTCACATACCACTCTCTTACTCAACAAATACCATCATGACCATTTCCATATTTAT
CATCCACCTTAACAAATTTATCAAA
Found at i:29748359 original size:8 final size:8
Alignment explanation
Indices: 29748346--29748379 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
29748336 TTTATGGTAA
*
29748346 AATTTTTG
1 AATTTGTG
*
29748354 AATTTTTG
1 AATTTGTG
29748362 AATTTGTG
1 AATTTGTG
29748370 AATTTGTG
1 AATTTGTG
29748378 AA
1 AA
29748380 ATATGTAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (8 bp):
AATTTGTG
Found at i:29748919 original size:25 final size:24
Alignment explanation
Indices: 29748882--29748978 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 24
29748872 GACACACCAA
*
29748882 AGCTCGT-ATGAGCTTACCGATTTGC
1 AGCTCGTGA-GAGCTTACCAATTT-C
*
29748907 AGCTCATGAGAGCTTACCAATTCTC
1 AGCTCGTGAGAGCTTACCAATT-TC
*
29748932 AGCTCGT-ATGAGCTTACCAATTTAT
1 AGCTCGTGA-GAGCTTACCAATTT-C
* *
29748957 AGCTCGTGAGAGCATACTAATT
1 AGCTCGTGAGAGCTTACCAATT
29748979 CATAGCTCGT
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
24 2 0.03
25 56 0.92
26 3 0.05
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (24 bp):
AGCTCGTGAGAGCTTACCAATTTC
Found at i:29748947 original size:50 final size:50
Alignment explanation
Indices: 29748882--29748994 Score: 156
Period size: 50 Copynumber: 2.3 Consensus size: 50
29748872 GACACACCAA
* * *
29748882 AGCTCGTATGAGCTTACCGATTTGCAGCTCATGAGAGCTTACCAATTC-T
1 AGCTCGTATGAGCTTACCAATTTACAGCTCATGAGAGCATACCAATTCAT
* * *
29748931 CAGCTCGTATGAGCTTACCAATTTATAGCTCGTGAGAGCATACTAATTCAT
1 -AGCTCGTATGAGCTTACCAATTTACAGCTCATGAGAGCATACCAATTCAT
29748982 AGCTCGTATGAGC
1 AGCTCGTATGAGC
29748995 ATACATGTAC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 55 0.98
51 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (50 bp):
AGCTCGTATGAGCTTACCAATTTACAGCTCATGAGAGCATACCAATTCAT
Found at i:29748983 original size:25 final size:25
Alignment explanation
Indices: 29748916--29748998 Score: 98
Period size: 25 Copynumber: 3.3 Consensus size: 25
29748906 CAGCTCATGA
*
29748916 GAGCTTACCAATTC-TCAGCTCGTAT
1 GAGCATACCAATTCAT-AGCTCGTAT
* *
29748941 GAGCTTACCAATTTATAGCTCGTGA-
1 GAGCATACCAATTCATAGCTCGT-AT
*
29748966 GAGCATACTAATTCATAGCTCGTAT
1 GAGCATACCAATTCATAGCTCGTAT
29748991 GAGCATAC
1 GAGCATAC
29748999 ATGTACAAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
24 1 0.02
25 48 0.94
26 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (25 bp):
GAGCATACCAATTCATAGCTCGTAT
Found at i:29751952 original size:137 final size:138
Alignment explanation
Indices: 29751698--29751965 Score: 335
Period size: 137 Copynumber: 1.9 Consensus size: 138
29751688 AAAATGGGCA
* * * * *
29751698 TGCTCACCCAAGCTGTCAGTCGGAATGTAAGCTACACGATGCTGCTCACACAAGCTGTCTAGTAT
1 TGCTCACACAAGCTATCAGTCGGAACGTAAGCTACACGATACTGCTCACACAAGCTGTCGAGTAT
* * * * * * *
29751763 ACGCAACTAATGCCAGACCTCAACCATCGGTAGGACATTTTAGACCAACACCCGAAACATGGTAA
66 ACGCAACTAATGCCAGAACTCAACCACCGATAAGACAGTTTAGACCAACACCCAAAACATAGTAA
29751828 CCAAGGTC
131 CCAAGGTC
* * *
29751836 TGCTCACACAAGCTATCAGTTGGAACGT-AGCTACATGGTACTGCTCACACAAGCTGTCGAGTAT
1 TGCTCACACAAGCTATCAGTCGGAACGTAAGCTACACGATACTGCTCACACAAGCTGTCGAGTAT
* * *
29751900 CCGCAAC-ACATGCCAGAACTCAAGCACCGATAAGAC-GTTTAGAGCCAGCACCCAAAACATAGT
66 ACGCAACTA-ATGCCAGAACTCAACCACCGATAAGACAGTTTAGA-CCAACACCCAAAACATAGT
29751963 AAC
129 AAC
29751966 ATTAATGACA
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
136 7 0.06
137 79 0.72
138 24 0.22
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.19
Consensus pattern (138 bp):
TGCTCACACAAGCTATCAGTCGGAACGTAAGCTACACGATACTGCTCACACAAGCTGTCGAGTAT
ACGCAACTAATGCCAGAACTCAACCACCGATAAGACAGTTTAGACCAACACCCAAAACATAGTAA
CCAAGGTC
Found at i:29752129 original size:15 final size:16
Alignment explanation
Indices: 29752111--29752142 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
29752101 TAATAAAATC
29752111 ATATAAT-AACATTAT
1 ATATAATCAACATTAT
29752126 ATATAATCAACATTAT
1 ATATAATCAACATTAT
29752142 A
1 A
29752143 CATAGTACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAATCAACATTAT
Found at i:29761763 original size:21 final size:20
Alignment explanation
Indices: 29761737--29761776 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
29761727 AAAACACAAG
29761737 TTGAAATAAACAGATTTAATT
1 TTGAAA-AAACAGATTTAATT
* *
29761758 TTGAAAACACATATTTAAT
1 TTGAAAAAACAGATTTAAT
29761777 ATTTCTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (20 bp):
TTGAAAAAACAGATTTAATT
Found at i:29762470 original size:21 final size:22
Alignment explanation
Indices: 29762422--29762472 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
29762412 TTGACATGCC
*
29762422 ACCACTGATTTGCAGATAAACT
1 ACCACTGAATTGCAGATAAACT
**
29762444 GTCACT-AATTGCAGATAAACT
1 ACCACTGAATTGCAGATAAACT
29762465 ACCACTGA
1 ACCACTGA
29762473 TAGCACTGAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (22 bp):
ACCACTGAATTGCAGATAAACT
Found at i:29775311 original size:40 final size:40
Alignment explanation
Indices: 29775267--29775448 Score: 179
Period size: 40 Copynumber: 4.6 Consensus size: 40
29775257 AAGTGAATAT
* * *
29775267 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGAGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGAGAGATACTAA
* * *
29775307 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGAGAGATACTAA
* * ** *
29775347 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTGA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGAGAGATACTAA
* * * *
29775387 ATCCGGGTTATGTCCCGAAGGCAGT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGAGAGATACTAA
* * *
29775426 AACCGGGCTATGTCCCGAAGGCA
1 ATCCGGGTTAAGTCCCGAAGGCA
29775449 CTTGAACGAG
Statistics
Matches: 125, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 32 0.26
40 93 0.74
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGAGAGATACTAA
Found at i:29775365 original size:80 final size:79
Alignment explanation
Indices: 29775228--29775448 Score: 219
Period size: 80 Copynumber: 2.8 Consensus size: 79
29775218 TTGAATGCTG
* * * * * * *
29775228 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGTTAAG-TCCCGAAGGCATT
*
29775292 TGTGAGAGATACTAAA
64 CGTGAGAGATACTAAA
*
29775308 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGTTAAGTCCCGAAGGCATTC
* * ** *
29775373 GTGCGAGTTGTTGAA
65 GTGAGAGATACTAAA
* * * * * * *
29775388 TCCGGGTTATGTCCCGAAGGCAGTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGTTAAGTCCCGAAGGCA
29775449 CTTGAACGAG
Statistics
Matches: 118, Mismatches: 21, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
79 33 0.28
80 81 0.69
81 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGAGAGATACTAAA
Found at i:29775470 original size:79 final size:80
