Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 106 of 322
Found at i:34405247 original size:46 final size:46
Alignment explanation
Indices: 34405198--34405548 Score: 285
Period size: 46 Copynumber: 7.6 Consensus size: 46
34405188 TTGGGCATCT
*
34405198 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * *
34405244 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCC
* * * *
34405291 GAGCTCGTTGAATTGAGTCCGATTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * *
34405337 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCC
* * * *
34405384 GAGCTCGTTGAATTGAGTCCGATTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * *
34405430 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCC
* * * *
34405477 GAGCTCGTTGAATTGAGTCCGATTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
34405523 GAACTCGTTGAGTTGAGTCCGAGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTC
34405549 GTGAGATGTA
Statistics
Matches: 236, Mismatches: 42, Indels: 54
0.71 0.13 0.16
Matches are distributed among these distances:
42 7 0.03
43 12 0.05
45 9 0.04
46 104 0.44
47 77 0.33
48 9 0.04
50 12 0.05
51 6 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
Found at i:34405301 original size:93 final size:93
Alignment explanation
Indices: 34405191--34405603 Score: 736
Period size: 93 Copynumber: 4.4 Consensus size: 93
34405181 CGGATATTTG
* * * * * *
34405191 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAATTGAGTCCGATTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
34405256 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
34405284 GGCATCCGAGCTCGTTGAATTGAGTCCGATTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAATTGAGTCCGATTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
34405349 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
34405377 GGCATCCGAGCTCGTTGAATTGAGTCCGATTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAATTGAGTCCGATTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
34405442 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
34405470 GGCATCCGAGCTCGTTGAATTGAGTCCGATTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAATTGAGTCCGATTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
34405535 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
34405563 GGCATCCGAGCTCGTTGAGTTGAGTCCTAATTCGCTTATGG
1 GGCATCCGAGCTCGTTGAATTGAGTCCGATTTCACTTATGG
34405604 GCGGGTTACA
Statistics
Matches: 310, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 310 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAATTGAGTCCGATTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:34405393 original size:47 final size:47
Alignment explanation
Indices: 34405247--34405589 Score: 311
Period size: 47 Copynumber: 7.4 Consensus size: 47
34405237 AACGTCTGAA
34405247 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
* * * * * *
34405294 CTCGTTGAATTGAGTCCGATTTCACTTATGGATGCGAA-T--G--TCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCGAG
34405340 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
* * * * * *
34405387 CTCGTTGAATTGAGTCCGATTTCACTTATGGATGCGAA-T--G--TCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCGAG
34405433 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
* * * * * *
34405480 CTCGTTGAATTGAGTCCGATTTCACTTATGGATGCGAA-T--G--TCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCGAG
34405526 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
34405573 CTCGTTGAGTTGAGTCC
1 CTCGTTGAGTTGAGTCC
34405590 TAATTCGCTT
Statistics
Matches: 233, Mismatches: 36, Indels: 54
0.72 0.11 0.17
Matches are distributed among these distances:
42 6 0.03
43 15 0.06
45 9 0.04
46 78 0.33
47 95 0.41
48 9 0.04
50 15 0.06
51 6 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
Found at i:34407988 original size:16 final size:15
Alignment explanation
Indices: 34407960--34408021 Score: 58
Period size: 16 Copynumber: 4.1 Consensus size: 15
34407950 AATAATAAAT
34407960 AAATAAATAAAATGA
1 AAATAAATAAAATGA
34407975 AAATAAATTAAAATGA
1 AAATAAA-TAAAATGA
**
34407991 ATGTATAATAAAA-GA
1 AAATA-AATAAAATGA
34408006 AAGA-AAA-AAAATGA
1 AA-ATAAATAAAATGA
34408020 AA
1 AA
34408022 GTGGAGGCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
13 4 0.10
14 6 0.15
15 11 0.28
16 16 0.41
17 2 0.05
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (15 bp):
AAATAAATAAAATGA
Found at i:34408791 original size:25 final size:25
Alignment explanation
Indices: 34408743--34408791 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
34408733 CATAACTGAA
* * *
34408743 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
34408768 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
34408792 GTGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:34415300 original size:15 final size:16
Alignment explanation
Indices: 34415282--34415312 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34415272 TTAAAAAAGC
34415282 TTCA-TGAATAAAAAA
1 TTCATTGAATAAAAAA
34415297 TTCATTGAATAAAAAA
1 TTCATTGAATAAAAAA
34415313 ATATATCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (16 bp):
TTCATTGAATAAAAAA
Found at i:34417342 original size:22 final size:22
Alignment explanation
Indices: 34417300--34417342 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
34417290 TTTTTTTATG
* *
34417300 TTTATTTTCTTTTAGTTAAATA
1 TTTATTTTATTTTAGTCAAATA
34417322 TTTATTTTATTTATA-TCAAAT
1 TTTATTTTATTT-TAGTCAAAT
34417343 TTTCAAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTATTTTATTTTAGTCAAATA
Found at i:34417699 original size:11 final size:11
Alignment explanation
Indices: 34417661--34417704 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 11
34417651 ATATTATTTT
34417661 AAATTAATTAA
1 AAATTAATTAA
34417672 AAATATAAGATTTAA
1 AAAT-T-A-A-TTAA
34417687 AAATTAATTAA
1 AAATTAATTAA
34417698 AAATTAA
1 AAATTAA
34417705 ACATGTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 15 0.52
12 2 0.07
13 2 0.07
14 2 0.07
15 8 0.28
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (11 bp):
AAATTAATTAA
Found at i:34417713 original size:26 final size:26
Alignment explanation
Indices: 34417661--34417714 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
34417651 ATATTATTTT
* *
34417661 AAATTAATTAAAAATATAAGATTTAA
1 AAATTAATTAAAAATATAACATGTAA
34417687 AAATTAATTAAAAAT-TAAACATGTAA
1 AAATTAATTAAAAATAT-AACATGTAA
34417713 AA
1 AA
34417715 CTACATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 24 0.96
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (26 bp):
AAATTAATTAAAAATATAACATGTAA
Found at i:34419911 original size:8 final size:8
Alignment explanation
Indices: 34419898--34419937 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
34419888 GAGCGTACTC
34419898 TTTTTTAT
1 TTTTTTAT
34419906 TTTTTTAT
1 TTTTTTAT
*
34419914 TTTTATGAT
1 TTTT-TTAT
34419923 TTTTTTAT
1 TTTTTTAT
34419931 CTTTTTT
1 -TTTTTT
34419938 TAAAAAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 15 0.54
9 13 0.46
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (8 bp):
TTTTTTAT
Found at i:34423391 original size:32 final size:33
Alignment explanation
Indices: 34423332--34423443 Score: 120
Period size: 33 Copynumber: 3.4 Consensus size: 33
34423322 GTATTATTGC
* * **
34423332 TTACTGATACTGTGATGGGCTAAGGCCCTACTG
1 TTACTGTTACTGAGATAAGCTAAGGCCCTACTG
*
34423365 TTACTGTTACTGA-ATAAGCTAAGGCCCTACTAC
1 TTACTGTTACTGAGATAAGCTAAGGCCCTACT-G
* *
34423398 TTAC-GGTACTGAGATGAGCTAAGGCCCATACTG
1 TTACTGTTACTGAGATAAGCTAAGGCCC-TACTG
*
34423431 GTACTGTTACTGA
1 TTACTGTTACTGA
34423444 TACTAAAAAG
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
32 23 0.35
33 31 0.48
34 11 0.17
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (33 bp):
TTACTGTTACTGAGATAAGCTAAGGCCCTACTG
Found at i:34424132 original size:45 final size:44
Alignment explanation
Indices: 34424041--34424147 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 44
34424031 TTACATTAAT
* * * *
34424041 TTCAGGGAGATAAGGTTTGTAGCATTAATATGCTCTACTGCAAC
1 TTCAGAGAGATAAGATTTGTAGCATTAATATGCTCCACAGCAAC
* *
34424085 TTCAGAGAGATAAGATTTGCTATC-TTCAATCTGCTCCACAGCAAC
1 TTCAGAGAGATAAGATTTG-TAGCATT-AATATGCTCCACAGCAAC
34424130 TTCAGAGAGATAAGATTT
1 TTCAGAGAGATAAGATTT
34424148 ACCATGATAA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
44 19 0.35
45 36 0.65
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.31
Consensus pattern (44 bp):
TTCAGAGAGATAAGATTTGTAGCATTAATATGCTCCACAGCAAC
Found at i:34427106 original size:44 final size:42
Alignment explanation
Indices: 34427057--34427211 Score: 181
Period size: 43 Copynumber: 3.6 Consensus size: 42
34427047 TATTCTCGTT
*
34427057 TAAGACCACGTTTGGGACATTGGCATCGACTTATGATTTACGTG
1 TAAGACCACGTCTGGGACATTGGCATCGA-TT-TGATTTACGTG
34427101 TAAGACCACGTCTGGGACATTGGCATCGTATTTGATTT-CGTG
1 TAAGACCACGTCTGGGACATTGGCATCG-ATTTGATTTACGTG
* * * * *
34427143 TAAGACC-CTGTCTCGGATAGTGGCATCAATATTTGA-TTACATG
1 TAAGACCAC-GTCTGGGACATTGGCATC--GATTTGATTTACGTG
34427186 TAAGACCACGTCTGGGACATTGGCAT
1 TAAGACCACGTCTGGGACATTGGCAT
34427212 TGTGCCAGCT
Statistics
Matches: 96, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 28 0.29
43 36 0.38
44 30 0.31
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TAAGACCACGTCTGGGACATTGGCATCGATTTGATTTACGTG
Found at i:34434018 original size:9 final size:9
