Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 103 of 325
Found at i:30330166 original size:15 final size:15
Alignment explanation
Indices: 30330142--30330199 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
30330132 CTTAAATTTT
30330142 AAAATCTAAAAAATTA
1 AAAAT-TAAAAAATTA
**
30330158 AAAATTAAAATTTTA
1 AAAATTAAAAAATTA
* *
30330173 AAAATAAAAAAAATA
1 AAAATTAAAAAATTA
30330188 CAGAAATTAAAA
1 -A-AAATTAAAA
30330200 TCTAAAATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
15 19 0.58
16 6 0.18
17 8 0.24
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (15 bp):
AAAATTAAAAAATTA
Found at i:30331498 original size:11 final size:11
Alignment explanation
Indices: 30331482--30331517 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
30331472 ATGATTTATA
30331482 CAAAAAATTTT
1 CAAAAAATTTT
30331493 CAAAAAAATTTT
1 C-AAAAAATTTT
*
30331505 CAAAAAGTTTT
1 CAAAAAATTTT
30331516 CA
1 CA
30331518 CTTTCACCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.33
Consensus pattern (11 bp):
CAAAAAATTTT
Found at i:30331500 original size:12 final size:12
Alignment explanation
Indices: 30331483--30331510 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
30331473 TGATTTATAC
30331483 AAAAAATTTTCA
1 AAAAAATTTTCA
30331495 AAAAAATTTTCA
1 AAAAAATTTTCA
30331507 AAAA
1 AAAA
30331511 GTTTTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAAAATTTTCA
Found at i:30333915 original size:19 final size:20
Alignment explanation
Indices: 30333891--30333938 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
30333881 CGTCTTGGTA
* *
30333891 ACATTTTTATTTTTAT-TTT
1 ACATTTTAATATTTATGTTT
30333910 ACATTTTAATATTTATGTTT
1 ACATTTTAATATTTATGTTT
*
30333930 AAATTTTAA
1 ACATTTTAA
30333939 AATTATTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (20 bp):
ACATTTTAATATTTATGTTT
Found at i:30335298 original size:164 final size:164
Alignment explanation
Indices: 30335028--30335357 Score: 500
Period size: 164 Copynumber: 2.0 Consensus size: 164
30335018 TAGCATTGTC
* ** * *
30335028 ATTAAGGATAATTTTTTATTAATATATTTTTCAGTATTCAATGCTCAGTTTATGGTTTATTTGTT
1 ATTAAGGATAATTTTTTATTAATATATCTCCCAATATTCAATGCTCAGTGTATGGTTTATTTGTT
* * * * * *
30335093 TCCATGTGTAGGTCTTATATAAATTTAGTAGATCGAGTCAGAAGCATCCAAGATTTAACGGTTCA
66 TCCATGTGCAGGTCTCATATAAATTTAATAGATCAAGTCAGAAGCACCCAAGACTTAACGGTTCA
*
30335158 ACTCAGACCAAATTTTTACTCATTTTGTTT-TAT
131 ACTCAAACCAAATTTTTACTCATTTTGTTTGTAT
* * *
30335191 ATTAAGGATAATTTTTTTATTAATGTATCTCCCAATATTTAATGCTCAGTGTATGGTTTGTTTGT
1 ATTAAGGATAA-TTTTTTATTAATATATCTCCCAATATTCAATGCTCAGTGTATGGTTTATTTGT
*
30335256 TTCCATGTGCAGGTCTCATATAGATTTAATAGATCAAGTCAGAAGCACCCAAGACTTAACGGTTC
65 TTCCATGTGCAGGTCTCATATAAATTTAATAGATCAAGTCAGAAGCACCCAAGACTTAACGGTTC
30335321 AACTCAAACCAAATTTTTACTCATTTTGTTTGTAT
130 AACTCAAACCAAATTTTTACTCATTTTGTTTGTAT
30335356 AT
1 AT
30335358 AATTTATAAC
Statistics
Matches: 149, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
163 11 0.07
164 133 0.89
165 5 0.03
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (164 bp):
ATTAAGGATAATTTTTTATTAATATATCTCCCAATATTCAATGCTCAGTGTATGGTTTATTTGTT
TCCATGTGCAGGTCTCATATAAATTTAATAGATCAAGTCAGAAGCACCCAAGACTTAACGGTTCA
ACTCAAACCAAATTTTTACTCATTTTGTTTGTAT
Found at i:30337500 original size:13 final size:12
Alignment explanation
Indices: 30337480--30337523 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 12
30337470 CTATTTATTA
30337480 AATTAATTTTCC
1 AATTAATTTTCC
30337492 AATTAAATTTAAT-C
1 AATT-AATTT--TCC
30337506 AATTAATTTTCC
1 AATTAATTTTCC
30337518 AATTAA
1 AATTAA
30337524 ATAAATTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 1 0.04
12 11 0.39
13 10 0.36
14 5 0.18
15 1 0.04
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.45
Consensus pattern (12 bp):
AATTAATTTTCC
Found at i:30338326 original size:130 final size:130
Alignment explanation
Indices: 30338091--30338336 Score: 298
Period size: 130 Copynumber: 1.9 Consensus size: 130
30338081 CGTTTGTATG
* * * *
30338091 CCATCGTCTTTCACGCCCTAACCTAACGCACCTTCGGCTTCAAGCTTTAGCTCTCTTCCGCCGGA
1 CCATCGTCTTTCACGCCCTAACCCAACACACCTTCAGCTTCAAGCTTTAGCTCTCTTCCGCCAGA
* * * * ** * *
30338156 CAGTTGACAGCCCAATACACTTACCATTGTCTTACGTCCACTAGGTCACCATCATCATTCGTTCT
66 CAGTAGACAGCCCAACACACTCACCATCGTCCGACATCCACCAGGTCACCATCATCATTCGTTCT
* *
30338221 CCATCGTC-TTCAATGCCCTAACCCAACACACCTTCAGCTTCAAGCTTTAGCTCTCTTCTGCCAG
1 CCATCGTCTTTC-ACGCCCTAACCCAACACACCTTCAGCTTCAAGCTTTAGCTCTCTTCCGCCAG
* * * *
30338285 AC-GATAGATATCCCGACACACTCACCATCGTCCGGCATCCACCAGGTCACCA
65 ACAG-TAGACAGCCCAACACACTCACCATCGTCCGACATCCACCAGGTCACCA
30338337 GTCACCATCA
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
129 4 0.04
130 92 0.96
ACGTcount: A:0.23, C:0.38, G:0.13, T:0.26
Consensus pattern (130 bp):
CCATCGTCTTTCACGCCCTAACCCAACACACCTTCAGCTTCAAGCTTTAGCTCTCTTCCGCCAGA
CAGTAGACAGCCCAACACACTCACCATCGTCCGACATCCACCAGGTCACCATCATCATTCGTTCT
Found at i:30338726 original size:40 final size:40
Alignment explanation
Indices: 30338666--30338742 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
30338656 AATGCTTTAC
*
30338666 AGATTCTTAGTTGCTATAAACAATATTTGAATTATTAAAT
1 AGATTCTTAGTTACTATAAACAATATTTGAATTATTAAAT
* *
30338706 AGATTCTTAGTTACTTTAAACCATATTTGAATTATTA
1 AGATTCTTAGTTACTATAAACAATATTTGAATTATTA
30338743 TAATTGTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (40 bp):
AGATTCTTAGTTACTATAAACAATATTTGAATTATTAAAT
Found at i:30341502 original size:2 final size:2
Alignment explanation
Indices: 30341495--30341531 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
30341485 TGTATCTATC
30341495 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30341532 CAACTATACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:30349631 original size:10 final size:10
Alignment explanation
Indices: 30349612--30349642 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
30349602 ATCTAGTTGA
*
30349612 GGCTAAAGAT
1 GGCTAGAGAT
30349622 GGCTAGAGAT
1 GGCTAGAGAT
30349632 GGCTAGAGAT
1 GGCTAGAGAT
30349642 G
1 G
30349643 TGTTAGTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.32, C:0.10, G:0.39, T:0.19
Consensus pattern (10 bp):
GGCTAGAGAT
Found at i:30353505 original size:46 final size:46
Alignment explanation
Indices: 30353450--30353577 Score: 186
Period size: 46 Copynumber: 2.8 Consensus size: 46
30353440 TATTTGGCAT
* *
30353450 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AACGC
*
30353496 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
** *
30353542 CCGAGTTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30353578 GCGGGTTACA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
46 73 0.99
47 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:30356469 original size:15 final size:15
Alignment explanation
Indices: 30356431--30356474 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
30356421 CATAGTATCG
* *
30356431 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTC
30356446 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTC
30356461 TATCTTGGATTTCT
1 TATCTTGGATTTCT
30356475 TTATTCGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:30358984 original size:46 final size:46
Alignment explanation
Indices: 30358859--30358986 Score: 193
Period size: 46 Copynumber: 2.8 Consensus size: 46
30358849 TATTTGGCAT
* * *
30358859 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* *
30358905 CCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* *
30358951 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30358987 GCGGGTTACA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:30364224 original size:46 final size:46
Alignment explanation
Indices: 30364171--30364346 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
30364161 TATTTGGGCA
30364171 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
30364217 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
30364264 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
30364310 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30364347 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:30364326 original size:93 final size:93
Alignment explanation
Indices: 30364167--30364338 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30364157 GGGATATTTG
* *
30364167 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
30364232 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
30364260 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
30364325 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
30364339 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:30365760 original size:12 final size:12
Alignment explanation
Indices: 30365743--30365767 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30365733 TATCCATTTC
30365743 CAACTTCCAAAT
1 CAACTTCCAAAT
30365755 CAACTTCCAAAT
1 CAACTTCCAAAT
30365767 C
1 C
30365768 TACTAAGTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (12 bp):
CAACTTCCAAAT
Found at i:30367725 original size:11 final size:11
Alignment explanation
Indices: 30367709--30367736 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
30367699 TTATACTTAT
30367709 ACTTATTACAA
1 ACTTATTACAA
30367720 ACTTATTACAA
1 ACTTATTACAA
30367731 ACTTAT
1 ACTTAT
30367737 ACTTATCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (11 bp):
ACTTATTACAA
Found at i:30370582 original size:40 final size:39
Alignment explanation
Indices: 30370492--30370676 Score: 205
Period size: 40 Copynumber: 4.7 Consensus size: 39
30370482 TCGAATGATG
* * *
30370492 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
* *
30370532 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
30370571 TCCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 T-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
* *
30370611 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
