Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 74 of 172
Found at i:21045060 original size:6 final size:6
Alignment explanation
Indices: 21045044--21045087 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
21045034 AGTCCATTTG
* *
21045044 TTTTA- TTTTAT TTTTAT TTTTAT TTTTAT GTTTAT TGTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
21045088 CTTAGACTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:21046907 original size:30 final size:30
Alignment explanation
Indices: 21046865--21046952 Score: 113
Period size: 30 Copynumber: 2.9 Consensus size: 30
21046855 CTGGGCATTT
* * *
21046865 CCACATGAGCTGGCCACATGCTCGTGTGAG
1 CCACACGAGCTGGCCACACGCCCGTGTGAG
* *
21046895 CCATACGGGCTGGCCACACGCCCGTGTGAG
1 CCACACGAGCTGGCCACACGCCCGTGTGAG
* *
21046925 CCACATGAGCTGGCCACACGCCCATGTG
1 CCACACGAGCTGGCCACACGCCCGTGTG
21046953 CCAGCCCGTG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.19, C:0.35, G:0.30, T:0.16
Consensus pattern (30 bp):
CCACACGAGCTGGCCACACGCCCGTGTGAG
Found at i:21047093 original size:23 final size:24
Alignment explanation
Indices: 21047041--21047093 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
21047031 GTCTATAAAT
* *
21047041 ATCAATTAGAAGAAGATCTAAGAG
1 ATCACTTAGAAGAAGATCTAAGAA
*
21047065 AGCACTTAG-AGAAGAT-TGAAGAA
1 ATCACTTAGAAGAAGATCT-AAGAA
21047088 ATCACT
1 ATCACT
21047094 CGAAGAACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 1 0.04
23 16 0.67
24 7 0.29
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (24 bp):
ATCACTTAGAAGAAGATCTAAGAA
Found at i:21049481 original size:40 final size:40
Alignment explanation
Indices: 21049362--21049483 Score: 163
Period size: 40 Copynumber: 3.0 Consensus size: 40
21049352 TTATTGTCTG
* * * *
21049362 AATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCTTG
1 AATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
* *
21049402 AATGTACATACGTGACCCTATTTGTACTTCGGTACCCCTA
1 AATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
* * *
21049442 AATGCACATACATGCCCCTATTAGTACTTCGATACCCCTA
1 AATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
21049482 AA
1 AA
21049484 GGCATATTCA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (40 bp):
AATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
Found at i:21050631 original size:12 final size:12
Alignment explanation
Indices: 21050614--21050639 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21050604 TTTGACTAAC
21050614 AAATTTTGATAT
1 AAATTTTGATAT
21050626 AAATTTTGATAT
1 AAATTTTGATAT
21050638 AA
1 AA
21050640 CTTTGCCCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (12 bp):
AAATTTTGATAT
Found at i:21053324 original size:26 final size:26
Alignment explanation
Indices: 21053295--21053344 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
21053285 GGGATGAGAA
*
21053295 GGGAATAAAAGTTTTAGGGGAAAAGT
1 GGGAATAAAAATTTTAGGGGAAAAGT
* *
21053321 GGGAGTAAAAATTTTGGGGGAAAA
1 GGGAATAAAAATTTTAGGGGAAAA
21053345 TAGAAGGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.36, T:0.22
Consensus pattern (26 bp):
GGGAATAAAAATTTTAGGGGAAAAGT
Found at i:21053488 original size:30 final size:31
Alignment explanation
Indices: 21053449--21053509 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
21053439 GGCTTGGGAG
* *
21053449 GGGAGAGGAGTAAAAGTTTTGGGGGGAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
21053480 GGGA-AGGAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
21053510 AAAACGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.44, T:0.20
Consensus pattern (31 bp):
GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:21053572 original size:9 final size:9
Alignment explanation
Indices: 21053558--21053585 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
21053548 TATAGTTTGA
21053558 TATTCGAAT
1 TATTCGAAT
21053567 TATTCGAAT
1 TATTCGAAT
21053576 TATTCGAAT
1 TATTCGAAT
21053585 T
1 T
21053586 CGAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:21054275 original size:17 final size:18
Alignment explanation
Indices: 21054243--21054276 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21054233 GTCGCGTATC
*
21054243 AGTTGGAGCTACCTCTAG
1 AGTTGGAGCCACCTCTAG
21054261 AGTTGGA-CCACCTCTA
1 AGTTGGAGCCACCTCTA
21054277 TGATGTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (18 bp):
AGTTGGAGCCACCTCTAG
Found at i:21056633 original size:20 final size:19
Alignment explanation
Indices: 21056604--21056654 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
21056594 TAAGTATGGG
*
21056604 CTTTTGGACTTTCATTTAT
1 CTTTTGGACTTTAATTTAT
21056623 CTTTATGGACTTTAATTT-T
1 CTTT-TGGACTTTAATTTAT
*
21056642 GGTTTTGGACTTT
1 -CTTTTGGACTTT
21056655 GACACTTGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.16, C:0.12, G:0.16, T:0.57
Consensus pattern (19 bp):
CTTTTGGACTTTAATTTAT
Found at i:21058058 original size:10 final size:10
Alignment explanation
Indices: 21058036--21058073 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
21058026 ATGGGTATTT
21058036 TACAAAAATAA
1 TACAAAAA-AA
21058047 TACAAAAAAA
1 TACAAAAAAA
21058057 TA-AAAAAAA
1 TACAAAAAAA
21058066 TATCAAAA
1 TA-CAAAA
21058074 TAGTATAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 9 0.36
10 4 0.16
11 12 0.48
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (10 bp):
TACAAAAAAA
Found at i:21058474 original size:154 final size:153
Alignment explanation
Indices: 21058202--21059019 Score: 1167
Period size: 154 Copynumber: 5.3 Consensus size: 153
21058192 TTGTATTTTG
* * *
21058202 GCCCTTTATTCGTATTTTTTTCTCGAATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTT
1 GCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAAATATATTATTTTCTAATTTT
*
21058267 CTTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAA
66 ATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAA
21058332 A-TTAAAAAAAACCCTTATTTCA
131 ATTTAAAAAAAACCCTTATTTCA
* * * *
21058354 GCCCTTTTTTCTTATTTTTTTCCTGGATTTTATTACTTTTAATAAAAATATATTATTTTCGT-AT
1 GCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTT-A-AAAAATATATTATTTTC-TAAT
* * *
21058418 TTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTAATTGTGTTTTTTAAA
63 TTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAA
* *
21058483 TAAATTTAGTAGAAAACCCTTATTTCA
128 TAAATTTA-AAAAAAACCCTTATTTCA
* * * *
21058510 GCCCTTCGTTCGTATTTTTTCCCCGGATTTTATTACTTTTAAAAAATATATTATTTTTTAATTTT
1 GCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAAATATATTATTTTCTAATTTT
*
21058575 ATTATTTTACATTATTTTAGAACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAA
66 ATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAA
21058640 ATTTTAAAAAAAACCCTTATTTCA
131 A-TTTAAAAAAAACCCTTATTTCA
* * * * * * *
21058664 GTCCTTTATTCGTA-TTTTTTCCTGGATTTTATTACTTTCAATAAAAATATATTATTTTTTTATT
1 GCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTT-TA-AAAAATATATTATTTTCTAATT
* * *
21058728 TTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTAATTGTGTTTTTTAAAT
64 TTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAAT
* * **
21058793 AAATTTAGTAAAAACCCCTTATTTTG
129 AAATTTA-AAAAAAACCCTTATTTCA
* *
21058819 GCCCTTTGTTCGTA-TTTTTCCCCGAATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTT
1 GCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAAATATATTATTTTCTAATTTT
21058883 ATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAA
66 ATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAA
* * *
21058948 TTTTTTTAAAAAAACCCTTATTTCG
131 --ATTTAAAAAAAACCCTTATTTCA
*
21058973 GTCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAATAAAA
1 GCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAA-AAAA
21059020 AACACACTAA
Statistics
Matches: 594, Mismatches: 58, Indels: 24
0.88 0.09 0.04
Matches are distributed among these distances:
152 35 0.06
153 107 0.18
154 227 0.38
155 170 0.29
156 55 0.09
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (153 bp):
GCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAAATATATTATTTTCTAATTTT
ATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAA
ATTTAAAAAAAACCCTTATTTCA
Found at i:21058809 original size:308 final size:311
Alignment explanation
Indices: 21058210--21059020 Score: 1373
Period size: 308 Copynumber: 2.6 Consensus size: 311
21058200 TGGCCCTTTA
* * *
21058210 TTCGTATTTTTTTCTCGAATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTCTTATTTT
1 TTCGTATTTTTTCCCCGAATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTATTATTTT
21058275 ACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAA--TTAAA
66 ACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTTAAA
* * *
21058338 AAAAACCCTTATTTCAGCCCTTTTTTCTTATTTTTTTCCTGGATTTTATTACTTTTAATAAAAAT
131 AAAAACCCTTATTTCAGTCCTTTATTCGTATTTTTTTCCTGGATTTTATTACTTTTAATAAAAAT
21058403 ATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTA
196 ATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTA
21058468 ATTGTGTTTTTTAAATAAATTTAGTAGAAAA-CCCTTATTTCAGCCCTTCG
261 ATTGTGTTTTTTAAATAAATTTAGTAGAAAACCCCTTATTTCAGCCCTTCG
* * *
21058518 TTCGTATTTTTTCCCCGGATTTTATTACTTTTAAAAAATATATTATTTTTTAATTTTATTATTTT
1 TTCGTATTTTTTCCCCGAATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTATTATTTT
*
21058583 ACATTATTTTAGAACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTTAAA
66 ACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTTAAA
*
21058648 AAAAACCCTTATTTCAGTCCTTTATTCGTA-TTTTTTCCTGGATTTTATTACTTTCAATAAAAAT
131 AAAAACCCTTATTTCAGTCCTTTATTCGTATTTTTTTCCTGGATTTTATTACTTTTAATAAAAAT
**
21058712 ATATTATTTTTTTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTA
196 ATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTA
** *
21058777 ATTGTGTTTTTTAAATAAATTTAGTA-AAAACCCCTTATTTTGGCCCTTTG
261 ATTGTGTTTTTTAAATAAATTTAGTAGAAAACCCCTTATTTCAGCCCTTCG
21058827 TTCGTA-TTTTTCCCCGAATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTATTATTTT
1 TTCGTATTTTTTCCCCGAATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTATTATTTT
* *
21058891 ACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAATTTTTTTA
66 ACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAA-ATTTTAA
* * * *
21058956 AAAAAACCCTTATTTCGGTCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAATAAAAA
130 AAAAAACCCTTATTTCAGTCCTTTATTCGTATTTTTTTCCTGGATTTTATTACTTTTAATAAAAA
21059021 ACACACTAAA
Statistics
Matches: 471, Mismatches: 27, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
308 231 0.49
309 178 0.38
310 62 0.13
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.53
Consensus pattern (311 bp):
TTCGTATTTTTTCCCCGAATTTTATTACTTTTAAAAAATATACTATTTTCTAATTTTATTATTTT
ACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTTAAA
AAAAACCCTTATTTCAGTCCTTTATTCGTATTTTTTTCCTGGATTTTATTACTTTTAATAAAAAT
ATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTA
ATTGTGTTTTTTAAATAAATTTAGTAGAAAACCCCTTATTTCAGCCCTTCG
Found at i:21059921 original size:16 final size:18
Alignment explanation
Indices: 21059886--21059922 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
21059876 AGAAGCACCA
21059886 TTAAAATAATATAATTTAT
1 TTAAAATAATATAA-TTAT
21059905 TTAAAAT-ATATAA-TAT
1 TTAAAATAATATAATTAT
21059921 TT
1 TT
21059923 TTTAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.28
18 6 0.33
19 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAAAATAATATAATTAT
Found at i:21060880 original size:16 final size:15
Alignment explanation
Indices: 21060859--21060901 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 15
21060849 TTGTTTTATA
21060859 TAACATTTCTAATCAT
1 TAACATTTCTAAT-AT
*
21060875 TAACATAT-T-ATAT
1 TAACATTTCTAATAT
21060888 TAACATTTCTAATA
1 TAACATTTCTAATA
21060902 ATTTCTAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 9 0.39
14 3 0.13
15 4 0.17
16 7 0.30
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (15 bp):
TAACATTTCTAATAT
Found at i:21060916 original size:49 final size:49
Alignment explanation
Indices: 21060810--21060905 Score: 131
Period size: 49 Copynumber: 1.9 Consensus size: 49
21060800 TATTTTCTAT
* * **
21060810 TAACATTTCTAATCATTAACATATTATATTTATTCTCTATTGTTTTATA
1 TAACATTTCTAATCATTAACATATTATATTCATTCTCTAATAATTTATA
21060859 TAACATTTCTAATCATTAACATATTATATTAACATT-TCTAATAATTT
1 TAACATTTCTAATCATTAACATATTATATT--CATTCTCTAATAATTT
21060906 CTAATCATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
49 30 0.73
50 8 0.20
51 3 0.07
ACGTcount: A:0.36, C:0.12, G:0.01, T:0.50
Consensus pattern (49 bp):
TAACATTTCTAATCATTAACATATTATATTCATTCTCTAATAATTTATA
Found at i:21064551 original size:40 final size:40
Alignment explanation
Indices: 21064467--21064650 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
21064457 TTGAATGCTG
* * * *
21064467 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
21064506 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
21064547 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
21064587 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
21064627 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
21064651 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:21064604 original size:80 final size:81
Alignment explanation
Indices: 21064467--21064647 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
21064457 TTGAATGCTG
* * *
21064467 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
21064531 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
21064547 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
21064608 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
21064627 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
21064648 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:21064671 original size:39 final size:38
Alignment explanation
Indices: 21064548--21064697 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 38
21064538 GTTATTAATT
* ** * *
21064548 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACT-ATA
** * *
21064588 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-ATA
*
21064627 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAT-A
* *
21064667 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
21064698 GAGCTATATC
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.35
40 60 0.65
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTATA
Found at i:21072453 original size:40 final size:40
Alignment explanation
Indices: 21072369--21072552 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
21072359 TTGAATGCTG
* * * *
21072369 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
21072408 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
21072449 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
21072489 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
21072529 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
21072553 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:21072506 original size:80 final size:81
Alignment explanation
Indices: 21072369--21072549 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
21072359 TTGAATGCTG
* * *
21072369 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
21072433 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
21072449 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
21072510 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
21072529 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
21072550 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:21072573 original size:39 final size:38
Alignment explanation
Indices: 21072450--21072599 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 38
21072440 GTTATTAATT
* ** * *
21072450 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACT-ATA
** * *
21072490 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-ATA
*
21072529 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAT-A
* *
21072569 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
21072600 GAGCTATATC
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.35
40 60 0.65
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTATA
Found at i:21075947 original size:137 final size:137
Alignment explanation
Indices: 21075697--21075966 Score: 362
Period size: 137 Copynumber: 2.0 Consensus size: 137
21075687 ATAAAATAGA
* * * * * *
21075697 TCTGCTCACACAAGTTGACGATTGGAATGTAAGCTACACGATGCTACTCACACAAGCTAATGAGT
1 TCTGCTCACACAAGCTGACGATCGAAATGTAAGCTACACAATGCCACTCACACAAGCTAACGAGT
* * *
21075762 ATCCGCAACTAATGCCGGACCTCAACCAACAATAGGACATTCAAGACCAACACCCGAAACATGGT
66 ATCCGCAACAAATGCCAGAACTCAACCAACAATAGGACATTCAAGACCAACA-CCGAAACATGGT
21075827 AACCTAGG
130 AACCTAGG
* * *
21075835 TCTGCTCACACAAGCTGACGGTCGAAATGT-AGCTACACAATGCCGCTCACACAAGCTGACGAGT
1 TCTGCTCACACAAGCTGACGATCGAAATGTAAGCTACACAATGCCACTCACACAAGCTAACGAGT
* * * * * *
21075899 ATCTGCAACAAATGCCAGAACTCAGCCATCAGTAGGACATTCAGGACCATCACCGAAACATGGTA
66 ATCCGCAACAAATGCCAGAACTCAACCAACAATAGGACATTCAAGACCAACACCGAAACATGGTA
21075964 ACC
131 ACC
21075967 CTAATGAAAT
Statistics
Matches: 114, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
136 16 0.14
137 72 0.63
138 26 0.23
ACGTcount: A:0.34, C:0.29, G:0.19, T:0.18
Consensus pattern (137 bp):
TCTGCTCACACAAGCTGACGATCGAAATGTAAGCTACACAATGCCACTCACACAAGCTAACGAGT
ATCCGCAACAAATGCCAGAACTCAACCAACAATAGGACATTCAAGACCAACACCGAAACATGGTA
ACCTAGG
Found at i:21082415 original size:30 final size:30
Alignment explanation
Indices: 21082388--21082458 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 30
21082378 CTGAGCCCTG
* *
21082388 TACAGTAGCAGTGTATGGGCCATAGCCCAA
1 TACAGTAACAGAGTATGGGCCATAGCCCAA
* * *
21082418 TACAGTAACAGAGTGTGGGCCCTAGTCCAA
1 TACAGTAACAGAGTATGGGCCATAGCCCAA
*
21082448 TACATTAACAG
1 TACAGTAACAG
21082459 TGAAATGCAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (30 bp):
TACAGTAACAGAGTATGGGCCATAGCCCAA
Found at i:21082595 original size:26 final size:26
Alignment explanation
Indices: 21082566--21082662 Score: 124
Period size: 26 Copynumber: 3.7 Consensus size: 26
21082556 CACCAATATC
21082566 GCAGCAAAGCTGCCAGTAATAGTAAT
1 GCAGCAAAGCTGCCAGTAATAGTAAT
* * *
21082592 GCAGCAGAGCTGCTAGTAACAGTAAT
1 GCAGCAAAGCTGCCAGTAATAGTAAT
* * *
21082618 GCAGCAGAGCTACCAGT-ATCAGTAAC
1 GCAGCAAAGCTGCCAGTAAT-AGTAAT
21082644 GCAGCAAAGCTGCCAGTAA
1 GCAGCAAAGCTGCCAGTAA
21082663 GAGTGTTTGT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
25 1 0.02
26 58 0.97
27 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAATAGTAAT
Found at i:21082873 original size:27 final size:28
Alignment explanation
Indices: 21082843--21083120 Score: 220
Period size: 27 Copynumber: 10.3 Consensus size: 28
21082833 GGTATAACAG
*
21082843 TCATTTTACCCTATAG-GGGTATTTCGA
1 TCATTTTACCCTTTAGAGGGTATTTCGA
21082870 TCATTTTA-CCTTTCAG-GGGTATTTCGA
1 TCATTTTACCCTTT-AGAGGGTATTTCGA
* * *
21082897 TCATTTTACCCTTT-GGGGGTATTTTGG
1 TCATTTTACCCTTTAGAGGGTATTTCGA
* * *
21082924 TCATTTTACCCATCA-AGGGTATTTTGA
1 TCATTTTACCCTTTAGAGGGTATTTCGA
* * * *
21082951 TAATTTTACCC-ATCGAGGGTATTTCGG
1 TCATTTTACCCTTTAGAGGGTATTTCGA
* * *
21082978 TTATTTTACCCTTT-GAGGGTATTTTGT
1 TCATTTTACCCTTTAGAGGGTATTTCGA
*
21083005 TCATTTTACCC-TTCGAGGGTATTTC-A
1 TCATTTTACCCTTTAGAGGGTATTTCGA
* * *
21083031 GTTATTTTA-CCTTTTGAGGGTATTTCAA
1 -TCATTTTACCCTTTAGAGGGTATTTCGA
** * *
21083059 TTGTTTTA-TCTTTCGAGGGTATTTCGA
1 TCATTTTACCCTTTAGAGGGTATTTCGA
* * * *
21083086 TAATTTCACCCTTCA-AGTGTATTTCGA
1 TCATTTTACCCTTTAGAGGGTATTTCGA
21083113 TCATTTTA
1 TCATTTTA
21083121 GAGGCCCATT
Statistics
Matches: 205, Mismatches: 35, Indels: 22
0.78 0.13 0.08
Matches are distributed among these distances:
26 9 0.04
27 186 0.91
28 10 0.05
ACGTcount: A:0.20, C:0.17, G:0.18, T:0.46
Consensus pattern (28 bp):
TCATTTTACCCTTTAGAGGGTATTTCGA
Found at i:21082901 original size:54 final size:55
Alignment explanation
Indices: 21082843--21083120 Score: 246
Period size: 54 Copynumber: 5.1 Consensus size: 55
21082833 GGTATAACAG
* *
21082843 TCATTTTACCCTATAG-GGGTATTTCGATCATTTTACCTTTCAGGGGTATTTCGA
1 TCATTTTACCCTATCGAGGGTATTTCGATCATTTTACCTTTCAAGGGTATTTCGA
* * * * ** *
21082897 TCATTTTACCCT-TTGGGGGTATTTTGGTCATTTTACCCATCAAGGGTATTTTGA
1 TCATTTTACCCTATCGAGGGTATTTCGATCATTTTACCTTTCAAGGGTATTTCGA
* * * * * *
21082951 TAATTTTACCC-ATCGAGGGTATTTCGGTTATTTTACCCTTT-GAGGGTATTTTGT
1 TCATTTTACCCTATCGAGGGTATTTCGATCATTTTA-CCTTTCAAGGGTATTTCGA
* ** *
21083005 TCATTTTACCCT-TCGAGGGTATTTC-AGTTATTTTACCTTTTGAGGGTATTTCAA
1 TCATTTTACCCTATCGAGGGTATTTCGA-TCATTTTACCTTTCAAGGGTATTTCGA
** * * * * * *
21083059 TTGTTTTA-TCTTTCGAGGGTATTTCGATAATTTCACCCTTCAAGTGTATTTCGA
1 TCATTTTACCCTATCGAGGGTATTTCGATCATTTTACCTTTCAAGGGTATTTCGA
21083113 TCATTTTA
1 TCATTTTA
21083121 GAGGCCCATT
Statistics
Matches: 183, Mismatches: 33, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
53 9 0.05
54 170 0.93
55 4 0.02
ACGTcount: A:0.20, C:0.17, G:0.18, T:0.46
Consensus pattern (55 bp):
TCATTTTACCCTATCGAGGGTATTTCGATCATTTTACCTTTCAAGGGTATTTCGA
Found at i:21082957 original size:81 final size:81
Alignment explanation
Indices: 21082842--21083120 Score: 260
Period size: 81 Copynumber: 3.4 Consensus size: 81
21082832 GGGTATAACA
* * **
21082842 GTCATTTTACCCTAT-AGGGGTATTTCGATCATTTTACCTTTC-AGGGGTATTTCGATCATTTTA
1 GTCATTTTACCC-ATCAAGGGTATTTCGATAATTTTACCCATCGA-GGGTATTTCGATCATTTTA
*
21082905 CCCTTTGGGGGTATTTTG
64 CCCTTTGAGGGTATTTTG
* * *
21082923 GTCATTTTACCCATCAAGGGTATTTTGATAATTTTACCCATCGAGGGTATTTCGGTTATTTTACC
1 GTCATTTTACCCATCAAGGGTATTTCGATAATTTTACCCATCGAGGGTATTTCGATCATTTTACC
21082988 CTTTGAGGGTATTTTG
66 CTTTGAGGGTATTTTG
* * * * ** * * **
21083004 TTCATTTTACCCTTCGAGGGTATTTC-AGTTATTTTACCTTTTGAGGGTATTTCAATTGTTTTA-
1 GTCATTTTACCCATCAAGGGTATTTCGA-TAATTTTACCCATCGAGGGTATTTCGATCATTTTAC
* *
21083067 TCTTTCGAGGGTATTTCG