Alignment explanation
Indices: 34434004--34434028 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
34433994 GACTAAAATG
34434004 TGAAATAAA
1 TGAAATAAA
34434013 TGAAATAAA
1 TGAAATAAA
34434022 TGAAATA
1 TGAAATA
34434029 TGTGGGCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (9 bp):
TGAAATAAA
Found at i:34434616 original size:42 final size:43
Alignment explanation
Indices: 34434514--34434670 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
34434504 TGTGTTCTCG
* * * *
34434514 TGTAAGACCACGTATGGGATGTTGGCATCGACT-TATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TATCTGA-TTACA
* * *
34434558 TGTAAGACCACATCTGGGACGTTGGCATCG-TATCTGATTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATCTGATTACA
* *
34434600 TGTAAGAACC-TGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAG-ACCACGTCTGGGAC-GTTGGCATCGATATCTGATTACA
*
34434643 TGTAAGACCACGTCTGGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
34434671 TGTACCAGCT
Statistics
Matches: 95, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
42 31 0.33
43 37 0.39
44 27 0.28
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATCTGATTACA
Found at i:34441892 original size:13 final size:13
Alignment explanation
Indices: 34441874--34441899 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34441864 CAACTAGAAC
34441874 AAAAATAAAATAA
1 AAAAATAAAATAA
34441887 AAAAATAAAATAA
1 AAAAATAAAATAA
34441900 CGATGACGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATAAAATAA
Found at i:34444783 original size:39 final size:39
Alignment explanation
Indices: 34444733--34445004 Score: 436
Period size: 39 Copynumber: 7.0 Consensus size: 39
34444723 ATTATATTAT
* *
34444733 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
34444772 CAGCATGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
34444811 CAGCACGAAGCCTGCGGGAATTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
34444850 CAGCACGAAGCCTGCGGGACTTTAGTCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
34444889 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
34444928 CAACACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
34444967 CAGAACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
34445005 TCAGTGTCTT
Statistics
Matches: 216, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 216 1.00
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:34447245 original size:16 final size:15
Alignment explanation
Indices: 34447219--34447248 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
34447209 GACTCTGGAC
34447219 TATTTTTATTTTATA
1 TATTTTTATTTTATA
34447234 TATTTATTATTTTAT
1 TATTT-TTATTTTAT
34447249 TTTGGGCAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTTTTATTTTATA
Found at i:34448656 original size:15 final size:17
Alignment explanation
Indices: 34448636--34448667 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
34448626 ACCACATTAA
34448636 CAAAAA-TAAAA-ATTT
1 CAAAAAGTAAAATATTT
34448651 CAAAAAGTAAAATATTT
1 CAAAAAGTAAAATATTT
34448668 TAAATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.28
Consensus pattern (17 bp):
CAAAAAGTAAAATATTT
Found at i:34449116 original size:9 final size:9
Alignment explanation
Indices: 34449104--34449164 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 9
34449094 AAAAATTATT
34449104 TTTTATAAA
1 TTTTATAAA
34449113 TTTTATAAAA
1 TTTTAT-AAA
*
34449123 TTTTAT-GA
1 TTTTATAAA
*
34449131 TTTTAATGAA
1 TTTT-ATAAA
34449141 TTTCTA-ATAA
1 TTT-TATA-AA
34449151 TTTTATAAA
1 TTTTATAAA
34449160 TTTTA
1 TTTTA
34449165 ATTTTTTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
8 5 0.12
9 17 0.40
10 20 0.47
11 1 0.02
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (9 bp):
TTTTATAAA
Found at i:34449135 original size:18 final size:19
Alignment explanation
Indices: 34449112--34449193 Score: 57
Period size: 18 Copynumber: 4.5 Consensus size: 19
34449102 TTTTTTATAA
34449112 ATTTTATAAAATTTT-ATG
1 ATTTTATAAAATTTTAATG
* *
34449130 ATTTTA-ATGAATTTCTAATA
1 ATTTTATA-AAATTT-TAATG
34449150 ATTTTAT-AAATTTTAAT-
1 ATTTTATAAAATTTTAATG
* * *
34449167 TTTTTAT-AATTTTTTATG
1 ATTTTATAAAATTTTAATG
*
34449185 CTTTTATAA
1 ATTTTATAA
34449194 TTCTAGAATG
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
17 15 0.29
18 21 0.41
19 7 0.14
20 8 0.16
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (19 bp):
ATTTTATAAAATTTTAATG
Found at i:34449176 original size:28 final size:28
Alignment explanation
Indices: 34449112--34449176 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
34449102 TTTTTTATAA
*
34449112 ATTTTATAA-AATTTTATGATTTTAATG
1 ATTTTATAATAATTTTATAATTTTAATG
* *
34449139 AATTTCTAATAATTTTATAAATTTTAAT-
1 ATTTTATAATAATTTTAT-AATTTTAATG
*
34449167 TTTTTATAAT
1 ATTTTATAAT
34449177 TTTTTATGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 7 0.23
28 15 0.50
29 8 0.27
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (28 bp):
ATTTTATAATAATTTTATAATTTTAATG
Found at i:34449179 original size:9 final size:9
Alignment explanation
Indices: 34449103--34449180 Score: 52
Period size: 9 Copynumber: 8.6 Consensus size: 9
34449093 AAAAAATTAT
34449103 TTTTTATAA
1 TTTTTATAA
*
34449112 ATTTTATAAA
1 TTTTTAT-AA
* *
34449122 ATTTTATGA
1 TTTTTATAA
*
34449131 TTTTAATGAA
1 TTTTTAT-AA
*
34449141 TTTCTAATAA
1 TTT-TTATAA
34449151 -TTTTATAA
1 TTTTTATAA
* *
34449159 ATTTTA-AT
1 TTTTTATAA
34449167 TTTTTATAA
1 TTTTTATAA
34449176 TTTTT
1 TTTTT
34449181 TATGCTTTTA
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
8 11 0.20
9 25 0.45
10 15 0.27
11 4 0.07
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:34449180 original size:17 final size:18
Alignment explanation
Indices: 34449151--34449195 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
34449141 TTTCTAATAA
* *
34449151 TTTTATAAATTTTAAT-T
1 TTTTATAATTTTTAATGC
*
34449168 TTTTATAATTTTTTATGC
1 TTTTATAATTTTTAATGC
34449186 TTTTATAATT
1 TTTTATAATT
34449196 CTAGAATGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATAATTTTTAATGC
Found at i:34449751 original size:20 final size:21
Alignment explanation
Indices: 34449720--34449763 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
34449710 TCATTCATAA
*
34449720 TATTATAAAAAATTATAAAAT
1 TATTATAAAAAATAATAAAAT
*
34449741 TATTA-AAAAAATAATTAAAT
1 TATTATAAAAAATAATAAAAT
34449761 TAT
1 TAT
34449764 AAGAATTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TATTATAAAAAATAATAAAAT
Found at i:34450789 original size:22 final size:23
Alignment explanation
Indices: 34450764--34450809 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
34450754 CAACCAAATC
34450764 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
34450786 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
34450809 A
1 A
34450810 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:34450815 original size:23 final size:23
Alignment explanation
Indices: 34450771--34450815 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
34450761 ATCAATTCAA
*
34450771 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
34450794 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
34450816 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:34455736 original size:26 final size:26
Alignment explanation
Indices: 34455703--34455790 Score: 140
Period size: 26 Copynumber: 3.4 Consensus size: 26
34455693 CCCCACATGG
34455703 CCTGGCACACCCGTATGTCTCACAAA
1 CCTGGCACACCCGTATGTCTCACAAA
*
34455729 CCTGGCACACCTGTATGTCTCACAAA
1 CCTGGCACACCCGTATGTCTCACAAA
* *
34455755 CCTGGCACACCCGTATGTCCCACAAG
1 CCTGGCACACCCGTATGTCTCACAAA
*
34455781 CCTGACACAC
1 CCTGGCACAC
34455791 GCTTGTGTCA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.26, C:0.40, G:0.16, T:0.18
Consensus pattern (26 bp):
CCTGGCACACCCGTATGTCTCACAAA
Found at i:34457194 original size:43 final size:42
Alignment explanation
Indices: 34457084--34457201 Score: 119
Period size: 43 Copynumber: 2.8 Consensus size: 42
34457074 GACTTCTGTT
*
34457084 TTACGTGTAAGACCATGTCTGGGACACCGGCATCGTATCTGA
1 TTACGTGTAAGACCATGTCTAGGACACCGGCATCGTATCTGA
* ** ** * *
34457126 TTTCGTGTAAGACTTTGTCTAGGACAGTGGCATCGATGTTTGA
1 TTACGTGTAAGACCATGTCTAGGACACCGGCATCG-TATCTGA
* * * *
34457169 TTACATGTAAGACCACGTCTTGGACATCGGCAT
1 TTACGTGTAAGACCATGTCTAGGACACCGGCAT
34457202 TGCATATGCT
Statistics
Matches: 59, Mismatches: 16, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
42 29 0.49
43 30 0.51
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTAGGACACCGGCATCGTATCTGA
Found at i:34459657 original size:27 final size:27
Alignment explanation
Indices: 34459619--34459684 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 27
34459609 ACTGTTAGTA
* *
34459619 CATGTACGCGAACACT-CATGCAAACCC
1 CATGTATGCGAACAATCCATGCAAA-CC
34459646 CATGTATGCGAACAATCCATGCAAACC
1 CATGTATGCGAACAATCCATGCAAACC
34459673 CATGTATGCGAA
1 CATGTATGCGAA
34459685 TCCCCTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 28 0.78
28 8 0.22
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.18
Consensus pattern (27 bp):
CATGTATGCGAACAATCCATGCAAACC
Found at i:34459762 original size:23 final size:23
Alignment explanation
Indices: 34459736--34459781 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
34459726 AACCCTTATC
34459736 GATTCAGTATGCGAACATTATAT
1 GATTCAGTATGCGAACATTATAT