30370651 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30370677 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.65
41 8 0.06
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:30370698 original size:79 final size:79
Alignment explanation
Indices: 30370545--30370709 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
30370535 AGACTAAGAT
* * **
30370545 CCGAAGGCATTTGTGCGAGTTACTAATCCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGCTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
30370610 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
30370624 CCGAAGGCATTTGTGCGAGCTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGCTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
30370687 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
30370703 CCGAAGG
1 CCGAAGG
30370710 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGCTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:30377156 original size:13 final size:13
Alignment explanation
Indices: 30377138--30377170 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
30377128 GAATATTTTT
30377138 CAATTCATTCATG
1 CAATTCATTCATG
30377151 CAATTCATTCATG
1 CAATTCATTCATG
30377164 CAATTCA
1 CAATTCA
30377171 CTATTCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.36
Consensus pattern (13 bp):
CAATTCATTCATG
Found at i:30379586 original size:40 final size:40
Alignment explanation
Indices: 30379541--30379707 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
30379531 CGGAATATAA
30379541 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
30379581 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
30379621 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
30379661 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
30379700 CCGGATAT
1 CCGGATAT
30379708 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:30379691 original size:80 final size:79
Alignment explanation
Indices: 30379541--30379707 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
30379531 CGGAATATAA
* *
30379541 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
30379606 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
30379621 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
30379683 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
30379700 CCGGATAT
1 CCGGATAT
30379708 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:30380555 original size:17 final size:19
Alignment explanation
Indices: 30380532--30380577 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
30380522 AAGAAGCATG
30380532 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
30380550 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
30380568 AATCATGCTC
1 AATCATGCTC
30380578 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:30387595 original size:40 final size:40
Alignment explanation
Indices: 30387550--30387716 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
30387540 CGGAATATAA
30387550 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
30387590 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
30387630 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
30387670 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
30387709 CCGGATAT
1 CCGGATAT
30387717 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:30387700 original size:80 final size:79
Alignment explanation
Indices: 30387550--30387716 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
30387540 CGGAATATAA
* *
30387550 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
30387615 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
30387630 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
30387692 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
30387709 CCGGATAT
1 CCGGATAT
30387717 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:30388565 original size:17 final size:19
Alignment explanation
Indices: 30388542--30388587 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
30388532 AAGAAGCATG
30388542 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
30388560 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
30388578 AATCATGCTC
1 AATCATGCTC
30388588 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:30390451 original size:43 final size:43
Alignment explanation
Indices: 30390366--30390475 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 43
30390356 CACCGACTTA
* *
30390366 TGATTTACGTGTAAGACCATGTCTGGGACATTAGCATTATATT
1 TGATTTACGTGTAAGACCATGTCTGGGACAGTAGCATGATATT
* *
30390409 TGATTT-CGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATT
1 TGATTTACGTGTAAGACCATGTCTGGGACAGTAGCAT-GATATT
*
30390452 TG--GT---TGTAAGACCATGTCTGGGAC
1 TGATTTACGTGTAAGACCATGTCTGGGAC
30390476 GTTGGCATTG
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
39 19 0.32
41 1 0.02
42 27 0.45
43 13 0.22
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (43 bp):
TGATTTACGTGTAAGACCATGTCTGGGACAGTAGCATGATATT
Found at i:30390470 original size:39 final size:40
Alignment explanation
Indices: 30390375--30390483 Score: 116
Period size: 39 Copynumber: 2.7 Consensus size: 40
30390365 ATGATTTACG
* * * *
30390375 TGTAAGACCATGTCTGGGACATTAGCATTATATTTGATTTC
1 TGTAAGACCATGTCTGGGACAGTGGCATGATATTTGA-GTC
*
30390416 GTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTG-GT-
1 -TGTAAGACCATGTCTGGGACAGTGGCAT-GATATTTGAGTC
30390456 TGTAAGACCATGTCTGGGAC-GTTGGCAT
1 TGTAAGACCATGTCTGGGACAG-TGGCAT
30390484 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
38 1 0.02
39 25 0.42
41 1 0.02
42 25 0.42
43 7 0.12
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.34
Consensus pattern (40 bp):
TGTAAGACCATGTCTGGGACAGTGGCATGATATTTGAGTC
Found at i:30398835 original size:27 final size:27
Alignment explanation
Indices: 30398797--30398851 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
30398787 ATGATCCAGG
30398797 ATAGTCTAACTGGTTACGCCAAGTAGT
1 ATAGTCTAACTGGTTACGCCAAGTAGT
30398824 ATAGTCTAACTGGTTACGCCAAGTAGT
1 ATAGTCTAACTGGTTACGCCAAGTAGT
30398851 A
1 A
30398852 AATGCATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (27 bp):
ATAGTCTAACTGGTTACGCCAAGTAGT
Found at i:30404035 original size:40 final size:40
Alignment explanation
Indices: 30403927--30404136 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
30403917 CGGGATTTAA
* * * * *
30403927 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
30403967 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
30404007 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
30404047 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
30404087 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
30404127 CCGGATATAT
1 CCGGATATAT
30404137 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:30407368 original size:79 final size:80
Alignment explanation
Indices: 30407246--30407454 Score: 296
Period size: 79 Copynumber: 2.6 Consensus size: 80
30407236 CGGGATTTAA
* * * * * * * * *
30407246 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAACCCGGATTTGGT-GACTTGCACAAAG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT-ATCAACTCGCACAAAG
30407310 GCCTTCGGGTCTTA-C
65 GCCTTCGGGTCTTAGC
* *
30407325 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAAGG
30407390 CCTTCGGGTCTTAGC
66 CCTTCGGGTCTTAGC
30407405 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAT
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAT
30407455 TTCCAATGTT
Statistics
Matches: 117, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
78 1 0.01
79 65 0.56
80 51 0.44
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAAGG
CCTTCGGGTCTTAGC
Found at i:30407377 original size:40 final size:40
Alignment explanation
Indices: 30407246--30407454 Score: 296
Period size: 40 Copynumber: 5.2 Consensus size: 40
30407236 CGGGATTTAA
* * * * *
30407246 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
30407286 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTA-C
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
30407325 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
30407365 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
30407405 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
30407445 CCGGATATAT
1 CCGGATATAT
30407455 TTCCAATGTT
Statistics
Matches: 152, Mismatches: 14, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
38 1 0.01
39 31 0.20
40 120 0.79
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:30410935 original size:51 final size:50
Alignment explanation
Indices: 30410858--30411005 Score: 190
Period size: 51 Copynumber: 2.9 Consensus size: 50
30410848 CAGATACACG
* * *
30410858 GTGGCCTTCACATAGTTCCATC-CTTGTAGCCAGAGCTATTTTATTCATAAA
1 GTGGCCTTCACATAGTACCA-CACTTGT-GCCAAAGCTATTTTATTCACAAA
* ** *
30410909 GTGGCATTCACATAGTACCACACTTGTTTTCAAATCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTG-TGCCAAAGCTATTTTATTCACAAA
30410960 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTG-CCAAAGCTATTTTATTC
30411006 CTAAGGTTCA
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
50 2 0.02
51 80 0.96
52 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (50 bp):
GTGGCCTTCACATAGTACCACACTTGTGCCAAAGCTATTTTATTCACAAA
Found at i:30411111 original size:52 final size:52
Alignment explanation
Indices: 30411029--30411255 Score: 339
Period size: 52 Copynumber: 4.4 Consensus size: 52
30411019 GAGAAATTTC
* * * * *
30411029 TCACTTAGCACCA-TGCCATTGACTTGTTTCATTTAGATGCCATGGGCTTGTT
1 TCACTTAGCA-CATTGCCATTGACTTATTTCACTTAGATGCCATGGTCCTATT
* * * **
30411081 TCACTAAGCACATTGCCATGGACTTATTTCACTTAAATGAAATGGTCCTATT
1 TCACTTAGCACATTGCCATTGACTTATTTCACTTAGATGCCATGGTCCTATT
30411133 TCACTTAGCACATTGCCATTGACTTATTTCACTTAGATGCCATGGTCCTATT
