Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 65 of 345
Found at i:17944072 original size:3 final size:3
Alignment explanation
Indices: 17944058--17944122 Score: 121
Period size: 3 Copynumber: 21.3 Consensus size: 3
17944048 GAACAAATAC
17944058 AAT AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17944104 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
17944123 TAGTAACATA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 58 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:17944425 original size:7 final size:7
Alignment explanation
Indices: 17944410--17944564 Score: 53
Period size: 7 Copynumber: 22.4 Consensus size: 7
17944400 TGAATTTTAA
*
17944410 AATAGAT
1 AATATAT
17944417 AATATAT
1 AATATAT
17944424 AATAGTAT
1 AATA-TAT
* *
17944432 ATAAAAAT
1 A-ATATAT
17944440 AATA-AT
1 AATATAT
*
17944446 AAATGAAAT
1 -AAT-ATAT
*
17944455 AATTTAT
1 AATATAT
17944462 AATATAT
1 AATATAT
17944469 -A-ATAT
1 AATATAT
17944474 AATATA-
1 AATATAT
* *
17944480 AAAATGT
1 AATATAT
* *
17944487 AAGTTTTT
1 AA-TATAT
17944495 AA-A-AT
1 AATATAT
*
17944500 AATGTAT
1 AATATAT
17944507 AATATA-
1 AATATAT
*
17944513 AATAAAT
1 AATATAT
17944520 AAATATAT
1 -AATATAT
17944528 AAGATATAT
1 -A-ATATAT
17944537 AAGT-TA-
1 AA-TATAT
17944543 AA-ATAT
1 AATATAT
17944549 AATATAT
1 AATATAT
17944556 AATA-AT
1 AATATAT
17944562 AAT
1 AAT
17944565 CTACAAATTT
Statistics
Matches: 112, Mismatches: 18, Indels: 37
0.67 0.11 0.22
Matches are distributed among these distances:
5 9 0.08
6 22 0.20
7 46 0.41
8 25 0.22
9 10 0.09
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (7 bp):
AATATAT
Found at i:17944528 original size:21 final size:21
Alignment explanation
Indices: 17944496--17944560 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
17944486 TAAGTTTTTA
*
17944496 AAAT-AATGTATAATATAAAT
1 AAATAAATATATAATATAAAT
* *
17944516 AAATAAATATATAAGATATAT
1 AAATAAATATATAATATAAAT
*
17944537 AAGTTAAA-ATATAATATATAAT
1 AA-ATAAATATATAATATA-AAT
17944559 AA
1 AA
17944561 TAATCTACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 4 0.11
21 24 0.67
22 8 0.22
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (21 bp):
AAATAAATATATAATATAAAT
Found at i:17944529 original size:28 final size:29
Alignment explanation
Indices: 17944498--17944558 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
17944488 AGTTTTTAAA
17944498 ATAATGTATAATATAA-AT-AAATA-AATAT
1 ATAATG-AT-ATATAAGATAAAATATAATAT
*
17944526 ATAA-GATATATAAGTTAAAATATAATAT
1 ATAATGATATATAAGATAAAATATAATAT
17944554 ATAAT
1 ATAAT
17944559 AATAATCTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 6 0.21
26 3 0.11
27 6 0.21
28 13 0.46
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (29 bp):
ATAATGATATATAAGATAAAATATAATAT
Found at i:17945610 original size:137 final size:137
Alignment explanation
Indices: 17945365--17945651 Score: 486
Period size: 137 Copynumber: 2.1 Consensus size: 137
17945355 TATTGGGCCT
** * *
17945365 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
17945430 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATTAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
17945494 CATATGC
131 CATATGC
*
17945501 AAGCCCATTTGGGTAACAGTGATATCTGGGCTAAAGCCCTTTTCAGATTACAATAAACTGGGCCT
1 AAGCCCATTTGGGTAACAGTGATA-CTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCT
* *
17945566 TAGCCCCTTATTTAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAA
65 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAA
17945631 ACATATGC
130 ACATATGC
17945639 AAGCCCATTTGGG
1 AAGCCCATTTGGG
17945652 GAGACTACTC
Statistics
Matches: 141, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
136 21 0.15
137 98 0.70
138 22 0.16
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:17947486 original size:26 final size:26
Alignment explanation
Indices: 17947450--17947559 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
17947440 CATGAATTTC
*
17947450 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
17947476 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
17947502 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
17947528 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
17947554 TTATCA
1 TTATCA
17947560 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:17953448 original size:26 final size:26
Alignment explanation
Indices: 17953412--17953521 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
17953402 CATGAAATTC
*
17953412 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
17953438 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
17953464 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
17953490 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
17953516 TTATCA
1 TTATCA
17953522 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:17955142 original size:30 final size:30
Alignment explanation
Indices: 17955106--17955184 Score: 122
Period size: 30 Copynumber: 2.6 Consensus size: 30
17955096 GGTGTGTGTA
*
17955106 TAACGGGTCTGAGCTATTTTCGGTTTGCTG
1 TAACGGGTCTGAGATATTTTCGGTTTGCTG
* *
17955136 TAACGGGTCTGAGATATTTTGGGTTTGTTG
1 TAACGGGTCTGAGATATTTTCGGTTTGCTG
*
17955166 TAACGGGTCTGAGGTATTT
1 TAACGGGTCTGAGATATTT
17955185 GGGCTTGTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.16, C:0.11, G:0.32, T:0.41
Consensus pattern (30 bp):
TAACGGGTCTGAGATATTTTCGGTTTGCTG
Found at i:17955546 original size:10 final size:10
Alignment explanation
Indices: 17955531--17955559 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
17955521 AAAGATAATA
17955531 ATATATTTAT
1 ATATATTTAT
17955541 ATATATTTAT
1 ATATATTTAT
17955551 ATATATTTA
1 ATATATTTA
17955560 ATAGTGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATATATTTAT
Found at i:17955589 original size:7 final size:7
Alignment explanation
Indices: 17955574--17955723 Score: 57
Period size: 7 Copynumber: 21.4 Consensus size: 7
17955564 TGAATTTTAA
*
17955574 AATAGAT
1 AATATAT
17955581 AATATAT
1 AATATAT
17955588 AATAGTAT
1 AATA-TAT
* *
17955596 ATAAAAAT
1 A-ATATAT
17955604 AATA-AT
1 AATATAT
*
17955610 AAATGAAAT
1 -AAT-ATAT
*
17955619 AATTTAT
1 AATATAT
17955626 AATATAT
1 AATATAT
17955633 AATATA-
1 AATATAT
* *
17955639 AAAATGT
1 AATATAT
* *
17955646 AAGTTTTT
1 AA-TATAT
17955654 AA-A-AT
1 AATATAT
*
17955659 AATGTAT
1 AATATAT
17955666 AATATA-
1 AATATAT
*
17955672 AATAAAT
1 AATATAT
17955679 AAATATAT
1 -AATATAT
17955687 AAGATATAT
1 -A-ATATAT
17955696 AAGT-TA-
1 AA-TATAT
17955702 AA-ATAT
1 AATATAT
17955708 AATATAT
1 AATATAT
17955715 AATA-AT
1 AATATAT
17955721 AAT
1 AAT
17955724 CTACAAATTT
Statistics
Matches: 109, Mismatches: 18, Indels: 33
0.68 0.11 0.21
Matches are distributed among these distances:
5 5 0.05
6 20 0.18
7 49 0.45
8 25 0.23
9 10 0.09
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (7 bp):
AATATAT
Found at i:17955688 original size:28 final size:29
Alignment explanation
Indices: 17955657--17955717 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
17955647 AGTTTTTAAA
17955657 ATAATGTATAATATAA-AT-AAATA-AATAT
1 ATAATG-AT-ATATAAGATAAAATATAATAT
*
17955685 ATAA-GATATATAAGTTAAAATATAATAT
1 ATAATGATATATAAGATAAAATATAATAT
17955713 ATAAT
1 ATAAT
17955718 AATAATCTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 6 0.21
26 3 0.11
27 6 0.21
28 13 0.46
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (29 bp):
ATAATGATATATAAGATAAAATATAATAT
Found at i:17957091 original size:30 final size:30
Alignment explanation
Indices: 17957057--17957135 Score: 115
Period size: 30 Copynumber: 2.6 Consensus size: 30
17957047 GGTGTGTGTA
17957057 TAACGGGTCTGGGCTATTTTGGGTTTGCTG
1 TAACGGGTCTGGGCTATTTTGGGTTTGCTG
* * *
17957087 TAACGAGTCTGAGCTATTTTGGGTTTGTTG
1 TAACGGGTCTGGGCTATTTTGGGTTTGCTG
17957117 TAACGGGTCTGAGG-TATTT
1 TAACGGGTCTG-GGCTATTT
17957136 GGGCTTGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 42 0.98
31 1 0.02
ACGTcount: A:0.15, C:0.11, G:0.33, T:0.41
Consensus pattern (30 bp):
TAACGGGTCTGGGCTATTTTGGGTTTGCTG
Found at i:17957791 original size:205 final size:206
Alignment explanation
Indices: 17957451--17958121 Score: 999
Period size: 205 Copynumber: 3.3 Consensus size: 206
17957441 ATAAGAGTAT
* *
17957451 CAAATCATCTTGGATCTTGCTTCAGTA-AAATTATCTGAAGGTGAGGTCTGCTATGTATCTGCTC
1 CAAATCATCTTGGATCTTGCTTCAGTATAAA-CATCTGAAGGTGAGATCTGCTATGTATCTGCTC
* * * * * *
17957515 CCCATTGAAGTGGAGATGCTAGACTTCGATTTTCTCTCTGACAATACAGAGATGCCAAATCATCC
65 TCCGTTGAAGTGGAGATGCCAGACTTTGATTTGCTCTCTGACAATACAGAGATGCCAAATCATCT
*
17957580 TAGATTTGCTTCATCGTAAACACATGAAAGCCAAATCAGCTATGTCTTCGATTCGTTCCTTGTAA
130 TAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTCGTTCCTTGTAA
17957645 GCACAAGGATGC
195 GCACAAGGATGC
* *
17957657 TAAATCATCTTGGATC-TGCTTCAGTATAAACATCTGAAGGTGAGATCTACTATGTATCTGCTCT
1 CAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCT
* *
17957721 CTGTTGAGGTGGAGATGCCAGACTTTGATTTGCTCTCTGACAATACAGAGATGCCAAATCATCTT
66 CCGTTGAAGTGGAGATGCCAGACTTTGATTTGCTCTCTGACAATACAGAGATGCCAAATCATCTT
* *
17957786 AGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCCTGTAAG
131 AGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTCGTTCCTTGTAAG
17957851 CACAAGGATGC
196 CACAAGGATGC
* * * ** * *
17957862 CAAATCATCTTGGATCTTTCTTCAGTCTAATCATCTGAAGGCCAGATCTGCTATGTGTCTGCCCT