* *
34459759 GATTCAGTATGTGAACCTTATAT
1 GATTCAGTATGCGAACATTATAT
34459782 ATGAGAACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (23 bp):
GATTCAGTATGCGAACATTATAT
Found at i:34459813 original size:15 final size:15
Alignment explanation
Indices: 34459795--34459904 Score: 103
Period size: 15 Copynumber: 7.3 Consensus size: 15
34459785 AGAACCAAAT
* *
34459795 ATGTGCGAACCTTGC
1 ATGTGCGAACCCTAC
*
34459810 ATGTGCGAACCCTAT
1 ATGTGCGAACCCTAC
* * **
34459825 ATATGCAAACCCTGT
1 ATGTGCGAACCCTAC
*
34459840 ATGTGCGAACCTTAC
1 ATGTGCGAACCCTAC
* *
34459855 ATGTGTGAACACTAC
1 ATGTGCGAACCCTAC
* * *
34459870 ATGTGTGAACACTAA
1 ATGTGCGAACCCTAC
34459885 ATGTGCGAACCCTAC
1 ATGTGCGAACCCTAC
34459900 ATGTG
1 ATGTG
34459905 AACCTGTTAT
Statistics
Matches: 77, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 77 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (15 bp):
ATGTGCGAACCCTAC
Found at i:34459820 original size:30 final size:30
Alignment explanation
Indices: 34459786--34459850 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
34459776 TTATATATGA
* * *
34459786 GAACCAAATATGTGCGAACCTTGCATGTGC
1 GAACCAAATATATGCAAACCCTGCATGTGC
** *
34459816 GAACCCTATATATGCAAACCCTGTATGTGC
1 GAACCAAATATATGCAAACCCTGCATGTGC
34459846 GAACC
1 GAACC
34459851 TTACATGTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (30 bp):
GAACCAAATATATGCAAACCCTGCATGTGC
Found at i:34459820 original size:45 final size:45
Alignment explanation
Indices: 34459771--34459904 Score: 119
Period size: 45 Copynumber: 3.0 Consensus size: 45
34459761 TTCAGTATGT
* *
34459771 GAACCTTATATATG-AGAACCAAATATGTGCGAACCTTGCATGTGC
1 GAACCCTATATATGCA-AACCAAATATGTGCGAACCTTACATGTGC
*** *
34459816 GAACCCTATATATGCAAACCCTGTATGTGCGAACCTTACATGTGT
1 GAACCCTATATATGCAAACCAAATATGTGCGAACCTTACATGTGC
* * * ** * *
34459861 GAACACTACATGTGTGAACACTAA-ATGTGCGAACCCTACATGTG
1 GAACCCTATATATGCAAAC-CAAATATGTGCGAACCTTACATGTG
34459905 AACCTGTTAT
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
45 70 0.97
46 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (45 bp):
GAACCCTATATATGCAAACCAAATATGTGCGAACCTTACATGTGC
Found at i:34463971 original size:17 final size:17
Alignment explanation
Indices: 34463949--34463986 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
34463939 GCTTATTCTC
*
34463949 TTTTTTTT-GTTTTAGT
1 TTTTTTTTAGTTTTAAT
34463965 TTTTTTTTAGTTTTAAT
1 TTTTTTTTAGTTTTAAT
34463982 TTTTT
1 TTTTT
34463987 AAAAATTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.82
Consensus pattern (17 bp):
TTTTTTTTAGTTTTAAT
Found at i:34464753 original size:21 final size:21
Alignment explanation
Indices: 34464729--34464799 Score: 52
Period size: 21 Copynumber: 3.4 Consensus size: 21
34464719 GTTTTTAGGG
34464729 TTAGGGTTTTGTTAAAATAAT
1 TTAGGGTTTTGTTAAAATAAT
* ** *** ***
34464750 TTAGGCTTAGGTTTGTAGGGT
1 TTAGGGTTTTGTTAAAATAAT
*
34464771 TTAGAGTTTTGTTAAAATAAT
1 TTAGGGTTTTGTTAAAATAAT
34464792 TTAGGGTT
1 TTAGGGTT
34464800 CTAGGTTTTA
Statistics
Matches: 30, Mismatches: 20, Indels: 0
0.60 0.40 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.01, G:0.25, T:0.46
Consensus pattern (21 bp):
TTAGGGTTTTGTTAAAATAAT
Found at i:34464781 original size:42 final size:41
Alignment explanation
Indices: 34464718--34464796 Score: 131
Period size: 42 Copynumber: 1.9 Consensus size: 41
34464708 TTTTGTTTAG
* *
34464718 GGTTTTTAGGGTTAGGGTTTTGTTAAAATAATTTAGGCTTA
1 GGTTTGTAGGGTTAGAGTTTTGTTAAAATAATTTAGGCTTA
34464759 GGTTTGTAGGGTTTAGAGTTTTGTTAAAATAATTTAGG
1 GGTTTGTAGGG-TTAGAGTTTTGTTAAAATAATTTAGG
34464797 GTTCTAGGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
41 10 0.29
42 25 0.71
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (41 bp):
GGTTTGTAGGGTTAGAGTTTTGTTAAAATAATTTAGGCTTA
Found at i:34464926 original size:34 final size:34
Alignment explanation
Indices: 34464848--34464954 Score: 117
Period size: 34 Copynumber: 3.1 Consensus size: 34
34464838 ATGTTTTTTT
****
34464848 AAAATTAATTAAATTAGGGTTT-AGGGGTTTAAA
1 AAAATTAATTAAATTAGGGTTTAATATTTTTAAA
* *
34464881 ATAAATAAATTAAATTAGGGTTTAATATTTTTAAG
1 A-AAATTAATTAAATTAGGGTTTAATATTTTTAAA
* * *
34464916 AAAATTAATTAAATTAAGGTTTAGTTTTTTTAAA
1 AAAATTAATTAAATTAGGGTTTAATATTTTTAAA
34464950 AAAAT
1 AAAAT
34464955 AATAGTATTT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
33 1 0.02
34 53 0.87
35 7 0.11
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (34 bp):
AAAATTAATTAAATTAGGGTTTAATATTTTTAAA
Found at i:34465150 original size:126 final size:126
Alignment explanation
Indices: 34465013--34465657 Score: 1012
Period size: 126 Copynumber: 5.1 Consensus size: 126
34465003 ATTTTGTTTT
* * * * *
34465013 TTTTTCCACAGTAGTTCTTGAAAAAATAATTTTGAGAATACGGTTCTGAACAAATAGTGTTAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTTAAAA
* * *
34465078 ACACTTCAAGTAGGATACATTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGTTC
66 ACACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGTTC
34465139 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTTAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTTAAAA
* * *
34465204 ACACTTCAAGTAGGATACATTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGTTC
66 ACACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGTTC
34465265 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTTAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTTAAAA
*
34465330 ACACTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCTACGTGGACGTTC
66 ACACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGTTC
34465391 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTTAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTTAAAA
* *
34465456 ACACTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTT-
66 ACACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACG-TTC
* * * * *
34465517 TTTTTCTACAGTAGTTCATGAAAAATTAATTTTGAGAAGACAG-TTCTAAACAAAT-GTG-TCAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGAC-GTTTCTGAACAAATAGTGTTAAA
* * * * *
34465579 AACACTTTAAGCAGGATGCACTGTCAGCAAAATTGA-TGACAAAAGCTCCTACGTTGACGCTA
65 AACACTTCAAGCAGGATGCACTGTCAGCAAAATT-ACTGAAAAAAGCTCCTACGTGGACGTTC
34465641 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
34465658 ATATTTGTCC
Statistics
Matches: 494, Mismatches: 21, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
123 1 0.00
124 72 0.15
125 4 0.01
126 414 0.84
127 3 0.01
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTTAAAA
ACACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGTTC
Found at i:34468769 original size:24 final size:22
Alignment explanation
Indices: 34468714--34468769 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 22
34468704 GAAAACTTTT
*
34468714 ATTTTATTAAAATATAAAAATA
1 ATTTTATTAAAATATAAAAACA
34468736 ATTTACTATTAAAATATTAAAAACA
1 ATTT--TATTAAAATA-TAAAAACA
34468761 ACTTTTATT
1 A-TTTTATT
34468770 TTATTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 4 0.14
24 14 0.48
25 8 0.28
26 3 0.10
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTTATTAAAATATAAAAACA
Found at i:34469217 original size:18 final size:18
Alignment explanation
Indices: 34469196--34469230 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34469186 AAAAGGAAAC
*
34469196 ATATAAGGGTTAGGATAT
1 ATATAAGAGTTAGGATAT
34469214 ATATAAGAGTTAGGATA
1 ATATAAGAGTTAGGATA
34469231 CACACTTGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.26, T:0.31
Consensus pattern (18 bp):
ATATAAGAGTTAGGATAT
Found at i:34471023 original size:30 final size:30
Alignment explanation
Indices: 34470989--34471053 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
34470979 ATTAATTAAA
34470989 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
1 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
* *
34471019 GAGAGCTTTGAGAAATTTAGGGAGAAGTTT
1 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
34471049 GAGAG
1 GAGAG
34471054 TTTTTTGCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.37, C:0.03, G:0.32, T:0.28
Consensus pattern (30 bp):
GAGAGCTTTGAGAAATTTAAGGAGAAATTT
Found at i:34472950 original size:13 final size:13
Alignment explanation
Indices: 34472872--34472948 Score: 118
Period size: 13 Copynumber: 5.9 Consensus size: 13
34472862 TAAACCAAAT
34472872 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
34472885 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
*
34472898 TTTTCAAAAGTAC
1 TTTTCAAAAGCAC
34472911 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
34472924 TTTTCAAAAGCAT
1 TTTTCAAAAGCAC
34472937 TTTTCAAAAGCA
1 TTTTCAAAAGCA
34472949 TTGCCAAACT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 57 1.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:34473398 original size:16 final size:16
Alignment explanation
Indices: 34473377--34473410 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
34473367 ACAACTATTT
34473377 TAATATTATTTAAATA
1 TAATATTATTTAAATA
*
34473393 TAATATTATTTTAATA
1 TAATATTATTTAAATA
34473409 TA
1 TA
34473411 TTTTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TAATATTATTTAAATA
Found at i:34479623 original size:150 final size:150
Alignment explanation
Indices: 34479353--34480107 Score: 1343
Period size: 150 Copynumber: 5.0 Consensus size: 150
34479343 TATGCCCAAC
* * *
34479353 GGTAAATCTCGTAAAGGTCTTTTTGTCTGCCATGAAG-AGGGGGAAAGGATATATATCAAAAAGA