1 TCACTTAGCACATTGCCATTGACTTATTTCACTTAGATGCCATGGTCCTATT
30411185 TCACTTAGCACATTGCCATTGACTTATTTCACTTAGATGCCATGGTCCTATT
1 TCACTTAGCACATTGCCATTGACTTATTTCACTTAGATGCCATGGTCCTATT
*
30411237 TCACTTAGCACAATGCCAT
1 TCACTTAGCACATTGCCAT
30411256 ATCCTAGATA
Statistics
Matches: 158, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
51 2 0.01
52 156 0.99
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.37
Consensus pattern (52 bp):
TCACTTAGCACATTGCCATTGACTTATTTCACTTAGATGCCATGGTCCTATT
Found at i:30411184 original size:24 final size:24
Alignment explanation
Indices: 30411094--30411244 Score: 131
Period size: 24 Copynumber: 6.0 Consensus size: 24
30411084 CTAAGCACAT
* *
30411094 TGCCATGGACTTATTTCACTTAAA
1 TGCCATGGACCTATTTCACTTAGA
** *
30411118 TGAAATGGTCCTATTTCACTTAGCACA
1 TGCCATGGACCTATTTCACTTAG---A
* *
30411145 TTGCCATTGACTTATTTCACTTAGA
1 -TGCCATGGACCTATTTCACTTAGA
*
30411170 TGCCATGGTCCTATTTCACTTAGCACA
1 TGCCATGGACCTATTTCACTTAG---A
* *
30411197 TTGCCATTGACTTATTTCACTTAGA
1 -TGCCATGGACCTATTTCACTTAGA
*
30411222 TGCCATGGTCCTATTTCACTTAG
1 TGCCATGGACCTATTTCACTTAG
30411245 CACAATGCCA
Statistics
Matches: 100, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
24 58 0.58
25 2 0.02
27 2 0.02
28 38 0.38
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (24 bp):
TGCCATGGACCTATTTCACTTAGA
Found at i:30414821 original size:6 final size:6
Alignment explanation
Indices: 30414803--30414890 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
30414793 AAGAAACATT
* * * *
30414803 ATCAGA A-CTAGA ATCAGA ATCAAA ATCAGA ATCAG- GTGACAAA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
30414852 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
30414891 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
5 4 0.06
6 50 0.81
7 6 0.10
8 2 0.03
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:30414824 original size:18 final size:18
Alignment explanation
Indices: 30414812--30414890 Score: 72
Period size: 19 Copynumber: 4.3 Consensus size: 18
30414802 TATCAGAACT
30414812 AGAATCAGAATCAAAATC
1 AGAATCAGAATCAAAATC
* *
30414830 AGAATCAG-GTGACAAAATT
1 AGAATCAGAAT--CAAAATC
**
30414849 AGAATCAGAATCAGTATC
1 AGAATCAGAATCAAAATC
30414867 AGGTAA-CAGAATCAAAATC
1 A-G-AATCAGAATCAAAATC
30414886 AGAAT
1 AGAAT
30414891 GTGAATGCAA
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
17 3 0.06
18 14 0.30
19 27 0.57
20 3 0.06
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (18 bp):
AGAATCAGAATCAAAATC
Found at i:30414886 original size:31 final size:31
Alignment explanation
Indices: 30414812--30414890 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
30414802 TATCAGAACT
* *
30414812 AGAATCAGAATCAAAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
30414843 AAAATTAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
30414874 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
30414891 GTGAATGCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:30415104 original size:67 final size:67
Alignment explanation
Indices: 30414993--30415140 Score: 253
Period size: 67 Copynumber: 2.2 Consensus size: 67
30414983 CACCACAAAA
* *
30414993 ATTGCAGCGAGGCTGCCAGATATTTTGACGAAGTCACCAGAATAGATATATGTGGCGAA-GCCAC
1 ATTGCAGCGAGGCTACCAGATATTGTGACGAAGTCACCAGAATAGATATATGTGGC-AAGGCCAC
30415057 CAG
65 CAG
*
30415060 ATTGCAGCGAGGCTACCAGATATTGTGACGAAGTCACCATAATAGATATATGTGGCAAGGCCACC
1 ATTGCAGCGAGGCTACCAGATATTGTGACGAAGTCACCAGAATAGATATATGTGGCAAGGCCACC
30415125 AG
66 AG
30415127 ATTGCAGCGAGGCT
1 ATTGCAGCGAGGCT
30415141 GACAGAACGC
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
66 2 0.03
67 75 0.97
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (67 bp):
ATTGCAGCGAGGCTACCAGATATTGTGACGAAGTCACCAGAATAGATATATGTGGCAAGGCCACC
AG
Found at i:30415404 original size:27 final size:27
Alignment explanation
Indices: 30415374--30415433 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
30415364 GGTAAAATGG
*
30415374 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTTTACCCCACAAGGGTATCTCAA
* ** * *
30415401 TAATTCTACCTTACAGGGGTATTTCAA
1 TAATTTTACCCCACAAGGGTATCTCAA
30415428 TAATTT
1 TAATTT
30415434 CACAATCAAG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (27 bp):
TAATTTTACCCCACAAGGGTATCTCAA
Found at i:30415474 original size:27 final size:27
Alignment explanation
Indices: 30415437--30415501 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
30415427 ATAATTTCAC
* * * *
30415437 AATCAAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTCTATA
*
30415464 AATTGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTCTATA
30415491 AATCGAGGGTA
1 AATCGAGGGTA
30415502 CTTTGGTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTCTATA
Found at i:30420939 original size:365 final size:366
Alignment explanation
Indices: 30420262--30420982 Score: 1237
Period size: 365 Copynumber: 2.0 Consensus size: 366
30420252 ATTTTTTCCC
** * *
30420262 TTAGGGGCATTTCGGTAATTTTTCTCTTTAATACGGTTTCCACTTACCTCGGACCGTTAACAAAT
1 TTAGGGGCATGCCGGTAAATTTTCTCTTTAATACAGTTTCCACTTACCTCGGACCGTTAACAAAT
*
30420327 CCCGTGAGCTAAGATGAATGAATACTATGCACCAGGTAGGATTCCAGAGAAGAGGAGGTGAGTCA
66 CCCATGAGCTAAGATGAATGAATACTATGCACCAGGTAGGATTCCAGAGAAGAGGAGGTGAGTCA
* * * * *
30420392 TTAAGACCGCTTAAGTACCAAGCTCTCCCTAGATCCAATCCTAGATATGCGTATACCCGTTGCCA
131 TTAAAACCGCTTAAGTACAAAGCTCTCCCTAGATCCAATCCTAGACATGCATATACCCATTGCCA
* ** *
30420457 TACCTTAACCCTATGACTTGTCCATGGTCGCAATATATTAATTAATTTTTATGTAGTTATCATAT
196 CACCTTAACCCTATGACTTGTCCACAGTCGCAATATATTAATTAAGTTTTATGTAGTTATCATAT
30420522 ACTAGGCCCAAAACCCCTACATACATGCATATGGCCCACTTGGCCCAATCTCATTTATATGGCCC
261 ACTAGGCCCAAAACCCCTACATACATGCATATGGCCCACTTGGCCCAATCTCATTTATATGGCCC
30420587 ATCAGGCCCAATTCACATTTATATGGCCCATGAGGCCCAAA
326 ATCAGGCCCAATTCACATTTATATGGCCCATGAGGCCCAAA
* *
30420628 TTAGGGGCATGCCGGTAAATTTTCTCTTTAATACAGTTTTCACTTACCTCGGCCCGTTAACAAAT
1 TTAGGGGCATGCCGGTAAATTTTCTCTTTAATACAGTTTCCACTTACCTCGGACCGTTAACAAAT
30420693 CCCATGAGCTAAGATGAATGAATACTATGCACCAGGTAGGATTCCAGAGAAGAGGAGGTGAGTCA
66 CCCATGAGCTAAGATGAATGAATACTATGCACCAGGTAGGATTCCAGAGAAGAGGAGGTGAGTCA
* *
30420758 TTAAAACCGCTTAAGTATAAAGCTTTCCCT-GATCCAATCCTAGACATGCATATACCCATTGCCA
131 TTAAAACCGCTTAAGTACAAAGCTCTCCCTAGATCCAATCCTAGACATGCATATACCCATTGCCA
30420822 CACCTTAACCCTATGACTTGTCCACAGTCGCAATATATTAATTAAGTTTTATGTAGTTATCATAT
196 CACCTTAACCCTATGACTTGTCCACAGTCGCAATATATTAATTAAGTTTTATGTAGTTATCATAT
* * *
30420887 ACTAGGCCCAAAACCTCTACCTACATGCATATGGCCCACTTGGCCCAATCTCATTTGTATGGCCC
261 ACTAGGCCCAAAACCCCTACATACATGCATATGGCCCACTTGGCCCAATCTCATTTATATGGCCC
*
30420952 ATCAGGCCCAATTTACATTTATATGGCCCAT
326 ATCAGGCCCAATTCACATTTATATGGCCCAT
30420983 CAAGCCAAAT
Statistics
Matches: 333, Mismatches: 22, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
365 184 0.55
366 149 0.45
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (366 bp):
TTAGGGGCATGCCGGTAAATTTTCTCTTTAATACAGTTTCCACTTACCTCGGACCGTTAACAAAT
CCCATGAGCTAAGATGAATGAATACTATGCACCAGGTAGGATTCCAGAGAAGAGGAGGTGAGTCA
TTAAAACCGCTTAAGTACAAAGCTCTCCCTAGATCCAATCCTAGACATGCATATACCCATTGCCA
CACCTTAACCCTATGACTTGTCCACAGTCGCAATATATTAATTAAGTTTTATGTAGTTATCATAT
ACTAGGCCCAAAACCCCTACATACATGCATATGGCCCACTTGGCCCAATCTCATTTATATGGCCC
ATCAGGCCCAATTCACATTTATATGGCCCATGAGGCCCAAA
Found at i:30420980 original size:29 final size:29
Alignment explanation
Indices: 30420915--30421054 Score: 131
Period size: 29 Copynumber: 4.9 Consensus size: 29
30420905 ACCTACATGC
*
30420915 ATATGGCCCACTT-GGCCCAA-TCTCATTT
1 ATATGGCCCA-TTAGGCCCAATTCACATTT
* * *
30420943 GTATGGCCCATCAGGCCCAATTTACATTT
1 ATATGGCCCATTAGGCCCAATTCACATTT
* * * * *
30420972 ATATGGCCCATCAAGCCAAATTCATATTC
1 ATATGGCCCATTAGGCCCAATTCACATTT
* * *
30421001 ATATGGCCGATTAGGCCCAAATCACCTTT
1 ATATGGCCCATTAGGCCCAATTCACATTT
* *
30421030 ATATGGCCCGTTAGGCCCAAATCAC
1 ATATGGCCCATTAGGCCCAATTCAC
30421055 CTTATGTTCA
Statistics
Matches: 90, Mismatches: 20, Indels: 3
0.80 0.18 0.03
Matches are distributed among these distances:
27 1 0.01
28 16 0.18
29 73 0.81
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAATTCACATTT
Found at i:30423964 original size:29 final size:28
Alignment explanation
Indices: 30423853--30423992 Score: 122
Period size: 29 Copynumber: 4.9 Consensus size: 28
30423843 TGAACATAAG
* *
30423853 GTGATTTGGGCCTAACGGGCCATATAAAG
1 GTGA-TTGGGCCTAATGGGCCATATAAAT
30423882 GTGATTTGGGCCTAATGGGCCATA-AGAAT
1 GTGA-TTGGGCCTAATGGGCCATATA-AAT
* * * * *
30423911 ATGAATTGGGCTTGATAGGCCATATGAAT
1 GTG-ATTGGGCCTAATGGGCCATATAAAT
*
30423940 GTGCATTGGGCCTGATGGGCCATATAAAT
1 GTG-ATTGGGCCTAATGGGCCATATAAAT
* *
30423969 GAGATTGGACC-AAGTGGGCCATAT
1 GTGATTGGGCCTAA-TGGGCCATAT
30423993 GCATGTAGGT
Statistics
Matches: 92, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
27 1 0.01
28 18 0.20
29 72 0.78
30 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (28 bp):
GTGATTGGGCCTAATGGGCCATATAAAT
Found at i:30427181 original size:16 final size:16
Alignment explanation
Indices: 30427160--30427198 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
30427150 CACACTTAAG
30427160 ATGTACATTGCCCTCA
1 ATGTACATTGCCCTCA
*
30427176 ATGTACATTTCCCTCA
1 ATGTACATTGCCCTCA
30427192 ATGTACA
1 ATGTACA
30427199 AAGATAGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.33
Consensus pattern (16 bp):
ATGTACATTGCCCTCA
Found at i:30434738 original size:39 final size:40
Alignment explanation
Indices: 30434638--30434822 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
30434628 TCGAATGATG
* *
30434638 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
30434677 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
30434718 TCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
30434757 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
30434796 AACCGAGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