1 CAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCT
* * * *
17957927 CCGTCGAAGTGGAGATGCCAGA-TTTCGATTTGTTTTCTGCCAATACAGAGATGCCAAATCATCT
66 CCGTTGAAGTGGAGATGCCAGACTTT-GATTTGCTCTCTGACAATACAGAGATGCCAAATCATCT
* * * *
17957991 TAGATTTGCTTAATCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGCAA
130 TAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTCGTTCCTTGTAA
*
17958056 GCACAAGGATAC
195 GCACAAGGATGC
* *
17958068 CAAACCATCTTGGATC-TGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATG
1 CAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATG
17958122 CTACGGCATA
Statistics
Matches: 418, Mismatches: 44, Indels: 7
0.89 0.09 0.01
Matches are distributed among these distances:
205 221 0.53
206 197 0.47
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (206 bp):
CAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCT
CCGTTGAAGTGGAGATGCCAGACTTTGATTTGCTCTCTGACAATACAGAGATGCCAAATCATCTT
AGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTCGTTCCTTGTAAG
CACAAGGATGC
Found at i:17968118 original size:7 final size:7
Alignment explanation
Indices: 17968103--17968257 Score: 53
Period size: 7 Copynumber: 22.4 Consensus size: 7
17968093 TGAATTTTAA
*
17968103 AATAGAT
1 AATATAT
17968110 AATATAT
1 AATATAT
17968117 AATAGTAT
1 AATA-TAT
* *
17968125 ATAAAAAT
1 A-ATATAT
17968133 AATA-AT
1 AATATAT
*
17968139 AAATGAAAT
1 -AAT-ATAT
*
17968148 AATTTAT
1 AATATAT
17968155 AATATAT
1 AATATAT
17968162 -A-ATAT
1 AATATAT
17968167 AATATA-
1 AATATAT
* *
17968173 AAAATGT
1 AATATAT
* *
17968180 AAGTTTTT
1 AA-TATAT
17968188 AA-A-AT
1 AATATAT
*
17968193 AATGTAT
1 AATATAT
17968200 AATATA-
1 AATATAT
*
17968206 AATAAAT
1 AATATAT
17968213 AAATATAT
1 -AATATAT
17968221 AAGATATAT
1 -A-ATATAT
17968230 AAGT-TA-
1 AA-TATAT
17968236 AA-ATAT
1 AATATAT
17968242 AATATAT
1 AATATAT
17968249 AATA-AT
1 AATATAT
17968255 AAT
1 AAT
17968258 CTACAAATTT
Statistics
Matches: 112, Mismatches: 18, Indels: 37
0.67 0.11 0.22
Matches are distributed among these distances:
5 9 0.08
6 22 0.20
7 46 0.41
8 25 0.22
9 10 0.09
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (7 bp):
AATATAT
Found at i:17968221 original size:21 final size:21
Alignment explanation
Indices: 17968189--17968253 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
17968179 TAAGTTTTTA
*
17968189 AAAT-AATGTATAATATAAAT
1 AAATAAATATATAATATAAAT
* *
17968209 AAATAAATATATAAGATATAT
1 AAATAAATATATAATATAAAT
*
17968230 AAGTTAAA-ATATAATATATAAT
1 AA-ATAAATATATAATATA-AAT
17968252 AA
1 AA
17968254 TAATCTACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 4 0.11
21 24 0.67
22 8 0.22
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (21 bp):
AAATAAATATATAATATAAAT
Found at i:17968222 original size:28 final size:29
Alignment explanation
Indices: 17968191--17968251 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
17968181 AGTTTTTAAA
17968191 ATAATGTATAATATAA-AT-AAATA-AATAT
1 ATAATG-AT-ATATAAGATAAAATATAATAT
*
17968219 ATAA-GATATATAAGTTAAAATATAATAT
1 ATAATGATATATAAGATAAAATATAATAT
17968247 ATAAT
1 ATAAT
17968252 AATAATCTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 6 0.21
26 3 0.11
27 6 0.21
28 13 0.46
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (29 bp):
ATAATGATATATAAGATAAAATATAATAT
Found at i:17969610 original size:31 final size:30
Alignment explanation
Indices: 17969575--17969677 Score: 131
Period size: 30 Copynumber: 3.4 Consensus size: 30
17969565 AACCGATCTG
*
17969575 TTTGGGTGTGTGTATAACGGGTCTGAGCTAT
1 TTTGGGT-TGTGTGTAACGGGTCTGAGCTAT
17969606 TTTGGGTT-TGCTGTAACGGGTCTGAGCTAT
1 TTTGGGTTGTG-TGTAACGGGTCTGAGCTAT
*
17969636 TTTGGGTT-TGTTGTAACGGGTCTGAGGTA-
1 TTTGGGTTGTG-TGTAACGGGTCTGAGCTAT
17969665 TTTGGGCTTGTGT
1 TTTGGG-TTGTGT
17969678 TTGGGCTCTT
Statistics
Matches: 66, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
29 8 0.12
30 49 0.74
31 9 0.14
ACGTcount: A:0.13, C:0.10, G:0.36, T:0.42
Consensus pattern (30 bp):
TTTGGGTTGTGTGTAACGGGTCTGAGCTAT
Found at i:17969625 original size:30 final size:30
Alignment explanation
Indices: 17969589--17969667 Score: 140
Period size: 30 Copynumber: 2.6 Consensus size: 30
17969579 GGTGTGTGTA
17969589 TAACGGGTCTGAGCTATTTTGGGTTTGCTG
1 TAACGGGTCTGAGCTATTTTGGGTTTGCTG
*
17969619 TAACGGGTCTGAGCTATTTTGGGTTTGTTG
1 TAACGGGTCTGAGCTATTTTGGGTTTGCTG
*
17969649 TAACGGGTCTGAGGTATTT
1 TAACGGGTCTGAGCTATTT
17969668 GGGCTTGTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.15, C:0.11, G:0.33, T:0.41
Consensus pattern (30 bp):
TAACGGGTCTGAGCTATTTTGGGTTTGCTG
Found at i:17977843 original size:17 final size:18
Alignment explanation
Indices: 17977821--17977869 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
17977811 ATGGTTGGTC
*
17977821 AAAAAATTTAAAA-TGTA
1 AAAAAATTAAAAATTGTA
17977838 AAAAAATTAAAAATTGTA
1 AAAAAATTAAAAATTGTA
*
17977856 AAAATTATTAAAAA
1 AAAA-AATTAAAAA
17977870 AATAAACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 12 0.43
18 8 0.29
19 8 0.29
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAAAAATTAAAAATTGTA
Found at i:17979374 original size:2 final size:2
Alignment explanation
Indices: 17979367--17979392 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17979357 AAGTATGTAC
17979367 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
17979393 GAGAATGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17981417 original size:17 final size:18
Alignment explanation
Indices: 17981372--17981418 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
17981362 ATATTTTTTT
*
17981372 AAAAATAATTTTGAGTTA
1 AAAAATATTTTTGAGTTA
17981390 AAAAATATTTTTGAG-TA
1 AAAAATATTTTTGAGTTA
17981407 ATAAAAT-TTTTT
1 A-AAAATATTTTT
17981419 ATTTATGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.45
Consensus pattern (18 bp):
AAAAATATTTTTGAGTTA
Found at i:17985729 original size:23 final size:24
Alignment explanation
Indices: 17985703--17985747 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
17985693 AAAATAAAAG
*
17985703 ATTATTTAAAT-TTAAAATTTAAA
1 ATTATTAAAATATTAAAATTTAAA
*
17985726 ATTATTAAAATATTAATATTTA
1 ATTATTAAAATATTAAAATTTA
17985748 TTATGAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTATTAAAATATTAAAATTTAAA
Found at i:17987205 original size:27 final size:26
Alignment explanation
Indices: 17987147--17987206 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
17987137 AGTTTTCTAT
17987147 ATATATTATTTATTTAAAGATGCTTC
1 ATATATTATTTATTTAAAGATGCTTC
* * **
17987173 ACATATTATTTATTTTAAATATTTTTC
1 ATATATTATTTA-TTTAAAGATGCTTC
17987200 ATATATT
1 ATATATT
17987207 TTAAACTCTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (26 bp):
ATATATTATTTATTTAAAGATGCTTC
Found at i:17993719 original size:46 final size:46
Alignment explanation
Indices: 17993636--17993829 Score: 166
Period size: 46 Copynumber: 4.2 Consensus size: 46
17993626 CAGATCAATT
** *
17993636 GATTGAAGAAGCCACAAATC-CTATA-CTCCTGAGTTGCAGTGGGATG
1 GATTGAAGAAGATACAAATCAC-ATACCTTC-GAGTTGCAGTGGGATG
* * * **
17993682 GATTAAAGAAGATACAAATCACATACCTTCGAATTGCAATAAGATG
1 GATTGAAGAAGATACAAATCACATACCTTCGAGTTGCAGTGGGATG
* *
17993728 GATTGAAGAAGATACAAAT-ATTATACC-TCTGAGCTGCAGTGGGATG
1 GATTGAAGAAGATACAAATCA-CATACCTTC-GAGTTGCAGTGGGATG
* * *
17993774 GATTGAAGATGGTACAAATC-CTATACCCTT-GAGTTGCAGTGGAATG
1 GATTGAAGAAGATACAAATCAC-ATA-CCTTCGAGTTGCAGTGGGATG
*
17993820 GATGGAAGAA
1 GATTGAAGAA
17993830 ACCAAATTTT
Statistics
Matches: 118, Mismatches: 22, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
45 3 0.03
46 108 0.92
47 6 0.05
48 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (46 bp):
GATTGAAGAAGATACAAATCACATACCTTCGAGTTGCAGTGGGATG
Found at i:17994354 original size:93 final size:93
Alignment explanation
Indices: 17994181--17994355 Score: 239
Period size: 93 Copynumber: 1.9 Consensus size: 93
17994171 ATGAATCCAT
* *
17994181 AAATCTCATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAATCTTATTTCCCTGAAGTT
1 AAATCTCATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAATCTAATTTCCCTAAAGTT
* *
17994246 GCAGTAGGTCGGATTAAGTCATCATGGA
66 GCAGTAGATCAGATTAAGTCATCATGGA
* **
17994274 AAATCTTATCTCCCTGAAGTTGCT-GTGGAGCAGATTGAAGTTA-CAAGTCTAATTTCCCTAAAG
1 AAATCTCATCTCCCTGAAGTTG-TAGTGGAGCAGATTGAAGCCACCAA-TCTAATTTCCCTAAAG
17994337 TTGCAGTAGAAT-AGATTAA
64 TTGCAGTAG-ATCAGATTAA
17994356 AAGCTACAAG
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
92 3 0.04
93 67 0.93
94 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (93 bp):
AAATCTCATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAATCTAATTTCCCTAAAGTT
GCAGTAGATCAGATTAAGTCATCATGGA
Found at i:18001726 original size:21 final size:21
Alignment explanation
Indices: 18001700--18001742 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
18001690 AACACTAAGA
*
18001700 GTCCATTTTTATTTTTCGAAT
1 GTCCATCTTTATTTTTCGAAT
18001721 GTCCATCTTTATTTTTCGAAT
1 GTCCATCTTTATTTTTCGAAT
18001742 G
1 G
18001743 CCACAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (21 bp):
GTCCATCTTTATTTTTCGAAT
Found at i:18001753 original size:22 final size:21
Alignment explanation
Indices: 18001707--18001754 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
18001697 AGAGTCCATT
* **
18001707 TTTATTTTTCGAATGTCCATC
1 TTTATTTTTCGAATGCCCAAA
18001728 TTTATTTTTCGAATGCCACAAA