65 CCTTT-GAGGGTATTTTG
* * * * * *
21083085 ATAATTTCACCCTTCAAGTGTATTTCGATCATTTTA
1 GTCATTTTACCCATCAAGGGTATTTCGATAATTTTA
21083121 GAGGCCCATT
Statistics
Matches: 166, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
80 7 0.04
81 157 0.95
82 2 0.01
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.46
Consensus pattern (81 bp):
GTCATTTTACCCATCAAGGGTATTTCGATAATTTTACCCATCGAGGGTATTTCGATCATTTTACC
CTTTGAGGGTATTTTG
Found at i:21085350 original size:31 final size:30
Alignment explanation
Indices: 21085324--21085393 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
21085314 AATTCTAGTT
*
21085324 TTAATTCTAATTTTCATGTCTAATTCTAAAC
1 TTAATTCTAAGTTTCAT-TCTAATTCTAAAC
* *
21085355 TTAATTCTAAGTTTGATTCTAATACTAAAC
1 TTAATTCTAAGTTTCATTCTAATTCTAAAC
*
21085385 -TAGTTCTAA
1 TTAATTCTAA
21085394 ATGCTAATCC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 8 0.23
30 12 0.34
31 15 0.43
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (30 bp):
TTAATTCTAAGTTTCATTCTAATTCTAAAC
Found at i:21088379 original size:52 final size:51
Alignment explanation
Indices: 21088322--21088429 Score: 155
Period size: 51 Copynumber: 2.1 Consensus size: 51
21088312 AAATATGATG
* * *
21088322 AAATGGAGAAATAGGAAA-CATTTGGAAATGATTATGGTTTTCTCCAAAATGA
1 AAATGGAGAAAT--GAAATCATTTGGAAATGAATATGGTTTTCTCAAAAATAA
*
21088374 AAATGGAGAAATGAAATCATTTGGAAATGAATGTGGTTTTCTCAAAAATAA
1 AAATGGAGAAATGAAATCATTTGGAAATGAATATGGTTTTCTCAAAAATAA
21088425 AAATG
1 AAATG
21088430 AAAATTACAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
50 4 0.08
51 35 0.69
52 12 0.24
ACGTcount: A:0.44, C:0.06, G:0.20, T:0.29
Consensus pattern (51 bp):
AAATGGAGAAATGAAATCATTTGGAAATGAATATGGTTTTCTCAAAAATAA
Found at i:21094422 original size:17 final size:20
Alignment explanation
Indices: 21094400--21094438 Score: 57
Period size: 17 Copynumber: 2.1 Consensus size: 20
21094390 CGGTTCTATG
21094400 CAATT-ATAT-ATATA-TAA
1 CAATTAATATCATATATTAA
21094417 CAATTAATATCATATATTAA
1 CAATTAATATCATATATTAA
21094437 CA
1 CA
21094439 CACAATATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 5 0.26
20 5 0.26
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (20 bp):
CAATTAATATCATATATTAA
Found at i:21101598 original size:27 final size:27
Alignment explanation
Indices: 21101547--21101598 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
21101537 GATAGTTCGA
* **
21101547 TGGGACATTAAACATGGGATGGTCCAT
1 TGGGACACTAAACATGGGACAGTCCAT
21101574 TGGGACACTAAACATGGGACAGTCC
1 TGGGACACTAAACATGGGACAGTCC
21101599 TATGAGACAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (27 bp):
TGGGACACTAAACATGGGACAGTCCAT
Found at i:21101607 original size:27 final size:27
Alignment explanation
Indices: 21101550--21101607 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
21101540 AGTTCGATGG
* ** *
21101550 GACATTAAACATGGGATGGTCCATTGG
1 GACACTAAACATGGGACAGTCCATTGA
21101577 GACACTAAACATGGGACAGTCC-TATGA
1 GACACTAAACATGGGACAGTCCAT-TGA
21101604 GACA
1 GACA
21101608 GTAGATGCGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (27 bp):
GACACTAAACATGGGACAGTCCATTGA
Found at i:21110282 original size:5 final size:6
Alignment explanation
Indices: 21110267--21110292 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
21110257 CAGTTTAAAA
21110267 TTTTTG TTTTTG TTTTTG TTTTTG TT
1 TTTTTG TTTTTG TTTTTG TTTTTG TT
21110293 ATAGTAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:21115132 original size:17 final size:17
Alignment explanation
Indices: 21115109--21115146 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
21115099 TTTTTCTCGA
* *
21115109 ATTTTTAAG-GTTTAGG
1 ATTTTTTAGAGTTTAAG
21115125 ATTTTTTAGAGTTTAAG
1 ATTTTTTAGAGTTTAAG
21115142 ATTTT
1 ATTTT
21115147 ATGTTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.55
Consensus pattern (17 bp):
ATTTTTTAGAGTTTAAG
Found at i:21115140 original size:24 final size:23
Alignment explanation
Indices: 21115112--21115177 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 23
21115102 TTCTCGAATT
*
21115112 TTTAAGGTTTAGGATTTTTTAGAG
1 TTTAAGGTTTAGG-TTTTTTAAAG
* *
21115136 TTTAAGATTTTATGTTTTTTAAAG
1 TTTAAG-GTTTAGGTTTTTTAAAG
*
21115160 TTTAAAGTTTAGAGTTTT
1 TTTAAGGTTTAG-GTTTT
21115178 GGGTTTTTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 4 0.12
24 25 0.74
25 5 0.15
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (23 bp):
TTTAAGGTTTAGGTTTTTTAAAG
Found at i:21115486 original size:12 final size:12
Alignment explanation
Indices: 21115469--21115513 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 12
21115459 TAGATGAAGT
21115469 ACAAATTATTTA
1 ACAAATTATTTA
21115481 ACAAATCCTATTTTA
1 ACAAAT--TA-TTTA
21115496 ACAAATTATTTA
1 ACAAATTATTTA
21115508 ATCAAA
1 A-CAAA
21115514 CTGAATTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 11 0.38
13 6 0.21
14 2 0.07
15 10 0.34
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (12 bp):
ACAAATTATTTA
Found at i:21115497 original size:15 final size:15
Alignment explanation
Indices: 21115477--21115540 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 15
21115467 GTACAAATTA
21115477 TTTAACAAATCCTAT
1 TTTAACAAATCCTAT
21115492 TTTAACAAAT--TAT
1 TTTAACAAATCCTAT
* *
21115505 TTAATCAAACTGAATTCTAT
1 TT--T--AAC-AAATCCTAT
21115525 TTTAACAAATCCTAT
1 TTTAACAAATCCTAT
21115540 T
1 T
21115541 ATTTATACTC
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
13 5 0.13
15 19 0.49
16 3 0.08
17 3 0.08
18 4 0.10
20 5 0.13
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.42
Consensus pattern (15 bp):
TTTAACAAATCCTAT
Found at i:21115716 original size:49 final size:46
Alignment explanation
Indices: 21115628--21115730 Score: 136
Period size: 49 Copynumber: 2.2 Consensus size: 46
21115618 CAATATAATG
*
21115628 ATTTTGCCTTTTAACTTAATGGATAAACATTTATCAAAACGAAGTA
1 ATTTTGCCTTTTAACTTAAAGGATAAACATTTATCAAAACGAAGTA
*
21115674 ATTTTGCCTTTTAACTTTAGAAAAGG-TAAACATTTATCAAAACGACGTA
1 ATTTTGCCTTTTAAC-TT---AAAGGATAAACATTTATCAAAACGAAGTA
*
21115723 GTTTTGCC
1 ATTTTGCC
21115731 CTTTCTTATT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
46 15 0.30
47 2 0.04
49 29 0.58
50 4 0.08
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (46 bp):
ATTTTGCCTTTTAACTTAAAGGATAAACATTTATCAAAACGAAGTA
Found at i:21117599 original size:28 final size:28
Alignment explanation
Indices: 21117567--21117711 Score: 109
Period size: 28 Copynumber: 5.1 Consensus size: 28
21117557 CTCTGTGATG
*
21117567 AACCTGTTAAAGGAAAACCTTTATGGAA
1 AACCTGTTAAAGGAAAACCTTTGTGGAA
* *
21117595 AACCT-TTGGAAAGGTAAGCCTTTGTGGCAA
1 AACCTGTT--AAAGGAAAACCTTTGTGG-AA
*
21117625 AA-CTGTTAAAGGACAACCTTTGTGGGAA
1 AACCTGTTAAAGGAAAACCTTTGT-GGAA
* * **
21117653 AACTCTAG--AAAGGTAAGCCTTTGTGGCG
1 AAC-CT-GTTAAAGGAAAACCTTTGTGGAA
* *
21117681 AACTTGTTAAAGGACAACCTTTGTGGCAA
1 AACCTGTTAAAGGAAAACCTTTGTGG-AA
21117710 AA
1 AA
21117712 TTTTGGAAAG
Statistics
Matches: 89, Mismatches: 17, Indels: 21
0.70 0.13 0.17
Matches are distributed among these distances:
26 1 0.01
27 3 0.03
28 42 0.47
29 34 0.38
30 8 0.09
31 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (28 bp):
AACCTGTTAAAGGAAAACCTTTGTGGAA
Found at i:21117615 original size:57 final size:56
Alignment explanation
Indices: 21117545--21117736 Score: 240
Period size: 57 Copynumber: 3.4 Consensus size: 56
21117535 TGAATCACCA
* * * * *
21117545 GGAAAGATAAGCCTCTGTGATGAACCTGTTAAAGGAAAACCTTTATGGAAAACCTTT
1 GGAAAGGTAAGCCTTTGTGACGAACCTGTTAAAGGACAACCTTTGTGGAAAA-CTTT
* * * *
21117602 GGAAAGGTAAGCCTTTGTGGCAAAACTGTTAAAGGACAACCTTTGTGGGAAAACTCT
1 GGAAAGGTAAGCCTTTGTGACGAACCTGTTAAAGGACAACCTTTGT-GGAAAACTTT
* * * *
21117659 AGAAAGGTAAGCCTTTGTGGCGAACTTGTTAAAGGACAACCTTTGTGGCAAAATTTT
1 GGAAAGGTAAGCCTTTGTGACGAACCTGTTAAAGGACAACCTTTGTGG-AAAACTTT
21117716 GGAAAGGTAAGCCTTTGTGAC
1 GGAAAGGTAAGCCTTTGTGAC
21117737 AATCTCTGTA
Statistics
Matches: 116, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
56 2 0.02
57 108 0.93
58 6 0.05
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (56 bp):
GGAAAGGTAAGCCTTTGTGACGAACCTGTTAAAGGACAACCTTTGTGGAAAACTTT
Found at i:21117674 original size:29 final size:28
Alignment explanation
Indices: 21117603--21117757 Score: 115
Period size: 28 Copynumber: 5.5 Consensus size: 28
21117593 AAAACCTTTG
*
21117603 GAAAGGTAAGCCTTTGTGGCAAAACTGT
1 GAAAGGTAAGCCTTTGTGGCAAAACTCT
* * *
21117631 TAAAGG-ACAACCTTTGTGGGAAAACTCT
1 GAAAGGTA-AGCCTTTGTGGCAAAACTCT
*
21117659 AGAAAGGTAAGCCTTTGTGGC-GAACT-T
1 -GAAAGGTAAGCCTTTGTGGCAAAACTCT
* * *
21117686 GTTAAAGG-ACAACCTTTGTGGCAAAATTTT
1 G--AAAGGTA-AGCCTTTGTGGCAAAACTCT
* *
21117716 GGAAAGGTAAGCCTTTGTGAC-AATCTCT
1 -GAAAGGTAAGCCTTTGTGGCAAAACTCT
21117744 GTAAAGG-AAGCCTT
1 G-AAAGGTAAGCCTT
21117758 CATGGTTATA
Statistics
Matches: 100, Mismatches: 16, Indels: 23
0.72 0.12 0.17
Matches are distributed among these distances:
26 1 0.01
27 11 0.11
28 51 0.51
29 33 0.33
30 3 0.03
31 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (28 bp):
GAAAGGTAAGCCTTTGTGGCAAAACTCT
Found at i:21120226 original size:26 final size:27
Alignment explanation
Indices: 21120172--21120227 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
21120162 AACACGAATG
** **
21120172 AAAAGAATTGAAAAAAATCTAAACCCT
1 AAAAGAAAGGAAAAAAATCTAAAAACT
21120199 AAAAGAAAGGAAAAAAA-CTAAAAACT
1 AAAAGAAAGGAAAAAAATCTAAAAACT
21120225 AAA
1 AAA
21120228 TTATAGGGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.68, C:0.11, G:0.09, T:0.12
Consensus pattern (27 bp):
AAAAGAAAGGAAAAAAATCTAAAAACT
Found at i:21127770 original size:9 final size:9
Alignment explanation
Indices: 21127756--21127971 Score: 133
Period size: 9 Copynumber: 24.0 Consensus size: 9
21127746 TAAGTATAGT
21127756 TAAGTTATG
1 TAAGTTATG
21127765 TAAGTTATG
1 TAAGTTATG
* * *
21127774 TTATGATATC
1 -TAAGTTATG
*
21127784 T-ATTTATG
1 TAAGTTATG
21127792 T-A-TTATG
1 TAAGTTATG
21127799 TAAGTTATG
1 TAAGTTATG
21127808 TAAGTTATG
1 TAAGTTATG
* *
21127817 TGAGTAATG
1 TAAGTTATG
21127826 TAAGTTATG
1 TAAGTTATG
* * *
21127835 ATATGATATA
1 -TAAGTTATG
*
21127845 T-ATTTATG
1 TAAGTTATG
21127853 T-A-TTATG
1 TAAGTTATG
21127860 TAAGTTATG
1 TAAGTTATG
21127869 TAAGTTATG
1 TAAGTTATG
* *
21127878 ATATGATATATA
1 -TAAG-T-TATG
21127890 TAAGTTAT-
1 TAAGTTATG
21127898 TAAGTTATG
1 TAAGTTATG
*
21127907 TGAGTTATG
1 TAAGTTATG
*
21127916 TAAGTTATCA
1 TAAGTTAT-G
* *
21127926 TATGATATATA
1 TAAG-T-TATG
21127937 TAAGTTAT-
1 TAAGTTATG
21127945 TAAGTTATG
1 TAAGTTATG
* *
21127954 CATGTTATG
1 TAAGTTATG
*
21127963 TGAGTTATG
1 TAAGTTATG
21127972 ATATGATATT
Statistics
Matches: 162, Mismatches: 31, Indels: 28
0.73 0.14 0.13
Matches are distributed among these distances:
7 12 0.07
8 28 0.17
9 87 0.54
10 20 0.12
11 9 0.06
12 6 0.04
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:21127798 original size:34 final size:33
Alignment explanation