1 GGTAAATCTCGTAAAGGTCTTTTTGTCTTCCATGAAGAAGGGGAAAAGGATACATATCAAAAAGA
34479417 GATCATAATAAGGTGGCTTGTCAGCCATGCGAATCGACTCAACATAAAAGGACATATTAGTACTT
66 GATCATAATAAGGTGGCTTGTCAGCCATGCGAATCGACTCAACATAAAAGGACATATTAGTACTT
34479482 AGGGTACTTATTTTATCTAT
131 AGGGTACTTATTTTATCTAT
34479502 GGTAAATCTCGTAAAGGTCTTTTTGTCTTCCATGAAGAAGGGGAAAAGGATACATATCAAAAAGA
1 GGTAAATCTCGTAAAGGTCTTTTTGTCTTCCATGAAGAAGGGGAAAAGGATACATATCAAAAAGA
34479567 GATCATAATAAGGTGGCTTGTCAGCCATGCGAATCGACTCAACATAAAAGGACATATTAGTACTT
66 GATCATAATAAGGTGGCTTGTCAGCCATGCGAATCGACTCAACATAAAAGGACATATTAGTACTT
34479632 AGGGTACTTATTTTATCTAT
131 AGGGTACTTATTTTATCTAT
34479652 GGTAAATCTCGTAAAGGTCTTTTTGTCTTCCATGAAGAAGGGGAAAAGGATACATATCAAAAAGA
1 GGTAAATCTCGTAAAGGTCTTTTTGTCTTCCATGAAGAAGGGGAAAAGGATACATATCAAAAAGA
34479717 GATCATAATAAGGTGGCTTGTCAGCCATGCGAATCGACTCAACATAAAAGGACATATTAGTACTT
66 GATCATAATAAGGTGGCTTGTCAGCCATGCGAATCGACTCAACATAAAAGGACATATTAGTACTT
34479782 AGGGTACTTATTTTATCTAT
131 AGGGTACTTATTTTATCTAT
34479802 GGTAAATCTCGTAAAGGTCTTTTTGTCTTCCATGAAGAAGGGGAAAAGGATACATATCAAAAAGA
1 GGTAAATCTCGTAAAGGTCTTTTTGTCTTCCATGAAGAAGGGGAAAAGGATACATATCAAAAAGA
34479867 GATCATAATAAGGTGGCTTGTCAGCCATGCGAATCGACTCAACATAAAAGGACATATTAGTACTT
66 GATCATAATAAGGTGGCTTGTCAGCCATGCGAATCGACTCAACATAAAAGGACATATTAGTACTT
34479932 AGGGTACTTATTTTATCTAT
131 AGGGTACTTATTTTATCTAT
* * * * *
34479952 GGTAAATCTCGTAAAGGTCTTTTTATCTGCCATGAAGAGGGGGAAAAGGATATATATCAAAAATA
1 GGTAAATCTCGTAAAGGTCTTTTTGTCTTCCATGAAGAAGGGGAAAAGGATACATATCAAAAAGA
* * * ** *
34480017 GATCATAATAAGGTGCCTTGAT-AGCCATGTGAATGGACTCAATGTAAAAGGACATATTAGTATT
66 GATCATAATAAGGTGGCTTG-TCAGCCATGCGAATCGACTCAACATAAAAGGACATATTAGTACT
* *
34480081 TTGGGTGCTTATTTTATCTAT
130 TAGGGTACTTATTTTATCTAT
34480102 GGTAAA
1 GGTAAA
34480108 GAGAGATAAT
Statistics
Matches: 588, Mismatches: 16, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
149 36 0.06
150 551 0.94
151 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (150 bp):
GGTAAATCTCGTAAAGGTCTTTTTGTCTTCCATGAAGAAGGGGAAAAGGATACATATCAAAAAGA
GATCATAATAAGGTGGCTTGTCAGCCATGCGAATCGACTCAACATAAAAGGACATATTAGTACTT
AGGGTACTTATTTTATCTAT
Found at i:34482419 original size:15 final size:14
Alignment explanation
Indices: 34482399--34482436 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
34482389 ATTATGTAAT
*
34482399 ACATATATTTATAAA
1 ACATATATATA-AAA
34482414 ACATATATATAAAA
1 ACATATATATAAAA
34482428 ACA-ATATAT
1 ACATATATAT
34482437 CAAACTTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.27
14 6 0.27
15 10 0.45
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (14 bp):
ACATATATATAAAA
Found at i:34492846 original size:30 final size:30
Alignment explanation
Indices: 34492810--34492876 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
34492800 AGACACGTGG
* *
34492810 CCATGTGGTGTGGCCATGTGTGTCACATGA
1 CCATGTGGTGTGGCCATGTGTGGCACACGA
* *
34492840 CCATGTGGTGTGGCCGTGTGTGGCACGCGA
1 CCATGTGGTGTGGCCATGTGTGGCACACGA
34492870 CCATGTG
1 CCATGTG
34492877 ACAGCCCATG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.13, C:0.22, G:0.37, T:0.27
Consensus pattern (30 bp):
CCATGTGGTGTGGCCATGTGTGGCACACGA
Found at i:34496081 original size:27 final size:27
Alignment explanation
Indices: 34496023--34496499 Score: 241
Period size: 27 Copynumber: 17.7 Consensus size: 27
34496013 TTAGTTTACC
* * * *
34496023 AAATTACTAAAATACCCTCAAATTGTA
1 AAATTACCAAAATACCCTCGATTTATA
*
34496050 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* **** *
34496077 GAATTACCTTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* ****
34496104 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* ***** * *
34496131 GAATTGA-TGTTTTACCCTTGATTTACA
1 AAATT-ACCAAAATACCCTCGATTTATA
* * *** * *
34496158 GAATTACTATTTTACACTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* * * *
34496185 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTATA
*
34496212 AAATTACCAAAATACCCTCGA-TCAGTA
1 AAATTACCAAAATACCCTCGATTTA-TA
* *
34496239 AAATTACCAAAATACCCTAG-TTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* * * *
34496265 AAATTGCTAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
* * *
34496292 AAATTACTAAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* *
34496319 AAATTACCAAAATATCCCTAG-TTTGTA
1 AAATTACCAAAATA-CCCTCGATTTATA
* *
34496346 AAATTACCAAAATACCACT-GGTTT-TG
1 AAATTACCAAAATACC-CTCGATTTATA
* * *
34496372 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
*
34496399 AAATTACCAAAATACCC-CTGATTTACA
1 AAATTACCAAAATACCCTC-GATTTATA
* * * *
34496426 AAGTTACAAAAATACCCTTGACTTTCTAA
1 AAATTACCAAAATACCCTCGA-TTTAT-A
*** * * * *
34496455 AAATTATGGAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTATA
*
34496482 AAATTACTAAAATACCCT
1 AAATTACCAAAATACCCT
34496500 TAGTTTGTAG
Statistics
Matches: 365, Mismatches: 69, Indels: 32
0.78 0.15 0.07
Matches are distributed among these distances:
25 2 0.01
26 44 0.12
27 291 0.80
28 12 0.03
29 16 0.04
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:34496287 original size:80 final size:79
Alignment explanation
Indices: 34496184--34496415 Score: 338
Period size: 80 Copynumber: 2.9 Consensus size: 79
34496174 CTCGATTTAC
* * * **
34496184 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTT-TAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
34496249 AATACCCTAGTTTGT
65 AATACCCTAGTTTGT
* *
34496264 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTT-TAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
34496329 AATATCCCTAGTTTGT
65 AATA-CCCTAGTTTGT
* * * *
34496345 AAAATTACCAAAATACCACTGGTTTTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAA
1 AAAATTACTAAAATACCCCTGGTTTTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAA
34496410 ATACCC
66 ATACCC
34496416 CTGATTTACA
Statistics
Matches: 137, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
79 3 0.02
80 101 0.74
81 33 0.24
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (79 bp):
AAAATTACTAAAATACCCCTGGTTTTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAA
ATACCCTAGTTTGT
Found at i:34496322 original size:107 final size:107
Alignment explanation
Indices: 34496184--34496443 Score: 278
Period size: 107 Copynumber: 2.4 Consensus size: 107
34496174 CTCGATTTAC
*** *
34496184 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGTAAAATTACCA
1 AAAATTACTAAAATACCCTCAATTTACAAAATTACCAAAATATCCCTAG-TCAGTAAAATTACCA
* * **
34496248 AAATACC-CTAGTTTGTAAAATTGCTAAAATACCC-CTGGTTTGT
65 AAATACCACTAGTTT-TAAAATTACCAAAATACCCTC-AATTTGT
** **
34496291 AAAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATATCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCTCAATTTACAAAATTACCAAAATATCCCTAGTCAGTAAAATTACCAA
* * *
34496356 AATACCACTGGTTTTGAAATTACCGAAATACCCTCAATTTGT
66 AATACCACTAGTTTTAAAATTACCAAAATACCCTCAATTTGT
* * * *
34496398 AAAATTACCAAAATACCC-CTGATTTACAAAGTTACAAAAATA-CCCT
1 AAAATTACTAAAATACCCTC-AATTTACAAAATTACCAAAATATCCCT
34496444 TGACTTTCTA
Statistics
Matches: 128, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
106 5 0.04
107 111 0.87
108 12 0.09
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (107 bp):
AAAATTACTAAAATACCCTCAATTTACAAAATTACCAAAATATCCCTAGTCAGTAAAATTACCAA
AATACCACTAGTTTTAAAATTACCAAAATACCCTCAATTTGT
Found at i:34496438 original size:80 final size:79
Alignment explanation
Indices: 34496184--34496443 Score: 319
Period size: 80 Copynumber: 3.2 Consensus size: 79
34496174 CTCGATTTAC
* * **
34496184 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCC-TGGTTTATAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
*
34496249 AATACCCTAGTTTGT
65 AATACCCTAGATTGT
* * *
34496264 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATA-CCCTGGTTTATAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
*
34496329 AATATCCCTAGTTTGT
65 AATA-CCCTAGATTGT
* * *
34496345 AAAATTACCAAAATACCACTGGTTT-TGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACC-CTGGTTTATAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
34496409 AATACCCCT-GATT-T
65 AATA-CCCTAGATTGT
*
34496423 ACAAAGTTACAAAAATACCCT
1 A-AAA-TTACTAAAATACCCT
34496444 TGACTTTCTA
Statistics
Matches: 160, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
78 2 0.01
79 8 0.05
80 116 0.73
81 34 0.21
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (79 bp):
AAAATTACTAAAATACCCTGGTTTATAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAA
ATACCCTAGATTGT
Found at i:34496623 original size:27 final size:27
Alignment explanation
Indices: 34496546--34496623 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
34496536 AAATGACTAA
* *
34496546 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* * *
34496573 AA-AGACCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
34496600 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
34496624 GAATATGCCC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.03
27 38 0.95
28 1 0.03
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:34496971 original size:20 final size:20
Alignment explanation
Indices: 34496936--34496976 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
34496926 TGCACGATGG
34496936 TAAGTTGGGCCTCAATGGGC
1 TAAGTTGGGCCTCAATGGGC
34496956 TAAGATTGGGCC-CAATGGGC
1 TAAG-TTGGGCCTCAATGGGC
34496976 T
1 T
34496977 TTCAGACCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.24