1 TTTATTTTTCGAATGCC-CAAA
18001750 TTTAT
1 TTTAT
18001755 GTCTTATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.50
Consensus pattern (21 bp):
TTTATTTTTCGAATGCCCAAA
Found at i:18003490 original size:19 final size:19
Alignment explanation
Indices: 18003468--18003521 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
18003458 TTAAAAATAA
*
18003468 TTTAAAAATT-TTATAAGTT
1 TTTAAAAATTATTA-AAATT
18003487 TTTAAAACATTATTAAAATT
1 TTTAAAA-ATTATTAAAATT
*
18003507 TATAAAAA-TATTAAA
1 TTTAAAAATTATTAAA
18003522 TAAATTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 7 0.23
19 8 0.26
20 13 0.42
21 3 0.10
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
TTTAAAAATTATTAAAATT
Found at i:18003543 original size:21 final size:21
Alignment explanation
Indices: 18003502--18003543 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
18003492 AACATTATTA
**
18003502 AAATTTATAAAAATATTAAAT
1 AAATTTATAAAAATAAAAAAT
18003523 AAATTTA-AAAAAGTAAAAAAT
1 AAATTTATAAAAA-TAAAAAAT
18003544 TAATAAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
AAATTTATAAAAATAAAAAAT
Found at i:18004372 original size:4 final size:4
Alignment explanation
Indices: 18004363--18004407 Score: 65
Period size: 4 Copynumber: 11.2 Consensus size: 4
18004353 CATGCAAATT
*
18004363 AAGA AAGA AAGA AAGA AAGA AAGA AAAA AAGA AA-A AAGA AGAGA A
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA A-AGA A
18004408 GGATGAACGC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
3 3 0.08
4 30 0.81
5 4 0.11
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:18012217 original size:2 final size:2
Alignment explanation
Indices: 18012210--18012237 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18012200 CGAATTCATT
18012210 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
18012238 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:18012242 original size:2 final size:2
Alignment explanation
Indices: 18012237--18012266 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18012227 ACACACACAC
18012237 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18012267 TTCGTGCCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18012522 original size:39 final size:39
Alignment explanation
Indices: 18012479--18012603 Score: 178
Period size: 39 Copynumber: 3.2 Consensus size: 39
18012469 CTTTAACCCT
** * *
18012479 GATATTTTTCCAGCACGTAGCCTGCGGACCTTAAGTCCG
1 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
* * *
18012518 GATATATTTCTAGCATATAGCCTGCGGATCTCATGTCCG
1 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
18012557 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
1 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
*
18012596 AATATTTT
1 GATATTTT
18012604 CAATCTCATA
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (39 bp):
GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
Found at i:18014900 original size:43 final size:42
Alignment explanation
Indices: 18014822--18014911 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 42
18014812 CTGTCACATC
*
18014822 GGCATCATATTTGACTTCGTGTAAGACCCTATCTGGGACAG-T
1 GGCATCATATTTGACTTCATGTAAGACCCTATCTGGGAC-GTT
*
18014864 GGCATCGATATTTGA-TTACATGTAAGACCAC-GTCTGGGACGTT
1 GGCATC-ATATTTGACTT-CATGTAAGACC-CTATCTGGGACGTT
18014907 GGCAT
1 GGCAT
18014912 TGTACGAGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
42 9 0.21
43 32 0.76
44 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (42 bp):
GGCATCATATTTGACTTCATGTAAGACCCTATCTGGGACGTT
Found at i:18017558 original size:15 final size:15
Alignment explanation
Indices: 18017538--18017568 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
18017528 GTCGATAACT
18017538 TTATCTTTTCCCCGA
1 TTATCTTTTCCCCGA
18017553 TTATCTTTTCCCCGA
1 TTATCTTTTCCCCGA
18017568 T
1 T
18017569 CTAAGTCCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.32, G:0.06, T:0.48
Consensus pattern (15 bp):
TTATCTTTTCCCCGA
Found at i:18019280 original size:25 final size:25
Alignment explanation
Indices: 18019252--18019316 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
18019242 ACCTTAGCGC
* *
18019252 GCTCTCTAATTATTAATACGGTAGT
1 GCTCTCTGATTATTAACACGGTAGT
* *
18019277 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAACACGGTAGT
*
18019302 GCTCTCCGATTATTA
1 GCTCTCTGATTATTA
18019317 GCACATTAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (25 bp):
GCTCTCTGATTATTAACACGGTAGT
Found at i:18019317 original size:25 final size:23
Alignment explanation
Indices: 18019273--18019375 Score: 102
Period size: 22 Copynumber: 4.4 Consensus size: 23
18019263 ATTAATACGG
* *
18019273 TAGTGCTCTCTGATTATTAGCACGT
1 TAGTGCTCTCCG--TATTAGCACAT
18019298 TAGTGCTCTCCGATTATTAGCACAT
1 TAGTGCTCTCCG--TATTAGCACAT
* *
18019323 TAGTTCTCTTCGT-TTAGCACAT
1 TAGTGCTCTCCGTATTAGCACAT
* *
18019345 TTGTGCTCTCTGTA-TAGCACAT
1 TAGTGCTCTCCGTATTAGCACAT
18019367 TAGTGCTCT
1 TAGTGCTCT
18019376 ATGTTTAATT
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
22 34 0.50
23 1 0.01
25 33 0.49
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (23 bp):
TAGTGCTCTCCGTATTAGCACAT
Found at i:18019352 original size:47 final size:44
Alignment explanation
Indices: 18019289--18019375 Score: 111
Period size: 47 Copynumber: 1.9 Consensus size: 44
18019279 TCTCTGATTA
* *
18019289 TTAGCACGTTAGTGCTCTCCGATTATTAGCACATTAGTTCTCTTCGT
1 TTAGCACATTAGTGCTCTCCG--TA-TAGCACATTAGTGCTCTTCGT
* *
18019336 TTAGCACATTTGTGCTCTCTGTATAGCACATTAGTGCTCT
1 TTAGCACATTAGTGCTCTCCGTATAGCACATTAGTGCTCT
18019376 ATGTTTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 16 0.44
45 2 0.06
47 18 0.50
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (44 bp):
TTAGCACATTAGTGCTCTCCGTATAGCACATTAGTGCTCTTCGT
Found at i:18022209 original size:3 final size:3
Alignment explanation
Indices: 18022173--18022235 Score: 74
Period size: 3 Copynumber: 21.3 Consensus size: 3
18022163 TTTTTTGTTG
* * * * *
18022173 AGA AG- AGA AAA AGA ATA AGA AAA AGA ATA AGA AGA AGA AGA AAA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
18022220 AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA A
18022236 AGGGAGAAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:18022213 original size:21 final size:21
Alignment explanation
Indices: 18022178--18022236 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
18022168 TGTTGAGAAG
* *
18022178 AGAAAAAGAATAAGAAAAAGA
1 AGAAGAAGAAGAAGAAAAAGA
*
18022199 ATAAGAAGAAGAAGAAAAAGA
1 AGAAGAAGAAGAAGAAAAAGA
18022220 AGAAGAAGAAGAAGAAA
1 AGAAGAAGAAGAAGAAA
18022237 GGGAGAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (21 bp):
AGAAGAAGAAGAAGAAAAAGA
Found at i:18023483 original size:18 final size:18
Alignment explanation
Indices: 18023460--18023502 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
18023450 GAAAATGATG
18023460 GGAAATATGGTAGAAAAT
1 GGAAATATGGTAGAAAAT
18023478 GGAAATATGGTAGAAAAT
1 GGAAATATGGTAGAAAAT
18023496 GGAAATA
1 GGAAATA
18023503 AGGGTGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.28, T:0.21
Consensus pattern (18 bp):
GGAAATATGGTAGAAAAT
Found at i:18025193 original size:21 final size:21
Alignment explanation
Indices: 18025169--18025240 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
18025159 TTTTCTGAAA
18025169 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
** * *
18025190 TGAAA-GATACCATAGCAACATGAT
1 TGAAATG-T-GTA-AG-ACCATGGT
18025214 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
18025236 TGAAA
1 TGAAA
18025241 GATACCATGG
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 1 0.03
21 11 0.30
22 7 0.19
23 4 0.11
24 7 0.19
25 6 0.16
26 1 0.03
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.25
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:18025220 original size:46 final size:46
Alignment explanation
Indices: 18025168--18025426 Score: 349
Period size: 46 Copynumber: 5.6 Consensus size: 46
18025158 GTTTTCTGAA
* * *
18025168 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
18025214 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
18025260 ATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACATAAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
18025306 GGGAAATGAATAATACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
18025352 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
18025398 A-GAAAATGAGTAAGACCATAGCTGAAAGA
1 ATG-AAATGAGTAAGACCATGGTTGAAAGA
18025427 CAATATGGCA
Statistics
Matches: 196, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 195 0.99
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:18025424 original size:138 final size:138
Alignment explanation
Indices: 18025182--18025436 Score: 386
Period size: 138 Copynumber: 1.8 Consensus size: 138
18025172 AATGTGTAAG
* * **
18025182 ACCATGGTTGAAAGATACCATAGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATAGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGATACC
* * * * * *
18025247 ATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACATAACGGGAAA
66 ATGGCAACATGACATGAAATGAGTAAGACCATAGCTGAAAGACAATATGGCAACATAACGGGAAA
18025312 TGAATAAT
131 TGAATAAT
* *
18025320 ACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATAGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGATACC
18025385 ATGGCAACATGACA-GAAAATGAGTAAGACCATAGCTGAAAGACAATATGGCA
66 ATGGCAACATGACATG-AAATGAGTAAGACCATAGCTGAAAGACAATATGGCA
18025437 TCATGTCGAA
Statistics
Matches: 104, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
137 1 0.01
138 103 0.99
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (138 bp):
ACCATGGTTGAAAGATACCATAGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGATACC
ATGGCAACATGACATGAAATGAGTAAGACCATAGCTGAAAGACAATATGGCAACATAACGGGAAA
TGAATAAT
Found at i:18029555 original size:13 final size:11
Alignment explanation
Indices: 18029521--18029548 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
18029511 TATATATATT
18029521 TAAAAATAATA
1 TAAAAATAATA
18029532 TAAAAATAATA
1 TAAAAATAATA
18029543 TAAAAA
1 TAAAAA
18029549 ATTAATACAT
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:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:18030009 original size:9 final size:10
Alignment explanation
Indices: 18029987--18030012 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
18029977 TTTTAAATGG
18029987 TTTTTATTAT
1 TTTTTATTAT
18029997 TTTTTATTAT
1 TTTTTATTAT
18030007 TTTTTA
1 TTTTTA
18030013 AAATTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTATTAT
Found at i:18030059 original size:20 final size:18
Alignment explanation
Indices: 18030020--18030059 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
18030010 TTAAAATTTA
*
18030020 TTTAATAATTTTATAAAT
1 TTTAATAATTTTACAAAT
18030038 TTTAATAATATTCTACAAAT
1 TTTAATAAT-TT-TACAAAT
18030058 TT
1 TT
18030060 ATAAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 2 0.11
20 8 0.42
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAATAATTTTACAAAT
Found at i:18032898 original size:45 final size:47
Alignment explanation
Indices: 18032788--18032914 Score: 138
Period size: 45 Copynumber: 2.7 Consensus size: 47
18032778 CAGCTTGTAT
* * *
18032788 GAGCTTATCGATATATCAGCTCGTAAGAGCTTACTGTTTTCAGCTCATTG
1 GAGCTTATCGAT-T-TCAGCTCATATGAGCTTACTG-TTTCAGCTCATTA
*
18032838 GAGCTTACCGA-TTCAGCTCATATGAGCTTACTG-TTCAGCTCGA-TA
1 GAGCTTATCGATTTCAGCTCATATGAGCTTACTGTTTCAGCTC-ATTA
18032883 GAGCTTATC-ATTTCAGCTCA-ATAGAGCTTACT
1 GAGCTTATCGATTTCAGCTCATAT-GAGCTTACT
18032915 ATTTATCAGC
Statistics
Matches: 69, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
44 3 0.04
45 35 0.51
46 1 0.01
47 19 0.28
48 1 0.01
50 10 0.14
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (47 bp):
GAGCTTATCGATTTCAGCTCATATGAGCTTACTGTTTCAGCTCATTA
Found at i:18032918 original size:23 final size:23
Alignment explanation
Indices: 18032813--18032927 Score: 94
Period size: 23 Copynumber: 4.9 Consensus size: 23
18032803 TCAGCTCGTA
* *
18032813 AGAGCTTACTGTTTTCAGCTCATT
1 AGAGCTTACT-ATTTCAGCTCAAT
* *
18032837 GGAGCTTACCGA-TTCAGCTC-AT
1 AGAGCTTA-CTATTTCAGCTCAAT
* *
18032859 ATGAGCTTACT-GTTCAGCTCGAT
1 A-GAGCTTACTATTTCAGCTCAAT
18032882 AGAGCTTA-TCATTTCAGCTCAAT
1 AGAGCTTACT-ATTTCAGCTCAAT
18032905 AGAGCTTACTATTTATCAGCTCA
1 AGAGCTTACTA-TT-TCAGCTCA
18032928 GGAGGAGCTT
Statistics
Matches: 74, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
21 1 0.01
22 17 0.23
23 37 0.50
24 10 0.14
25 9 0.12
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (23 bp):
AGAGCTTACTATTTCAGCTCAAT
Found at i:18042230 original size:21 final size:22
Alignment explanation
Indices: 18042200--18042252 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
18042190 CAGATACTCA
18042200 AAATTTTTTTCAAAAAATATTG
1 AAATTTTTTTCAAAAAATATTG
18042222 AAATTTTTTTCAAAAAATATTG
1 AAATTTTTTTCAAAAAATATTG
18042244 AAATTTTTT
1 AAATTTTTT
18042253 AAAGTTGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (22 bp):
AAATTTTTTTCAAAAAATATTG
Found at i:18043551 original size:25 final size:25
Alignment explanation
Indices: 18043459--18043568 Score: 91
Period size: 25 Copynumber: 4.4 Consensus size: 25
18043449 ATTCATGTAT
* *
18043459 GCTCATACGAGTTGTA-AACGGAAA
1 GCTCATACGAGTTGAATAACGGGAA
* * *
18043483 GCTCCT-CTGAATTGAATAACGAGAA
1 GCTCATAC-GAGTTGAATAACGGGAA
* * *
18043508 GCTCATGC-ACGCTAAATAACGGGAA
1 GCTCATACGA-GTTGAATAACGGGAA
* *
18043533 GCTCATGCGAGTTGTATAACGGGAA
1 GCTCATACGAGTTGAATAACGGGAA
18043558 GCTCATACGAG
1 GCTCATACGAG
18043569 ACGTGGTGTG
Statistics
Matches: 67, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
23 1 0.01
24 12 0.18
25 52 0.78
26 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (25 bp):
GCTCATACGAGTTGAATAACGGGAA
Found at i:18047617 original size:3 final size:3
Alignment explanation
Indices: 18047611--18047639 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18047601 AAAAATAAAA
18047611 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
18047640 CAGAAGGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:18054075 original size:26 final size:25
Alignment explanation
Indices: 18054017--18054123 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 25
18054007 TGATACAAAT
18054017 TGATAATAGGTTAGGTAAATGTT-CA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
18054042 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
18054068 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
18054094 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
18054120 TGAT
1 TGAT
18054124 GAATTTCATG
Statistics
Matches: 76, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
24 2 0.03
25 21 0.28
26 51 0.67
27 2 0.03
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:18054080 original size:51 final size:52
Alignment explanation
Indices: 18054017--18054123 Score: 180
Period size: 52 Copynumber: 2.1 Consensus size: 52
18054007 TGATACAAAT
18054017 TGATAATAGGTTAGGTAAATGTT-CATGATAATGGATTAGGTAAATATTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * *
18054068 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
18054120 TGAT
1 TGAT
18054124 GAATTTCATG
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 22 0.42
52 30 0.58
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:18057194 original size:25 final size:26
Alignment explanation
Indices: 18057165--18057221 Score: 100
Period size: 25 Copynumber: 2.3 Consensus size: 26
18057155 AGTATTAGGC
18057165 GTGTTATG-AACAACTTTTGTGAAAG
1 GTGTTATGCAACAACTTTTGTGAAAG
18057190 GTGTTA-GCAACAACTTTTGTGAAAG
1 GTGTTATGCAACAACTTTTGTGAAAG
18057215 GTGTTAT
1 GTGTTAT
18057222 CATGAAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 1 0.03
25 29 0.97
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.37
Consensus pattern (26 bp):
GTGTTATGCAACAACTTTTGTGAAAG
Found at i:18057870 original size:46 final size:46
Alignment explanation
Indices: 18057771--18057889 Score: 134
Period size: 46 Copynumber: 2.5 Consensus size: 46
18057761 TATGAGCTAG
* * * *
18057771 TGTAAGACCATATCTGGGACATGGCATCGGCATTGAAACGAGTGCTAG
1 TGTAAGA-CATATCTGGGACAT-GCATCGGCATCGAAACGAGAGCCAC
*
18057819 TGTAAGACATATCTGGGACATGCATCGGTC-TCGAGACGTA-AGCCAC
1 TGTAAGACATATCTGGGACATGCATCGG-CATCGAAACG-AGAGCCAC
*
18057865 TGTAAGACATGTCTGGGACATGCAT
1 TGTAAGACATATCTGGGACATGCAT
18057890 TGGCTACGAG
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
46 40 0.63
47 16 0.25
48 7 0.11
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
TGTAAGACATATCTGGGACATGCATCGGCATCGAAACGAGAGCCAC
Found at i:18057900 original size:46 final size:43
Alignment explanation
Indices: 18057819--18057939 Score: 125
Period size: 46 Copynumber: 2.7 Consensus size: 43
18057809 CGAGTGCTAG
* *
18057819 TGTAAGACATATCTGGGACATGCATCGGTCTCGAGACGTAAGCCAC
1 TGTAAGACATGTCTGGGACATGCATTGG-CTCGAGACGT--GCCAC
* ** *
18057865 TGTAAGACATGTCTGGGACATGCATTGGCTACGAGATGTGTTAG
1 TGTAAGACATGTCTGGGACATGCATTGGCT-CGAGACGTGCCAC
*
18057909 TGTAAGACCATGTCTGGGATATGTCATTGGC
1 TGTAAGA-CATGTCTGGGACATG-CATTGGC
18057940 ACAGATATGC
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
44 9 0.14
45 16 0.25
46 40 0.62
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (43 bp):
TGTAAGACATGTCTGGGACATGCATTGGCTCGAGACGTGCCAC
Found at i:18067467 original size:10 final size:11
Alignment explanation
Indices: 18067451--18067482 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
18067441 TGAAATATGA
18067451 ATTATTATATT
1 ATTATTATATT
18067462 -TTATTAT-TT
1 ATTATTATATT
18067471 ATTATTATATT
1 ATTATTATATT
18067482 A
1 A
18067483 ATTAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 2 0.11
10 14 0.74
11 3 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
ATTATTATATT
Found at i:18071242 original size:3 final size:3
Alignment explanation
Indices: 18071234--18071279 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
18071224 TGCCTAACAT
18071234 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
18071280 GGAAGTTTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18075030 original size:18 final size:17
Alignment explanation
Indices: 18074984--18075035 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 17
18074974 TCTAATTCTT
*
18074984 TTTTAAATTA-GTAATG
1 TTTTATATTATGTAATG
* *
18075000 TTTTATGTTATGTAATT
1 TTTTATATTATGTAATG
18075017 TTTATATATTATGTAATG
1 TTT-TATATTATGTAATG
18075035 T
1 T
18075036 AGAACATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 8 0.28
17 8 0.28
18 13 0.45
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.58
Consensus pattern (17 bp):
TTTTATATTATGTAATG
Found at i:18076523 original size:31 final size:30