Indices: 21127760--21127869 Score: 117
Period size: 34 Copynumber: 3.5 Consensus size: 33
21127750 TATAGTTAAG
21127760 TTATGTAAGTTATGTTATGATATCTATTTATGTA
1 TTATGTAAGTTATGTTATGATAT-TATTTATGTA
* *
21127794 TTATGTAAGTTATG-TA--A-GTTATGTGA-GTA
1 TTATGTAAGTTATGTTATGATATTAT-TTATGTA
*
21127823 --ATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTATGTTATGATAT-TATTTATGTA
21127855 TTATGTAAGTTATGT
1 TTATGTAAGTTATGT
21127870 AAGTTATGAT
Statistics
Matches: 62, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
27 12 0.19
28 2 0.03
29 6 0.10
30 4 0.06
31 4 0.06
32 6 0.10
33 2 0.03
34 26 0.42
ACGTcount: A:0.32, C:0.01, G:0.18, T:0.49
Consensus pattern (33 bp):
TTATGTAAGTTATGTTATGATATTATTTATGTA
Found at i:21127827 original size:61 final size:61
Alignment explanation
Indices: 21127762--21127877 Score: 214
Period size: 61 Copynumber: 1.9 Consensus size: 61
21127752 TAGTTAAGTT
* *
21127762 ATGTAAGTTATGTTATGATATCTATTTATGTATTATGTAAGTTATGTAAGTTATGTGAGTA
1 ATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGTGAGTA
21127823 ATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATG
1 ATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATG
21127878 ATATGATATA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (61 bp):
ATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGTGAGTA
Found at i:21127834 original size:43 final size:44
Alignment explanation
Indices: 21127756--21127998 Score: 162
Period size: 47 Copynumber: 5.4 Consensus size: 44
21127746 TAAGTATAGT
* * * *
21127756 TAAGTTATGTAAGTTATGTTA-TGATATCT-ATTTATG-TATTATG
1 TAAGTTATGTAAGTTATGTGAGT-A-ATGTAAGTTATGATATTATA
*
21127799 TAAGTTATGTAAGTTATGTGAGTAATGTAAGTTATGATATGATA
1 TAAGTTATGTAAGTTATGTGAGTAATGTAAGTTATGATATTATA
* * *
21127843 TATATTTATGT-A-TTATGTAAGTTATGTAAGTTATGATATGATATATA
1 TA-AGTTATGTAAGTTATGTGAGTAATGTAAGTTATG--AT-AT-TATA
* *
21127890 TAAGTTAT-TAAGTTATGTGAGTTATGTAAGTTATCATATGATATATA
1 TAAGTTATGTAAGTTATGTGAGTAATGTAAGTTAT--GAT-AT-TATA
* * *
21127937 TAAGTTAT-TAAGTTATG-CATGTTATGTGAGTTATGATATGATATTTA
1 TAAGTTATGTAAGTTATGTGA-GTAATGTAAGTTATGATAT--TA--TA
21127984 TAAGTTAT-TAAGTTA
1 TAAGTTATGTAAGTTA
21127999 AGATCCAAAG
Statistics
Matches: 169, Mismatches: 15, Indels: 28
0.80 0.07 0.13
Matches are distributed among these distances:
42 3 0.02
43 48 0.28
44 11 0.07
45 15 0.09
46 9 0.05
47 83 0.49
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.47
Consensus pattern (44 bp):
TAAGTTATGTAAGTTATGTGAGTAATGTAAGTTATGATATTATA
Found at i:21127913 original size:47 final size:47
Alignment explanation
Indices: 21127799--21127998 Score: 277
Period size: 47 Copynumber: 4.3 Consensus size: 47
21127789 ATGTATTATG
*
21127799 TAAGTTATGTAAGTTATGTGAGTAATGTAAGTTATGATATGATATATA
1 TAAGTTAT-TAAGTTATGTGAGTTATGTAAGTTATGATATGATATATA
*
21127847 T---TTATGT-A-TTATGTAAGTTATGTAAGTTATGATATGATATATA
1 TAAGTTAT-TAAGTTATGTGAGTTATGTAAGTTATGATATGATATATA
*
21127890 TAAGTTATTAAGTTATGTGAGTTATGTAAGTTATCATATGATATATA
1 TAAGTTATTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATA
* * *
21127937 TAAGTTATTAAGTTATG-CATGTTATGTGAGTTATGATATGATATTTA
1 TAAGTTATTAAGTTATGTGA-GTTATGTAAGTTATGATATGATATATA
21127984 TAAGTTATTAAGTTA
1 TAAGTTATTAAGTTA
21127999 AGATCCAAAG
Statistics
Matches: 138, Mismatches: 8, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
43 34 0.25
44 1 0.01
45 7 0.05
46 6 0.04
47 89 0.64
48 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (47 bp):
TAAGTTATTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATA
Found at i:21127961 original size:38 final size:37
Alignment explanation
Indices: 21127808--21127961 Score: 114
Period size: 38 Copynumber: 3.9 Consensus size: 37
21127798 GTAAGTTATG
* * *
21127808 TAAGTTATGTGAGTAATGTAAGTTATGATATGATATATATT
1 TAAGTTAT-TAAGTTATGTAAGTTATG-TATG-T-TATATA
* *
21127849 TATGTATTATGTAAGTTATGTAAGTTATGATATGATATATA
1 TAAG--TTAT-TAAGTTATGTAAGTTATG-TATGTTATATA
* *
21127890 TAAGTTATTAAGTTATGTGAGTTATGTAAGTTATCATA
1 TAAGTTATTAAGTTATGTAAGTTATGTATGTTAT-ATA
* *
21127928 TGA-TATATATAAGTTAT-TAAGTTATGCATGTTAT
1 TAAGT-TAT-TAAGTTATGTAAGTTATGTATGTTAT
21127962 GTGAGTTATG
Statistics
Matches: 95, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
37 7 0.07
38 39 0.41
39 12 0.13
41 11 0.12
43 26 0.27
ACGTcount: A:0.36, C:0.01, G:0.18, T:0.45
Consensus pattern (37 bp):
TAAGTTATTAAGTTATGTAAGTTATGTATGTTATATA
Found at i:21128055 original size:9 final size:9
Alignment explanation
Indices: 21128026--21128097 Score: 58
Period size: 9 Copynumber: 8.0 Consensus size: 9
21128016 TAATTCTTTA
21128026 AAGTTATGT
1 AAGTTATGT
*
21128035 AAATTATGT
1 AAGTTATGT
21128044 AAGTTATGT
1 AAGTTATGT
*
21128053 AAGTT-TTT
1 AAGTTATGT
* *
21128061 ATA-TGATAT
1 A-AGTTATGT
*
21128070 ATATTTATGT
1 A-AGTTATGT
21128080 AAGTTATGT
1 AAGTTATGT
*
21128089 ATGTTATGT
1 AAGTTATGT
21128098 GGAAATTAGT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
8 4 0.08
9 42 0.82
10 5 0.10
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (9 bp):
AAGTTATGT
Found at i:21128321 original size:119 final size:121
Alignment explanation
Indices: 21128157--21128565 Score: 680
Period size: 119 Copynumber: 3.4 Consensus size: 121
21128147 TTGAGTAATA
*
21128157 TAATATTTAAAAATATAATAATTATAATTATTTTTAAAATTTAAAAACTTATTAGTAATGAATTT
1 TAATATTTAAAAATATAATATTTATAATTATTTTTAAAATTTAAAAACTTATTAGTAATGAATTT
* *
21128222 GAAATATAGGTTATATATCCATACTAATATAGTTTATATATTAAAAATATGGGTTT
66 GAAATATAGGTTATATATCCATACTAATATAGGTTATATATTAAAAATATAGGTTT
* *
21128278 TAATATTT-AAAATATAATATTTATAA-TATTTTTAAAATTTAAAAATTTATTAGAAATGAATTT
1 TAATATTTAAAAATATAATATTTATAATTATTTTTAAAATTTAAAAACTTATTAGTAATGAATTT
* * *
21128341 GAAATATAGGTTAAATATCTATACTAATATAGGTTATATATTAAAAATATAGGTTC
66 GAAATATAGGTTATATATCCATACTAATATAGGTTATATATTAAAAATATAGGTTT
*
21128397 TAAGTTATTTAAAAATATAATATTTATAATTATTTTTAAAATTTAAAAGCTTATTAGTAATGAAT
1 TAA--TATTTAAAAATATAATATTTATAATTATTTTTAAAATTTAAAAACTTATTAGTAATGAAT
*
21128462 TTGAAATGTAGGTTATATATCCATACTAATATAGGTTATATATTAAAAATATAGGTTT
64 TTGAAATATAGGTTATATATCCATACTAATATAGGTTATATATTAAAAATATAGGTTT
*
21128520 TAATATTT-AAAATATAATATTTAAAATTATTTTTAAAATTTAAAAA
1 TAATATTTAAAAATATAATATTTATAATTATTTTTAAAATTTAAAAA
21128566 TTTAAAAATT
Statistics
Matches: 267, Mismatches: 17, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
119 89 0.33
120 53 0.20
121 18 0.07
122 18 0.07
123 89 0.33
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (121 bp):
TAATATTTAAAAATATAATATTTATAATTATTTTTAAAATTTAAAAACTTATTAGTAATGAATTT
GAAATATAGGTTATATATCCATACTAATATAGGTTATATATTAAAAATATAGGTTT
Found at i:21128514 original size:20 final size:21
Alignment explanation
Indices: 21128489--21128535 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
21128479 TATCCATACT
21128489 AATATAGGTTAT-ATATTAAA
1 AATATAGGTTATAATATTAAA
* *
21128509 AATATAGGTTTTAATATTTAA
1 AATATAGGTTATAATATTAAA
21128530 AATATA
1 AATATA
21128536 ATATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (21 bp):
AATATAGGTTATAATATTAAA
Found at i:21128542 original size:21 final size:21
Alignment explanation
Indices: 21128501--21128548 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
21128491 TATAGGTTAT
*
21128501 ATATTAAAAATATAGGTTTTA
1 ATATTAAAAATATAGATTTTA
*
21128522 ATATTTAAAATATA-ATATTTA
1 ATATTAAAAATATAGAT-TTTA
*
21128543 AAATTA
1 ATATTA
21128549 TTTTTAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (21 bp):
ATATTAAAAATATAGATTTTA
Found at i:21128556 original size:12 final size:13
Alignment explanation
Indices: 21128519--21128559 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
21128509 AATATAGGTT
21128519 TTAATATTTAAAA
1 TTAATATTTAAAA
21128532 TATAATATTTAAAA
1 T-TAATATTTAAAA
*
21128546 TT-ATTTTTAAAA
1 TTAATATTTAAAA
21128558 TT
1 TT
21128560 TAAAAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 11 0.42
13 2 0.08
14 13 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TTAATATTTAAAA
Found at i:21129831 original size:16 final size:16
Alignment explanation
Indices: 21129810--21129845 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
21129800 GTCCGTGAAT
21129810 AGAGGAAGCAGGCGAC
1 AGAGGAAGCAGGCGAC
* *
21129826 AGAGGAAGCGGGTGAC
1 AGAGGAAGCAGGCGAC
21129842 AGAG
1 AGAG
21129846 CGGCCGCTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.14, G:0.47, T:0.03
Consensus pattern (16 bp):
AGAGGAAGCAGGCGAC
Found at i:21130333 original size:40 final size:40
Alignment explanation
Indices: 21130270--21130428 Score: 110
Period size: 40 Copynumber: 4.0 Consensus size: 40
21130260 TTTTTTGCGG
* * *
21130270 CGTTTTTCAAAAAGCGCTACTAATGGTCGACCTATAGCGA
1 CGTTTTTCAAAAACCACTACTAATGCTCGACCTATAGCGA
* * * *
21130310 CGTTTTTCAAGAACCACTGCTAATGCTCGATCTATAGCGG
1 CGTTTTTCAAAAACCACTACTAATGCTCGACCTATAGCGA
* * ** * *
21130350 CGCTTCTT-AAAAAACA-TCACTAATGCTTTATCTATAGCGG
1 CG-TTTTTCAAAAACCACT-ACTAATGCTCGACCTATAGCGA
* **
21130390 CATTTTTCCAAAAGTGC-CT-CTAATGCTCGACCTATAGCG
1 CGTTTTT-CAAAA-ACCACTACTAATGCTCGACCTATAGCG
21130429 GCATTTGTTA
Statistics
Matches: 93, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
39 5 0.05
40 78 0.84
41 8 0.09
42 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (40 bp):
CGTTTTTCAAAAACCACTACTAATGCTCGACCTATAGCGA
Found at i:21144187 original size:101 final size:102
Alignment explanation
Indices: 21144070--21144254 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
21144060 AAAGTGATAG
*
21144070 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATATTGAT-GGTCACATGTGTAGT
21144133 ACTATGTGCAGGCTACTATGCGTACCAAATAGCTTTGA
65 ACTATGTGCAGGCTACTATGCGTACCAAATAGCTTTGA
* * *
21144171 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATATTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATATTGATGGTCACATGTGTAGTA
* *
21144236 CTGTGTGTAGGCTACTATG
66 CTATGTGCAGGCTACTATG
21144255 TGAACCAGTA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 39 0.51
102 33 0.43
103 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATATTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCAAATAGCTTTGA
Found at i:21144255 original size:51 final size:51
Alignment explanation
Indices: 21144064--21144262 Score: 226
Period size: 51 Copynumber: 3.9 Consensus size: 51
21144054 AAAGTGAAAG
* * *
21144064 TGATAGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-
1 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAT
* * *
21144113 TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAAATAGCT
1 TGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATA--T
* * * *
21144167 T--TGATCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAT
1 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAT
* * *
21144216 TGATGGTCACATGTGTAGTACTGTGTGTAGGCTACTATGTGAACCAG
1 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAG
21144263 TATCATTAAT
Statistics