Consensus pattern (20 bp):
TAAGTTGGGCCTCAATGGGC
Found at i:34497438 original size:26 final size:26
Alignment explanation
Indices: 34497409--34497556 Score: 194
Period size: 26 Copynumber: 5.8 Consensus size: 26
34497399 GAGGAAGTGC
**
34497409 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
34497435 AAAAGGGCTTATTCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
34497461 AAAAGGGCTTATACCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
34497487 AAAAGGG-TTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
34497512 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
34497537 AAAAGTGCTT-TACCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
34497557 ATTAAAGAGG
Statistics
Matches: 109, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
25 54 0.50
26 55 0.50
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:34497487 original size:52 final size:51
Alignment explanation
Indices: 34497409--34497556 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 51
34497399 GAGGAAGTGC
34497409 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATTCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TTCCCCAGTTTACCG
*
34497461 AAAAGGGCTTATACCCCAGTTTATTGAAAAGGG-TTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTT-CCCCAGTTTACCG
** * *
34497512 AAAAGGGCTT-TGCCCCAGTTTACCGAAAAGTGCTTTACCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTTCCCCAGTT
34497557 ATTAAAGAGG
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
50 28 0.32
51 28 0.32
52 32 0.36
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTTCCCCAGTTTACCG
Found at i:34497508 original size:25 final size:26
Alignment explanation
Indices: 34497409--34497556 Score: 178
Period size: 25 Copynumber: 5.8 Consensus size: 26
34497399 GAGGAAGTGC
* **
34497409 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
34497435 AAAAGGGCTTATT-CCCCAGTTTACCG
1 AAAAGGGCTT-TTGCCCCAGTTTACCG
* * **
34497461 AAAAGGGCTTATACCCCAGTTTATTG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
34497487 AAAAGGG-TTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
34497512 AAAAGGGC-TTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
* *
34497537 AAAAGTGC-TTTACCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
34497557 ATTAAAGAGG
Statistics
Matches: 107, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
25 57 0.53
26 49 0.46
27 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTACCG
Found at i:34497760 original size:42 final size:42
Alignment explanation
Indices: 34497701--34497792 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
34497691 TAGTCTCCCC
* ** *
34497701 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
34497743 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
34497785 AAATGGGC
1 AAATGGGC
34497793 CTAAGAGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:34497854 original size:31 final size:31
Alignment explanation
Indices: 34497816--34497892 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
34497806 CGTTTACAGT
34497816 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
* *
34497847 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
34497878 AAAGGCTTCGGCCCA
1 AAAGGCTTCGGCCCA
34497893 GTAACTGTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGA
Found at i:34501712 original size:21 final size:21
Alignment explanation
Indices: 34501688--34501727 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
34501678 ATATTTAACC
34501688 ATTTCCAAGCCATTCAAAACT
1 ATTTCCAAGCCATTCAAAACT
34501709 ATTTCCAAGCCATTCAAAA
1 ATTTCCAAGCCATTCAAAA
34501728 TATACCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.28, G:0.05, T:0.28
Consensus pattern (21 bp):
ATTTCCAAGCCATTCAAAACT
Found at i:34507397 original size:43 final size:43
Alignment explanation
Indices: 34507318--34507568 Score: 443
Period size: 43 Copynumber: 5.9 Consensus size: 43
34507308 GGATAAATCC
* * *
34507318 CGTGCTGGT-AT-TATATTTGGGCCCTCGTGCCTAGCAGGCTT
1 CGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTT
* *
34507359 AGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTT
1 CGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTT
34507402 CGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTT
1 CGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTT
34507445 CGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTT
1 CGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTT
34507488 CGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTT
1 CGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTT
34507531 CGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCA
1 CGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCA
34507569 AGCGTAATGC
Statistics
Matches: 201, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
41 7 0.03
42 2 0.01
43 192 0.96
ACGTcount: A:0.10, C:0.24, G:0.34, T:0.32
Consensus pattern (43 bp):
CGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTT
Found at i:34510818 original size:14 final size:14
Alignment explanation
Indices: 34510781--34510824 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
34510771 GACCTTATTT
*
34510781 TCCCTCATCAATCA
1 TCCCTCATCCATCA
* * *
34510795 TCCTTTATCCCTCA
1 TCCCTCATCCATCA
34510809 TCCCTCATCCATCA
1 TCCCTCATCCATCA
34510823 TC
1 TC
34510825 ATTCTCTCTA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.20, C:0.45, G:0.00, T:0.34
Consensus pattern (14 bp):
TCCCTCATCCATCA
Found at i:34511663 original size:20 final size:21
Alignment explanation
Indices: 34511625--34511664 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
34511615 AGTTTATTTA
34511625 TGTTATAATTGTTGCAAATTG
1 TGTTATAATTGTTGCAAATTG
34511646 TGTT-TAATT-TTGCTAAATT
1 TGTTATAATTGTTGC-AAATT
34511665 CTACTTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.53
Consensus pattern (21 bp):
TGTTATAATTGTTGCAAATTG
Found at i:34519241 original size:12 final size:12
Alignment explanation
Indices: 34519224--34519248 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34519214 CATTATACTA
34519224 TGGTTACCAACT
1 TGGTTACCAACT
34519236 TGGTTACCAACT
1 TGGTTACCAACT
34519248 T
1 T
34519249 ATCCATCAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (12 bp):
TGGTTACCAACT
Found at i:34521573 original size:37 final size:37
Alignment explanation
Indices: 34521523--34521601 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
34521513 TTATTACGAA
* * *
34521523 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
34521560 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
34521597 GTCTT
1 GTCTT
34521602 TAAAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:34521807 original size:47 final size:47
Alignment explanation
Indices: 34521722--34521848 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 47
34521712 CTTCGGGACT
* * *
34521722 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTT-GGCCC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCA-TTAGGCCC
* * *
34521769 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGCCC
* *
34521816 TATCTCATATATGCA-TGTTCACATCCATCACAT
1 TATCACATATATACACT-TTCACATCCATCACAT
34521849 AGAATCCTAA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 3 0.04
47 65 0.96
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGCCC
Found at i:34525251 original size:28 final size:28
Alignment explanation
Indices: 34525188--34525452 Score: 478
Period size: 28 Copynumber: 9.5 Consensus size: 28
34525178 ATATTAAGTC
* *
34525188 CGCACACTCAGTGCTATATAATCAA-CT
1 CGCACACTTAGTGCTACATAATCAAGCT
* *
34525215 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAGCT
34525243 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
34525271 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
34525299 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
34525327 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
34525355 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
34525383 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
*
34525411 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAGCT
34525439 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34525453 CAATCTCATG
Statistics
Matches: 233, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
27 24 0.10
28 209 0.90
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAGCT
Found at i:34525951 original size:40 final size:39
Alignment explanation
Indices: 34525853--34526115 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
34525843 TCCTCGTTCA
* * * *
34525853 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
34525892 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
34525931 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
34525971 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
34526011 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
34526051 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
34526092 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34526116 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:34526075 original size:120 final size:119
Alignment explanation
Indices: 34525853--34526115 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
34525843 TCCTCGTTCA
* * *
34525853 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