Alignment explanation
Indices: 18076446--18076530 Score: 75
Period size: 31 Copynumber: 2.8 Consensus size: 30
18076436 TTTAATATGT
*
18076446 AAATTTATACATG--ACTTTTGATTTGGTAC
1 AAATATATACATGAAAC-TTTGATTTGGTAC
* * * *
18076475 AATTATATGCATAAAACTTTGATTGTGGTTC
1 AAATATATACATGAAACTTTGATT-TGGTAC
* *
18076506 AAATGTATACATGAAACTTTAATTT
1 AAATATATACATGAAACTTTGATTT
18076531 TGATTCAATC
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
29 9 0.21
30 8 0.19
31 26 0.60
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.42
Consensus pattern (30 bp):
AAATATATACATGAAACTTTGATTTGGTAC
Found at i:18078139 original size:31 final size:33
Alignment explanation
Indices: 18078114--18078173 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 33
18078104 AAAATTCATT
*
18078114 AATC-AAATTAAAATAAA-AATAAAAA-TATAG
1 AATCAAAACTAAAATAAATAATAAAAATTATAG
18078144 AATCAAAACTAAAATAAATAATAAAAATTA
1 AATCAAAACTAAAATAAATAATAAAAATTA
18078174 GATTAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 4 0.15
31 12 0.46
32 8 0.31
33 2 0.08
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (33 bp):
AATCAAAACTAAAATAAATAATAAAAATTATAG
Found at i:18078170 original size:19 final size:19
Alignment explanation
Indices: 18078125--18078171 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
18078115 ATCAAATTAA
*
18078125 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
18078144 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
18078163 AATAAAAAT
1 AATAAAAAT
18078172 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:18082912 original size:41 final size:41
Alignment explanation
Indices: 18082834--18082912 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
18082824 GCGTTTCCAC
* **
18082834 TAAAAACGCCATTATAGTTCAACTTTTTACGGTATTTTTTA
1 TAAAAACGCCATTATAGCTCAACTTTTTACGACATTTTTTA
* **
18082875 TAAAAACGCCATTATAGCTCAATTTTTTGTGACATTTT
1 TAAAAACGCCATTATAGCTCAACTTTTTACGACATTTT
18082913 ACCTAAAAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (41 bp):
TAAAAACGCCATTATAGCTCAACTTTTTACGACATTTTTTA
Found at i:18082920 original size:41 final size:41
Alignment explanation
Indices: 18082833--18082920 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 41
18082823 GGCGTTTCCA
* ** **
18082833 CTAAAAACGCCATTATAGTTCAACTTTTTACGGTATTTTTT
1 CTAAAAACGCCATTATAGCTCAACTTTTTACGACATTTTAC
* * **
18082874 ATAAAAACGCCATTATAGCTCAATTTTTTGTGACATTTTAC
1 CTAAAAACGCCATTATAGCTCAACTTTTTACGACATTTTAC
18082915 CTAAAA
1 CTAAAA
18082921 GTGCCACTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (41 bp):
CTAAAAACGCCATTATAGCTCAACTTTTTACGACATTTTAC
Found at i:18083136 original size:13 final size:14
Alignment explanation
Indices: 18083104--18083135 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
18083094 AGTCTTTTAT
18083104 TTTTTATTTTAAAA
1 TTTTTATTTTAAAA
18083118 TTTTTATTTTAAAA
1 TTTTTATTTTAAAA
18083132 TTTT
1 TTTT
18083136 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTTATTTTAAAA
Found at i:18083139 original size:21 final size:21
Alignment explanation
Indices: 18083086--18083143 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
18083076 ATTAAATATC
* *
18083086 AAATTTTAAGTCTTTTATTTTT
1 AAATTTTAAAT-TTTTATTTTA
* * *
18083108 TATTTTAAAATTTTTATTTTA
1 AAATTTTAAATTTTTATTTTA
18083129 AAATTTTAAATTTTT
1 AAATTTTAAATTTTT
18083144 TTAAAGATTT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (21 bp):
AAATTTTAAATTTTTATTTTA
Found at i:18083164 original size:22 final size:19
Alignment explanation
Indices: 18083109--18083164 Score: 51
Period size: 22 Copynumber: 2.7 Consensus size: 19
18083099 TTTATTTTTT
18083109 ATTTTAAAATTTTTATTTTAAA
1 ATTTT-AAA-TTTT-TTTTAAA
18083131 ATTTTAAA-TTTTTTTAAA
1 ATTTTAAATTTTTTTTAAA
18083149 GATTTTTATAATTTTT
1 -A-TTTTA-AATTTTT
18083165 AAATTAACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
18 7 0.23
19 4 0.13
20 5 0.17
21 5 0.17
22 9 0.30
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
ATTTTAAATTTTTTTTAAA
Found at i:18084420 original size:41 final size:41
Alignment explanation
Indices: 18084374--18084588 Score: 290
Period size: 41 Copynumber: 5.3 Consensus size: 41
18084364 GTTATATGAC
* *
18084374 TTTTAGTGGCGTTTTACTAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
18084415 GTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* **
18084456 TTTTAGAGGCGTTTTACCAAAAGCGCCGCTAATGCTCTATT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
18084497 TTTTAACGGCGTTTTACAAAAAGCGCCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* ** * *
18084537 TTTTAGCGGCGTTTTAACAAAAAAGCCGCTATTGCTC-AGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
18084577 TTTTAGCGGCGT
1 TTTTAGCGGCGT
18084589 CTATTGCTCT
Statistics
Matches: 156, Mismatches: 17, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
40 46 0.29
41 110 0.71
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:18086146 original size:7 final size:7
Alignment explanation
Indices: 18086134--18086158 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18086124 TCAAATTCAT
18086134 TTTCCAC
1 TTTCCAC
18086141 TTTCCAC
1 TTTCCAC
18086148 TTTCCAC
1 TTTCCAC
18086155 TTTC
1 TTTC
18086159 TAATCAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.40, G:0.00, T:0.48
Consensus pattern (7 bp):
TTTCCAC
Found at i:18087330 original size:2 final size:2
Alignment explanation
Indices: 18087323--18087357 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
18087313 TTTACTTTAT
18087323 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 T
18087358 TAGTTAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18087801 original size:5 final size:5
Alignment explanation
Indices: 18087793--18087874 Score: 116
Period size: 5 Copynumber: 17.0 Consensus size: 5
18087783 TATTTATTTC
18087793 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * *
18087843 AT-A- ATAAT ATAAT -TATT ATAAT TTAAC ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
18087875 TAAATTTATA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
3 2 0.03
4 5 0.07
5 61 0.90
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:18092343 original size:65 final size:65
Alignment explanation
Indices: 18092239--18092369 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
18092229 CCTAAAGCTA
18092239 AATCTTGAAGGTAGAAAAGCTTCACATGCAAAAATAACTATTCAATATCCAAAGACTCTTTGTTC
1 AATCTTGAAGGTAGAAAAGCTTCACATGCAAAAATAACTATTCAATATCCAAAGACTCTTTGTTC
18092304 AATCTTGAAGGTAGAAAAGCTTCACATGCAAAAATAACTATTCAATATCCAAAGACTCTTTGTTC
1 AATCTTGAAGGTAGAAAAGCTTCACATGCAAAAATAACTATTCAATATCCAAAGACTCTTTGTTC
18092369 A
1 A
18092370 CTTTGGACAG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.29
Consensus pattern (65 bp):
AATCTTGAAGGTAGAAAAGCTTCACATGCAAAAATAACTATTCAATATCCAAAGACTCTTTGTTC
Found at i:18094374 original size:15 final size:15
Alignment explanation
Indices: 18094354--18094386 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
18094344 AAAAGCTCCA
*
18094354 TAACATTGTAGACAT
1 TAACATTATAGACAT
18094369 TAACATTATAGACAT
1 TAACATTATAGACAT
18094384 TAA
1 TAA
18094387 AGTTCTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (15 bp):
TAACATTATAGACAT
Found at i:18096372 original size:26 final size:26
Alignment explanation
Indices: 18096336--18096471 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
18096326 TGATACAAAT
18096336 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18096362 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
18096388 TGATAATAGGTTAGGCAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
18096414 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
18096440 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18096466 TGATAA
1 TGATAA
18096472 GAATTTCATG
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:18103395 original size:24 final size:25
Alignment explanation
Indices: 18103339--18103419 Score: 137
Period size: 25 Copynumber: 3.2 Consensus size: 25
18103329 TGATACAAAT
18103339 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
18103365 TGATAAT-GGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
*
18103389 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
18103414 TGATAA
1 TGATAA
18103420 GAATTTCATG
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
24 9 0.17
25 38 0.70
26 7 0.13
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:18106161 original size:17 final size:17
Alignment explanation
Indices: 18106136--18106184 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
18106126 AATATGGTTC
18106136 AAATTATAAAAAT-TAA
1 AAATTATAAAAATATAA
18106152 AAACTTATAAAAATCATAA
1 AAA-TTATAAAAAT-ATAA
*
18106171 AAATTCTAAAAATA
1 AAATTATAAAAATA
18106185 ATAACAATGG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 3 0.10
17 11 0.38
18 9 0.31
19 6 0.21
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATTATAAAAATATAA
Found at i:18106164 original size:10 final size:9
Alignment explanation
Indices: 18106136--18106188 Score: 63
Period size: 9 Copynumber: 6.0 Consensus size: 9
18106126 AATATGGTTC
18106136 AAATTATAA
1 AAATTATAA
18106145 AAATTA-AA
1 AAATTATAA
*
18106153 AACTTATAA
1 AAATTATAA
*
18106162 AAATCATAA
1 AAATTATAA
*
18106171 AAATTCTAA
1 AAATTATAA
*
18106180 AAATAATAA
1 AAATTATAA