Matches: 123, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
49 6 0.05
50 38 0.31
51 77 0.63
52 1 0.01
54 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (51 bp):
TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAT
Found at i:21146603 original size:27 final size:27
Alignment explanation
Indices: 21146573--21146624 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
21146563 TTAATATAAT
* *
21146573 AAAA-AAAATTTAAATAGTTTAAAACGG
1 AAAATAAAATCTAAAT-GTTAAAAACGG
21146600 AAAATAAAATCTAAATGTTAAAAAC
1 AAAATAAAATCTAAATGTTAAAAAC
21146625 AATCCCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.62, C:0.06, G:0.08, T:0.25
Consensus pattern (27 bp):
AAAATAAAATCTAAATGTTAAAAACGG
Found at i:21157694 original size:11 final size:11
Alignment explanation
Indices: 21157678--21157702 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21157668 ACTTAACATG
21157678 TAATTATTCTA
1 TAATTATTCTA
21157689 TAATTATTCTA
1 TAATTATTCTA
21157700 TAA
1 TAA
21157703 ATCATCTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (11 bp):
TAATTATTCTA
Found at i:21161813 original size:10 final size:11
Alignment explanation
Indices: 21161798--21161826 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
21161788 CCTGCAGTTG
21161798 AAATTTTT-CT
1 AAATTTTTCCT
21161808 AAATTTTTCCT
1 AAATTTTTCCT
21161819 AAATTTTT
1 AAATTTTT
21161827 AAAATGTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (11 bp):
AAATTTTTCCT
Found at i:21163121 original size:57 final size:57
Alignment explanation
Indices: 21163032--21163146 Score: 176
Period size: 57 Copynumber: 2.0 Consensus size: 57
21163022 GTATTTCCAG
* *
21163032 TGTTTTGAGGTGGTCTCCCTTTCACAGCTGTATTACTCGGTCAAGTAGTCTAAGCCT
1 TGTTTCGAGGTGGTCTCCCTTTCACAGCTGTATTACTCGATCAAGTAGTCTAAGCCT
* * * *
21163089 TGTTTCGAGGTGGTTTCCCTTTCACAGTTGTATTACTCGATCGAGTAGTCTGAGCCT
1 TGTTTCGAGGTGGTCTCCCTTTCACAGCTGTATTACTCGATCAAGTAGTCTAAGCCT
21163146 T
1 T
21163147 TTCGAGCAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (57 bp):
TGTTTCGAGGTGGTCTCCCTTTCACAGCTGTATTACTCGATCAAGTAGTCTAAGCCT
Found at i:21164136 original size:14 final size:14
Alignment explanation
Indices: 21164117--21164147 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
21164107 GAAGAAGGCT
*
21164117 TCCTTGGCCCCTCC
1 TCCTTGACCCCTCC
21164131 TCCTTGACCCCTCC
1 TCCTTGACCCCTCC
21164145 TCC
1 TCC
21164148 CCGGCCTTCA
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:0.03, C:0.58, G:0.10, T:0.29
Consensus pattern (14 bp):
TCCTTGACCCCTCC
Found at i:21176738 original size:56 final size:51
Alignment explanation
Indices: 21176642--21176929 Score: 234
Period size: 50 Copynumber: 5.6 Consensus size: 51
21176632 ATTTGGGTAA
* **
21176642 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCAACCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGAGGTTGGC-ACC--GAGA--ATG
* * *
21176698 AGAGGTCCCATGTAAGACCATGTCTAGGACATGAGGTTGGCACC-AAAACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGAGGTTGGCACCGAGAATG
21176748 AGAGGTCCCATGTAAGACCATGTCTGGGACATG-GCGTTGGCACCGAG-ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGAG-GTTGGCACCGAGAATG
** * * *
21176798 AGAGGTCCCCCGTAAGACCATGTCTGGGACATG-GCATGGGCACCGA-TATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGAG-GTTGGCACCGAGAATG
** * * * * * *
21176848 AGAACTCTCATGTAAGGCCATATCTGGGATATG-GCATTGGCA--GTA-CATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGAG-GTTGGCACCG-AGAATG
* **
21176897 AAACATCCCATGTAAGACCATGTCTGGGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATG
21176930 GCTTTGGCAT
Statistics
Matches: 198, Mismatches: 30, Indels: 15
0.81 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 31 0.16
50 123 0.62
51 1 0.01
52 2 0.01
55 3 0.02
56 37 0.19
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.21
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGAGGTTGGCACCGAGAATG
Found at i:21176840 original size:100 final size:100
Alignment explanation
Indices: 21176642--21176931 Score: 300
Period size: 100 Copynumber: 2.9 Consensus size: 100
21176632 ATTTGGGTAA
*
21176642 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCAACCTTGAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGC-ACC--GAG---ATGAGAGGTCCC
* * *
21176707 ATGTAAGACCATGTCTAGGACATGAG-GTTGGCACCAAAACG
60 ATGTAAGACCATGTCTGGGACATG-GCATGGGCACCAAAACG
* * **
21176748 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAA
* * *
21176813 GACCATGTCTGGGACATGGCATGGGCACCGATATG
66 GACCATGTCTGGGACATGGCATGGGCACCAAAACG
* * * * * * **
21176848 AGA-ACTCTCATGTAAGGCCATATCTGGGATATGGCATTGGCA--GTACATGAAACATCCCATGT
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTCCCATGT
21176910 AAGACCATGTCTGGGACATGGC
64 AAGACCATGTCTGGGACATGGC
21176932 TTTGGCATGT
Statistics
Matches: 158, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
98 1 0.01
99 35 0.22
100 78 0.49
103 3 0.02
105 3 0.02
106 38 0.24
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.21
Consensus pattern (100 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAA
GACCATGTCTGGGACATGGCATGGGCACCAAAACG
Found at i:21182313 original size:25 final size:26
Alignment explanation
Indices: 21182244--21182315 Score: 65
Period size: 31 Copynumber: 2.6 Consensus size: 26
21182234 TAATTGAATT
21182244 AAAGGCCACATATCACTAGAAAAAAAA
1 AAAGGCCACATATCACTAG-AAAAAAA
* * *
21182271 AGAAGAAAGCCTCGTATCACTAG-AAAGAA
1 A-AAG---GCCACATATCACTAGAAAAAAA
21182300 AAAGGCCACATATCAC
1 AAAGGCCACATATCAC
21182316 AATCGCTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
25 10 0.28
27 1 0.03
28 6 0.17
29 6 0.17
31 13 0.36
ACGTcount: A:0.51, C:0.21, G:0.15, T:0.12
Consensus pattern (26 bp):
AAAGGCCACATATCACTAGAAAAAAA
Found at i:21186095 original size:7 final size:7
Alignment explanation
Indices: 21186079--21186115 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
21186069 TTTTTATTTG
21186079 CCCC-CC
1 CCCCTCC
21186085 CCCCTCC
1 CCCCTCC
21186092 CCCCT-C
1 CCCCTCC
21186098 CCCCTCC
1 CCCCTCC
21186105 CCCCTCC
1 CCCCTCC
21186112 CCCC
1 CCCC
21186116 AGTTTGTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 10 0.34
7 19 0.66
ACGTcount: A:0.00, C:0.89, G:0.00, T:0.11
Consensus pattern (7 bp):
CCCCTCC
Found at i:21186100 original size:13 final size:13
Alignment explanation
Indices: 21186079--21186114 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
21186069 TTTTTATTTG
21186079 CCCCC-CCCCCTC
1 CCCCCTCCCCCTC
21186091 CCCCCTCCCCCTC
1 CCCCCTCCCCCTC
21186104 CCCCCTCCCCC
1 CCCCCTCCCCC
21186115 CAGTTTGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 5 0.22
13 18 0.78
ACGTcount: A:0.00, C:0.89, G:0.00, T:0.11
Consensus pattern (13 bp):
CCCCCTCCCCCTC
Found at i:21188395 original size:12 final size:12
Alignment explanation
Indices: 21188370--21188408 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
21188360 ACTCGCTTCT
* *
21188370 TTACTTACTCAC
1 TTACTTGCTTAC
*
21188382 TTACTTGTTTAC
1 TTACTTGCTTAC
21188394 TTACTTGCTTAC
1 TTACTTGCTTAC
21188406 TTA
1 TTA
21188409 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:21188733 original size:50 final size:50
Alignment explanation
Indices: 21188657--21188889 Score: 238
Period size: 50 Copynumber: 4.7 Consensus size: 50
21188647 TTTTTTGTAC
* * * ** *
21188657 TGCCAATGCCATATCTCAGATATGGTCTTACATGGGAGTTTTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
21188707 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * * *
21188757 TGTC-ATCCCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAAT-GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
21188807 TGCCAAAGTCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAATC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-ATCGG
* * *
21188856 TGCCAATTCCATGTCTCAGACATGGTATTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
21188890 AGATCTCATT
Statistics
Matches: 152, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
49 30 0.20
50 120 0.79
51 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:21197586 original size:22 final size:22
Alignment explanation
Indices: 21197556--21197605 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
21197546 GTGTGAGATC
21197556 ATCACAAATAT-AATCGCATACAT
1 ATCA-AAATATCAATCGCA-ACAT
*
21197579 ATCAAAATATCAATCTCAACAT
1 ATCAAAATATCAATCGCAACAT
21197601 ATCAA
1 ATCAA
21197606 TCATCAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.26
Consensus pattern (22 bp):
ATCAAAATATCAATCGCAACAT
Found at i:21197597 original size:14 final size:15
Alignment explanation
Indices: 21197579--21197616 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
21197569 TCGCATACAT
21197579 ATCAAAATATCAATC
1 ATCAAAATATCAATC
*
21197594 -TCAACATATCAATC
1 ATCAAAATATCAATC
21197608 ATCAAAATA
1 ATCAAAATA
21197617 ATCACAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (15 bp):
ATCAAAATATCAATC
Found at i:21200280 original size:32 final size:32
Alignment explanation
Indices: 21200198--21200350 Score: 150
Period size: 32 Copynumber: 4.8 Consensus size: 32
21200188 AGTACAGTAA
*
21200198 TATGATTGGCACAAAGCCATCAGTAGCAGTGATAT
1 TATGATTGGCACAAAGCCATCAGTA-AAG-G-TAT
* * * *
21200233 TATCA---GCACACAGCCATCAATAAAAGTAT
1 TATGATTGGCACAAAGCCATCAGTAAAGGTAT
* *
21200262 TATGATTGGTACAAAGCCATCAGTAACGGTAT
1 TATGATTGGCACAAAGCCATCAGTAAAGGTAT
* * * * *
21200294 TGTGATCGGCATAAAGCCATCAGTAATGGTAA
1 TATGATTGGCACAAAGCCATCAGTAAAGGTAT
21200326 TATGATTGGCACAAAGCCATCAGTA
1 TATGATTGGCACAAAGCCATCAGTA
21200351 GCATCGCAAC
Statistics
Matches: 95, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
29 7 0.07
30 1 0.01
31 1 0.01
32 82 0.86
35 4 0.04
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (32 bp):
TATGATTGGCACAAAGCCATCAGTAAAGGTAT
Found at i:21200312 original size:64 final size:64
Alignment explanation
Indices: 21200193--21200350 Score: 194
Period size: 64 Copynumber: 2.5 Consensus size: 64
21200183 TGATAAGTAC
* *
21200193 AGTAATATGATTGGCACAAAGCCATCAGTAGCAGTGATATTATCAGCACACAGCCATCAATAAA
1 AGTAATATGATTGGCACAAAGCCATCAGTAACAGTGATATTATCAGCACAAAGCCATCAATAAA
* * * * * *
21200257 AGTATTATGATTGGTACAAAGCCATCAGTAACGGT-AT-TGTGATCGGCATAAAGCCATCAGTAA
1 AGTAATATGATTGGCACAAAGCCATCAGTAACAGTGATAT-T-ATCAGCACAAAGCCATCAATAA
*
21200320 T
64 A
*
21200321 GGTAATATGATTGGCACAAAGCCATCAGTA
1 AGTAATATGATTGGCACAAAGCCATCAGTA
21200351 GCATCGCAAC
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
62 1 0.01
63 3 0.04
64 76 0.95
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (64 bp):
AGTAATATGATTGGCACAAAGCCATCAGTAACAGTGATATTATCAGCACAAAGCCATCAATAAA
Found at i:21200539 original size:13 final size:13
Alignment explanation
Indices: 21200521--21200563 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
21200511 GCCTTGCTCA
21200521 AAATCAGTCATAC
1 AAATCAGTCATAC
*
21200534 AAATCA-T-AGAC
1 AAATCAGTCATAC
21200545 AAATCAGTCATAC
1 AAATCAGTCATAC