30434823 AATGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:30434774 original size:79 final size:80
Alignment explanation
Indices: 30434641--30434794 Score: 215
Period size: 79 Copynumber: 1.9 Consensus size: 80
30434631 AATGATGTCC
* *
30434641 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
30434706 CGAGTTACTAATTCT
66 CGAGTTACTAATTCT
* * **
30434721 GGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTTG
30434783 TGCGAGTTACTA
64 TGCGAGTTACTA
30434795 TAACCGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
78 1 0.02
79 51 0.77
80 14 0.21
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.27
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
CGAGTTACTAATTCT
Found at i:30434844 original size:79 final size:77
Alignment explanation
Indices: 30434672--30434855 Score: 183
Period size: 79 Copynumber: 2.3 Consensus size: 77
30434662 GTGCTAAGTG
* * * *
30434672 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGG
**
30434737 CATTGGTGCGAGTT
64 CATTGGAACGAGTT
* *
30434751 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGAGCTATGTCCCGAA
1 ACTATATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGAGCTAAG-CCCGAA
* *
30434815 GGCATTTGAATGAG-T
62 GGCATTGGAACGAGTT
*
30434830 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
30434856 TACGTGATTC
Statistics
Matches: 87, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
78 3 0.03
79 56 0.64
80 28 0.32
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGGCA
TTGGAACGAGTT
Found at i:30443567 original size:40 final size:40
Alignment explanation
Indices: 30443522--30443652 Score: 158
Period size: 40 Copynumber: 3.3 Consensus size: 40
30443512 CGGAATACAA
30443522 CCGGATATAATCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * * *
30443562 CCGGATAGAATGACTCGCACGAATGCCTTTGGGTCTTAGC
1 CCGGATATAATCACTAGCACGAATGCCTTCGGGTCTTAGC
* ** *
30443602 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACGAA-TGCCTTCGGGTCTTAGC
30443642 CCGGATATAAT
1 CCGGATATAAT
30443653 TTCCAGCATT
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.04
40 72 0.96
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:30446931 original size:46 final size:46
Alignment explanation
Indices: 30446864--30447038 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
30446854 TGTAACCCGC
*
30446864 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
30446910 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * * *
30446960 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
30447003 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
30447039 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 62 0.57
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:30446984 original size:93 final size:93
Alignment explanation
Indices: 30446872--30447042 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
30446862 GCCCATAAGT
* * *
30446872 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30446937 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
30446965 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30447030 CGAGTTCGGATGC
66 CGAGTTCGGATGC
30447043 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:30448863 original size:40 final size:40
Alignment explanation
Indices: 30448712--30448856 Score: 188
Period size: 40 Copynumber: 3.6 Consensus size: 40
30448702 TTGAATGATG
* * *
30448712 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
30448752 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30448792 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30448831 TCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30448857 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
39 35 0.38
40 48 0.53
41 8 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30448874 original size:40 final size:40
Alignment explanation
Indices: 30448712--30448875 Score: 185
Period size: 40 Copynumber: 4.1 Consensus size: 40
30448702 TTGAATGATG
* *
30448712 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
30448752 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
30448791 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* **
30448831 TCCGGGTTAAGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
30448871 TCCGG
1 TCCGG
30448876 TTAAATTCCG
Statistics
Matches: 107, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
39 37 0.35
40 62 0.58
41 8 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:30448875 original size:79 final size:80
Alignment explanation
Indices: 30448712--30448863 Score: 193
Period size: 79 Copynumber: 1.9 Consensus size: 80
30448702 TTGAATGATG
* *
30448712 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
**
30448777 GTGCGAGTTACTAAT
66 GAACGAGTTACTAAT
* * **
30448792 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
30448854 TTGAACGAGT
64 TTGAACGAGT
30448864 AGCTATATCC
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 44 0.71
80 17 0.27
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GAACGAGTTACTAAT
Found at i:30448889 original size:39 final size:40
Alignment explanation
Indices: 30448765--30448889 Score: 112
Period size: 39 Copynumber: 3.2 Consensus size: 40
30448755 GGACTAAGAT
* ** * * *
30448765 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCT-AAGC
1 CCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAAATC
** *
30448804 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAAATC
* * *
30448844 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATT
1 CCGAAGGCATTGGAACGAGTTA-CTAAATCCGGGTTAAATC
30448883 CCGAAGG
1 CCGAAGG
30448890 TACGTGATTC
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 48 0.66
40 25 0.34
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTGGAACGAGTTACTAAATCCGGGTTAAATC
Found at i:30451137 original size:13 final size:13
Alignment explanation
Indices: 30451119--30451145 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30451109 GCTTGGCAGG
30451119 GACACGCCCGTGT
1 GACACGCCCGTGT
30451132 GACACGCCCGTGT
1 GACACGCCCGTGT
30451145 G
1 G
30451146 CAATTACTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:30460471 original size:40 final size:39
Alignment explanation
Indices: 30460350--30460473 Score: 185
Period size: 39 Copynumber: 3.2 Consensus size: 39
30460340 TGTGAATGAA
*
30460350 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
30460389 TGTGCAAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
30460428 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
30460468 TGTGCG
1 TGTGCG
30460474 GGTTACCATA
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 58 0.77
40 17 0.23
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:30460489 original size:40 final size:40
Alignment explanation
Indices: 30460367--30460503 Score: 143
Period size: 39 Copynumber: 3.5 Consensus size: 40
30460357 ATTGTGATAT
* * ** *
30460367 CCGGGCTAAG-CCCGAAGGCAATTGTGCAAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*** *
30460406 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * *
30460445 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*
30460485 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
30460504 TGTTTTGAAC
Statistics
Matches: 85, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 45 0.53
40 40 0.47
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:30460489 original size:79 final size:79
Alignment explanation
Indices: 30460350--30460503 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 79
30460340 TGTGAATGAA
** *
30460350 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGCTATGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGCTACCATAACCGGGCTAA
30460415 G-CCCGAAGGCAAT
66 GTCCCGAAGGCAAT
* * * ** *
30460428 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCGGGCTA
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCAAGCTACCATAACCGGGCTA
*
30460493 TGTCCCGAAGG
65 AGTCCCGAAGG
30460504 TGTTTTGAAC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
78 25 0.39
79 31 0.48
80 8 0.12
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGCTACCATAACCGGGCTAA
GTCCCGAAGGCAAT
Found at i:30463386 original size:2 final size:2
Alignment explanation
Indices: 30463379--30463414 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
30463369 AATGAACAAT
30463379 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
30463415 TATATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:30466296 original size:51 final size:51
Alignment explanation
Indices: 30466219--30466315 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
30466209 CAGATACATG
* *
30466219 GTGGCCTTCACATAGTACCACCCTTGTAG-ACAAGGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTACAAAGCTATTTTATTCACAAA
*
30466270 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTACAAAGCTATTTTATTC
30466316 CTAAGGTTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
50 1 0.02
51 41 0.98
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTACAAAGCTATTTTATTCACAAA
Found at i:30466395 original size:52 final size:52
Alignment explanation
Indices: 30466339--30466461 Score: 210
Period size: 52 Copynumber: 2.4 Consensus size: 52
30466329 GGGAAATTTC
*
30466339 TCACTTAGCACCATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
* * *
30466391 TCACTTAGCATATTGCCATGGACTTATTTCACTTAGATGCCATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
30466443 TCACTTAGCACAATGCCAT
1 TCACTTAGCACAATGCCAT
30466462 ATCCTAGATA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (52 bp):
TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
Found at i:30466408 original size:28 final size:26
Alignment explanation
Indices: 30466339--30466461 Score: 155
Period size: 24 Copynumber: 4.7 Consensus size: 26
30466329 GGGAAATTTC
30466339 TCACTTAGCACCATGCCATGGACTTATT