18106189 CAATGGTAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
8 7 0.19
9 29 0.81
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (9 bp):
AAATTATAA
Found at i:18108222 original size:81 final size:81
Alignment explanation
Indices: 18108129--18108309 Score: 193
Period size: 81 Copynumber: 2.2 Consensus size: 81
18108119 AATACTCGAT
* * * * * *
18108129 ATCTCACTCACTAAGTGCCGTACATAGCCGATGCTATCTCAAATCGCGCACGAAGTGCCATATAT
1 ATCTCACACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCACACACGAAGTGCCACATAT
*
18108194 AGCTGAAGCTATCTCG
66 AGCCGAAGCTATCTCG
* * * * * *
18108210 ATCTCACACACTAAATGCCATATATAGCCGAAGCTGTGTCGAATCACACACTAAGTGCCACATAT
1 ATCTCACACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCACACACGAAGTGCCACATAT
* * *
18108275 AGCCGACGCTATGTTG
66 AGCCGAAGCTATCTCG
* *
18108291 A-CTCGCATACTAAGTGCCA
1 ATCTCACACACTAAGTGCCA
18108310 GTTATAGCTG
Statistics
Matches: 81, Mismatches: 19, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
80 15 0.19
81 66 0.81
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (81 bp):
ATCTCACACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCACACACGAAGTGCCACATAT
AGCCGAAGCTATCTCG
Found at i:18108303 original size:40 final size:40
Alignment explanation
Indices: 18108131--18108317 Score: 169
Period size: 40 Copynumber: 4.7 Consensus size: 40
18108121 TACTCGATAT
* * * * * *
18108131 CTCACTCACTAAGTGCCGTACATAGCCGATGCTATCTCAA
1 CTCACACACTAAGTGCCATATATAGCCGAAGCTATGTCGA
* * * * * *
18108171 ATCGCGCACGAAGTGCCATATATAGCTGAAGCTATCTCGA
1 CTCACACACTAAGTGCCATATATAGCCGAAGCTATGTCGA
* *
18108211 TCTCACACACTAAATGCCATATATAGCCGAAGCTGTGTCGA
1 -CTCACACACTAAGTGCCATATATAGCCGAAGCTATGTCGA
* * * *
18108252 ATCACACACTAAGTGCCACATATAGCCGACGCTATGTTGA
1 CTCACACACTAAGTGCCATATATAGCCGAAGCTATGTCGA
* *
18108292 CTCGCATACTAAGTGCCAGT-TATAGC
1 CTCACACACTAAGTGCCA-TATATAGC
18108318 TGATTTGTCA
Statistics
Matches: 118, Mismatches: 27, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
40 86 0.73
41 32 0.27
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (40 bp):
CTCACACACTAAGTGCCATATATAGCCGAAGCTATGTCGA
Found at i:18112069 original size:21 final size:23
Alignment explanation
Indices: 18112029--18112070 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
18112019 TATTATTTCA
*
18112029 CAAATAATTTCTTCACAATTTAG
1 CAAAAAATTTCTTCACAATTTAG
18112052 CAAAAAATTTC-T-ACAATTT
1 CAAAAAATTTCTTCACAATTT
18112071 CTCCCTAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (23 bp):
CAAAAAATTTCTTCACAATTTAG
Found at i:18112100 original size:21 final size:21
Alignment explanation
Indices: 18112066--18112109 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
18112056 AAATTTCTAC
*
18112066 AATTTCTCCCTAAAGCTCTCA
1 AATTTCTCACTAAAGCTCTCA
* **
18112087 AATTTCTCATTAAATTTCTCA
1 AATTTCTCACTAAAGCTCTCA
18112108 AA
1 AA
18112110 GCTCTTTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCTCACTAAAGCTCTCA
Found at i:18112301 original size:16 final size:16
Alignment explanation
Indices: 18112282--18112336 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
18112272 AATTTGAATA
18112282 TTATTTAATTTTTAAT
1 TTATTTAATTTTTAAT
*
18112298 TTATGTAA-TTTTAAT
1 TTATTTAATTTTTAAT
* *
18112313 TAATTTTTATTTTATAAT
1 TTA-TTTAATTTT-TAAT
18112331 TT-TTTA
1 TTATTTA
18112337 TAATAGTCTG
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
15 9 0.30
16 13 0.43
17 3 0.10
18 5 0.17
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTATTTAATTTTTAAT
Found at i:18114698 original size:17 final size:18
Alignment explanation
Indices: 18114664--18114699 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
18114654 TAATTTTTCC
*
18114664 CTTTTTCTTTTCTCATTT
1 CTTTTTCTTTCCTCATTT
18114682 CTTTTTCTTTCCT-ATTT
1 CTTTTTCTTTCCTCATTT
18114699 C
1 C
18114700 GTTCCACTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (18 bp):
CTTTTTCTTTCCTCATTT
Found at i:18114757 original size:11 final size:10
Alignment explanation
Indices: 18114717--18114768 Score: 52
Period size: 11 Copynumber: 5.1 Consensus size: 10
18114707 TTCTCTGTTC
18114717 TTTTTCTTTA
1 TTTTTCTTTA
*
18114727 TTGTGTCTTTA
1 TT-TTTCTTTA
*
18114738 TTCTT-TTTA
1 TTTTTCTTTA
18114747 TTATTTCTTTA
1 TT-TTTCTTTA
*
18114758 TTTTACTTTA
1 TTTTTCTTTA
18114768 T
1 T
18114769 ATTATTATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
9 6 0.18
10 13 0.38
11 15 0.44
ACGTcount: A:0.13, C:0.10, G:0.04, T:0.73
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:18114810 original size:20 final size:18
Alignment explanation
Indices: 18114772--18114810 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
18114762 ACTTTATATT
*
18114772 ATTATATTATATTTTTTA
1 ATTATATTATATTTCTTA
18114790 ATTATAATTATTATTTCTTA
1 ATTAT-ATTA-TATTTCTTA
18114810 A
1 A
18114811 ATAATAAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTATATTATATTTCTTA
Found at i:18115967 original size:20 final size:21
Alignment explanation
Indices: 18115920--18115961 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
18115910 AAATTATCGT
18115920 TTCA-TATTTAGTACTTAGTA
1 TTCAGTATTTAGTACTTAGTA
*
18115940 TTCAGTATTT-GTATTTAGTA
1 TTCAGTATTTAGTACTTAGTA
18115960 TT
1 TT
18115962 ATGTATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.55
Consensus pattern (21 bp):
TTCAGTATTTAGTACTTAGTA
Found at i:18116946 original size:25 final size:25
Alignment explanation
Indices: 18116910--18116959 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
18116900 AAAAAGTTGT
18116910 TTTTAATGTTTTAATAGCAAATTAA
1 TTTTAATGTTTTAATAGCAAATTAA
*
18116935 TTTTATAT-TTTTAATAGTAAATTAA
1 TTTTA-ATGTTTTAATAGCAAATTAA
18116960 GGTGTACACG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (25 bp):
TTTTAATGTTTTAATAGCAAATTAA
Found at i:18117678 original size:128 final size:126
Alignment explanation
Indices: 18117440--18117688 Score: 340
Period size: 128 Copynumber: 2.0 Consensus size: 126
18117430 AAGCATGAAC
* *
18117440 TACTGTAGAAAAAGAGCATCCACATGGGAGTTTTTTTCTGTAATTTTGCTGACAGTACATCCTGC
1 TACTGTAGAAAAAGAGCATCCACATGAGAGTTTTTTTCTGTAATTTTGCTAACAGTACATCCTGC
* * * *
18117505 TTGAAGCGTTTTTGACATTATTTGTTCAGAAACGTCTTTTTAAAATTATTTTTTCAAGAAT
66 TTGAAGCGTTTTTGACACTATTTGTTCAGAAACGCCTTCTCAAAATTATTTTTTCAAGAAT
* * * *
18117566 TACTTTAGAAAAAGATCGTCCACGTGAGAGCTTTTTTT-TGTAATTTTGCTAACAGTGCATCATC
1 TACTGTAGAAAAAGAGCATCCACATGAGAG-TTTTTTTCTGTAATTTTGCTAACAGT--A-CATC
* *
18117630 CT-CTTGAAGCGTTTTTGACACTATTTGTTCATAAATGCCTTCTCAAAATTATTTTTTCA
62 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGCCTTCTCAAAATTATTTTTTCA
18117689 GGATAAAAAT
Statistics
Matches: 107, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
126 42 0.39
127 7 0.07
128 52 0.49
129 6 0.06
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (126 bp):
TACTGTAGAAAAAGAGCATCCACATGAGAGTTTTTTTCTGTAATTTTGCTAACAGTACATCCTGC
TTGAAGCGTTTTTGACACTATTTGTTCAGAAACGCCTTCTCAAAATTATTTTTTCAAGAAT
Found at i:18117855 original size:26 final size:25
Alignment explanation
Indices: 18117819--18117934 Score: 114
Period size: 26 Copynumber: 4.6 Consensus size: 25
18117809 CACTAATTTA
18117819 CTTAATTTATTTAAAACCATAAACCC
1 CTTAATTTATTTAAAACCATAAA-CC
18117845 CTTAATTTATTTAAAACCATAAACC
1 CTTAATTTATTTAAAACCATAAACC
* *
18117870 CTAATTTATTTTATTTAAAACCCT-AA--
1 C----TTAATTTATTTAAAACCATAAACC
*
18117896 CTTAATTTATTTAAAACCCTAGAACC
1 CTTAATTTATTTAAAACCATA-AACC
*
18117922 C-TAATTTAATTAA
1 CTTAATTTATTTAA
18117935 TTTATTTAAA
Statistics
Matches: 78, Mismatches: 4, Indels: 17
0.79 0.04 0.17
Matches are distributed among these distances:
22 18 0.23
24 2 0.03
25 14 0.18
26 25 0.32
28 2 0.03
29 17 0.22
ACGTcount: A:0.41, C:0.19, G:0.01, T:0.39
Consensus pattern (25 bp):
CTTAATTTATTTAAAACCATAAACC
Found at i:18117893 original size:22 final size:22
Alignment explanation
Indices: 18117865--18117916 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
18117855 TTAAAACCAT
* *
18117865 AAACCCTAATTTATTTTATTTA
1 AAACCCTAACTTAATTTATTTA
18117887 AAACCCTAACTTAATTTATTTA
1 AAACCCTAACTTAATTTATTTA
18117909 AAACCCTA
1 AAACCCTA
18117917 GAACCCTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.40
Consensus pattern (22 bp):
AAACCCTAACTTAATTTATTTA
Found at i:18117912 original size:111 final size:112
Alignment explanation
Indices: 18117776--18118000 Score: 319
Period size: 111 Copynumber: 2.0 Consensus size: 112
18117766 TTTTAACCCT
* * *
18117776 AAACCCTAATTTACTTTATTTAAAACCCAAGAACACTAATTTACTTAATTTATTT-AAAACCATA
1 AAACCCTAACTTAATTTATTTAAAACCCAAGAACACTAATTTAATTAATTTATTTAAAAACCATA
* *
18117840 AACCC-CTTAATTTATTTAAAACCATAAACCCTAATTTATTTTATTTA
66 AACCCACTTAATTTATTTAAAACCAT-AACCCTAATTTACTTAATTTA
* * *
18117887 AAACCCTAACTTAATTTATTTAAAACCCTAGAACCCTAATTTAATTAATTTATTTAAAAATCATA
1 AAACCCTAACTTAATTTATTTAAAACCCAAGAACACTAATTTAATTAATTTATTTAAAAACCATA
* *
18117952 AACCCTAATTTAATTTATTTAAAACCCTAACCCTAATTTACTTAATTTA
66 AACCC--ACTTAATTTATTTAAAACCATAACCCTAATTTACTTAATTTA
18118001 TTTACAAATC
Statistics
Matches: 100, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
111 50 0.50
112 13 0.13
114 19 0.19
115 18 0.18
ACGTcount: A:0.42, C:0.19, G:0.01, T:0.39
Consensus pattern (112 bp):
AAACCCTAACTTAATTTATTTAAAACCCAAGAACACTAATTTAATTAATTTATTTAAAAACCATA
AACCCACTTAATTTATTTAAAACCATAACCCTAATTTACTTAATTTA
Found at i:18117940 original size:34 final size:33