*
21200558 CAATCA
1 AAATCA
21200564 CAAACAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 9 0.36
12 2 0.08
13 14 0.56
ACGTcount: A:0.49, C:0.23, G:0.07, T:0.21
Consensus pattern (13 bp):
AAATCAGTCATAC
Found at i:21200552 original size:24 final size:24
Alignment explanation
Indices: 21200521--21200627 Score: 106
Period size: 24 Copynumber: 4.5 Consensus size: 24
21200511 GCCTTGCTCA
*
21200521 AAATCAGTCATACAAATCATAGAC
1 AAATCAGTCATACAAATCACAGAC
* *
21200545 AAATCAGTCATACCAATCACAAAC
1 AAATCAGTCATACAAATCACAGAC
* **
21200569 AAATTAGTCATTTAAATCACAGAC
1 AAATCAGTCATACAAATCACAGAC
* ** * *
21200593 AAATCAATCATTTACATCACGGAC
1 AAATCAGTCATACAAATCACAGAC
*
21200617 AAATCAATCAT
1 AAATCAGTCAT
21200628 TTACACTCGA
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.23
Consensus pattern (24 bp):
AAATCAGTCATACAAATCACAGAC
Found at i:21200692 original size:27 final size:27
Alignment explanation
Indices: 21200649--21201072 Score: 415
Period size: 27 Copynumber: 15.8 Consensus size: 27
21200639 GGGAAAAATA
** *
21200649 GTCA-TTTACCCTCCAGGGGTATTACA
1 GTCATTTTACCCTATAGGGGTATTACG
* * * *
21200675 ATCATTTTACCTTACAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTACG
* * *
21200702 ATCATTTAACCCTATGGGGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* *
21200729 GTCATTTTACCCTATAGGGGCATTACA
1 GTCATTTTACCCTATAGGGGTATTACG
* * *
21200756 GTCATTTTACCTTACAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTACG
* *
21200783 GTCATTTAACCCTAT-GAAGGTATTACG
1 GTCATTTTACCCTATAG-GGGTATTACG
* *
21200810 GTCATATTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* * *
21200837 GTCATTTTACCTTACAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTACG
* * * *
21200864 ATCATATAACCCTATGGGGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* * *
21200891 ATAATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
**
21200918 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTACG
* ***
21200945 GTCATTTTACCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATAGGGGTATTACG
* **
21200972 GTCA-TTTACCCTATAAGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTACG
*
21200998 GTCATTTTACCCTAT-GAGGGTATTTCG
1 GTCATTTTACCCTATAG-GGGTATTACG
* * *
21201025 ATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTACG
*
21201052 GTCATTTTACCCTATGGGGGT
1 GTCATTTTACCCTATAGGGGT
21201073 CTCGCTGTAG
Statistics
Matches: 332, Mismatches: 60, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
26 27 0.08
27 303 0.91
28 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTACG
Found at i:21200748 original size:81 final size:81
Alignment explanation
Indices: 21200649--21201071 Score: 546
Period size: 81 Copynumber: 5.2 Consensus size: 81
21200639 GGGAAAAATA
** * **
21200649 GTCA-TTTACCCTCCAGGGGTATTACAATCATTTTACCTTACAGGGGTATTTCGATCATTTAACC
1 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCTTACAGGGGTATTTCGATCATTTAACC
21200713 CTATGGGGGTATTACG
66 CTATGGGGGTATTACG
* *
21200729 GTCATTTTACCCTATAGGGGCATTACAGTCATTTTACCTTACAGGGGTATTTCGGTCATTTAACC
1 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCTTACAGGGGTATTTCGATCATTTAACC
**
21200794 CTATGAAGGTATTACG
66 CTATGGGGGTATTACG
* *
21200810 GTCATATTACCCTATAGGGGCATTACGGTCATTTTACCTTACAGGGGTATTTCGATCATATAACC
1 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCTTACAGGGGTATTTCGATCATTTAACC
21200875 CTATGGGGGTATTACG
66 CTATGGGGGTATTACG
* * * * * * *
21200891 ATAATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACC
1 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCTTACAGGGGTATTTCGATCATTTAACC
***
21200956 CTATGGGGGTATTTTA
66 CTATGGGGGTATTACG
* * ** * * *
21200972 GTCA-TTTACCCTATAAGGGTATTTTGGTCATTTTACCCTA-TGAGGGTATTTCGATCATTTTAC
1 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCTTACAG-GGGTATTTCGATCATTTAAC
*
21201035 CCTATGGGGGTATTTCG
65 CCTATGGGGGTATTACG
*
21201052 GTCATTTTACCCTATGGGGG
1 GTCATTTTACCCTATAGGGG
21201072 TCTCGCTGTA
Statistics
Matches: 302, Mismatches: 38, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
79 1 0.00
80 73 0.24
81 228 0.75
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (81 bp):
GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCTTACAGGGGTATTTCGATCATTTAACC
CTATGGGGGTATTACG
Found at i:21206461 original size:8 final size:8
Alignment explanation
Indices: 21206445--21206481 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
21206435 AGGTAAGGAG
*
21206445 CACTAAAC
1 CACTTAAC
21206453 CACTTAAC
1 CACTTAAC
21206461 CACTTAAC
1 CACTTAAC
*
21206469 CACTTGAC
1 CACTTAAC
21206477 CACTT
1 CACTT
21206482 CGCTTCTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.35, C:0.38, G:0.03, T:0.24
Consensus pattern (8 bp):
CACTTAAC
Found at i:21208048 original size:12 final size:12
Alignment explanation
Indices: 21208031--21208059 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
21208021 ATATATGAAA
21208031 AAAATTCCTTTC
1 AAAATTCCTTTC
21208043 AAAATTCCTTTC
1 AAAATTCCTTTC
21208055 AAAAT
1 AAAAT
21208060 GTGTGATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAATTCCTTTC
Found at i:21209133 original size:25 final size:25
Alignment explanation
Indices: 21209099--21209163 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
21209089 TTCTCACTCC
*
21209099 AATTTTACCCTAGTAAAGTTTTGAA
1 AATTTTACCCTAGTAAAATTTTGAA
* * *
21209124 AATTTTACCCCAATAAAATTTTGAC
1 AATTTTACCCTAGTAAAATTTTGAA
*
21209149 GATTTTACCCCTAGT
1 AATTTTA-CCCTAGT
21209164 GAACTTTCAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 27 0.84
26 5 0.16
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.38
Consensus pattern (25 bp):
AATTTTACCCTAGTAAAATTTTGAA
Found at i:21218045 original size:30 final size:30
Alignment explanation
Indices: 21218011--21218099 Score: 75
Period size: 30 Copynumber: 3.2 Consensus size: 30
21218001 TTGAATTCTG
21218011 ATTTAGAGTTTTGAGTTGATGCTAATGATT
1 ATTTAGAGTTTTGAGTTGATGCTAATGATT
* * *
21218041 ATTTA-AGATGTGA-TT--TG--AAT-TTT
1 ATTTAGAGTTTTGAGTTGATGCTAATGATT
*
21218064 GATTCAGAGTTTTGAGTTGATGCTAATGATT
1 -ATTTAGAGTTTTGAGTTGATGCTAATGATT
*
21218095 GTTTA
1 ATTTA
21218100 AGATTCAGAG
Statistics
Matches: 42, Mismatches: 9, Indels: 16
0.63 0.13 0.24
Matches are distributed among these distances:
23 2 0.05
24 7 0.17
25 6 0.14
26 4 0.10
28 4 0.10
29 6 0.14
30 11 0.26
31 2 0.05
ACGTcount: A:0.27, C:0.03, G:0.22, T:0.47
Consensus pattern (30 bp):
ATTTAGAGTTTTGAGTTGATGCTAATGATT
Found at i:21218057 original size:54 final size:54
Alignment explanation
Indices: 21217994--21218103 Score: 193
Period size: 54 Copynumber: 2.0 Consensus size: 54
21217984 AACAGACTCA
*
21217994 ATGTGATTTGAATTCTGATTTAGAGTTTTGAGTTGATGCTAATGATTATTTAAG
1 ATGTGATTTGAATTCTGATTCAGAGTTTTGAGTTGATGCTAATGATTATTTAAG
* *
21218048 ATGTGATTTGAATTTTGATTCAGAGTTTTGAGTTGATGCTAATGATTGTTTAAG
1 ATGTGATTTGAATTCTGATTCAGAGTTTTGAGTTGATGCTAATGATTATTTAAG
21218102 AT
1 AT
21218104 TCAGAGGCCG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.27, C:0.04, G:0.23, T:0.46
Consensus pattern (54 bp):
ATGTGATTTGAATTCTGATTCAGAGTTTTGAGTTGATGCTAATGATTATTTAAG
Found at i:21220033 original size:21 final size:20
Alignment explanation
Indices: 21220002--21220043 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
21219992 CCATGCTTTA
*
21220002 ATTTTTGAATTTCA-TGATG
1 ATTTTTGAATTCCATTGATG
21220021 ATTTTGTGAAATTCCATTGATG
1 ATTTT-TG-AATTCCATTGATG
21220043 A
1 A
21220044 ATATTCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 6 0.32
22 6 0.32
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.48
Consensus pattern (20 bp):
ATTTTTGAATTCCATTGATG
Found at i:21226340 original size:40 final size:40
Alignment explanation
Indices: 21226242--21226504 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
21226232 TCCTCGTTCA
* * * * *
21226242 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
21226281 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
21226321 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
21226361 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
21226401 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
21226441 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
21226481 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
21226505 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:21234292 original size:40 final size:40
Alignment explanation
Indices: 21234194--21234456 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
21234184 TCCTCGTTCA
* * * * *
21234194 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
21234233 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
21234273 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
21234313 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
21234353 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
21234393 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
21234433 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
21234457 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:21236434 original size:15 final size:15
Alignment explanation
Indices: 21236414--21236443 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
21236404 TTAATCAAGA
21236414 TGACATAACTGTGTT
1 TGACATAACTGTGTT
21236429 TGACATAACTGTGTT
1 TGACATAACTGTGTT
21236444 AGATTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (15 bp):
TGACATAACTGTGTT
Found at i:21252683 original size:25 final size:25
Alignment explanation
Indices: 21252645--21252714 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
21252635 ATGCCCATTT
*
21252645 TCACAGCTCATGTGAGCATACTTAG
1 TCACAGCTCGTGTGAGCATACTTAG
* *
21252670 TCATAGCTCGTGTGAGCATACTTAT
1 TCACAGCTCGTGTGAGCATACTTAG
* *
21252695 TCACATCTCGTGTCAGCATA
1 TCACAGCTCGTGTGAGCATA
21252715 TATGTAAAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (25 bp):
TCACAGCTCGTGTGAGCATACTTAG
Found at i:21262964 original size:23 final size:22
Alignment explanation
Indices: 21262923--21262965 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
21262913 AACAATACAT
21262923 AATTAATATTTTATATGAATCA
1 AATTAATATTTTATATGAATCA
* *
21262945 AATTCATATATTTATTTGAAT
1 AATTAATAT-TTTATATGAAT
21262966 TATGTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (22 bp):
AATTAATATTTTATATGAATCA
Found at i:21263640 original size:75 final size:75
Alignment explanation
Indices: 21263517--21263664 Score: 296
Period size: 75 Copynumber: 2.0 Consensus size: 75
21263507 CACTACATAG
21263517 ATTGTGGCATACCCAACATCAGTCTTTATAGTACAACCTATTACAGTATATGTTTTGACTGTATC
1 ATTGTGGCATACCCAACATCAGTCTTTATAGTACAACCTATTACAGTATATGTTTTGACTGTATC
21263582 AAAATATAAA
66 AAAATATAAA
21263592 ATTGTGGCATACCCAACATCAGTCTTTATAGTACAACCTATTACAGTATATGTTTTGACTGTATC
1 ATTGTGGCATACCCAACATCAGTCTTTATAGTACAACCTATTACAGTATATGTTTTGACTGTATC
21263657 AAAATATA
66 AAAATATA