1 TCACTTAGCA--ATGCCATGGACTTATT
30466367 TCACTTAG--ATGCCATGGACTTATT
1 TCACTTAGCAATGCCATGGACTTATT
30466391 TCACTTAGCATATTGCCATGGACTTATT
1 TCACTTAGCA-A-TGCCATGGACTTATT
*
30466419 TCACTTAG--ATGCCATGGTCTTATT
1 TCACTTAGCAATGCCATGGACTTATT
30466443 TCACTTAGCACAATGCCAT
1 TCACTTAG--CAATGCCAT
30466462 ATCCTAGATA
Statistics
Matches: 86, Mismatches: 1, Indels: 16
0.83 0.01 0.16
Matches are distributed among these distances:
24 46 0.53
25 1 0.01
27 1 0.01
28 38 0.44
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (26 bp):
TCACTTAGCAATGCCATGGACTTATT
Found at i:30468902 original size:14 final size:14
Alignment explanation
Indices: 30468870--30468911 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
30468860 AGCCTCCAAT
*
30468870 TATAATAAATATGA
1 TATAATAAATATAA
30468884 TATAATAAATA-AA
1 TATAATAAATATAA
30468897 TCATAATAAAATATA
1 T-ATAAT-AAATATA
30468912 CCTGAGATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 2 0.08
14 16 0.67
15 5 0.21
16 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (14 bp):
TATAATAAATATAA
Found at i:30469220 original size:16 final size:17
Alignment explanation
Indices: 30469191--30469225 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
30469181 AGCATAGTTA
30469191 ATAACAATAATTTAATC
1 ATAACAATAATTTAATC
*
30469208 ATAA-AATATTTTAATC
1 ATAACAATAATTTAATC
30469224 AT
1 AT
30469226 CCAAATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAACAATAATTTAATC
Found at i:30470236 original size:140 final size:137
Alignment explanation
Indices: 30469808--30470235 Score: 642
Period size: 138 Copynumber: 3.1 Consensus size: 137
30469798 TATTAATAAC
* * * **
30469808 AATTGTATATATTTTACCAAATTTATTAATTTAAACAATTATAGCAATTAATTTCGGTTAAAATA
1 AATTGTATATATTTTA-CTAATTTATTAATATAAACAGTTATATTAATTAATTTCGGTTAAAATA
* *
30469873 TAAAAAAAATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATAC
65 TAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATAC
30469938 AAAATATT
130 AAAATATT
* *
30469946 AATTGTATATATTTTACCTAATTTATTAATATAAATAGTTATATTAATTAATTTCGGTCAAAATA
1 AATTGTATATATTTTA-CTAATTTATTAATATAAACAGTTATATTAATTAATTTCGGT-TAAA-A
* * *
30470011 TATAAAAGACATGGAAATTAATATTCTTTTGGAAATAAAATAATTAATATATAAATTTGATTCAT
63 TATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCAT
30470076 ACAAAATATT
128 ACAAAATATT
30470086 AATTGTATATATTTTACTGAATTTATTAATATAAACAGTTATATTAATTAATTTCGGTTAAAATA
1 AATTGTATATATTTTACT-AATTTATTAATATAAACAGTTATATTAATTAATTTCGGTTAAAATA
* * *
30470151 TAAAAGACATGAAAATTAATATTCTTTTGAAAAGAATATAATTAGTATATGAATTTGATTCATAC
65 TAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATAC
**
30470216 AAACCATT
130 AAAATATT
30470224 -ATTGTATTATAT
1 AATTGTA-TATAT
30470236 AAATAATTAT
Statistics
Matches: 264, Mismatches: 22, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
137 6 0.02
138 125 0.47
139 8 0.03
140 125 0.47
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (137 bp):
AATTGTATATATTTTACTAATTTATTAATATAAACAGTTATATTAATTAATTTCGGTTAAAATAT
AAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACA
AAATATT
Found at i:30470629 original size:80 final size:80
Alignment explanation
Indices: 30470496--30470654 Score: 318
Period size: 80 Copynumber: 2.0 Consensus size: 80
30470486 CAAGAGAAAG
30470496 TGGTTGTTCGTCTTTTACAAGGTTGACTACGTAGAGGCCAAGATATTTTCGTTGTAGCTTGGAAT
1 TGGTTGTTCGTCTTTTACAAGGTTGACTACGTAGAGGCCAAGATATTTTCGTTGTAGCTTGGAAT
30470561 CGACATTAAATCAGT
66 CGACATTAAATCAGT
30470576 TGGTTGTTCGTCTTTTACAAGGTTGACTACGTAGAGGCCAAGATATTTTCGTTGTAGCTTGGAAT
1 TGGTTGTTCGTCTTTTACAAGGTTGACTACGTAGAGGCCAAGATATTTTCGTTGTAGCTTGGAAT
30470641 CGACATTAAATCAG
66 CGACATTAAATCAG
30470655 CAACATCCTT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (80 bp):
TGGTTGTTCGTCTTTTACAAGGTTGACTACGTAGAGGCCAAGATATTTTCGTTGTAGCTTGGAAT
CGACATTAAATCAGT
Found at i:30476388 original size:54 final size:53
Alignment explanation
Indices: 30476323--30476457 Score: 225
Period size: 53 Copynumber: 2.5 Consensus size: 53
30476313 TTTCGCTACA
*
30476323 AGGGATTTAGCCTGGACTGGTAATCCCGACATCACCCAATGAGTTTACATTGCG
1 AGGGATTTAGCCTGGATTGGTAATCCCGACATCA-CCAATGAGTTTACATTGCG
* *
30476377 GGGGATTTAGCCTGTATTGGTAATCCCGACATCACCAATGAGTTTACATTGCG
1 AGGGATTTAGCCTGGATTGGTAATCCCGACATCACCAATGAGTTTACATTGCG
*
30476430 AGGGATTTAGCCTAGATTGGTAATCCCG
1 AGGGATTTAGCCTGGATTGGTAATCCCG
30476458 CCGTAAGATG
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
53 44 0.59
54 31 0.41
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (53 bp):
AGGGATTTAGCCTGGATTGGTAATCCCGACATCACCAATGAGTTTACATTGCG
Found at i:30478182 original size:79 final size:79
Alignment explanation
Indices: 30478099--30478331 Score: 319
Period size: 79 Copynumber: 2.9 Consensus size: 79
30478089 AGCCCGGTTA
**
30478099 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTGACTCGCACCAATGCCTTCG
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATTTAGTGACTCGCACCAATGCCTTCG
30478163 GGCTTAGCCCAGAAT
65 GGCTTAGCCCAGAAT
* *
30478178 TAGTAACTCGCAC-AATAGCCTTCGGATCTTAGTCCAGATTTAGTGACTCGCACCAATGCCTTTG
1 TAGTAACTCGCACAAAT-GCCTTCGGATCTTAGTCCGGATTTAGTGACTCGCACCAATGCCTTCG
* *
30478242 GGCTTAGTCCGGAAT
65 GGCTTAGCCCAGAAT
* * * *
30478257 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTCACTTAGTA-CAAAGCCTTCG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTGAC-TCGCACCAATGCCTTCG
30478321 GGACTTAGCCC
65 GG-CTTAGCCC
30478332 GGACATCATT
Statistics
Matches: 136, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
78 6 0.04
79 117 0.86
80 13 0.10
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (79 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTGACTCGCACCAATGCCTTCGG
GCTTAGCCCAGAAT
Found at i:30478300 original size:40 final size:39
Alignment explanation
Indices: 30478071--30478334 Score: 264
Period size: 40 Copynumber: 6.6 Consensus size: 39
30478061 GCTACTCGTT
*
30478071 CAAATGCCTTCTGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA
* *
30478111 CAAATGCCTTCGGGACTTAACCCGGATTTAGTGACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
30478151 CCAATGCCTTCGGGCTTAGCCCAGAATTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
30478190 C-AATAGCCTTCGGATCTTAGTCCAGATTTAGTGACTCGCA
1 CAAAT-GCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
30478230 CCAATGCCTTTGGGCTTAGTCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
30478269 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTCACTTAGTA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
30478310 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
30478335 CATCATTCGA
Statistics
Matches: 190, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
38 3 0.02
39 65 0.34
40 107 0.56
41 15 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:30496680 original size:93 final size:93
Alignment explanation
Indices: 30496568--30496739 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30496558 CGCCCATAAG
* *
30496568 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30496633 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
30496661 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30496726 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
30496740 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:30496736 original size:46 final size:46
Alignment explanation
Indices: 30496561--30496736 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
30496551 TGTAACCCGC
* * *
30496561 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
30496607 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
30496657 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
30496700 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
30496737 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:30504354 original size:93 final size:93
Alignment explanation
Indices: 30504242--30504413 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
30504232 CGCCCATAAG
* *
30504242 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTTGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
30504306 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
* *
30504335 CGAACTCGGACTCAGCTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30504400 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
30504414 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:30504408 original size:46 final size:45
Alignment explanation
Indices: 30504235--30504410 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 45
30504225 TGTAACCCGC
* *
30504235 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGAC-ATTGCAT
* *
30504281 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTGCAT
* *
30504331 -C-TCA-CGAACTCGGACTCAGCTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATT-GCAT
*
30504374 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
30504411 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.55
47 28 0.26
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTGCAT
Found at i:30504429 original size:46 final size:44
Alignment explanation
Indices: 30504243--30504429 Score: 132
Period size: 46 Copynumber: 4.0 Consensus size: 44
30504233 GCCCATAAGC
* * * *
30504243 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTTG-CATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTC--G-G-ATGCCAACCATCTAGT
*
30504289 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT-AGT
* * * *
30504336 GAACTCGGACTCAGCTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCTAGT
30504382 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CTAGT
30504428 GA
1 GA
30504430 CATGTCACTT
Statistics
Matches: 112, Mismatches: 15, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 11 0.10
45 1 0.01
46 60 0.54
47 30 0.27
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCTAGT
Found at i:30508355 original size:137 final size:138
Alignment explanation
Indices: 30508188--30508504 Score: 492
Period size: 137 Copynumber: 2.3 Consensus size: 138
30508178 ACATAGATAA
* * *
30508188 AATTAATATATGATTTTGAGTCAAACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
** * * ** *
30508253 TAAGTAGTTATATTAAATAATTTCTGTCCAAATATAAAAGACATGGAAATTAATATT-TTTTGGA
66 TAAACAATTATACTAAATAATTTAGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
30508317 AAGAATAT
131 AAGAATAT
* * *
30508325 AATTAATATATGAATTCGATTCATACAAAATGTTAATTGTATATATTTTACTGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
*
30508390 TAAACAATTATACTAATTAATTTAGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
66 TAAACAATTATACTAAATAATTTAGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
*
30508455 AAGAATGT
131 AAGAATAT
30508463 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTAT
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTAT
30508505 TTATAAAAAC
Statistics
Matches: 162, Mismatches: 17, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
137 108 0.67
138 54 0.33
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (138 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
TAAACAATTATACTAAATAATTTAGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
AAGAATAT
Found at i:30513188 original size:81 final size:81
Alignment explanation
Indices: 30513053--30513234 Score: 319
Period size: 81 Copynumber: 2.2 Consensus size: 81
30513043 TTAAACTAAC
* *
30513053 ATAAATTGAAAGACATTAAACCAAAAGCATTTAACAAAGAAATCTAAAGCATTTAATAAGCTTTA
1 ATAAATTGAAATACATTAAACCAAAAGCAATTAACAAAGAAATCTAAAGCATTTAATAAGCTTTA
*
30513118 ACAGATTTGAAGTGAA
66 ACAAATTTGAAGTGAA
*
30513134 ATAAATTGAAATACATTAAACCAAAAGCAATTAACAAAGAAATCTAAAGCATTTAATAATCTTTA
1 ATAAATTGAAATACATTAAACCAAAAGCAATTAACAAAGAAATCTAAAGCATTTAATAAGCTTTA
*
30513199 ACAAATTTGAAGTGAC
66 ACAAATTTGAAGTGAA
30513215 ATAAATTGAAATACATTAAA
1 ATAAATTGAAATACATTAAA
30513235 ATAAAGCTTA
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 96 1.00
ACGTcount: A:0.52, C:0.11, G:0.10, T:0.27
Consensus pattern (81 bp):
ATAAATTGAAATACATTAAACCAAAAGCAATTAACAAAGAAATCTAAAGCATTTAATAAGCTTTA
ACAAATTTGAAGTGAA
Found at i:30517888 original size:40 final size:39
Alignment explanation
Indices: 30517844--30518036 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
30517834 GTTCAAAACA
* * ** * *
30517844 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
30517884 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
30517924 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
30517963 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
30518002 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
30518037 TTCATACACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:30517955 original size:39 final size:39
Alignment explanation
Indices: 30517874--30518036 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
30517864 TATGGTAACC
* *
30517874 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
30517914 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
30517953 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
30517992 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
30518031 CGCACA
1 CGCACA
30518037 TTCATACACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:30521485 original size:29 final size:29
Alignment explanation
Indices: 30521457--30521617 Score: 214
Period size: 29 Copynumber: 5.6 Consensus size: 29
30521447 CCTTCGAGCT
** * * *
30521457 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * * * *
30521486 TGCACACATAGAGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
30521515 TGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
30521544 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
30521573 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
30521602 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
30521618 ATCTCGTCAC
Statistics
Matches: 118, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 118 1.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:30521529 original size:87 final size:87
Alignment explanation
Indices: 30521428--30521617 Score: 209
Period size: 87 Copynumber: 2.2 Consensus size: 87
30521418 AATTTAAGCC
** * * * * * **
30521428 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCTTGCACAC
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
* *
30521493 ATAGAGTCATATTTTTCCAGCA
66 ATAGAGCCATATATTTCCAGCA
* * * * **
30521515 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
* *
30521580 TTAGTGCCATATATTTCCAGCA
66 ATAGAGCCATATATTTCCAGCA
30521602 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
30521618 ATCTCGTCAC
Statistics
Matches: 82, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
87 82 1.00
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (87 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
ATAGAGCCATATATTTCCAGCA
Found at i:30528561 original size:29 final size:29
Alignment explanation
Indices: 30528533--30528692 Score: 214
Period size: 29 Copynumber: 5.6 Consensus size: 29
30528523 CCTTCGAGCT
** * * *
30528533 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * * *
30528562 TGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
30528591 TGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
30528620 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
30528649 CGCACACTTAGTGCCATATATTT-CAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
30528677 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
30528693 ATCTCGTCAC
Statistics
Matches: 119, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 21 0.18
29 98 0.82
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:30528596 original size:58 final size:58
Alignment explanation
Indices: 30528504--30528692 Score: 191
Period size: 58 Copynumber: 3.3 Consensus size: 58
30528494 AATTTAAGCC
* *** * * * *
30528504 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACCCAGTGCCGTATATTTCCAGCA
* * * * ** *
30528562 TGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACCCAGTGCCGTATATTTCCAGCA
* ** *
30528620 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTT-CAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACCCAGTGCCGTATATTTCCAGCA
*
30528677 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
30528693 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
57 21 0.19
58 90 0.81
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACCCAGTGCCGTATATTTCCAGCA
Found at i:30528596 original size:87 final size:86
Alignment explanation
Indices: 30528495--30528692 Score: 207
Period size: 87 Copynumber: 2.3 Consensus size: 86
30528485 GTGCCACGCA
* * ** * * * * *
30528495 ATTTAAGCCCGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAG
1 ATTTCAGCACGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAG
** *
30528560 CTTGCACACATAGTGTCATAT
66 CACGCACACATAGTGCCATAT
* * * * * **
30528581 TTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCA
1 ATTT-CAGCACGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCA
*
30528646 GCACGCACACTTAGTGCCATAT
65 GCACGCACACATAGTGCCATAT
30528668 ATTTCAGCACGCACACTTAGTGCCA
1 ATTTCAGCACGCACACTTAGTGCCA
30528693 ATCTCGTCAC
Statistics
Matches: 88, Mismatches: 23, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
86 22 0.25
87 66 0.75
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (86 bp):
ATTTCAGCACGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAG
CACGCACACATAGTGCCATAT
Found at i:30530687 original size:21 final size:21
Alignment explanation
Indices: 30530663--30530715 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
30530653 CATTTTCCAT
* *
30530663 AACTTCTTCTTCTTCAGCAGC
1 AACTTCTTCTTCTGCAGCAAC
*
30530684 AACTTCCTCTTCTGCAGCAAC
1 AACTTCTTCTTCTGCAGCAAC
30530705 AACTTCCTTCT
1 AACTT-CTTCT
30530716 CAACAATAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.36, G:0.08, T:0.36
Consensus pattern (21 bp):
AACTTCTTCTTCTGCAGCAAC
Found at i:30530694 original size:18 final size:18
Alignment explanation
Indices: 30530668--30530704 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
30530658 TCCATAACTT
*
30530668 CTTCTTCTTCAGCAGCAA
1 CTTCCTCTTCAGCAGCAA
*
30530686 CTTCCTCTTCTGCAGCAA
1 CTTCCTCTTCAGCAGCAA
30530704 C
1 C
30530705 AACTTCCTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.38, G:0.11, T:0.32
Consensus pattern (18 bp):
CTTCCTCTTCAGCAGCAA
Found at i:30539808 original size:54 final size:55
Alignment explanation
Indices: 30539711--30539850 Score: 165
Period size: 54 Copynumber: 2.6 Consensus size: 55
30539701 GTAGTCCCAC
* * * ** *
30539711 GCCCGTGTTAATCTAACAGGTTCAACCACGGTTGCTTGGCACGGGCATGTCGTAT
1 GCCCATGTTAATTTGACAGGTTCAACCACGGTTGCAAGGCACGGGCATGTCGCAT
* *
30539766 GCCCATG-TAATTTGACAGGTTTAACCACGGTTTCAAGGCACGGGCATGTCGCAT
1 GCCCATGTTAATTTGACAGGTTCAACCACGGTTGCAAGGCACGGGCATGTCGCAT
* * * *
30539820 GCCCGTGTTATTTTGGCAGGTTCACCCACGG
1 GCCCATGTTAATTTGACAGGTTCAACCACGG
30539851 CCATGTCGCA
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
54 46 0.65
55 25 0.35
ACGTcount: A:0.20, C:0.26, G:0.27, T:0.27
Consensus pattern (55 bp):
GCCCATGTTAATTTGACAGGTTCAACCACGGTTGCAAGGCACGGGCATGTCGCAT
Found at i:30544497 original size:17 final size:18
Alignment explanation
Indices: 30544459--30544505 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
30544449 ACACTTTAGT
30544459 TAGTGTAAACTGAAAACGG
1 TAGTG-AAACTGAAAACGG
*
30544478 TAGTGAAACTG-AAACTG
1 TAGTGAAACTGAAAACGG
*
30544495 TAGTGACACTG
1 TAGTGAAACTG
30544506 CGATTTATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 6 0.23
19 5 0.19
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (18 bp):
TAGTGAAACTGAAAACGG
Found at i:30547596 original size:57 final size:57
Alignment explanation