Alignment explanation
Indices: 29775306--29775485 Score: 188
Period size: 79 Copynumber: 2.3 Consensus size: 80
29775296 AGAGATACTA
* * * *
29775306 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAT
1 AATCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** ** *
29775371 TCGTGCGAGTTGTTG
66 TCGAACGAGGAGCTG
* * *
29775386 AATCCGGGTTATGTCCCGAAGGCAGT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCAC
1 AATCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCA-
29775450 TT-GAACGAGGAGCT-
65 TTCGAACGAGGAGCTG
* *
29775464 ATATCC-GGTTAAATTCCGAAGG
1 A-ATCCGGGTTAAGTCCCGAAGG
29775486 TACGTGATTT
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
78 14 0.17
79 43 0.52
80 26 0.31
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
AATCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
TCGAACGAGGAGCTG
Found at i:29778139 original size:3 final size:3
Alignment explanation
Indices: 29778131--29778164 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
29778121 TTTTTAATCC
29778131 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
29778165 CCTTCTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:29783321 original size:8 final size:8
Alignment explanation
Indices: 29783308--29783372 Score: 53
Period size: 9 Copynumber: 7.5 Consensus size: 8
29783298 GATCCAATTC
29783308 AAAAAAAT
1 AAAAAAAT
29783316 AAAAAAA-
1 AAAAAAAT
29783323 AAACAAAAT
1 AAA-AAAAT
29783332 CAAAAAGACA-
1 -AAAAA-A-AT
29783342 AAAAAGAAT
1 AAAAA-AAT
29783351 AAAAAAAT
1 AAAAAAAT
29783359 CAAAAAAAT
1 -AAAAAAAT
29783368 CAAAA
1 -AAAA
29783373 TCAAAATCAA
Statistics
Matches: 50, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
7 3 0.06
8 15 0.30
9 27 0.54
10 4 0.08
11 1 0.02
ACGTcount: A:0.82, C:0.08, G:0.03, T:0.08
Consensus pattern (8 bp):
AAAAAAAT
Found at i:29783378 original size:34 final size:31
Alignment explanation
Indices: 29783306--29783412 Score: 90
Period size: 34 Copynumber: 3.2 Consensus size: 31
29783296 CAGATCCAAT
*
29783306 TCAAAAAAATAAAAAAAA-AACAAAATCAAAAA
1 TCAAAAAAA-AAAAAAAACAAAAAAATC-AAAA
*
29783338 GACAAAAAAGAATAAAAAAATCAAAAAAATCAAAA
1 -TCAAAAAA-AA-AAAAAAA-CAAAAAAATCAAAA
* *
29783373 TCAAAATCAAAAACAAAAAAGAAAAAAATCAAAG
1 TCAAAA--AAAAA-AAAAAACAAAAAAATCAAAA
29783407 TCAAAA
1 TCAAAA
29783413 GCGAAAAAAG
Statistics
Matches: 62, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
33 8 0.13
34 32 0.52
35 12 0.19
36 10 0.16
ACGTcount: A:0.77, C:0.10, G:0.04, T:0.09
Consensus pattern (31 bp):
TCAAAAAAAAAAAAAAACAAAAAAATCAAAA
Found at i:29783398 original size:43 final size:42
Alignment explanation
Indices: 29783308--29783405 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 42
29783298 GATCCAATTC
* * * * *
29783308 AAAAAAATAAAAAAAAAACAAAATCAAAAAGACAAAAAAGAAT
1 AAAAAAAT-CAAAAAAAACAAAATCAAAAACAAAAAAAAAAAG
* *
29783351 AAAAAAATCAAAAAAATCAAAATCAAAATCAAAAACAAAAAAG
1 AAAAAAATCAAAAAAAACAAAATCAAAAACAAAAA-AAAAAAG
29783394 AAAAAAATCAAA
1 AAAAAAATCAAA
29783406 GTCAAAAGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 22 0.47
43 25 0.53
ACGTcount: A:0.80, C:0.09, G:0.03, T:0.08
Consensus pattern (42 bp):
AAAAAAATCAAAAAAAACAAAATCAAAAACAAAAAAAAAAAG
Found at i:29783420 original size:29 final size:28
Alignment explanation
Indices: 29783369--29783441 Score: 92
Period size: 29 Copynumber: 2.6 Consensus size: 28
29783359 CAAAAAAATC
29783369 AAAATCAAAATCAAAAACAAAAAAGAAA
1 AAAATCAAAATCAAAAACAAAAAAGAAA
* *
29783397 AAAATCAAAGTCAAAAGCGAAAAAAGAAA
1 AAAATCAAAATCAAAAAC-AAAAAAGAAA
** *
29783426 TCAATCAAATTCAAAA
1 AAAATCAAAATCAAAA
29783442 TAAAAATATG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 16 0.41
29 23 0.59
ACGTcount: A:0.70, C:0.12, G:0.07, T:0.11
Consensus pattern (28 bp):
AAAATCAAAATCAAAAACAAAAAAGAAA
Found at i:29784353 original size:7 final size:7
Alignment explanation
Indices: 29784341--29784395 Score: 103
Period size: 7 Copynumber: 8.0 Consensus size: 7
29784331 AAAAAAAGGG
29784341 ATGAAAA
1 ATGAAAA
29784348 ATGAAAA
1 ATGAAAA
29784355 ATGAAAA
1 ATGAAAA
29784362 ATGAAAA
1 ATGAAAA
29784369 ATGAAAA
1 ATGAAAA
29784376 ATG-AAA
1 ATGAAAA
29784382 ATGAAAA
1 ATGAAAA
29784389 ATGAAAA
1 ATGAAAA
29784396 GTAATGACGA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.13
7 41 0.87
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
ATGAAAA
Found at i:29784365 original size:21 final size:20
Alignment explanation
Indices: 29784341--29784395 Score: 101
Period size: 20 Copynumber: 2.7 Consensus size: 20
29784331 AAAAAAAGGG
29784341 ATGAAAAATGAAAAATGAAAA
1 ATGAAAAATGAAAAATG-AAA
29784362 ATGAAAAATGAAAAATGAAA
1 ATGAAAAATGAAAAATGAAA
29784382 ATGAAAAATGAAAA
1 ATGAAAAATGAAAA
29784396 GTAATGACGA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 17 0.50
21 17 0.50
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (20 bp):
ATGAAAAATGAAAAATGAAA
Found at i:29785767 original size:87 final size:87
Alignment explanation
Indices: 29785621--29786017 Score: 470
Period size: 88 Copynumber: 4.5 Consensus size: 87
29785611 CAGATCAGTG
* * * * *
29785621 AAGATAGCAGATCTTGCCTTCTTGCATTGACAGCGAAGCGGATCAAAAATAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCCA
* *
29785686 TCGGTTGCAGTGGATCTGGTTA
66 TCGGTTGCAGTGGAGCAGGTTA
* * * *
29785708 AAGATAGCAGATATTGCCTTCCTACATTGACAGCAAAACAGATCGAAAACAAAACCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCCA
* * *
29785773 CCGGTTGTAGTGGAGCGGGTTA
66 TCGGTTGCAGTGGAGCAGGTTA
* * * **
29785795 AAGATAGCAGATCTTGCCTTCCTGCATAGACAACGAAGCAGATCGAAGACCCCAACCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAA-AACAAAACCTTGCCTCC
* *
29785860 ATAGGTTGCAGTGGAGCAAGTTA
65 ATCGGTTGCAGTGGAGCAGGTTA
* * * * * * *
29785883 AAGATAGCAGATCTTGCCTTCTTGCACTCACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACA-AAACCTTGCCTCC
* * *
29785948 CTCGGTTGCAGTGGAGCAGTTTG
65 ATCGGTTGCAGTGGAGCAGGTTA
* * *
29785971 AAGATAGCATATCTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAA
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAA
29786018 GATTACAAGT
Statistics
Matches: 262, Mismatches: 46, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
87 116 0.44
88 146 0.56
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (87 bp):
AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCCA
TCGGTTGCAGTGGAGCAGGTTA
Found at i:29786017 original size:176 final size:176
Alignment explanation
Indices: 29785619--29786019 Score: 479
Period size: 175 Copynumber: 2.3 Consensus size: 176
29785609 AACAGATCAG
* * * *
29785619 TGAAGATAGCAGATCTTGCCTTCTTGCATTGACAGCGAAGCGGATC-AA-AAATAAAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGAAACAAAGCCTTGCC
* * ** * *
29785682 TCCATCGGTTGCAGTGGATCTGGTTAAAGATAGCAGATATTGCCTTCCTACATTGACAGCAAAAC
66 TCCATAGGTTGCAGTGGAGCAAGTTAAAGATAGCAGATATTGCCTTCCTACACTCACAGCAAAAC
* *
29785747 AGATCGAAAACAAAACCTTGCCTCCACCGGTTGTAGTGGAGCGGGT
131 AGATCGAAAACAAAACCTTGCCTCCACCGGTTGCAGTGGAGCAGGT
* * ** *
29785793 TAAAGATAGCAGATCTTGCCTTCCTGCA-TAGACAACGAAGCAGATCGAAGACCCCAA-CCTTGC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATTA-ACAGCGAAGCAGATCGAAGAAACAAAGCCTTGC
* * * ** *
29785856 CTCCATAGGTTGCAGTGGAGCAAGTTAAAGATAGCAGATCTTGCCTTCTTGCACTCACAGTGAAG
65 CTCCATAGGTTGCAGTGGAGCAAGTTAAAGATAGCAGATATTGCCTTCCTACACTCACAGCAAAA
* * * *
29785921 CAGATCGAAGACACCAGCCTTGCCTCC-CTCGGTTGCAGTGGAGCAGTT
130 CAGATCGAAAACA-AAACCTTGCCTCCAC-CGGTTGCAGTGGAGCAGGT
* *
29785969 TGAAGATAGCATATCTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAGA
1 TGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGA
29786020 TTACAAGTCC
Statistics
Matches: 190, Mismatches: 31, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
173 1 0.01
174 39 0.21
175 74 0.39
176 74 0.39
177 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (176 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGAAACAAAGCCTTGCC
TCCATAGGTTGCAGTGGAGCAAGTTAAAGATAGCAGATATTGCCTTCCTACACTCACAGCAAAAC
AGATCGAAAACAAAACCTTGCCTCCACCGGTTGCAGTGGAGCAGGT
Found at i:29786385 original size:50 final size:50
Alignment explanation
Indices: 29786303--29786551 Score: 169
Period size: 50 Copynumber: 5.0 Consensus size: 50
29786293 CCAGGCAATA
* * * * * * * *
29786303 CAGTGGAACAGATTAAAGTCACATCGGTGAATCTTGCTTCCCCGACATTG
1 CAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTACTTCCCAGACATTG
* * * * *
29786353 TAGTTAAAAAGATTAACGCTACAACAGCGAATCTTAC-TCCTCAGGCGA-TG
1 CAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTACTTCC-CAGAC-ATTG
* * * * * * *
29786403 CAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTG
1 CAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTACTTCCCAGACATTG
* * * * *
29786453 CAGTTAAAAAGACTAAAGCCACAACGGCGAATATTACTCTCCCAGACAGTG
1 CAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTACT-TCCCAGACATTG
* * * * * * *
29786504 CAGTGGAACAGATTGAAGCTACAACAGCAAATCTCACTTCCCTGACAT
1 CAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTACTTCCCAGACAT
29786552 CACAGTTAAG
Statistics
Matches: 147, Mismatches: 47, Indels: 10
0.72 0.23 0.05
Matches are distributed among these distances:
49 4 0.03
50 101 0.69
51 42 0.29
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.22
Consensus pattern (50 bp):
CAGTGAAAAAGATTAAAGCCACAACAGCGAATCTTACTTCCCAGACATTG
Found at i:29786477 original size:100 final size:99
Alignment explanation
Indices: 29786282--29786522 Score: 338
Period size: 100 Copynumber: 2.4 Consensus size: 99
29786272 AAAATTACAT
* *
29786282 ATCTTATCTCCCCAGGCAATACAGTGGAACAGATTAAAGTCACATCGGTGAATCTTGCTTCCCCG
1 ATCTTA-CTCCCCAGGC-ATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * * *
29786347 ACATTGTAGTTAAAAAGATTAACGCTACAACAGCGA
64 ACATTGCAGTTAAAAAGACTAAAGCCACAACAGCGA
*
29786383 ATCTTACTCCTCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
1 ATCTTACTCCCCAGGC-ATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
*
29786448 CATTGCAGTTAAAAAGACTAAAGCCACAACGGCGA
65 CATTGCAGTTAAAAAGACTAAAGCCACAACAGCGA
* * *
29786483 ATATTACTCTCCCAGACAGTGCAGTGGAACAGATTGAAGC
1 ATCTTACTC-CCCAGGCA-TGCAGTGGAACAGATTAAAGC
29786523 TACAACAGCA
Statistics
Matches: 125, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
100 94 0.75
101 31 0.25
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (99 bp):
ATCTTACTCCCCAGGCATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGAC
ATTGCAGTTAAAAAGACTAAAGCCACAACAGCGA
Found at i:29786558 original size:101 final size:100
Alignment explanation
Indices: 29786289--29786560 Score: 240
Period size: 100 Copynumber: 2.7 Consensus size: 100
29786279 CATATCTTAT
* * * * * * ** ** ***
29786289 CTCCCCAGGCAATACAGTGGAACAGATTAAAGTCACATCGGTGAATCTTGCTTCCCCGACATTGT
1 CTCCCCAGACGATGCAGTGGAACAGATTAAAGCCACAACAGCAAATCTCACTTCCCCGACATCAC
* * * *
29786354 AGTTAAAAAGATTAACGCTACAACAGCGAATCTTA
66 AGTTAAAAAGACTAAAGCCACAACAGCGAATATTA
* * * * ** ** **
29786389 CTCCTCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGC
1 CTCCCCAGACGATGCAGTGGAACAGATTAAAGCCACAACAGCAAATCTCACTTCCCCGACATCAC
*
29786454 AGTTAAAAAGACTAAAGCCACAACGGCGAATATTA
66 AGTTAAAAAGACTAAAGCCACAACAGCGAATATTA
* * *
29786489 CTCTCCCAGAC-AGTGCAGTGGAACAGATTGAAGCTACAACAGCAAATCTCACTTCCCTGACATC
1 CTC-CCCAGACGA-TGCAGTGGAACAGATTAAAGCCACAACAGCAAATCTCACTTCCCCGACATC
29786553 ACAGTTAA
64 ACAGTTAA
29786561 GCAGATTACG
Statistics
Matches: 147, Mismatches: 23, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
100 94 0.64
101 53 0.36
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (100 bp):
CTCCCCAGACGATGCAGTGGAACAGATTAAAGCCACAACAGCAAATCTCACTTCCCCGACATCAC
AGTTAAAAAGACTAAAGCCACAACAGCGAATATTA
Found at i:29788075 original size:5 final size:6
Alignment explanation
Indices: 29788023--29788080 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
29788013 ACCAATTTCG
* * * *
29788023 TTTATC TTTATTT TTTCTT TTTCTT TTTATT TGTAATGT TTTATT TTTATT
1 TTTATT TTTA-TT TTTATT TTTATT TTTATT T-TTAT-T TTTATT TTTATT
29788074 TTTATT T
1 TTTATT T
29788081 GAATTTAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
6 32 0.73
7 10 0.23
8 2 0.05
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:29798060 original size:21 final size:22
Alignment explanation
Indices: 29798031--29798081 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
29798021 TCTCTCTCGC
*
29798031 TTTCCTTTTCGCCTTTTTCA-T
1 TTTCATTTTCGCCTTTTTCACT
**
29798052 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTCGCCTTTTTCACT
29798074 TTT-ATTTT
1 TTTCATTTT
29798082 TCTCTTCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.08, C:0.22, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTCATTTTCGCCTTTTTCACT
Found at i:29806274 original size:21 final size:21
Alignment explanation
Indices: 29806250--29806297 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
29806240 GAGTAAAAGC
* *
29806250 TTTGTGAGAAAAGTAAAAATG
1 TTTGGGAGAAAAGTAAAAATA
* *
29806271 TTTGGGGGTAAAGTAAAAATA
1 TTTGGGAGAAAAGTAAAAATA
29806292 TTTGGG
1 TTTGGG
29806298 GGTTTGGGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (21 bp):
TTTGGGAGAAAAGTAAAAATA
Found at i:29806299 original size:22 final size:21
Alignment explanation
Indices: 29806259--29806300 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
29806249 CTTTGTGAGA
*
29806259 AAAGTAAAAATGTTTGGGGGT
1 AAAGTAAAAATATTTGGGGGT
29806280 AAAGTAAAAATATTTGGGGGT
1 AAAGTAAAAATATTTGGGGGT