21263665 CGACTCACTA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (75 bp):
ATTGTGGCATACCCAACATCAGTCTTTATAGTACAACCTATTACAGTATATGTTTTGACTGTATC
AAAATATAAA
Found at i:21266385 original size:79 final size:81
Alignment explanation
Indices: 21266283--21266467 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
21266273 GCTCCTCGTT
* * *
21266283 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
21266346 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
21266363 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
21266427 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
21266443 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21266468 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:21266467 original size:40 final size:40
Alignment explanation
Indices: 21266283--21266467 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
21266273 GCTCCTCGTT
* *
21266283 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
21266323 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
21266363 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
21266402 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
21266443 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21266468 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:21268425 original size:18 final size:18
Alignment explanation
Indices: 21268382--21268418 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
21268372 AAAACTTATT
21268382 TAAATCATT-TAAAAAGTA
1 TAAAT-ATTATAAAAAGTA
21268400 TAAATATTATAAAAA-TA
1 TAAATATTATAAAAAGTA
21268417 TA
1 TA
21268419 TATTATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (18 bp):
TAAATATTATAAAAAGTA
Found at i:21286772 original size:25 final size:25
Alignment explanation
Indices: 21286744--21286795 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
21286734 TTATTTTACT
*
21286744 TTATATTTTACAATAATTCCCATCA
1 TTATATTTTAAAATAATTCCCATCA
21286769 TTATATTTTAAAATAATTCCCATCA
1 TTATATTTTAAAATAATTCCCATCA
21286794 TT
1 TT
21286796 TTAAATGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (25 bp):
TTATATTTTAAAATAATTCCCATCA
Found at i:21287085 original size:27 final size:28
Alignment explanation
Indices: 21287049--21287111 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
21287039 AAAAAATAAT
*
21287049 CAAAATATTAT-AACTTTTTTTATTTAT
1 CAAAATATTATAAACTTTTTTTATTTAC
* *
21287076 CGAAATATTATAAATTTTTTTTATTTAC
1 CAAAATATTATAAACTTTTTTTATTTAC
21287104 CAAAATAT
1 CAAAATAT
21287112 ACCAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 10 0.32
28 21 0.68
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.51
Consensus pattern (28 bp):
CAAAATATTATAAACTTTTTTTATTTAC
Found at i:21287846 original size:18 final size:18
Alignment explanation
Indices: 21287810--21287847 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
21287800 ACCAAAATAG
*
21287810 AGTTTATTAAATGAGAAT
1 AGTTTATTAAATGAAAAT
*
21287828 AGTTTATTAAATTAAAAT
1 AGTTTATTAAATGAAAAT
21287846 AG
1 AG
21287848 AGTTATTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.39
Consensus pattern (18 bp):
AGTTTATTAAATGAAAAT
Found at i:21288182 original size:27 final size:28
Alignment explanation
Indices: 21288151--21288215 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 28
21288141 TTTTTTTTGT
21288151 ATATTTTGGTAAATAAAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
*
21288178 ATATTTTAGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
21288206 ATATTTTGGT
1 ATATTTTGGT
21288216 TAGTTTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 21 0.60
28 14 0.40
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:21292270 original size:33 final size:33
Alignment explanation
Indices: 21292226--21292516 Score: 255
Period size: 33 Copynumber: 8.8 Consensus size: 33
21292216 ACTCTATATA
* * *
21292226 TGTTTATTGTCCCAACAGACTATTTTTGTTATG
1 TGTTTACTGTCCCAACAGACTATCTCTGTTATG
*
21292259 TATTTACTGTCCCAACAGACTATCTCTGTTATG
1 TGTTTACTGTCCCAACAGACTATCTCTGTTATG
* * * * *
21292292 TGTTTACTATCCTAGCGGACTATCTCTGTCATG
1 TGTTTACTGTCCCAACAGACTATCTCTGTTATG
* * * * *
21292325 TGTTTATTATCCTAGCGGACTATC-CTTGTGT-TG
1 TGTTTACTGTCCCAACAGACTATCTC-TGT-TATG
* * * * *
21292358 TGTTTATTGTCCCAACGGGCTATCTCTATTCTG
1 TGTTTACTGTCCCAACAGACTATCTCTGTTATG
* * * *
21292391 TGTTTACTATCACAA-TGAACTATCTCTATTATG
1 TGTTTACTGTCCCAACAG-ACTATCTCTGTTATG
* *
21292424 TGTTTACTGTCCCAGCAGACTATCTCTATTATG
1 TGTTTACTGTCCCAACAGACTATCTCTGTTATG
* * * *
21292457 TGTTTACTGTCCCAATAAACTATCTTTGTTCTG
1 TGTTTACTGTCCCAACAGACTATCTCTGTTATG
* *
21292490 TGTTTACTATCGCAACAGACTATCTCT
1 TGTTTACTGTCCCAACAGACTATCTCT
21292517 ATGGATTCCA
Statistics
Matches: 214, Mismatches: 38, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
32 3 0.01
33 209 0.98
34 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTTTACTGTCCCAACAGACTATCTCTGTTATG
Found at i:21292413 original size:99 final size:99
Alignment explanation
Indices: 21292217--21292518 Score: 283
Period size: 99 Copynumber: 3.1 Consensus size: 99
21292207 TCCCAACAAA
* * * * * * * *
21292217 CTCTAT-ATATGTTTATTGTCCCAACAGACTATTTTTGTTATGTATTTACTGTCCCAACAGACTA
1 CTCTATCATGTGTTTACTATCCCAGCAGACTATCTCTATTATGTGTTTACTGTCCCAACAGACTA
* * *
21292281 TCTCTGTTATGTGTTTACTATCCTAGCGGACTAT
66 TCTCTGTTCTGTGTTTACTATCCTAACGAACTAT
* * * * * * * *
21292315 CTCTGTCATGTGTTTATTATCCTAGCGGACTATC-CT-TGTGTTGTGTTTATTGTCCCAACGGGC
1 CTCTATCATGTGTTTACTATCCCAGCAGACTATCTCTAT-T-ATGTGTTTACTGTCCCAACAGAC
* *
21292378 TATCTCTATTCTGTGTTTACTATCAC-AATGAACTAT
64 TATCTCTGTTCTGTGTTTACTATC-CTAACGAACTAT
* * * *
21292414 CTCTATTATGTGTTTACTGTCCCAGCAGACTATCTCTATTATGTGTTTACTGTCCCAATAAACTA
1 CTCTATCATGTGTTTACTATCCCAGCAGACTATCTCTATTATGTGTTTACTGTCCCAACAGACTA
*
21292479 TCTTTGTTCTGTGTTTACTATCGC-AAC-AGACTAT
66 TCTCTGTTCTGTGTTTACTATC-CTAACGA-ACTAT
21292513 CTCTAT
1 CTCTAT
21292519 GGATTCCATG
Statistics
Matches: 163, Mismatches: 34, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
97 1 0.01
98 8 0.05
99 149 0.91
100 4 0.02
101 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (99 bp):
CTCTATCATGTGTTTACTATCCCAGCAGACTATCTCTATTATGTGTTTACTGTCCCAACAGACTA
TCTCTGTTCTGTGTTTACTATCCTAACGAACTAT
Found at i:21295469 original size:15 final size:16
Alignment explanation
Indices: 21295449--21295482 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
21295439 TCCATTCATA
21295449 CATTTAGA-TAAATTG
1 CATTTAGATTAAATTG
*
21295464 CATTTAGATTTAATTG
1 CATTTAGATTAAATTG
21295480 CAT
1 CAT
21295483 AGGGATCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (16 bp):
CATTTAGATTAAATTG
Found at i:21307474 original size:27 final size:27
Alignment explanation
Indices: 21307456--21307740 Score: 303
Period size: 27 Copynumber: 10.6 Consensus size: 27
21307446 GGGGTATAAC
*
21307456 AGTCATTTTACCCTATA-GGGTATTTC
1 AGTCATTTTACCCTATAGGGGTATTTT
* * * *
21307482 AATC-TTTCTACCTTAT-GGTGTTATTTC
1 AGTCATTT-TACCCTATAGG-GGTATTTT
* *
21307509 GGTCATTTTACCCTATGGGGGTATTTT
1 AGTCATTTTACCCTATAGGGGTATTTT
21307536 -GTTCATTTTACCCTATAGGGGTATTTT
1 AG-TCATTTTACCCTATAGGGGTATTTT
* * * *
21307563 GGTTATTTTACCCTATAGGGATATTTC
1 AGTCATTTTACCCTATAGGGGTATTTT
* *
21307590 GGTCATTTTACCCTATGGGGGTATTTT
1 AGTCATTTTACCCTATAGGGGTATTTT
*
21307617 AGTCATTTTACCCTATGGGGGTATTTT
1 AGTCATTTTACCCTATAGGGGTATTTT
* *
21307644 -GATCATTCTACACTATAGGGGTATTTT
1 AG-TCATTTTACCCTATAGGGGTATTTT
* *
21307671 GGTCATTTTACCCTGTAGGGGTA-TTT
1 AGTCATTTTACCCTATAGGGGTATTTT
*
21307697 CGATCATTTTACCCTATAGGGGTATTTT
1 AG-TCATTTTACCCTATAGGGGTATTTT
*
21307725 AGTCGTTTTACCCTAT
1 AGTCATTTTACCCTAT
21307741 TTTGGGGTCT
Statistics
Matches: 221, Mismatches: 27, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
25 3 0.01
26 17 0.08
27 190 0.86
28 11 0.05
ACGTcount: A:0.19, C:0.16, G:0.20, T:0.45
Consensus pattern (27 bp):
AGTCATTTTACCCTATAGGGGTATTTT
Found at i:21307571 original size:54 final size:54
Alignment explanation
Indices: 21307457--21307740 Score: 358
Period size: 54 Copynumber: 5.3 Consensus size: 54
21307447 GGGTATAACA
* * * *
21307457 GTCATTTTACCCTATA-GGGTATTTCAATC-TTTCTACCTTAT-GGTGTTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCGATCATTT-TACCCTATAGG-GGTATTTTG
* * *
21307510 GTCATTTTACCCTATGGGGGTATTTTGTTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTG
* * * * *
21307564 GTTATTTTACCCTATAGGGATATTTCGGTCATTTTACCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTG
* * * *
21307618 GTCATTTTACCCTATGGGGGTATTTTGATCATTCTACACTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTG
* *
21307672 GTCATTTTACCCTGTAGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTA
1 GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTG
*
21307726 GTCGTTTTACCCTAT
1 GTCATTTTACCCTAT
21307741 TTTGGGGTCT
Statistics
Matches: 197, Mismatches: 31, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
53 15 0.08
54 177 0.90
55 5 0.03
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.45
Consensus pattern (54 bp):
GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTG
Found at i:21307600 original size:81 final size:80
Alignment explanation
Indices: 21307457--21307740 Score: 349
Period size: 81 Copynumber: 3.5 Consensus size: 80
21307447 GGGTATAACA
*** * *
21307457 GTCATTTTACCCTATA-GGGTATTTCAATC-TTTCTACCTTAT-GGTGTTATTTCGGTCATTTTA
1 GTCATTTTACCCTATAGGGGTATTTTGGTCATTT-TACCCTATAGG-GATATTTCGGTCATTTTA
21307519 CCCTATGGGGGTATTTT
64 CCCTATGGGGGTATTTT
*
21307536 GTTCATTTTACCCTATAGGGGTATTTTGGTTATTTTACCCTATAGGGATATTTCGGTCATTTTAC
1 G-TCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATAGGGATATTTCGGTCATTTTAC
21307601 CCTATGGGGGTATTTT
65 CCTATGGGGGTATTTT
* * * * * *
21307617 AGTCATTTTACCCTATGGGGGTATTTTGATCATTCTACACTATAGGGGTATTTTGGTCATTTTAC
1 -GTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATAGGGATATTTCGGTCATTTTAC
* * *
21307682 CCTGTAGGGGTATTTC
65 CCTATGGGGGTATTTT
* *
21307698 GATCATTTTACCCTATAGGGGTATTTTAGTCGTTTTACCCTAT
1 G-TCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTAT
21307741 TTTGGGGTCT
Statistics
Matches: 177, Mismatches: 22, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
79 1 0.01
80 16 0.09
81 154 0.87
82 6 0.03
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.45
Consensus pattern (80 bp):
GTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATAGGGATATTTCGGTCATTTTACC
CTATGGGGGTATTTT
Found at i:21319149 original size:64 final size:64
Alignment explanation
Indices: 21319048--21319198 Score: 266
Period size: 64 Copynumber: 2.4 Consensus size: 64
21319038 ATAGAAATGT
* *
21319048 CATTTTCTGATTCATTATTGTTGGAAACCCGATTTGTGTCGTAAGTTTAGATGTAGTATGCTGC
1 CATTTTCTGATTCATTATTGTTGGAAACCCGATTTGTGCCGTAAGTTTAGATGTAGTATGCTAC
* *
21319112 CATTTTCTAATTCATTATTGTTGGAAACCTGATTTGTGCCGTAAGTTTAGATGTAGTATGCTAC
1 CATTTTCTGATTCATTATTGTTGGAAACCCGATTTGTGCCGTAAGTTTAGATGTAGTATGCTAC
21319176 CATTTTCTGATTCATTATTGTTG