Indices: 30547511--30547622 Score: 197
Period size: 57 Copynumber: 2.0 Consensus size: 57
30547501 GAGAAGTGTA
* *
30547511 CTATCTACATTGATCATAAGAGCTCAAGTACCTCATCACTCAGAAGGAATTAATTAT
1 CTATCTACATTGATCATAAGAGCTCAAGTACCTCAACACTCAAAAGGAATTAATTAT
*
30547568 CTATCTACATTGATCATAAGAGCTCAAGTACTTCAACACTCAAAAGGAATTAATT
1 CTATCTACATTGATCATAAGAGCTCAAGTACCTCAACACTCAAAAGGAATTAATT
30547623 CTTAGGCAGC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (57 bp):
CTATCTACATTGATCATAAGAGCTCAAGTACCTCAACACTCAAAAGGAATTAATTAT
Found at i:30549856 original size:71 final size:71
Alignment explanation
Indices: 30549772--30549935 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
30549762 CGATTTGTCT
30549772 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
30549837 CTTTCA
66 CTTTCA
30549843 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
30549908 CTTTCA
66 CTTTCA
30549914 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
30549936 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:30549973 original size:71 final size:70
Alignment explanation
Indices: 30549772--30549969 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
30549762 CGATTTGTCT
* * * *
30549772 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
30549837 CTTTCA
65 CTTTCA
* * * *
30549843 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
30549908 CTTTCA
65 CTTTCA
* *
30549914 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
30549970 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:30562813 original size:40 final size:39
Alignment explanation
Indices: 30562756--30562917 Score: 168
Period size: 40 Copynumber: 4.1 Consensus size: 39
30562746 TGAATGATAC
* * * *
30562756 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTG-TTATAT
*
30562796 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGTTATAT
* * *
30562836 -CGGGCTAAGACCCGAAGGCAATTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGT--TATAT
* *
30562875 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
30562914 CCGG
1 CCGG
30562918 TTGAATCCCG
Statistics
Matches: 102, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 37 0.36
40 60 0.59
41 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
Found at i:30568729 original size:262 final size:262
Alignment explanation
Indices: 30568264--30568788 Score: 960
Period size: 262 Copynumber: 2.0 Consensus size: 262
30568254 CCACAACCGG
30568264 TGCTATTTCTAGTGTGTAGGGATGGATGGGTTGATTTTATCCCCACATGGTGTGTAGGGCTGGAC
1 TGCTATTTCTAGTGTGTAGGGATGGATGGGTTGATTTTATCCCCACATGGTGTGTAGGGCTGGAC
* *
30568329 AGAGTTGTGTGTAGAGGCTGGTTGGGTAGGATTTTTGATTACATATATGTACTCTGTCTGCTACT
66 AAAGTTGTGTGTAGAGGCTGGTTGGGTAGGATTTTCGATTACATATATGTACTCTGTCTGCTACT
30568394 GTAATAAGCTAAGGCCCTAACTGAAATTAAACTGTTACTGAAGCAGGCTTAGGCCTAGACTATAA
131 GTAATAAGCTAAGGCCCTAACTGAAATTAAACTGTTACTGAAGCAGGCTTAGGCCTAGACTATAA
*
30568459 ATGCCTACTGTATGACTGATTGTTGTTAAAGGATTACACACTGAGTTTTCACAAACTCACCCTTC
196 ATGCCTACTATATGACTGATTGTTGTTAAAGGATTACACACTGAGTTTTCACAAACTCACCCTTC
30568524 TA
261 TA
*
30568526 TGCTATTTCTAGTGTGTAGGGATGGGTGGGTTGATTTTATCCCCACATGGTGTGTAGGGCTGGAC
1 TGCTATTTCTAGTGTGTAGGGATGGATGGGTTGATTTTATCCCCACATGGTGTGTAGGGCTGGAC
*
30568591 AAAGTTGTGTGTAGAGGCTGGTTGGGTAGGATTTTCGATTACATATATGTACTGTGTCTGCTACT
66 AAAGTTGTGTGTAGAGGCTGGTTGGGTAGGATTTTCGATTACATATATGTACTCTGTCTGCTACT
** **
30568656 GTAATGGGCTAAGGCCCTAACTGAAATTAAACTGTTACTGAAGTGGGCTTAGGCCTAGACTATAA
131 GTAATAAGCTAAGGCCCTAACTGAAATTAAACTGTTACTGAAGCAGGCTTAGGCCTAGACTATAA
*
30568721 ATGCCTACTATATGACTGATTGTTGTTAAGGGATTACACACTGAGTTTTCACAAACTCACCCTTC
196 ATGCCTACTATATGACTGATTGTTGTTAAAGGATTACACACTGAGTTTTCACAAACTCACCCTTC
30568786 TA
261 TA
30568788 T
1 T
30568789 TTTCTATGCA
Statistics
Matches: 253, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
262 253 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (262 bp):
TGCTATTTCTAGTGTGTAGGGATGGATGGGTTGATTTTATCCCCACATGGTGTGTAGGGCTGGAC
AAAGTTGTGTGTAGAGGCTGGTTGGGTAGGATTTTCGATTACATATATGTACTCTGTCTGCTACT
GTAATAAGCTAAGGCCCTAACTGAAATTAAACTGTTACTGAAGCAGGCTTAGGCCTAGACTATAA
ATGCCTACTATATGACTGATTGTTGTTAAAGGATTACACACTGAGTTTTCACAAACTCACCCTTC
TA
Found at i:30572146 original size:17 final size:17
Alignment explanation
Indices: 30572124--30572160 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
30572114 TCAGAAAATT
30572124 GAAGCTGTTCTGGGTTG
1 GAAGCTGTTCTGGGTTG
30572141 GAAGCTGTTCTGGGTTG
1 GAAGCTGTTCTGGGTTG
30572158 GAA
1 GAA
30572161 TCCGCCTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.16, C:0.11, G:0.41, T:0.32
Consensus pattern (17 bp):
GAAGCTGTTCTGGGTTG
Found at i:30575817 original size:41 final size:41
Alignment explanation
Indices: 30575772--30575889 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
30575762 TGAAAGATAA
30575772 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
30575813 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30575843 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30575884 ATGTAG
1 ATGTAG
30575890 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:30575828 original size:71 final size:71
Alignment explanation
Indices: 30575740--30575903 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
30575730 GAGATGTATC
30575740 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30575805 AGGACA
66 AGGACA
30575811 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30575876 AGGACA
66 AGGACA
30575882 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
30575904 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:30583397 original size:41 final size:41
Alignment explanation
Indices: 30583352--30583469 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
30583342 TGAAAGATAA
30583352 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
30583393 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30583423 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
30583464 ATGTAG
1 ATGTAG
30583470 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:30583408 original size:71 final size:71
Alignment explanation
Indices: 30583320--30583483 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
30583310 GAGATGTATC
30583320 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30583385 AGGACA
66 AGGACA
30583391 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
30583456 AGGACA
66 AGGACA
30583462 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
30583484 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:30587509 original size:15 final size:15
Alignment explanation
Indices: 30587480--30587529 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
30587470 CAAAGATAAC
*
30587480 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
30587494 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
30587509 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
30587524 AAGAAA
1 AAGAAA
30587530 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:30587538 original size:15 final size:15
Alignment explanation
Indices: 30587491--30587538 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
30587481 AGAAAACCGA
30587491 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
30587505 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
30587521 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
30587536 ATA
1 ATA
30587539 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:30590465 original size:41 final size:42
Alignment explanation
Indices: 30590408--30590569 Score: 175
Period size: 47 Copynumber: 3.7 Consensus size: 42
30590398 CGCCCATAAG
30590408 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTT-CATCCAT
1 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTACATCCAT
30590449 TGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC-T
1 TGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTACATC-CAT
* * * * *
30590496 CGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCAT
1 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTACATCCAT
*
30590538 AAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 ---TGAACTCGGACTCAACTCAACGAGCTCGG
30590570 ATGCCCAAAC
Statistics
Matches: 104, Mismatches: 6, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
41 30 0.29
42 7 0.07
43 1 0.01
44 2 0.02
45 28 0.27
46 3 0.03
47 32 0.31
48 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (42 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTACATCCAT
Found at i:30590478 original size:20 final size:20
Alignment explanation
Indices: 30590412--30590478 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
30590402 CATAAGTGAA
30590412 CTCGGACTCAACTCAACGAG
1 CTCGGACTCAACTCAACGAG
* * ** *
30590432 CTCGGGCGTTCATC-CATTGAA
1 CTCGGAC--TCAACTCAACGAG
30590453 CTCGGACTCAACTCAACGAG
1 CTCGGACTCAACTCAACGAG
30590473 CTCGGA
1 CTCGGA
30590479 TGCCTAGTTA
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
19 4 0.12
20 16 0.47
21 10 0.29
22 4 0.12
ACGTcount: A:0.25, C:0.33, G:0.22, T:0.19
Consensus pattern (20 bp):
CTCGGACTCAACTCAACGAG
Found at i:30590563 original size:92 final size:88
Alignment explanation
Indices: 30590409--30590574 Score: 260
Period size: 92 Copynumber: 1.8 Consensus size: 88
30590399 GCCCATAAGT
* *
30590409 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCATCCATTGAACTCGGACTCAACTCAACGAGC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCATCCATTGAACTCGGACTCAACTCAACGAGC
30590474 TCGGATGCCTAGTTACATCTCTC
66 TCGGATGCCTAGTTACATCTCTC
*
30590497 GAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATT-CATCCAT---TGAACTCGGACTCAACTCAAC
*
30590562 GAGTTCGGATGCC
62 GAGCTCGGATGCC
30590575 CAAACATCCT
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
88 30 0.43
89 7 0.10
92 33 0.47
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (88 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCATCCATTGAACTCGGACTCAACTCAACGAGC