Alignment explanation
Indices: 18117897--18118034 Score: 151
Period size: 34 Copynumber: 4.2 Consensus size: 33
18117887 AAACCCTAAC
18117897 TTAATTTATTTAAAACCCTAGAACCCTAATTTAA
1 TTAATTTATTTAAAACCCTA-AACCCTAATTTAA
* *
18117931 TTAATTTATTTAAAAATCATAAACCCTAA--T--
1 TTAATTTATTT-AAAACCCTAAACCCTAATTTAA
*
18117961 TTAATTTATTTAAAACCCT-AACCCTAATTTAC
1 TTAATTTATTTAAAACCCTAAACCCTAATTTAA
* * *
18117993 TTAATTTATTTACAAATCGTAAACACTAATTTAA
1 TTAATTTATTTA-AAACCCTAAACCCTAATTTAA
*
18118027 TTTATTTA
1 TTAATTTA
18118035 AAACCCTAAT
Statistics
Matches: 88, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
28 8 0.09
29 6 0.07
30 12 0.14
32 13 0.15
33 5 0.06
34 37 0.42
35 7 0.08
ACGTcount: A:0.41, C:0.15, G:0.01, T:0.42
Consensus pattern (33 bp):
TTAATTTATTTAAAACCCTAAACCCTAATTTAA
Found at i:18118010 original size:62 final size:62
Alignment explanation
Indices: 18117887--18118043 Score: 251
Period size: 62 Copynumber: 2.5 Consensus size: 62
18117877 ATTTTATTTA
*
18117887 AAACCCTAACTTAATTTATTTAAAACCCTAGAACCCTAATTTAATTAATTTATTTAAAAATCAT
1 AAACCCTAATTTAATTTATTTAAAACCCT--AACCCTAATTTAATTAATTTATTTAAAAATCAT
* * *
18117951 AAACCCTAATTTAATTTATTTAAAACCCTAACCCTAATTTACTTAATTTATTTACAAATCGT
1 AAACCCTAATTTAATTTATTTAAAACCCTAACCCTAATTTAATTAATTTATTTAAAAATCAT
*
18118013 AAACACTAATTTAATTTATTTAAAACCCTAA
1 AAACCCTAATTTAATTTATTTAAAACCCTAA
18118044 TTTAATTTAT
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
62 60 0.68
64 28 0.32
ACGTcount: A:0.43, C:0.18, G:0.01, T:0.38
Consensus pattern (62 bp):
AAACCCTAATTTAATTTATTTAAAACCCTAACCCTAATTTAATTAATTTATTTAAAAATCAT
Found at i:18118043 original size:22 final size:22
Alignment explanation
Indices: 18118013--18118065 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
18118003 TACAAATCGT
*
18118013 AAACACTAATTTAATTTATTTA
1 AAACCCTAATTTAATTTATTTA
18118035 AAACCCTAATTTAATTTATTTA
1 AAACCCTAATTTAATTTATTTA
* *
18118057 TAATCCTAA
1 AAACCCTAA
18118066 AACCCTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (22 bp):
AAACCCTAATTTAATTTATTTA
Found at i:18118102 original size:86 final size:84
Alignment explanation
Indices: 18117951--18118108 Score: 235
Period size: 86 Copynumber: 1.9 Consensus size: 84
18117941 TAAAAATCAT
* *
18117951 AAACCCTAATTTAATTTATTTAAAACCCTAACCCTAATTTACTTAATTTATTTACAAATCGTAAA
1 AAACCCTAATTTAATTTATTTAAAACCCTAACCCTAATTTACTTAATTTATTTACAAACCATAAA
18118016 CACTAATTTAATTTATTTA
66 CACTAATTTAATTTATTTA
* * * *
18118035 AAACCCTAATTTAATTTATTTATAATCCTAAAACCCTAATTTACTTATTTTATTTAGAAACCATA
1 AAACCCTAATTTAATTTATTTAAAACCCT--AACCCTAATTTACTTAATTTATTTACAAACCATA
*
18118100 AACCCTAAT
64 AACACTAAT
18118109 CTAAATAATT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
84 27 0.42
86 38 0.58
ACGTcount: A:0.41, C:0.18, G:0.01, T:0.41
Consensus pattern (84 bp):
AAACCCTAATTTAATTTATTTAAAACCCTAACCCTAATTTACTTAATTTATTTACAAACCATAAA
CACTAATTTAATTTATTTA
Found at i:18118158 original size:148 final size:145
Alignment explanation
Indices: 18117845--18118108 Score: 375
Period size: 148 Copynumber: 1.8 Consensus size: 145
18117835 CCATAAACCC
* * *
18117845 CTTAATTTATTTAAAACCATAAACCCTAATTTATTTTATTTAAAACCCTAACTTAATTTATTTAA
1 CTTAATTTATTTAAAATCATAAACACTAATTTAATTTATTTAAAACCCTAACTTAATTTATTTAA
* *
18117910 AACCCTAGAACCCTAATTTAATTAATTTATTTAAAAATCATAAACCCTAATTTAATTTATTTAAA
66 AACCCTAAAACCCTAATTTAATTAATTTATTTAAAAACCATAAACCCTAATTTAATTTATTTAAA
* *
18117975 ACCCTAACCCTAATTTA
131 A--CTAACACTAATCTA
* *
18117992 CTTAATTTATTTACAAATCGTAAACACTAATTTAATTTATTTAAAACCCTAATTTAATTTATTTA
1 CTTAATTTATTTA-AAATCATAAACACTAATTTAATTTATTTAAAACCCTAACTTAATTTATTTA
* * * * *
18118057 TAATCCTAAAACCCTAATTTACTTATTTTATTTAGAAACCATAAACCCTAAT
65 AAACCCTAAAACCCTAATTTAATTAATTTATTTAAAAACCATAAACCCTAAT
18118109 CTAAATAATT
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
147 13 0.12
148 91 0.88
ACGTcount: A:0.41, C:0.17, G:0.01, T:0.41
Consensus pattern (145 bp):
CTTAATTTATTTAAAATCATAAACACTAATTTAATTTATTTAAAACCCTAACTTAATTTATTTAA
AACCCTAAAACCCTAATTTAATTAATTTATTTAAAAACCATAAACCCTAATTTAATTTATTTAAA
ACTAACACTAATCTA
Found at i:18119359 original size:2 final size:2
Alignment explanation
Indices: 18119352--18119381 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18119342 TTTATCTTTA
18119352 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18119382 TTGTTGGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18122431 original size:2 final size:2
Alignment explanation
Indices: 18122426--18122451 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18122416 TAAAAAATCA
18122426 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
18122452 GTCAAGTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18125504 original size:19 final size:19
Alignment explanation
Indices: 18125480--18125524 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
18125470 GCCCAAAAAG
18125480 AAAG-AAGAGAAGAGAAGGA
1 AAAGAAAGA-AAGAGAAGGA
* *
18125499 AAAGAAAGAAAGAGATGGT
1 AAAGAAAGAAAGAGAAGGA
18125518 AAAGAAA
1 AAAGAAA
18125525 AAAAAGGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.04
Consensus pattern (19 bp):
AAAGAAAGAAAGAGAAGGA
Found at i:18125524 original size:24 final size:23
Alignment explanation
Indices: 18125475--18125530 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
18125465 TGGCGGCCCA
*
18125475 AAAAGAAAGAAGAGAAGAGAAGG
1 AAAAGAAAGAAGAGAAGAGAAAG
*
18125498 AAAAGAAAGAAAGAGATG-GTAAAG
1 AAAAGAAAG-AAGAGAAGAG-AAAG
*
18125522 AAAAAAAAG
1 AAAAGAAAG
18125531 GCAAAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 10 0.36
24 18 0.64
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.04
Consensus pattern (23 bp):
AAAAGAAAGAAGAGAAGAGAAAG
Found at i:18128032 original size:14 final size:14
Alignment explanation
Indices: 18128013--18128047 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
18128003 TGACATTTTT
*
18128013 TTCTAATGATACTA
1 TTCTAACGATACTA
18128027 TTCTAACGATACTA
1 TTCTAACGATACTA
18128041 TTCTAAC
1 TTCTAAC
18128048 ATGTAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:18128779 original size:41 final size:40
Alignment explanation
Indices: 18128729--18128866 Score: 134
Period size: 41 Copynumber: 3.4 Consensus size: 40
18128719 CGTTTTACCA
* * *
18128729 AAAATGCCGCTAAAAACAGAGCAATAGCAGCGTTTTTTGTT
1 AAAACGCCGCTAAAAACAGAGCAATAGCAGCG-CTTTTGAT
* * * *
18128770 AAAACGCCGCTAAGAACCAGAGC-ATCAGCGGCACTTTTGGT
1 AAAACGCCGCTAA-AAACAGAGCAAT-AGCAGCGCTTTTGAT
* * *
18128811 AAAACGCCGCTAAAAACCAGAGCAGTAGTAGCGCTTTCGAT
1 AAAACGCCGCTAAAAA-CAGAGCAATAGCAGCGCTTTTGAT
*
18128852 AAAATGCCGCTAAAA
1 AAAACGCCGCTAAAA
18128867 GTCATATAAT
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
40 2 0.03
41 63 0.80
42 14 0.18
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACAGAGCAATAGCAGCGCTTTTGAT
Found at i:18129566 original size:7 final size:7
Alignment explanation
Indices: 18129554--18129579 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
18129544 TATCATTATA
18129554 GTTTAGG
1 GTTTAGG
18129561 GTTTAGG
1 GTTTAGG
18129568 GTTTAGG
1 GTTTAGG
18129575 GTTTA
1 GTTTA
18129580 AAGTGTATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:18129621 original size:15 final size:15
Alignment explanation
Indices: 18129603--18129645 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
18129593 ATTATTTTAA
18129603 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
18129618 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
*
18129632 GATTTATGG-TTATG
1 GGTTTATGGATTATG
18129646 TAAGAGATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 4 0.17
14 7 0.29
15 13 0.54
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.47
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:18129623 original size:22 final size:22
Alignment explanation
Indices: 18129598--18129640 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
18129588 GAGTTATTAT
*
18129598 TTTAAGGTTTATGGA-TTATGGG
1 TTTAAGGATTAT-GATTTATGGG
*
18129620 TTTAGGGATTATGATTTATGG
1 TTTAAGGATTATGATTTATGG
18129641 TTATGTAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (22 bp):
TTTAAGGATTATGATTTATGGG
Found at i:18130254 original size:7 final size:7
Alignment explanation
Indices: 18130239--18130278 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
18130229 AAAAAATTTT
*
18130239 AAAATTA
1 AAAAATA
18130246 AAAAATA
1 AAAAATA
18130253 AAAAATA
1 AAAAATA
18130260 AAAAATA
1 AAAAATA
18130267 AAAAATA
1 AAAAATA
18130274 AAAAA
1 AAAAA
18130279 CTTAAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:18130285 original size:21 final size:21
Alignment explanation
Indices: 18130237--18130285 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
18130227 CAAAAAAATT
18130237 TTAAAATTAAAAAATAAAAAA
1 TTAAAATTAAAAAATAAAAAA
* *
18130258 TAAAAAATAAAAAATAAAAAA
1 TTAAAATTAAAAAATAAAAAA
18130279 CTTAAAA
1 -TTAAAA
18130286 ATTTAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (21 bp):
TTAAAATTAAAAAATAAAAAA
Found at i:18132155 original size:138 final size:138
Alignment explanation
Indices: 18131907--18132176 Score: 470
Period size: 138 Copynumber: 2.0 Consensus size: 138
18131897 ATAATGTATG
* * *
18131907 GATGCTTTGTGGAGTCCCTGTTTTGAATTTTAGAATCATATGTAATCTCTTTAAAAATTGGCATT
1 GATGCTTTGTGGAGTACCTGTTTTGAATTTTAGAACCATATGTAATCTCCTTAAAAATTGGCATT