1 CATTTTCTGATTCATTATTGTTG
21319199 AGTATGTGTT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 82 1.00
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (64 bp):
CATTTTCTGATTCATTATTGTTGGAAACCCGATTTGTGCCGTAAGTTTAGATGTAGTATGCTAC
Found at i:21325621 original size:25 final size:25
Alignment explanation
Indices: 21325593--21325640 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
21325583 ACAGCTCGTG
* * *
21325593 AGAGCATACTGATTTATAGCTTGTT
1 AGAGCAGACCGATCTATAGCTTGTT
21325618 AGAGCAGACCGATCTATAGCTTG
1 AGAGCAGACCGATCTATAGCTTG
21325641 AGTGAGCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (25 bp):
AGAGCAGACCGATCTATAGCTTGTT
Found at i:21336083 original size:26 final size:26
Alignment explanation
Indices: 21336054--21336115 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
21336044 TACCTACACT
*
21336054 AGTTTTAGAATATCATAAAATATATC
1 AGTTTCAGAATATCATAAAATATATC
** *
21336080 AGTTTCAGAATATCATAGCATGTATC
1 AGTTTCAGAATATCATAAAATATATC
21336106 AGTTTCAGAA
1 AGTTTCAGAA
21336116 CACTTACAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (26 bp):
AGTTTCAGAATATCATAAAATATATC
Found at i:21336443 original size:16 final size:16
Alignment explanation
Indices: 21336422--21336458 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
21336412 ATGTTATGAT
21336422 CCATTTTTAATGTAAC
1 CCATTTTTAATGTAAC
21336438 CCATTTTTAATGTAAC
1 CCATTTTTAATGTAAC
21336454 CCATT
1 CCATT
21336459 CAAAGTTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.22, G:0.05, T:0.43
Consensus pattern (16 bp):
CCATTTTTAATGTAAC
Found at i:21340435 original size:9 final size:8
Alignment explanation
Indices: 21340420--21340446 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
21340410 GAAGTCAAAA
21340420 ATTTTTTT
1 ATTTTTTT
21340428 ATTTTTTT
1 ATTTTTTT
21340436 ATTTTTTT
1 ATTTTTTT
21340444 ATT
1 ATT
21340447 ACCTACAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
ATTTTTTT
Found at i:21341681 original size:25 final size:25
Alignment explanation
Indices: 21341628--21341681 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
21341618 CGACCCACAT
* * **
21341628 CTCGTGAGAGCATACTGATTTGTAA
1 CTCGTGAAAGCATACTGATCTACAA
*
21341653 CTCGTGAAAGCATACTGATCTACAG
1 CTCGTGAAAGCATACTGATCTACAA
21341678 CTCG
1 CTCG
21341682 AGTGAGCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (25 bp):
CTCGTGAAAGCATACTGATCTACAA
Found at i:21349687 original size:17 final size:15
Alignment explanation
Indices: 21349665--21349698 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
21349655 TTTTAAATAA
21349665 TTTTAAAACAAATTATT
1 TTTTAAAA-AAATT-TT
21349682 TTTTAAAAAAATTTT
1 TTTTAAAAAAATTTT
21349697 TT
1 TT
21349699 ATACCGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 5 0.29
17 8 0.47
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTAAAAAAATTTT
Found at i:21351496 original size:18 final size:18
Alignment explanation
Indices: 21351469--21351508 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
21351459 CAGGTGCGTT
*
21351469 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
21351487 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
21351505 TCCT
1 TCCT
21351509 TTTCCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:21351973 original size:32 final size:31
Alignment explanation
Indices: 21351937--21352022 Score: 121
Period size: 25 Copynumber: 2.9 Consensus size: 31
21351927 TATTTTGATA
21351937 TTATTTGATGTAATAAAATAGAATTTTTTGT
1 TTATTTGATGTAATAAAATAGAATTTTTTGT
21351968 GTTATTTGATGTAATAAAATAGAA------GT
1 -TTATTTGATGTAATAAAATAGAATTTTTTGT
21351994 TTATTTGATGTAATAAAATAGAATTTTTT
1 TTATTTGATGTAATAAAATAGAATTTTTT
21352023 TTGAGTTATT
Statistics
Matches: 48, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
25 23 0.48
26 2 0.04
32 23 0.48
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (31 bp):
TTATTTGATGTAATAAAATAGAATTTTTTGT
Found at i:21351997 original size:25 final size:24
Alignment explanation
Indices: 21351969--21352120 Score: 170
Period size: 25 Copynumber: 6.3 Consensus size: 24
21351959 ATTTTTTGTG
21351969 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAA-T
21351994 TTATTTGATGTAATAAAATAGAATT
1 TTATTTGATGTAATAAAATAGAA-T
* ** *
21352019 TTTTTTGA-GT--T-ATTTTG-AT
1 TTATTTGATGTAATAAAATAGAAT
21352038 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAA-T
*
21352064 TTATTTGATGTAATAAAATATAATT
1 TTATTTGATGTAATAAAATAGAA-T
21352089 TTATTTGATGTAATAAAATAGAAT
1 TTATTTGATGTAATAAAATAGAAT
*
21352113 TTTTTTGA
1 TTATTTGA
21352121 GTTATTTTGA
Statistics
Matches: 107, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
19 1 0.01
20 8 0.07
21 5 0.05
22 1 0.01
23 1 0.01
24 13 0.12
25 77 0.72
26 1 0.01
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.47
Consensus pattern (24 bp):
TTATTTGATGTAATAAAATAGAAT
Found at i:21352058 original size:45 final size:44
Alignment explanation
Indices: 21351994--21352148 Score: 202
Period size: 45 Copynumber: 3.4 Consensus size: 44
21351984 AAATAGAAGT
21351994 TTATTTGATGTAATAAAATAGAATTTTTTTTGAGTTATTTTGATA
1 TTATTTGATGTAATAAAATAGAA-TTTTTTTGAGTTATTTTGATA
* * * * *
21352039 TTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATATAATT
1 TTATTTGATGTAATAAAATAGAA-TTTTTTTGA-GT--T--ATTTTGATA
21352089 TTATTTGATGTAATAAAATAGAATTTTTTTGAGTTATTTTGATA
1 TTATTTGATGTAATAAAATAGAATTTTTTTGAGTTATTTTGATA
21352133 TTATTTGATGTAATAA
1 TTATTTGATGTAATAA
21352149 CATGAGCTTA
Statistics
Matches: 94, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
44 21 0.22
45 31 0.33
46 3 0.03
48 3 0.03
49 8 0.09
50 28 0.30
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (44 bp):
TTATTTGATGTAATAAAATAGAATTTTTTTGAGTTATTTTGATA
Found at i:21352100 original size:95 final size:96
Alignment explanation
Indices: 21351927--21352148 Score: 358
Period size: 95 Copynumber: 2.3 Consensus size: 96
21351917 ATATTTTGAA
21351927 TATTTTGATATTATTTGATGTAATAAAATAGAATTTTTTGTGTTATTTGATGTAATAAAATAGAA
1 TATTTTGATATTATTTGATGTAATAAAATAGAA-----TGTGTTATTTGATGTAATAAAATAGAA
21351992 GTTTATTTGATGTAATAAAATAGAATTTTTTTTGAGT
61 GTTTATTTGATGTAATAAAATAGAA-TTTTTTTGAGT
* *
21352029 TATTTTGATATTATTTGATGTAATAAAATAGAA-GT-TTATTTGATGTAATAAAATATAATTTTA
1 TATTTTGATATTATTTGATGTAATAAAATAGAATGTGTTATTTGATGTAATAAAATAGAAGTTTA
21352092 TTTGATGTAATAAAATAGAATTTTTTTGAGT
66 TTTGATGTAATAAAATAGAATTTTTTTGAGT
21352123 TATTTTGATATTATTTGATGTAATAA
1 TATTTTGATATTATTTGATGTAATAA
21352149 CATGAGCTTA
Statistics
Matches: 118, Mismatches: 2, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
94 37 0.31
95 46 0.39
96 2 0.02
102 33 0.28
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (96 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAATGTGTTATTTGATGTAATAAAATAGAAGTTTA
TTTGATGTAATAAAATAGAATTTTTTTGAGT
Found at i:21352190 original size:64 final size:64
Alignment explanation
Indices: 21352111--21352366 Score: 469
Period size: 64 Copynumber: 4.0 Consensus size: 64
21352101 ATAAAATAGA
21352111 ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACATGAGCTTAATTAATTTGTACAAAT
1 ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACATGAGCTTAATTAATTTGTACAAAT
* *
21352175 ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATGAGCTTAATTAATTTGTTCAAAT
1 ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACATGAGCTTAATTAATTTGTACAAAT
*
21352239 ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACATGAGCTTAATTACTTTGTACAAAT
1 ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACATGAGCTTAATTAATTTGTACAAAT
*
21352303 A-TTTTTTGAGTTATTTTGATATTTTTTGATGTAATAACATGAGCTTAATTAATTTGTACAAAT
1 ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACATGAGCTTAATTAATTTGTACAAAT
21352366 A
1 A
21352367 ATTGAAAAAT
Statistics
Matches: 185, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
63 61 0.33
64 124 0.67
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.50
Consensus pattern (64 bp):
ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACATGAGCTTAATTAATTTGTACAAAT
Found at i:21355543 original size:97 final size:97
Alignment explanation
Indices: 21355377--21355561 Score: 343
Period size: 97 Copynumber: 1.9 Consensus size: 97
21355367 CCCAAACATG
* *
21355377 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
21355442 TAGAAGCGATTTTATACTATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTCTTCCATGAC
*
21355474 CTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
21355539 TAGAAGCGATTTTATACTATTTC
66 TAGAAGCGATTTTATACTATTTC
21355562 CTCAGAAATG
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 85 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (97 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
TAGAAGCGATTTTATACTATTTCTTCCATGAC
Found at i:21355681 original size:125 final size:125
Alignment explanation
Indices: 21355459--21355700 Score: 430
Period size: 125 Copynumber: 1.9 Consensus size: 125
21355449 GATTTTATAC
* * *
21355459 TATTTCTTCCATGACCTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCT
1 TATTTCTTCCATGACCTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCAAAAATTCTTCT
* *
21355524 CAAATAGCATCCAGCTAGAAGCGATTTTATACTATTTCCTCAGAAATGTCAAAAAAAAAT
66 CAAATAGCATCCAGCTAGAAGCGATTTTATACTATTTCATCAGAAACGTCAAAAAAAAAT
21355584 TATTTCTTCCATGACCTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCAAAAATTCTTCT
1 TATTTCTTCCATGACCTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCAAAAATTCTTCT
*
21355649 CAAATAGCATCCAGCTAGAAGCGATTTTATACTATTTGATCAGAAACGTCAA
66 CAAATAGCATCCAGCTAGAAGCGATTTTATACTATTTCATCAGAAACGTCAA
21355701 CTCGAAATAT
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
125 111 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (125 bp):
TATTTCTTCCATGACCTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCAAAAATTCTTCT
CAAATAGCATCCAGCTAGAAGCGATTTTATACTATTTCATCAGAAACGTCAAAAAAAAAT
Found at i:21355772 original size:23 final size:23
Alignment explanation
Indices: 21355727--21355773 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
21355717 CAGGACCTAA
**
21355727 AAACCCTAAAATGCCTGAAACCT
1 AAACCCTAAAATGCCAAAAACCT
21355750 AAACCCTAAAA-GCCAAAACACCT
1 AAACCCTAAAATGCCAAAA-ACCT
21355773 A
1 A
21355774 CCGTGGGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.49, C:0.32, G:0.06, T:0.13
Consensus pattern (23 bp):
AAACCCTAAAATGCCAAAAACCT
Found at i:21356043 original size:11 final size:11
Alignment explanation
Indices: 21356027--21356071 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
21356017 GCTCAACTTT
21356027 TTTAATAATTA
1 TTTAATAATTA
*
21356038 TTTAATAA-CA
1 TTTAATAATTA
21356048 TTT-ATAATTA
1 TTTAATAATTA
21356058 TTTAATAATT-
1 TTTAATAATTA
21356068 TTTA
1 TTTA
21356072 GTATTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 4 0.13
10 12 0.40
11 14 0.47
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTAATAATTA
Done.