TCGGATGCCTAGTTACATCTCTC
Found at i:30592975 original size:15 final size:15
Alignment explanation
Indices: 30592946--30592995 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
30592936 CAAAGATAAC
*
30592946 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
30592960 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
30592975 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
30592990 AAGAAA
1 AAGAAA
30592996 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:30593004 original size:15 final size:15
Alignment explanation
Indices: 30592957--30593004 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
30592947 AGAAAACCGA
30592957 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
30592971 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
30592987 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
30593002 ATA
1 ATA
30593005 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:30595998 original size:47 final size:47
Alignment explanation
Indices: 30595929--30596051 Score: 228
Period size: 47 Copynumber: 2.6 Consensus size: 47
30595919 GCCCATAAGT
30595929 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
30595976 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* *
30596023 GAACTCGGCCTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
30596052 CATTTGCATC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:30600524 original size:39 final size:39
Alignment explanation
Indices: 30600457--30600752 Score: 495
Period size: 39 Copynumber: 7.5 Consensus size: 39
30600447 ACAAAGCATG
* * *
30600457 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
30600497 CGGGACTTTAGCCCGGATATAACACCAGCACCAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
30600537 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
30600576 CGGGACTTAGCCCGAATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
30600615 CGGGACTTAGCCCGGATATAATACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
30600654 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
30600693 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
30600732 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
30600753 TTCTCCATTA
Statistics
Matches: 245, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
39 224 0.91
40 21 0.09
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:30607187 original size:13 final size:11
Alignment explanation
Indices: 30607160--30607201 Score: 68
Period size: 11 Copynumber: 3.8 Consensus size: 11
30607150 GACAAAAATT
30607160 GAGAGAATTTG
1 GAGAGAATTTG
30607171 GAGAGAATTTG
1 GAGAGAATTTG
30607182 GAGAGAATTCT-
1 GAGAGAATT-TG
30607193 GAGAGAATT
1 GAGAGAATT
30607202 GTGAGAGGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 29 0.97
12 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.33, T:0.26
Consensus pattern (11 bp):
GAGAGAATTTG
Found at i:30607206 original size:11 final size:10
Alignment explanation
Indices: 30607158--30607208 Score: 66
Period size: 11 Copynumber: 4.7 Consensus size: 10
30607148 TTGACAAAAA
30607158 TTGAGAGAAT
1 TTGAGAGAAT
30607168 TTGGAGAGAAT
1 TT-GAGAGAAT
30607179 TTGGAGAGAAT
1 TT-GAGAGAAT
30607190 TCTGAGAGAAT
1 T-TGAGAGAAT
30607201 TGTGAGAG
1 T-TGAGAG
30607209 GACTATTGTG
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
10 2 0.05
11 35 0.92
12 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.35, T:0.27
Consensus pattern (10 bp):
TTGAGAGAAT
Found at i:30607791 original size:26 final size:26
Alignment explanation
Indices: 30607762--30607816 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
30607752 CTTAGAATAG
30607762 TTAATTTTAAAGTTTTAAGAATATAA
1 TTAATTTTAAAGTTTTAAGAATATAA
* *
30607788 TTAATTTTAAGGTTTTAATAATATAA
1 TTAATTTTAAAGTTTTAAGAATATAA
30607814 TTA
1 TTA
30607817 GTGTAGTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (26 bp):
TTAATTTTAAAGTTTTAAGAATATAA
Found at i:30610417 original size:79 final size:81
Alignment explanation
Indices: 30610280--30610463 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 81
30610270 TGAATGATAT
* *
30610280 CCGGACTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
* * *
30610344 GTGTGAGTTACTA-ATC
66 ATGCGAGTTACTATA-A
* * **
30610360 CCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
30610422 TATGCGAGTTACTATAA
65 TATGCGAGTTACTATAA
*
30610439 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
30610464 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.64
80 31 0.34
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
ATGCGAGTTACTATAA
Found at i:30610477 original size:40 final size:40
Alignment explanation
Indices: 30610280--30610470 Score: 178
Period size: 40 Copynumber: 4.8 Consensus size: 40
30610270 TGAATGATAT
* * * * *
30610280 CCGGACTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGC-GAGTTACTATAA
* * * *
30610320 CCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTA-ATC
1 CCGGGCTAAG-TCCCGAAGGCATTTGAGCGAGTTACTATA-A
*
30610360 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATAA
*
30610398 TCCGGGTTAAGTCCCGAAGGCATTT-ATGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGA-GCGAGTTACTATAA
* *
30610439 CCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
30610471 AGCTATATCC
Statistics
Matches: 130, Mismatches: 12, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
39 35 0.27
40 85 0.65
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATAA
Found at i:30610485 original size:79 final size:77
Alignment explanation
Indices: 30610313--30610496 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 77
30610303 GTGCTAAGTG
* * * *
30610313 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGTGAGTTACTAATCCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTATGCGAGTTACTAATACCGGGCTAAGCCCGAAGG
**
30610378 CATTTGTGCGAGTT
64 CATTTGAACGAGTT
* *
30610392 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACT-ATAACCGGGCTATGTCCCGAA
1 ACTATATCC-GGTTAAGT-CCGAAGGCATTTATGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAA
30610456 GGCATTTGAACGAG-T
62 GGCATTTGAACGAGTT
*
30610471 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
30610497 TACGTGATTT
Statistics
Matches: 89, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
78 3 0.03
79 56 0.63
80 30 0.34
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTATGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCA
TTTGAACGAGTT
Found at i:30615079 original size:46 final size:46
Alignment explanation
Indices: 30614989--30615080 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
30614979 GGAACCTTCA
*
30614989 TAAAGAATTTATCACTAATTTGAAACTCGATGTCATTTATTTTTAG
1 TAAAGAATTTATCACTAATTTGAAACTCGATGTCATTTACTTTTAG
*
30615035 TAAAGAATTTATCACTAATTTGAAACTCGATGTCATTTCCTTTTAG
1 TAAAGAATTTATCACTAATTTGAAACTCGATGTCATTTACTTTTAG
30615081 GTCAGCATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (46 bp):
TAAAGAATTTATCACTAATTTGAAACTCGATGTCATTTACTTTTAG
Found at i:30624770 original size:14 final size:14
Alignment explanation
Indices: 30624751--30624781 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
30624741 TATTTTATCT
*
30624751 CATAGTAACCATTA
1 CATAGTAAACATTA
30624765 CATAGTAAACATTA
1 CATAGTAAACATTA
30624779 CAT
1 CAT
30624782 CTTCCTTCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.29
Consensus pattern (14 bp):
CATAGTAAACATTA
Found at i:30626629 original size:20 final size:21
Alignment explanation
Indices: 30626604--30626643 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
30626594 CCCTTGAAAC
* *
30626604 AGGGC-ACATGCCCGTGTGGA
1 AGGGCAACACGCCCATGTGGA
30626624 AGGGCAACACGCCCATGTGG
1 AGGGCAACACGCCCATGTGG
30626644 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCATGTGGA
Found at i:30630285 original size:30 final size:30
Alignment explanation
Indices: 30630249--30630349 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
30630239 GACAAGATTG
* * *
30630249 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
30630279 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
30630307 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
30630336 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
30630350 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:30630361 original size:29 final size:28
Alignment explanation
Indices: 30630278--30630353 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
30630268 AAAATTGTAC
* *
30630278 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
30630306 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
30630335 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
30630354 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:30635094 original size:21 final size:21
Alignment explanation
Indices: 30635070--30635121 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
30635060 GAAACAAGGC
30635070 ACACGCCCGTGTGGAAGGGCA
1 ACACGCCCGTGTGGAAGGGCA
30635091 ACACGCCCGTGTGGAAGGGCA
1 ACACGCCCGTGTGGAAGGGCA
*
30635112 ACACGTCCGT
1 ACACGCCCGT
30635122 CCGGTCATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.31, G:0.35, T:0.12
Consensus pattern (21 bp):
ACACGCCCGTGTGGAAGGGCA
Found at i:30636568 original size:92 final size:92
Alignment explanation
Indices: 30636456--30636626 Score: 315
Period size: 92 Copynumber: 1.9 Consensus size: 92
30636446 CGCCCATAAG
* *
30636456 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30636521 ACGAGTTCGGATGCCTAGTTACATTCA
66 ACGAGTTCGGATGCCTAGTTACATTCA
*
30636548 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
30636613 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
30636627 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 76 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTCA
Done.