34525918 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
34525971 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
34526036 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
34526092 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
34526116 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:34526124 original size:41 final size:41
Alignment explanation
Indices: 34526047--34526124 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
34526037 TTTGTATCTC
* * *
34526047 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
34526088 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
34526125 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:34533937 original size:40 final size:40
Alignment explanation
Indices: 34533839--34534181 Score: 451
Period size: 40 Copynumber: 8.6 Consensus size: 40
34533829 TCCTCGTTCA
* * * ** *
34533839 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
34533878 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
34533918 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
34533958 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
34533998 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
34534038 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
34534078 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
34534118 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
34534158 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34534182 CAGCATTCAA
Statistics
Matches: 279, Mismatches: 20, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
39 37 0.13
40 234 0.84
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:34534521 original size:28 final size:28
Alignment explanation
Indices: 34534460--34535339 Score: 1699
Period size: 28 Copynumber: 31.5 Consensus size: 28
34534450 TTTGGGCTGT
* *
34534460 CACACTCAGTGCTATATAATC-AACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
**
34534487 CACACTTAGTGCTATGTAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34534515 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34534543 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34534571 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34534599 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34534627 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34534655 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34534683 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34534711 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34534739 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34534767 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34534795 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34534823 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34534851 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34534879 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34534907 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34534935 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34534963 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34534991 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34535019 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34535047 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34535075 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34535103 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34535131 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34535159 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34535187 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34535215 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34535243 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34535271 CACACTTAGTGCTACATAATCAAACTCG
1 CACACTTAGTGCTACATAATCAAACTCG
* *
34535299 CACCCTTAGTGCTACATAATCAAGCTCG
1 CACACTTAGTGCTACATAATCAAACTCG
34535327 CACACTTAGTGCT
1 CACACTTAGTGCT
34535340 GTACAATTTA
Statistics
Matches: 845, Mismatches: 7, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
27 19 0.02
28 826 0.98
ACGTcount: A:0.35, C:0.29, G:0.11, T:0.25
Consensus pattern (28 bp):
CACACTTAGTGCTACATAATCAAACTCG
Found at i:34537966 original size:48 final size:46
Alignment explanation
Indices: 34537899--34538016 Score: 141
Period size: 46 Copynumber: 2.5 Consensus size: 46
34537889 AAGCTGACGC
* *
34537899 CATGTCCCAGACAGGTCTTACACTAGCT-T-GTATACCGCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCG--T--CGCAAGGCTGATG
* * *
34537947 CATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCGCAAGGCTGATG
34537993 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
34538017 GGATCTCATA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
46 33 0.53
48 27 0.44
49 1 0.02
50 1 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCGTCGCAAGGCTGATG
Found at i:34538007 original size:46 final size:43
Alignment explanation
Indices: 34537940--34538065 Score: 144
Period size: 46 Copynumber: 2.8 Consensus size: 43
34537930 ATACCGCGAG
* *
34537940 GCTGATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AAT
* *
34537986 GCTGATGCATGTCCCAGACATGTCTTACACTGGATCTCATAAT
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAT
* *
34538029 GCGGTCGATGCATATCCTAGACATGTCTTACACTAGC
1 GC--T-GATGCATGTCCCAGACATGTCTTACACTAGC
34538066 ACACATATCA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
43 5 0.07
44 1 0.01
45 1 0.01
46 62 0.90
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (43 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAT
Found at i:34539960 original size:49 final size:49
Alignment explanation
Indices: 34539884--34539982 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 49
34539874 GATTGCTGAG
*
34539884 ATCTTGTATCATTGCAATTCATATCCAAGTGGGGGACACTTTGGTGATTC
1 ATCTTGTATCATTGCAATTCATATCCAAGTGGGGGACACTTTAGTG-TTC
* *
34539934 ATCTTGTAT-ATTGCCATTCATCTCCAAGTGGGGGACACTTTAGTGTTC
1 ATCTTGTATCATTGCAATTCATATCCAAGTGGGGGACACTTTAGTGTTC
34539982 A
1 A
34539983 CGTAATGCAG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 4 0.09
49 33 0.72
50 9 0.20
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (49 bp):
ATCTTGTATCATTGCAATTCATATCCAAGTGGGGGACACTTTAGTGTTC
Found at i:34544579 original size:19 final size:19
Alignment explanation
Indices: 34544555--34544620 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
34544545 AGATGATTGC
34544555 TTTGATTAAATAATATTTA
1 TTTGATTAAATAATATTTA
* *
34544574 TTTGA-T---TCATACTTA
1 TTTGATTAAATAATATTTA
34544589 TTTGATTAAATAATATTTA
1 TTTGATTAAATAATATTTA
34544608 TTTGATTAAATAA
1 TTTGATTAAATAA
34544621 GATGTTTGGG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 12 0.31
16 1 0.03
18 1 0.03
19 25 0.64
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (19 bp):
TTTGATTAAATAATATTTA
Found at i:34546243 original size:26 final size:26
Alignment explanation
Indices: 34546214--34546321 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
34546204 TGGTACAAAT
34546214 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
34546240 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34546266 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
34546292 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34546318 TGAT
1 TGAT
34546322 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:34559218 original size:12 final size:12
Alignment explanation
Indices: 34559203--34559228 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34559193 TATGGTCTTA
34559203 TACGAAGTCTCT
1 TACGAAGTCTCT
34559215 TACGAAGTCTCT
1 TACGAAGTCTCT
34559227 TA
1 TA
34559229 TCGGTGCCGA
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:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (12 bp):
TACGAAGTCTCT
Found at i:34559558 original size:49 final size:49
Alignment explanation
Indices: 34559330--34559554 Score: 197
Period size: 48 Copynumber: 4.7 Consensus size: 49
34559320 CGATACCAAA
** * * * * * *
34559330 GCCATATCCTTGATATGGTATTATACAGGATCACATATTGG-TGCCGAT
1 GCCATATCCCAGACATGGTCTTACACGGGATCACATATCGGATGTCGAT
* * * * *
34559378 ACCATATCCCAGACATGGTCTTACACTAGCA-CACATATC-AAAGTCGAT
1 GCCATATCCCAGACATGGTCTTACAC-GGGATCACATATCGGATGTCGAT
** * * * * **
34559426 GCCATATCCTTGATATGGTCTTATACGGGATCACATATTGG-TGCCGGC
1 GCCATATCCCAGACATGGTCTTACACGGGATCACATATCGGATGTCGAT
* * *
34559474 GCCATGTCCCAGACATGGTCTTACACGGGATCTCATCTCGGATGTCGAT
1 GCCATATCCCAGACATGGTCTTACACGGGATCACATATCGGATGTCGAT
34559523 GCCATATCCCAGACATGGTCTTACACGGGATC
1 GCCATATCCCAGACATGGTCTTACACGGGATC
34559555 TCATTAACCA
Statistics
Matches: 136, Mismatches: 36, Indels: 9
0.75 0.20 0.05
Matches are distributed among these distances:
47 2 0.01
48 96 0.71
49 38 0.28
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (49 bp):
GCCATATCCCAGACATGGTCTTACACGGGATCACATATCGGATGTCGAT
Found at i:34561884 original size:5 final size:5
Alignment explanation
Indices: 34561874--34561898 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
34561864 TAATAATTAA
34561874 TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT
34561899 ATTTTAGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:34563284 original size:26 final size:27
Alignment explanation
Indices: 34563243--34563300 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