29806301 TTGGGGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (21 bp):
AAAGTAAAAATATTTGGGGGT
Found at i:29810362 original size:14 final size:14
Alignment explanation
Indices: 29810343--29810369 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29810333 CATTATTAAA
29810343 TAAAATACAAGTGG
1 TAAAATACAAGTGG
29810357 TAAAATACAAGTG
1 TAAAATACAAGTG
29810370 CGCAAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (14 bp):
TAAAATACAAGTGG
Found at i:29817489 original size:23 final size:23
Alignment explanation
Indices: 29817459--29817511 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
29817449 AACCCATATA
*
29817459 TATGCATGCTAATATACTATTAT
1 TATGCATGCCAATATACTATTAT
*
29817482 TATGCATGCCGATATACTATTAT
1 TATGCATGCCAATATACTATTAT
29817505 TATGCAT
1 TATGCAT
29817512 AGGGGTGTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (23 bp):
TATGCATGCCAATATACTATTAT
Found at i:29817851 original size:20 final size:21
Alignment explanation
Indices: 29817808--29817851 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
29817798 AAAAATTACA
*
29817808 AAAATTTTAATAAATAAAAAT
1 AAAATTCTAATAAATAAAAAT
* *
29817829 AAAATTCTAA-AACTAAAACT
1 AAAATTCTAATAAATAAAAAT
29817849 AAA
1 AAA
29817852 GTATAAAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAATTCTAATAAATAAAAAT
Found at i:29817903 original size:9 final size:9
Alignment explanation
Indices: 29817889--29817975 Score: 120
Period size: 9 Copynumber: 9.7 Consensus size: 9
29817879 TATGTATGAT
*
29817889 TTAATTAGG
1 TTAATTCGG
29817898 TTAATTCGG
1 TTAATTCGG
*
29817907 GTAATTCGG
1 TTAATTCGG
*
29817916 GTAATTCGG
1 TTAATTCGG
*
29817925 GTAATTCGG
1 TTAATTCGG
29817934 TTAATTCGG
1 TTAATTCGG
*
29817943 GTAATTCGG
1 TTAATTCGG
*
29817952 TTAATTTGG
1 TTAATTCGG
29817961 TTAATTCGG
1 TTAATTCGG
29817970 TTAATT
1 TTAATT
29817976 TTTAACCAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 71 1.00
ACGTcount: A:0.24, C:0.08, G:0.25, T:0.43
Consensus pattern (9 bp):
TTAATTCGG
Found at i:29817976 original size:18 final size:18
Alignment explanation
Indices: 29817890--29817975 Score: 136
Period size: 18 Copynumber: 4.8 Consensus size: 18
29817880 ATGTATGATT
*
29817890 TAATTAGGTTAATTCGGG
1 TAATTCGGTTAATTCGGG
*
29817908 TAATTCGGGTAATTCGGG
1 TAATTCGGTTAATTCGGG
29817926 TAATTCGGTTAATTCGGG
1 TAATTCGGTTAATTCGGG
* *
29817944 TAATTCGGTTAATTTGGT
1 TAATTCGGTTAATTCGGG
29817962 TAATTCGGTTAATT
1 TAATTCGGTTAATT
29817976 TTTAACCAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.24, C:0.08, G:0.26, T:0.42
Consensus pattern (18 bp):
TAATTCGGTTAATTCGGG
Found at i:29821933 original size:3 final size:3
Alignment explanation
Indices: 29821920--29821962 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
29821910 ACCATCCACC
*
29821920 ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
29821963 AACAAAACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:29824940 original size:56 final size:50
Alignment explanation
Indices: 29824856--29825041 Score: 201
Period size: 50 Copynumber: 3.6 Consensus size: 50
29824846 AGATCCCATC
*
29824856 TAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCACG
1 TAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCCCACG
* *
29824912 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACG
* * * * ** *
29824962 CAAGACCATGTCTGGGACATAGCATAGGCACCGATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACG
* * *
29825012 TAAGACCATATCTGGGATATGACATTGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
29825042 GTTCAAGAAA
Statistics
Matches: 112, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
50 79 0.71
53 3 0.03
55 1 0.01
56 29 0.26
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACG
Found at i:29837961 original size:44 final size:44
Alignment explanation
Indices: 29837911--29838000 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
29837901 AATTTTTCAT
29837911 TTTATAATATTCTTACTTGCTAAGCTAACGATAGAAGGAAGCAA
1 TTTATAATATTCTTACTTGCTAAGCTAACGATAGAAGGAAGCAA
29837955 TTTATAATATTCTTACTTGCTAAGCTAACGATAGAAGGAAGCAA
1 TTTATAATATTCTTACTTGCTAAGCTAACGATAGAAGGAAGCAA
29837999 TT
1 TT
29838001 AATGCACATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (44 bp):
TTTATAATATTCTTACTTGCTAAGCTAACGATAGAAGGAAGCAA
Found at i:29841649 original size:15 final size:15
Alignment explanation
Indices: 29841629--29841659 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
29841619 AATGTTGCAG
*
29841629 CTGATTTGGTCATAC
1 CTGATTTGGTAATAC
29841644 CTGATTTGGTAATAC
1 CTGATTTGGTAATAC
29841659 C
1 C
29841660 ATGTTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (15 bp):
CTGATTTGGTAATAC
Found at i:29848365 original size:22 final size:22
Alignment explanation
Indices: 29848340--29848382 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
29848330 AATTGATTTC
*
29848340 AAAAAAATTA-AACAAACAAAT
1 AAAAAAAATATAACAAACAAAT
*
29848361 AAAAAACATATAACAAACAAAT
1 AAAAAAAATATAACAAACAAAT
29848383 CAATTCATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.74, C:0.12, G:0.00, T:0.14
Consensus pattern (22 bp):
AAAAAAAATATAACAAACAAAT
Found at i:29848659 original size:55 final size:55
Alignment explanation
Indices: 29848595--29848699 Score: 138
Period size: 55 Copynumber: 1.9 Consensus size: 55
29848585 TGTGTGCCCA
*
29848595 TGTGAGTATTCGAAATAAGGCCACATGGTCGTGTCACAGGCCGTGTGCCAAACTG
1 TGTGAGTATTCGAAATAAGGCCACATGGTCGTGTCACAGGCCATGTGCCAAACTG
* * * * * * *
29848650 TGTGTGTATTCGAAGTTAGGTCAGATGGTTGTGTCGCAGGCCATGTGCCA
1 TGTGAGTATTCGAAATAAGGCCACATGGTCGTGTCACAGGCCATGTGCCA
29848700 GACCATGCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (55 bp):
TGTGAGTATTCGAAATAAGGCCACATGGTCGTGTCACAGGCCATGTGCCAAACTG
Found at i:29849777 original size:20 final size:19
Alignment explanation
Indices: 29849754--29849836 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 19
29849744 GGCACAATTA
*
29849754 TGCAATCAGAGGCACCGAAG
1 TGCAA-CAGAGACACCGAAG
* **
29849774 TGCAAACAAAGACAATGAAG
1 TGC-AACAGAGACACCGAAG
* *
29849794 TGTAACAGAGACACCAAAG
1 TGCAACAGAGACACCGAAG
* * *
29849813 TGTAAAAGAGGCACCGAAG
1 TGCAACAGAGACACCGAAG
29849832 TGCAA
1 TGCAA
29849837 TCCTGTACAA
Statistics
Matches: 49, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
19 32 0.65
20 15 0.31
21 2 0.04
ACGTcount: A:0.45, C:0.19, G:0.25, T:0.11
Consensus pattern (19 bp):
TGCAACAGAGACACCGAAG
Found at i:29852929 original size:23 final size:23
Alignment explanation
Indices: 29852903--29853001 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
29852893 AGTGTTATTG
29852903 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
29852926 ATCAGTGGTAGCTTCGACTATAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