18131972 AAATTGTTTTTAGGTTTTATAATAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGATTT
66 AAATTGTTTTTAGGTTTTATAATAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGATTT
18132037 AACGTCTA
131 AACGTCTA
* *
18132045 GATGCTTT-TAGGAGTACTTGTTTTGAATTTTAGAACCATATGTAATTTCCTTAAAAATTGGCAT
1 GATGCTTTGT-GGAGTACCTGTTTTGAATTTTAGAACCATATGTAATCTCCTTAAAAATTGGCAT
*
18132109 TAAATTGTTTTTAGGTTTTATATTAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGATT
65 TAAATTGTTTTTAGGTTTTATAATAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGATT
18132174 TAA
130 TAA
18132177 AATTTGAAAA
Statistics
Matches: 125, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
137 1 0.01
138 124 0.99
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (138 bp):
GATGCTTTGTGGAGTACCTGTTTTGAATTTTAGAACCATATGTAATCTCCTTAAAAATTGGCATT
AAATTGTTTTTAGGTTTTATAATAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGATTT
AACGTCTA
Found at i:18133284 original size:43 final size:43
Alignment explanation
Indices: 18133213--18133448 Score: 319
Period size: 43 Copynumber: 5.5 Consensus size: 43
18133203 TTTTTAAATT
* * *
18133213 TCATTACCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGG
1 TCATGACCTCTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
* * * * *
18133256 TAAAGACCTTTAGCGGCGTTTGTGGGAAAAGTGCCACTAAAGG
1 TCATGACCTCTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
* * *
18133299 TCAAGACCTCTAGCGGCGTTTGTGGGGAAAGCGTCGCTAAAGG
1 TCATGACCTCTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
* *
18133342 TCTTGACCTCTAACGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
1 TCATGACCTCTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
* **
18133385 TCTTGACCTCTAATGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
1 TCATGACCTCTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
*
18133428 TCATGACCTTTAGCGGCGTTT
1 TCATGACCTCTAGCGGCGTTT
18133449 TTTTAAATAA
Statistics
Matches: 171, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 171 1.00
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (43 bp):
TCATGACCTCTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
Found at i:18134280 original size:14 final size:14
Alignment explanation
Indices: 18134261--18134290 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
18134251 ACAAACTTAG
18134261 TTTTGTAATATAAA
1 TTTTGTAATATAAA
18134275 TTTTGTAATATAAA
1 TTTTGTAATATAAA
18134289 TT
1 TT
18134291 AAATACATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTTGTAATATAAA
Found at i:18134388 original size:65 final size:65
Alignment explanation
Indices: 18134262--18134420 Score: 250
Period size: 65 Copynumber: 2.5 Consensus size: 65
18134252 CAAACTTAGT
* *
18134262 TTTGTAATATAAATTTTGTAATATAAATT-AAATACATTACAACTTTAATCTAATTGAAACAAAC
1 TTTGTAATATAAATTTTGTTATATAAATTAAAATACATTACAACTTTAATCTAACTGAAACAAAC
*
18134326 TTTGTACTATAAATTTTGTTATATAAATTAAAATACATTACAA-TATTAATCTAACTGAAACAAA
1 TTTGTAATATAAATTTTGTTATATAAATTAAAATACATTACAACT-TTAATCTAACTGAAACAAA
18134390 C
65 C
* *
18134391 TTTTTAATATAAATTTTCTTATATAAATTA
1 TTTGTAATATAAATTTTGTTATATAAATTA
18134421 CATAAGCTCA
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
64 28 0.32
65 59 0.68
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (65 bp):
TTTGTAATATAAATTTTGTTATATAAATTAAAATACATTACAACTTTAATCTAACTGAAACAAAC
Found at i:18135346 original size:46 final size:46
Alignment explanation
Indices: 18135264--18135544 Score: 336
Period size: 46 Copynumber: 6.1 Consensus size: 46
18135254 CCTATCCACA
* * * * * * **
18135264 GTCTTATTTATCTTC-GACATGATGCCATAGTGTCTTTCAATTATG
1 GTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATG
* * *
18135309 GTCTTACTCATTTTCTGTCATATGGCCATGGTATCTTTCAACCATG
1 GTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATG
* ** *
18135355 GTCTTATTCA-TTTCTTTTCACATTGCCATGGTACCTTTCAACCATG
1 GTCTTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATG
* *
18135401 GTCTTATTCATTTCCTGTTATGTTGCCATGGTATCTTTCAACCATG
1 GTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATG
*
18135447 GTCTTATTC-TTTTCTTGTTATGTTGCCATGGTATCTTTCAACCATG
1 GTCTTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATG
*
18135493 GTCTTATTC-TTTTCCTGTCATGTTGCCATGGTATCTTTCAACCGTG
1 GTCTTATTCATTTT-CTGTCATGTTGCCATGGTATCTTTCAACCATG
18135539 GTCTTA
1 GTCTTA
18135545 CACATTTGAA
Statistics
Matches: 206, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
45 20 0.10
46 182 0.88
47 4 0.02
ACGTcount: A:0.18, C:0.22, G:0.15, T:0.45
Consensus pattern (46 bp):
GTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATG
Found at i:18135586 original size:45 final size:45
Alignment explanation
Indices: 18135537--18135641 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
18135527 CTTTCAACCG
* * *
18135537 TGGTCTTACACATTTGAATCGCGATACCATAGCGTCTTTCACCTA
1 TGGTCTTACTCATTTAAATCGCGATACCATAGCGTCTTTCACCAA
* * * ** * *
18135582 TGGTCTTACTCGTCTAAATCGTGATTGCATAGTGTCTTTCAGCAA
1 TGGTCTTACTCATTTAAATCGCGATACCATAGCGTCTTTCACCAA
18135627 TGGTCTTACTCATTT
1 TGGTCTTACTCATTT
18135642 TTGGTATGAT
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (45 bp):
TGGTCTTACTCATTTAAATCGCGATACCATAGCGTCTTTCACCAA
Found at i:18135708 original size:33 final size:34
Alignment explanation
Indices: 18135651--18135806 Score: 108
Period size: 33 Copynumber: 4.7 Consensus size: 34
18135641 TTTGGTATGA
* * *
18135651 TGCCATAGTCCAACTATGGTCTTACA-CATGTAT
1 TGCCATAGCCCAGCCATGGTCTTACATCATGTAT
* * * *
18135684 TGTCATGGCCTAGCCATGGTCTTACACTCATG--G
1 TGCCATAGCCCAGCCATGGTCTTACA-TCATGTAT
* ** *
18135717 TGCCATATCCCAGATATGGTCTTATCATCA-GGA-
1 TGCCATAGCCCAGCCATGGTCTTA-CATCATGTAT
* * * *
18135750 TGACATAGCCTAGCTATGGTCTTACA-CATATAT
1 TGCCATAGCCCAGCCATGGTCTTACATCATGTAT
*
18135783 TGCCATGGCCCAGCCATGGTCTTA
1 TGCCATAGCCCAGCCATGGTCTTA
18135807 TCCGTCAATT
Statistics
Matches: 93, Mismatches: 23, Indels: 14
0.72 0.18 0.11
Matches are distributed among these distances:
31 2 0.02
32 4 0.04
33 81 0.87
34 2 0.02
35 4 0.04
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (34 bp):
TGCCATAGCCCAGCCATGGTCTTACATCATGTAT
Found at i:18137301 original size:26 final size:27
Alignment explanation
Indices: 18137272--18137343 Score: 80
Period size: 26 Copynumber: 2.7 Consensus size: 27
18137262 AATAAATAAT
18137272 AATAA-AATAATAAAATATCTTAT-TAA
1 AATAATAATAATAAAATATCTTATCT-A
18137298 AATAATAATAA-AATAATAT-TTATCTA
1 AATAATAATAATAA-AATATCTTATCTA
* *
18137324 ATTAATAATTATAAAATATC
1 AATAATAATAATAAAATATC
18137344 ATCAACATCA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
26 26 0.67
27 13 0.33
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (27 bp):
AATAATAATAATAAAATATCTTATCTA
Found at i:18137330 original size:29 final size:30
Alignment explanation
Indices: 18137261--18137341 Score: 92
Period size: 32 Copynumber: 2.7 Consensus size: 30
18137251 CTTTTATACT
*
18137261 TAATAAATAATAATAAAATAATAAAATATC
1 TAATTAATAATAATAAAATAATAAAATATC
* **
18137291 TTATTAAAATAATAATAAAATAAT-ATTTATC
1 TAATT--AATAATAATAAAATAATAAAATATC
*
18137322 TAATTAATAATTATAAAATA
1 TAATTAATAATAATAAAATA
18137342 TCATCAACAT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 14 0.33
30 3 0.07
31 9 0.21
32 17 0.40
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (30 bp):
TAATTAATAATAATAAAATAATAAAATATC
Found at i:18139764 original size:40 final size:40
Alignment explanation
Indices: 18139637--18139766 Score: 122
Period size: 40 Copynumber: 3.2 Consensus size: 40
18139627 ATGCTGGAAA
* *
18139637 TTATATCCGGGTTAAGACCCGAAGGCAATTGT--ACTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAC-A-TGG
* * * * **
18139677 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
* *
18139717 TTCTATCCGGGCTAAGACCCGAAGGTATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
18139757 TTATATCCGG
1 TTATATCCGG
18139767 TTATATTCCG
Statistics
Matches: 69, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
39 2 0.03
40 65 0.94
42 1 0.01
43 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
Found at i:18147661 original size:40 final size:40
Alignment explanation
Indices: 18147595--18147745 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
18147585 AAATTGAATG
* *
18147595 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
18147634 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
18147674 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
18147714 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
18147746 ACATGGTTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 16 0.18
40 72 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:18147729 original size:80 final size:79
Alignment explanation
Indices: 18147597--18147745 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
18147587 ATTGAATGAT
*
18147597 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAATT
1 ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
18147662 GTGCTAGTGGCTAC
66 GTGCTAGTGGCTAC
* * * *
18147676 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGCA
*
18147739 TTTGTGC
63 ATTGTGC
18147746 ACATGGTTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 16 0.26
80 45 0.74
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (79 bp):
ATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAATT
GTGCTAGTGGCTAC
Done.