34563233 AGATCACTAA
*
34563243 TTTTATTTCTTTTCTTTTCATTTTTAT
1 TTTTATTTCTTATCTTTTCATTTTTAT
* *
34563270 TTTTATTT-TTATCTTTTTATTTTTGT
1 TTTTATTTCTTATCTTTTCATTTTTAT
34563296 TTTTA
1 TTTTA
34563301 GTTGTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.79
Consensus pattern (27 bp):
TTTTATTTCTTATCTTTTCATTTTTAT
Found at i:34563288 original size:20 final size:20
Alignment explanation
Indices: 34563263--34563319 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
34563253 TTTCTTTTCA
34563263 TTTTTATTTTTATTTTTA-T
1 TTTTTATTTTTATTTTTAGT
*
34563282 CTTTTTATTTTTGTTTTTAGT
1 -TTTTTATTTTTATTTTTAGT
34563303 TGTTTTATTTTTATTTT
1 T-TTTTATTTTTATTTT
34563320 CTTTGACCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.12, C:0.02, G:0.05, T:0.81
Consensus pattern (20 bp):
TTTTTATTTTTATTTTTAGT
Found at i:34563313 original size:5 final size:6
Alignment explanation
Indices: 34563252--34563319 Score: 64
Period size: 6 Copynumber: 10.5 Consensus size: 6
34563242 ATTTTATTTC
* * *
34563252 TTTTCT TTTCAT TTTTAT TTTTAT TTTTATCT TTTTAT TTTTGT TTTTAGTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA--T TTTTAT TTTTAT TTTTA--T
34563304 GTTTTAT TTTTAT TTT
1 -TTTTAT TTTTAT TTT
34563320 CTTTGACCTC
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
6 39 0.75
7 1 0.02
8 7 0.13
9 5 0.10
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:34569065 original size:2 final size:2
Alignment explanation
Indices: 34569058--34569091 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
34569048 AAAACAGAAC
* *
34569058 AT AT AT AT AT AC AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34569092 GACTAGTCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:34571756 original size:21 final size:21
Alignment explanation
Indices: 34571717--34571756 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
34571707 TACACAATCA
* * *
34571717 AAAGTCATATATTATCATATC
1 AAAGTCAAATATCAACATATC
34571738 AAAGTCAAATATCAACATA
1 AAAGTCAAATATCAACATA
34571757 AAGTCCCTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.05, T:0.30
Consensus pattern (21 bp):
AAAGTCAAATATCAACATATC
Found at i:34573573 original size:8 final size:8
Alignment explanation
Indices: 34573562--34573593 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
34573552 ATTAACCCTC
*
34573562 ACATTTTC
1 ACATTTTA
34573570 ACATTTTA
1 ACATTTTA
34573578 ACATTTTA
1 ACATTTTA
34573586 ACATTTTA
1 ACATTTTA
34573594 GCCCCTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (8 bp):
ACATTTTA
Found at i:34576597 original size:7 final size:7
Alignment explanation
Indices: 34576585--34576609 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34576575 AGAGAGCATT
34576585 GATATGA
1 GATATGA
34576592 GATATGA
1 GATATGA
34576599 GATATGA
1 GATATGA
34576606 GATA
1 GATA
34576610 AATATGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (7 bp):
GATATGA
Found at i:34578694 original size:27 final size:27
Alignment explanation
Indices: 34578664--34578755 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
34578654 ATTACCAAAG
* *
34578664 TACCCTCGATTTATAGAATCACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
34578691 TACCC-CTGATTTACAGAATTACTATTT
1 TACCCTC-GATTTACAGAATTACTATTT
* * **
34578718 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
34578745 TACCCTCGATT
1 TACCCTCGATT
34578756 GTGAAATTAC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 55 0.98
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:34578820 original size:27 final size:27
Alignment explanation
Indices: 34578787--34578910 Score: 135
Period size: 27 Copynumber: 4.6 Consensus size: 27
34578777 TATACGGTAG
34578787 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
34578814 AACTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
34578841 AATTACCAAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* **
34578868 AATTTCCAAAATACCCC-AGATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
34578895 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
34578911 TTAACTTTTT
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 3 0.04
27 76 0.96
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:34578898 original size:54 final size:54
Alignment explanation
Indices: 34578787--34578987 Score: 172
Period size: 54 Copynumber: 3.7 Consensus size: 54
34578777 TATACGGTAG
* * * * * ***
34578787 AATTACCAAAATACCCCTAGTTTGTAAAACTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCACAGATTTACAA
* *
34578841 AATTACCAAAATACCCTTAATTTGTAAAATTTCCAAAATACCCCAGATTTACAA
1 AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCACAGATTTACAA
* * ** *
34578895 AATTA-CAGAAATACCCTTAACTTTTTAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCCTTAA-TTTGTAAAATTACCA-AAATACCACAGATTTACAA
** ** * *
34578950 AATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAA
34578988 CACCCTTGTA
Statistics
Matches: 117, Mismatches: 25, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
53 2 0.02
54 74 0.63
55 41 0.35
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCACAGATTTACAA
Found at i:34578960 original size:27 final size:27
Alignment explanation
Indices: 34578888--34578972 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
34578878 ATACCCCAGA
* **
34578888 TTTACAAAATTACAGAAATACCCTTAAC
1 TTTACAAAATTACTGAAATACCCTT-GG
** *
34578916 TTTTTAAAATTA-TAGAAATACCATTGG
1 TTTACAAAATTACT-GAAATACCCTTGG
34578943 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGG
34578970 TTT
1 TTT
34578973 GTAGATTTAC
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
27 25 0.54
28 21 0.46
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGG
Found at i:34579926 original size:25 final size:24
Alignment explanation
Indices: 34579883--34579952 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
34579873 AGGAAGTGCA
* *
34579883 AAAAGGGCTCTGCCTCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
* *
34579907 GAAAAGGGCTTTACCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
34579932 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
34579953 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 1 0.03
25 38 0.97
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:34579965 original size:24 final size:23
Alignment explanation
Indices: 34579883--34579979 Score: 77
Period size: 25 Copynumber: 4.0 Consensus size: 23
34579873 AGGAAGTGCA
* * *
34579883 AAAAGGGCTCTGCCTCAGTTTACC
1 AAAAGGGCTTTGCCCCAG-TTATC
*
34579907 GAAAAGGGCTTTACCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAG-TTATC
*
34579932 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATC
**
34579956 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
34579980 ATGATAAAGC
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
23 4 0.07
24 13 0.21
25 44 0.72
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:34580159 original size:42 final size:42
Alignment explanation
Indices: 34580100--34580194 Score: 154
Period size: 42 Copynumber: 2.3 Consensus size: 42
34580090 TAGTCTCCCC
* ** *
34580100 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
34580142 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
34580184 AAATGGGCTTG
1 AAATGGGCTTG
34580195 TGGGCCATAC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:34581931 original size:44 final size:42
Alignment explanation
Indices: 34581881--34582037 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 42
34581871 TGTGTTTTCG
* *
34581881 TGTAAGACCACGTTTAGGACATTGGCATCGACTTATGATTTACA
1 TGTAAGACCACGTTTGGGATATTGGCATCGA-TT-TGATTTACA
* *
34581925 TGTAAGACCACGTTTGGGATGTTGGCATCGTATTTTATTT-CA
1 TGTAAGACCACGTTTGGGATATTGGCATCG-ATTTGATTTACA
* *
34581967 TGTAAGACC-CTATTTGGGATAGTGGCATCGATATTTG-TTTACA
1 TGTAAGACCAC-GTTTGGGATATTGGCATCG--ATTTGATTTACA
* * *
34582010 TGTAAGACCACGTCTGGAATTTTGGCAT
1 TGTAAGACCACGTTTGGGATATTGGCAT
34582038 TGTATGAGGT
Statistics
Matches: 95, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.01
42 30 0.32
43 33 0.35
44 30 0.32
45 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (42 bp):
TGTAAGACCACGTTTGGGATATTGGCATCGATTTGATTTACA
Found at i:34582016 original size:43 final size:41
Alignment explanation
Indices: 34581919--34582020 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 41
34581909 CGACTTATGA
*
34581919 TTTACATGTAAGACCACGTTTGGGATGTTGGCATCGTATTT
1 TTTACATGTAAGACCACATTTGGGATGTTGGCATCGTATTT
*
34581960 TATTTCATGTAAGACC-CTATTTGGGATAG-TGGCATCGATATTT
1 T-TTACATGTAAGACCAC-ATTTGGGAT-GTTGGCATCG-TATTT
34582003 GTTTACATGTAAGACCAC
1 -TTTACATGTAAGACCAC
34582021 GTCTGGAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
41 2 0.04
42 29 0.56
43 19 0.37
44 2 0.04
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (41 bp):
TTTACATGTAAGACCACATTTGGGATGTTGGCATCGTATTT
Found at i:34583364 original size:16 final size:16
Alignment explanation
Indices: 34583343--34583374 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34583333 ATTGTAACGC
*
34583343 CCCAAAAATCTCAAAA
1 CCCAAAAATCCCAAAA
34583359 CCCAAAAATCCCAAAA
1 CCCAAAAATCCCAAAA
34583375 TCCTGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.34, G:0.00, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCAAAA
Found at i:34584953 original size:29 final size:29
Alignment explanation
Indices: 34584918--34585015 Score: 126