29852949 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
29852972 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
29852995 ATCAGTG
1 ATCAGTG
29853002 TGGCACTTAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:29853173 original size:38 final size:37
Alignment explanation
Indices: 29853131--29853203 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
29853121 ATGTGTGGAA
* *
29853131 TTGAATTGAATATTGACTTGAAAA-TGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAATT
29853169 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
29853204 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAATT
Found at i:29863675 original size:27 final size:27
Alignment explanation
Indices: 29863644--29863821 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
29863634 TAAATTGTAC
29863644 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
29863671 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
29863697 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
29863725 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
29863753 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
29863780 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
29863807 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29863822 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:29863759 original size:82 final size:81
Alignment explanation
Indices: 29863645--29863800 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
29863635 AAATTGTACA
* *
29863645 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
29863709 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
29863726 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
29863791 TGCGAGTTGA
65 TGCGAATTGA
29863801 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:29863812 original size:82 final size:81
Alignment explanation
Indices: 29863641--29863821 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
29863631 GATTAAATTG
* *
29863641 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
29863706 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
29863722 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
29863786 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
29863804 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
29863822 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:29868743 original size:39 final size:40
Alignment explanation
Indices: 29868493--29868755 Score: 255
Period size: 40 Copynumber: 6.6 Consensus size: 40
29868483 TTGAATGCTG
* * * * * *
29868493 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
29868533 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AATT
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA-A
* * * *
29868573 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
29868613 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
29868653 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
29868693 TTCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
29868732 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
29868756 TGAACGAGGA
Statistics
Matches: 192, Mismatches: 26, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
39 34 0.18
40 148 0.77
41 10 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:29872111 original size:35 final size:37
Alignment explanation
Indices: 29872009--29872159 Score: 252
Period size: 37 Copynumber: 4.1 Consensus size: 37
29871999 TTATTACGAA
* * * *
29872009 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
29872046 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
29872083 GTCTTACCCGGAC-AAAT-CCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
29872118 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
29872155 GTCTT
1 GTCTT
29872160 TAGAGCTCGG
Statistics
Matches: 108, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
35 31 0.29
36 8 0.07
37 69 0.64
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
Found at i:29872128 original size:72 final size:74
Alignment explanation
Indices: 29872009--29872159 Score: 270
Period size: 72 Copynumber: 2.1 Consensus size: 74
29871999 TTATTACGAA
*
29872009 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAATCCCCACACGT
1 GTCTTACCCGGACATAATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCCCCACACGT
29872074 AGTCATCGG
66 AGTCATCGG
*
29872083 GTCTTACCCGGACA-AATC-CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCCCCACACGT
1 GTCTTACCCGGACATAATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCCCCACACGT
29872146 AGTCATCGG
66 AGTCATCGG
29872155 GTCTT
1 GTCTT
29872160 TAGAGCTCGG
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
72 57 0.76
73 4 0.05
74 14 0.19
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (74 bp):
GTCTTACCCGGACATAATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCCCCACACGT
AGTCATCGG
Found at i:29872356 original size:47 final size:47
Alignment explanation
Indices: 29872278--29872739 Score: 725
Period size: 47 Copynumber: 9.7 Consensus size: 47
29872268 CCCTTCGGGA
* * * * * *
29872278 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29872325 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29872372 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29872419 CTTATCA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29872465 CTTATCACATAAAAATATATACACTTTCACATTCATCACATCGGCC-TTAGGC
1 CTTATCAC------ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29872517 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29872564 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29872611 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29872658 CTTATCACATTATATACACTTTCACATTCATCACATC-GCCATTAGGC
1 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
29872705 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
29872740 AGAATCCTAA
Statistics
Matches: 392, Mismatches: 13, Indels: 21
0.92 0.03 0.05
Matches are distributed among these distances:
45 1 0.00
46 100 0.26
47 218 0.56
48 27 0.07
52 14 0.04
53 32 0.08
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29872815 original size:239 final size:233
Alignment explanation
Indices: 29872289--29872760 Score: 636
Period size: 239 Copynumber: 2.0 Consensus size: 233
29872279 TTATCACATT
* * ** * * * *
29872289 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCAGCCATTAGGCCATATCACATATATACACTTTCACATTCA
29872354 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29872419 CTTATCAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAAAAATATA
131 CTTATCAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-ACAT--AAATATA
* * * * *
29872484 TACACTTTCACATTCATCACATCGGCCTTAGGCCTTATCACATA
193 TACACTTTCACATCCATCACATCAG-C--AAGCCTAATCACAAA
* *
29872528 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCAGCCATTAGGCCATATCACATATATACACTTTCACATTCA
29872593 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29872658 CTTATCACATTATATACACTTTCACATTCATCACATC-GCCATTAGGCCTTAT-C-T-CATATAT
131 CTTATCA-A-TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATACATAAATATAT
* *
29872719 GCA-TGTTCACATCCATCACAT-AG-AATCCTAAATCA-AAA
194 ACACT-TTCACATCCATCACATCAGCAAGCCT-AATCACAAA
29872757 TATA
1 TATA
29872761 GATTTTCATG
Statistics
Matches: 214, Mismatches: 15, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
229 10 0.05
230 4 0.02
233 2 0.01
234 23 0.11
237 1 0.00
238 1 0.00
239 130 0.61
240 16 0.07
241 27 0.13
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (233 bp):
TATACACTTTCACATTCATCACATCAGCCATTAGGCCATATCACATATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
CTTATCAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATACATAAATATATAC
ACTTTCACATCCATCACATCAGCAAGCCTAATCACAAA
Found at i:29872816 original size:18 final size:18
Alignment explanation
Indices: 29872793--29872831 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
29872783 AATTATCCAA
29872793 ATATAC-TTCACATACTAC
1 ATATACTTTCACATA-TAC
*
29872811 ATATACTTTCACGTATAC
1 ATATACTTTCACATATAC
29872829 ATA
1 ATA
29872832 CTGTCTTGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (18 bp):
ATATACTTTCACATATAC
Found at i:29872822 original size:188 final size:187
Alignment explanation
Indices: 29872278--29872739 Score: 594
Period size: 192 Copynumber: 2.4 Consensus size: 187
29872268 CCCTTCGGGA
* * * * * * *
29872278 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCC-TTAGGCCTTATCACATATATAC
* * * *
29872341 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATCCATCACATCAG-CA-TAGGCCTAATCACAAATATACACTTTCACATTCATCACA
* *
29872406 TCGGCCATTAGGCCTTATCA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
128 TCGACAATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29872465 CTTATCACATAAAAATATATACACTTTCACATTCATCACATCGGCCTTAGGCCTTATCACATATA
1 CTTATCACAT----ATATATACACTTTCACATTCATCACATCGGCCTTAGGCCTTATCACATATA
* * * *
29872530 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
62 TACACTTTCACATCCATCACATCAG-CA-TAGGCCTAATCACAAATATACACTTTCACATTCATC
* *
29872595 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
125 ACATCGACAATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29872658 CTTATCACAT-TATATACACTTTCACATTCATCACATC-GCCATTAGGCCTTATCTCATATATGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCC-TTAGGCCTTATCACATATATAC
29872721 A-TGTTCACATCCATCACAT
65 ACT-TTCACATCCATCACAT
29872740 AGAATCCTAA
Statistics
Matches: 256, Mismatches: 10, Indels: 17
0.90 0.04 0.06
Matches are distributed among these distances:
187 14 0.05
188 63 0.25
192 104 0.41
193 75 0.29
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (187 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCTTAGGCCTTATCACATATATACA
CTTTCACATCCATCACATCAGCATAGGCCTAATCACAAATATACACTTTCACATTCATCACATCG
ACAATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29876125 original size:40 final size:40
Alignment explanation
Indices: 29876080--29876275 Score: 189
Period size: 40 Copynumber: 4.9 Consensus size: 40
29876070 CGAATACACG
* * * *
29876080 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* *** *
29876120 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * * *
29876160 TCACTAGCACGAATGCTCTTCGGAACTTCGTCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * *
29876200 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATGG
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATAT-A
* * *
29876241 TCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-CAGCACGAATGCTCTTCGGAACTTAGCCCGGA
29876276 CATCATTCAA
Statistics
Matches: 132, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
40 118 0.89
41 8 0.06
42 6 0.05
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
Found at i:29876275 original size:80 final size:80
Alignment explanation
Indices: 29876094--29876275 Score: 208
Period size: 80 Copynumber: 2.3 Consensus size: 80
29876084 CAGCATGATT
* * ***
29876094 GCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATAT
1 GCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATAT
*
29876159 ATCACTAGCACGAAT
66 ATCACTAGCACGAAA
* * * * *
29876174 GCTCTTCGGAACTTCGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTC-CGGATA
1 GCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAG-CACGGATA
*
29876238 TGGTCACTTAGCAC-AAA
65 T-ATCAC-TAGCACGAAA
29876255 GC-CTTCGGGACTTAGCCCGGA
1 GCTCTTCGGGACTTAGCCCGGA
29876276 CATCATTCAA
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
80 69 0.82
81 9 0.11
82 6 0.07
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (80 bp):
GCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATAT
ATCACTAGCACGAAA
Found at i:29876625 original size:29 final size:29
Alignment explanation
Indices: 29876591--29876662 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
29876581 ATCAACCACG
* *
29876591 CACACTTAGTGCCATGTACTTT-AAACTCA
1 CACACTTAGTGCCATGCA-TTTCAAACCCA
* *
29876620 CACACTTAGTGCCATGCATTTCAAGCCCG
1 CACACTTAGTGCCATGCATTTCAAACCCA
29876649 CACACTTAGTGCCA
1 CACACTTAGTGCCA
29876663 ATCTCACAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 3 0.08
29 35 0.92
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (29 bp):
CACACTTAGTGCCATGCATTTCAAACCCA
Found at i:29876705 original size:43 final size:43
Alignment explanation
Indices: 29876644--29876746 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
29876634 TGCATTTCAA
29876644 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
29876687 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
29876730 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
29876747 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:29878081 original size:36 final size:37
Alignment explanation
Indices: 29878009--29878159 Score: 234
Period size: 36 Copynumber: 4.1 Consensus size: 37
29877999 TTATTACGAA
* * * *
29878009 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
*
29878046 GTCTTACCCGGACAAAAT-CCCACATGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
29878082 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
*
29878119 GTCTTACCC-GACAAAATCCCCACACGTAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
29878155 GTCTT
1 GTCTT
29878160 TAGAGCTCGG
Statistics
Matches: 106, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
36 63 0.59
37 43 0.41
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
Found at i:29878128 original size:73 final size:73
Alignment explanation
Indices: 29878009--29878159 Score: 232
Period size: 73 Copynumber: 2.1 Consensus size: 73
29877999 TTATTACGAA
* * * *
29878009 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAAT-CCCACATGT
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGGGTCTTACCC-GACAAAATCCCCACACGT
29878073 AGTCATCGG
65 AGTCATCGG
*
29878082 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGGGTCTTACCCGACAAAATCCCCACACGTA
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGGGTCTTACCCGACAAAATCCCCACACGTA
*
29878147 GTTATCGG
66 GTCATCGG
29878155 GTCTT
1 GTCTT
29878160 TAGAGCTCGG
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
72 8 0.11
73 63 0.89
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (73 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGGGTCTTACCCGACAAAATCCCCACACGTA
GTCATCGG
Found at i:29878351 original size:47 final size:47
Alignment explanation
Indices: 29878273--29878542 Score: 398
Period size: 47 Copynumber: 5.7 Consensus size: 47
29878263 ACCTTCGGGA
* * * * * * *
29878273 CTTATCATATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29878320 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29878367 CTTATCACATATATACACTTTCACATTCATGACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29878414 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29878461 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
29878508 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
29878543 AGAATCCTAA
Statistics
Matches: 204, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 1 0.00
47 203 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29897836 original size:20 final size:20
Alignment explanation
Indices: 29897813--29897860 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
29897803 TCCCAGGTCG
*
29897813 ATTTAGCTCACATGAGCTTA
1 ATTTAGCTCACATGAGCTCA
***
29897833 ATTTAGCTCGTTTGAGCTCA
1 ATTTAGCTCACATGAGCTCA
29897853 ATTTAGCT
1 ATTTAGCT
29897861 TACTTTAGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.40
Consensus pattern (20 bp):
ATTTAGCTCACATGAGCTCA
Found at i:29897852 original size:30 final size:30
Alignment explanation
Indices: 29897817--29897880 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
29897807 AGGTCGATTT
29897817 AGCTCACA-TGAGCTTAATTTAGCTCGTTTG
1 AGCTCA-ATTGAGCTTAATTTAGCTCGTTTG
* *
29897847 AGCTCAATTTAGCTTACTTTAGCTCGTTTG
1 AGCTCAATTGAGCTTAATTTAGCTCGTTTG
29897877 AGCT
1 AGCT
29897881 TGGCTTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 30 0.97
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCAATTGAGCTTAATTTAGCTCGTTTG
Found at i:29901979 original size:48 final size:48
Alignment explanation
Indices: 29901926--29902083 Score: 226
Period size: 48 Copynumber: 3.3 Consensus size: 48
29901916 AGGAGTTATC
* * * *
29901926 ACTTACTTATTTCAATACATAACATATATCACATACAAAGTTATTTTA
1 ACTTACTCATTTCAATACATAACATATATCACATACAGAGTCATATTA
* * *
29901974 ACTTACTCATTTCAATACATAACAGATATCACATGCAGGGTCATATTA
1 ACTTACTCATTTCAATACATAACATATATCACATACAGAGTCATATTA
* *
29902022 ACTTACTCATTTCAGTACATAACATATATCACATAGAGAGTCATATTA
1 ACTTACTCATTTCAATACATAACATATATCACATACAGAGTCATATTA
*
29902070 ACTTACTCTTTTCA
1 ACTTACTCATTTCA
29902084 TATCCTTCCT
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 97 1.00
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (48 bp):
ACTTACTCATTTCAATACATAACATATATCACATACAGAGTCATATTA
Found at i:29912975 original size:28 final size:28
Alignment explanation
Indices: 29912943--29913000 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
29912933 TTAATTATAA
29912943 GACAATTTTTTTCTTCATTTATATGATT
1 GACAATTTTTTTCTTCATTTATATGATT
29912971 GACAATTTTTTTCTTCATTTATATGATT
1 GACAATTTTTTTCTTCATTTATATGATT
29912999 GA
1 GA
29913001 TTTTAATTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.26, C:0.10, G:0.09, T:0.55
Consensus pattern (28 bp):
GACAATTTTTTTCTTCATTTATATGATT
Found at i:29914156 original size:21 final size:21
Alignment explanation
Indices: 29914106--29914156 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 21
29914096 ATAGAAGTTG
29914106 TGATAATTATTATACATTTAA
1 TGATAATTATTATACATTTAA
*
29914127 --A-AATAATTATA-ATTTAA
1 TGATAATTATTATACATTTAA
29914144 TTGATAATTATTA
1 -TGATAATTATTA
29914157 GTTAAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
17 6 0.25
18 9 0.38
19 1 0.04
20 1 0.04
21 7 0.29
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (21 bp):
TGATAATTATTATACATTTAA
Found at i:29914805 original size:90 final size:86
Alignment explanation
Indices: 29914718--29914966 Score: 270
Period size: 90 Copynumber: 2.7 Consensus size: 86
29914708 AAAAAAAAGG
29914718 AAGCAATTAAGCCC-CTATTCTTTTTACACTCAATTAGGTACTTGAACTTTCAAAATGCATCAAA
1 AAGCAATTAAGCCCTCTATT-TTTTT-CACTCAATT-GGTACTTGAACTTTC-AAATGCATCAAA
29914782 AAGACCCTCAAACT-TTTTAAAAAA
62 AAGACCCTCAAACTCTTTTAAAAAA
*
29914806 ATGCAATTAAGCCACTGCTTATTTTTTTCACTCAATTGGGTACTTGAACTTTCGAAATGCATCAA
1 AAGCAATTAAGCC-CT-C-TATTTTTTTCACTCAATT-GGTACTTGAACTTTC-AAATGCATCAA
* * * *
29914871 AAAGTCCTTCAAACTCTTTTCAGAAA
61 AAAGACCCTCAAACTCTTTTAAAAAA
* *
29914897 AAGCAATTAAGCCCTTTAAATTTTTTTTTGCACTTAATTGGATACTTGAACTATT-AAATGCATC
1 AAGCAATTAAGCCCTCT--A--TTTTTTT-CACTCAATTGG-TACTTGAACT-TTCAAATGCATC
29914961 AAAAAG
59 AAAAAG
29914967 GTCCTTTAAC
Statistics
Matches: 139, Mismatches: 10, Indels: 20
0.82 0.06 0.12
Matches are distributed among these distances:
88 13 0.09
89 1 0.01
90 51 0.37
91 26 0.19
92 28 0.20
93 18 0.13
94 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.34
Consensus pattern (86 bp):
AAGCAATTAAGCCCTCTATTTTTTTCACTCAATTGGTACTTGAACTTTCAAATGCATCAAAAAGA
CCCTCAAACTCTTTTAAAAAA
Found at i:29915131 original size:20 final size:21
Alignment explanation
Indices: 29915085--29915143 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
29915075 CAATAAAAGT
* *
29915085 TATAAAAATATTAAATATTAA
1 TATAAAAATTTTAAAAATTAA
*
29915106 TATAAAAATTTTAAAAATTTA
1 TATAAAAATTTTAAAAATTAA
*
29915127 T-TAAAAATTCTAAAAAT
1 TATAAAAATTTTAAAAAT
29915144 CATAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 15 0.44
21 19 0.56
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TATAAAAATTTTAAAAATTAA
Found at i:29915157 original size:17 final size:17
Alignment explanation
Indices: 29915139--29915170 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29915129 AAAAATTCTA
29915139 AAAAT-CATAAAAAAAT
1 AAAATACATAAAAAAAT
29915155 AAAATACATAAAAAAA
1 AAAATACATAAAAAAA
29915171 ACCCTTAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAATACATAAAAAAAT
Found at i:29915374 original size:10 final size:9
Alignment explanation
Indices: 29915360--29915444 Score: 53
Period size: 11 Copynumber: 8.6 Consensus size: 9
29915350 TTTTTATGGA
29915360 TTTTATATT
1 TTTTATATT
*
29915369 TCTTTACATT
1 T-TTTATATT
29915379 TTTTATAATT
1 TTTTAT-ATT
*
29915389 TTCTTACAATT
1 TT-TTA-TATT
* *
29915400 TTATAAATT
1 TTTTATATT
29915409 TTTATATATTT
1 TTT-TATA-TT
*
29915420 TTTTCTAATTT
1 TTTTAT-A-TT
29915431 TTTTATATT
1 TTTTATATT
29915440 TTTTA
1 TTTTA
29915445 CGATTTTATA
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
9 18 0.30
10 21 0.34
11 22 0.36
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTATATT
Found at i:29915393 original size:21 final size:20
Alignment explanation
Indices: 29915360--29915444 Score: 75
Period size: 20 Copynumber: 4.2 Consensus size: 20
29915350 TTTTTATGGA
*
29915360 TTTTAT-ATTTCTTTACATT
1 TTTTATAATTTTTTTACATT
* *
29915379 TTTTATAATTTTCTTACA-A
1 TTTTATAATTTTTTTACATT
* *
29915398 TTTTATAAATTTTTATATATTT
1 TTTTAT-AATTTTTTTACA-TT
* *
29915420 TTTTCTAATTTTTTTATATT
1 TTTTATAATTTTTTTACATT
29915440 TTTTA
1 TTTTA
29915445 CGATTTTATA
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
19 12 0.23
20 24 0.46
21 11 0.21
22 5 0.10
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATAATTTTTTTACATT
Found at i:29915441 original size:40 final size:41
Alignment explanation
Indices: 29915377--29915471 Score: 113
Period size: 40 Copynumber: 2.3 Consensus size: 41
29915367 TTTCTTTACA
*
29915377 TTTTTTATAATTTTCTTACAATTTTATA-AATTTTTATATAT
1 TTTTTTCTAATTTTCTTACAATTTTATACAA-TTTTATATAT
* * * * *
29915418 TTTTTTCTAATTTTTTTA-TATTTTTTACGATTTTATATTT
1 TTTTTTCTAATTTTCTTACAATTTTATACAATTTTATATAT
29915458 TTTTTTCTAATTTT
1 TTTTTTCTAATTTT
29915472 AAATATTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 30 0.64
41 17 0.36
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.69
Consensus pattern (41 bp):
TTTTTTCTAATTTTCTTACAATTTTATACAATTTTATATAT
Found at i:29915461 original size:10 final size:10
Alignment explanation
Indices: 29915360--29915443 Score: 62
Period size: 10 Copynumber: 8.3 Consensus size: 10
29915350 TTTTTATGGA
29915360 TTTTATATTT
1 TTTTATATTT
* *
29915370 CTTTACA-TT
1 TTTTATATTT
29915379 TTTTATAATTT
1 TTTTAT-ATTT
* * *
29915390 TCTTACAATT
1 TTTTATATTT
* *
29915400 TTATAAATTT
1 TTTTATATTT
*
29915410 TTATATATTT
1 TTTTATATTT
*
29915420 TTTTCTAATTT
1 TTTTAT-ATTT
29915431 TTTTATATTT
1 TTTTATATTT
29915441 TTT
1 TTT
29915444 ACGATTTTAT
Statistics
Matches: 56, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
9 6 0.11
10 35 0.62
11 15 0.27
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTATATTT
Found at i:29915480 original size:20 final size:20
Alignment explanation
Indices: 29915408--29915481 Score: 87
Period size: 21 Copynumber: 3.7 Consensus size: 20
29915398 TTTTATAAAT
29915408 TTTTATATATTTTTTTCTAA
1 TTTTATATATTTTTTTCTAA
* * *
29915428 TTTTTTTATATTTTTTAC-GA
1 -TTTTATATATTTTTTTCTAA
*
29915448 TTTTATATTTTTTTTTCTAA
1 TTTTATATATTTTTTTCTAA
*
29915468 TTTTAAATATTTTT
1 TTTTATATATTTTT
29915482 ATAGTTTTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
19 14 0.33
20 14 0.33
21 15 0.35
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.72
Consensus pattern (20 bp):
TTTTATATATTTTTTTCTAA
Found at i:29915504 original size:31 final size:30
Alignment explanation
Indices: 29915448--29915515 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 30
29915438 TTTTTTACGA
* *
29915448 TTTTATATTTTTTTTTCTAATTTTAA-ATAT
1 TTTTATATTTTTTTTTCAAAATTTAATA-AT
29915478 TTTTATAGTTTTTTTATT-AAAATTTAATAAT
1 TTTTATA-TTTTTTT-TTCAAAATTTAATAAT
29915509 TTTTATA
1 TTTTATA
29915516 ACTTTTACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
30 7 0.21
31 23 0.70
32 3 0.09
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (30 bp):
TTTTATATTTTTTTTTCAAAATTTAATAAT
Found at i:29922455 original size:33 final size:33
Alignment explanation
Indices: 29922410--29922610 Score: 127
Period size: 33 Copynumber: 5.5 Consensus size: 33
29922400 AAGATACGGT
29922410 GGAATCAGCACTTAGCAACCACCAATGATTAGG
1 GGAATCAGCACTTAGCAACCACCAATGATTAGG
* *
29922443 GGAATCATCACTTAGCAACCCCTTTCACATTTAAGA-TATGG
1 GGAATCAGCACTTAGCAACCAC---CA-A--T--GATTA-GG
* *
29922484 TGGGATCAGCACTTAGCAACCACCAATGATTCGG
1 -GGAATCAGCACTTAGCAACCACCAATGATTAGG
* *
29922518 GGAATCAGTACTTAGCAACCCCTTTCACATTTAAGA-TACGG
1 GGAATCAGCACTTAGCAACCAC---CA-A--T--GATTA-GG
* * *
29922559 TGGAATCAGCATTTAGCAATCACCAATGATTCGG
1 -GGAATCAGCACTTAGCAACCACCAATGATTAGG
29922593 GGAATCAGCACTTAGCAA
1 GGAATCAGCACTTAGCAA
29922611 TCCCTTAGAG
Statistics
Matches: 130, Mismatches: 16, Indels: 44
0.68 0.08 0.23
Matches are distributed among these distances:
33 56 0.43
34 8 0.06
35 2 0.02
36 6 0.05
37 2 0.02
38 2 0.02
39 6 0.05
40 3 0.02
41 8 0.06
42 37 0.28
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGATTAGG
Found at i:29922509 original size:75 final size:75
Alignment explanation
Indices: 29922330--29922616 Score: 439
Period size: 75 Copynumber: 3.8 Consensus size: 75
29922320 TACCCATTAT
* * * * *
29922330 CGGTGGATTCAACAGTTAGCAACCACCAGTGATTCGGGGAATCAGCACCTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
29922395 ATTCAAAGATA
66 ATT-TAAGATA
* *
29922406 CGGTGGAATCAGCACTTAGCAACCACCAATGATTAGGGGAATCATCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
29922471 ATTTAAGATA
66 ATTTAAGATA
* * *
29922481 TGGTGGGATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGTACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
29922546 ATTTAAGATA
66 ATTTAAGATA
* * *
29922556 CGGTGGAATCAGCATTTAGCAATCACCAATGATTCGGGGAATCAGCACTTAGCAATCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTT
29922617 AGAGGAATCA
Statistics
Matches: 192, Mismatches: 19, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
75 131 0.68
76 61 0.32
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTTAAGATA
Found at i:29929274 original size:13 final size:13
Alignment explanation
Indices: 29929252--29929284 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
29929242 AAGTTTTCGA
29929252 ACGAAATTTTT-T
1 ACGAAATTTTTCT
29929264 ACGAAATTTTTCT
1 ACGAAATTTTTCT
*
29929277 ATGAAATT
1 ACGAAATT
29929285 GTAGACCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (13 bp):
ACGAAATTTTTCT
Found at i:29930778 original size:11 final size:11
Alignment explanation
Indices: 29930762--29930787 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
29930752 AATATATATG
29930762 TTTTATTTTTA
1 TTTTATTTTTA
29930773 TTTTATTTTTA
1 TTTTATTTTTA
29930784 TTTT
1 TTTT
29930788 TTGTACAATC
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTATTTTTA
Done.