Period size: 29 Copynumber: 3.4 Consensus size: 29
34584908 AATGTGACTA
*
34584918 GGCCTAATGGGCCATAAAAATGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* *
34584947 GGCCTAATGGGCCATATATAGGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* * *
34584976 GGCCTAATAGGCCATATGAATATGA-TTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
*
34585004 GGCTTAATGGGC
1 GGCCTAATGGGC
34585016 GAGATACAGG
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
28 13 0.22
29 46 0.78
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.29
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATGTGATTTG
Found at i:34589687 original size:39 final size:39
Alignment explanation
Indices: 34589598--34589716 Score: 114
Period size: 39 Copynumber: 2.9 Consensus size: 39
34589588 TGTGTTATCT
* *
34589598 TGTAAGACCACGTCTGGGACATTGGCATCGATTTGTGATTTACG
1 TGTAAGACCATGTCTGGGACATT-GCATCGATAT-T--TTTA-G
*
34589642 GGTAAGACCATGTCTGGGACATTGCATCGTATATTTTT-G
1 TGTAAGACCATGTCTGGGACATTGCATCG-ATATTTTTAG
* * *
34589681 TGTAAGACCCTGTCTAGGACAGTGGCATCGATATTT
1 TGTAAGACCATGTCTGGGACA-TTGCATCGATATTT
34589717 GATTTCATGT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
39 25 0.38
40 7 0.11
41 3 0.05
43 7 0.11
44 24 0.36
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.33
Consensus pattern (39 bp):
TGTAAGACCATGTCTGGGACATTGCATCGATATTTTTAG
Found at i:34591639 original size:18 final size:20
Alignment explanation
Indices: 34591603--34591649 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
34591593 AGTTGTAAGT
34591603 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
34591623 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
34591642 ATGATATA
1 AT-ATATA
34591650 ACCTATTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:34593172 original size:49 final size:49
Alignment explanation
Indices: 34593095--34593339 Score: 301
Period size: 49 Copynumber: 4.9 Consensus size: 49
34593085 TAGCCGAAGC
* * *
34593095 TATCTGGTACACATAGTAGCCAGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * * * *
34593144 TATCCGGTACACGTAGTATCCTACACTTAGTACTAAACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * *
34593194 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACATGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * * * *
34593245 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
34593294 TATCTGGGACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
34593340 TCACAATAGC
Statistics
Matches: 161, Mismatches: 32, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 80 0.50
50 44 0.27
51 37 0.23
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:34593785 original size:17 final size:17
Alignment explanation
Indices: 34593755--34593788 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34593745 TCAACTTTTC
*
34593755 CAATATATTAAATAATA
1 CAATATATGAAATAATA
*
34593772 CAATATATGCAATAATA
1 CAATATATGAAATAATA
34593789 GTAAGAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.32
Consensus pattern (17 bp):
CAATATATGAAATAATA
Found at i:34594021 original size:30 final size:30
Alignment explanation
Indices: 34593987--34594046 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
34593977 CTTTAATACG
*
34593987 AACTTTGGCAAAATTAC-CATTTTTCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
34594017 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
34594047 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:34595972 original size:15 final size:15
Alignment explanation
Indices: 34595943--34595981 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
34595933 AACAGAGAAG
34595943 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
34595959 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
34595974 CCATGATA
1 CCAAGATA
34595982 CGAGAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:34598800 original size:49 final size:49
Alignment explanation
Indices: 34598721--34598965 Score: 285
Period size: 49 Copynumber: 4.9 Consensus size: 49
34598711 TAGCTGAAGC
* *
34598721 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
34598770 TATCCGGTACACGTAGTAGCCT-CTAGTTAGTACTACACACGTGACCAAAC
1 TATCTGGTACACGTAGTAGCCTGC-ACTTAGTACTACACACGCGACC-AAT
* * * *
34598820 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * * * *
34598871 TATCAGGTACGCATAGTAGCCTGGACTTAGGACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
34598920 TATCTGGTACACGTAGTAGCCTGCATTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
34598966 TCACAATAGC
Statistics
Matches: 161, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 78 0.48
50 45 0.28
51 37 0.23
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:34599649 original size:30 final size:30
Alignment explanation
Indices: 34599615--34599672 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
34599605 TTAATACGGG
34599615 CTTTTACAAAATTAC-CATTTTGCCCCTAAA
1 CTTTTACAAAATTACAC-TTTTGCCCCTAAA
* * *
34599645 CTTTTGCATAATTACACTTTTTCCCCTA
1 CTTTTACAAAATTACACTTTTGCCCCTA
34599673 GGCTCGGGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.28, G:0.03, T:0.41
Consensus pattern (30 bp):
CTTTTACAAAATTACACTTTTGCCCCTAAA
Found at i:34600577 original size:50 final size:50
Alignment explanation
Indices: 34600496--34600828 Score: 219
Period size: 50 Copynumber: 6.6 Consensus size: 50
34600486 TTCGTTGTGA
*
34600496 GTCACTTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGATAG
* * * * * * * *
34600546 GTCGCATGTGTAGTAGTAAGTGTAGGCTACTATGCGTA-CACGTTAAC-TTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-G--ATCGATAG
* * * * * * * *
34600597 ATCACGTGTGTAGTACTAAGTGCAGGATACTACTTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGATAG
* * * *
34600647 GTCACGTGTGTAGCACTAAGTGCA-GCTAGTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGATAG
* * * * ** * * **
34600696 GTCGCATGTGTAGTACTAAGTCCAGGCTATTATGCATACCCGTTAACTTTA-
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG--ATCGATAG
* * * * * * *
34600747 ATCACGTGTGTAGTACTAAGT-CTAGGCAACTACGTATATCAGATGGTTTA-
1 GTCACATGTGTAGTACTAAGTGC-AGGCTACTACGTGTACCAGATCG-ATAG
34600797 GTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTA
34600829 TGCGTGCCAA
Statistics
Matches: 213, Mismatches: 59, Indels: 22
0.72 0.20 0.07
Matches are distributed among these distances:
49 42 0.20
50 100 0.47
51 64 0.30
52 7 0.03
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGATAG
Found at i:34600767 original size:150 final size:150
Alignment explanation
Indices: 34600495--34600828 Score: 474
Period size: 150 Copynumber: 2.2 Consensus size: 150
34600485 ATTCGTTGTG
*
34600495 AGTCACTTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATCGATAGGTCGCATGTGTAGT
1 AGTCACATGTGTAGTACTAAGTGCA-GCTACTACGTGTACCAGATCGATAGGTCGCATGTGTAGT
* ** * *
34600560 AGTAAGTGTAGGCTACTATGCGTACACGTTAACTTCGATCACGTGTGTAGTACTAAGTGC-AGG-
65 ACTAAGTCCAGGCTACTATGCATACACGTTAACTTCAATCACGTGTGTAGTACTAAGT-CTAGGC
* *
34600623 ATACTACTTGTATCAGATGGTTA
129 A-ACTACGTATATCAGATGGTTA
* * * *
34600646 AGTCACGTGTGTAGCACTAAGTGCAGCTAGTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
1 AGTCACATGTGTAGTACTAAGTGCAGCTACTACGTGTACCAGATCGATAGGTCGCATGTGTAGTA
* * *
34600711 CTAAGTCCAGGCTATTATGCATACCCGTTAACTTTAATCACGTGTGTAGTACTAAGTCTAGGCAA
66 CTAAGTCCAGGCTACTATGCATACACGTTAACTTCAATCACGTGTGTAGTACTAAGTCTAGGCAA
*
34600776 CTACGTATATCAGATGGTTT
131 CTACGTATATCAGATGGTTA
34600796 AGTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 AGTCACATGTGTAGTACTAAGTGCA-GCTACTA
34600829 TGCGTGCCAA
Statistics
Matches: 162, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
149 1 0.01
150 131 0.81
151 30 0.19
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (150 bp):
AGTCACATGTGTAGTACTAAGTGCAGCTACTACGTGTACCAGATCGATAGGTCGCATGTGTAGTA
CTAAGTCCAGGCTACTATGCATACACGTTAACTTCAATCACGTGTGTAGTACTAAGTCTAGGCAA
CTACGTATATCAGATGGTTA
Found at i:34601059 original size:16 final size:16
Alignment explanation
Indices: 34601038--34601069 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34601028 AGAATGGAGT
34601038 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
34601054 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
34601070 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:34603552 original size:27 final size:28
Alignment explanation
Indices: 34603522--34603629 Score: 123
Period size: 27 Copynumber: 4.0 Consensus size: 28
34603512 GGCTGCTAGA
* * *
34603522 ACAGATA-TTGTGACAGAGTCACCAGAT
1 ACAGATATTTGTGGCAAAGCCACCAGAT
* *
34603549 ACAGATA-TTGTGGCAAAGCCACTAGAA
1 ACAGATATTTGTGGCAAAGCCACCAGAT
*
34603576 ACAGATATTTGTGGCAAAGCCACTAGAT
1 ACAGATATTTGTGGCAAAGCCACCAGAT
* *
34603604 -TAGATATTTGTGGCAGAGCCACCAGA
1 ACAGATATTTGTGGCAAAGCCACCAGA
34603630 ACGCTTCATC
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 52 0.73
28 19 0.27
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (28 bp):
ACAGATATTTGTGGCAAAGCCACCAGAT
Found at i:34603624 original size:55 final size:54
Alignment explanation
Indices: 34603517--34603630 Score: 133
Period size: 55 Copynumber: 2.1 Consensus size: 54
34603507 AGCATGGCTG
* *
34603517 CTAG-AACAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAAAGCCA
1 CTAGAAACAGATATTGTGACAAAGCCACCAGATACAGATATTGTGGCAAAGCCA
* * * *
34603570 CTAGAAACAGATATTTGTGGCAAAGCCACTAGAT-TAGATATTTGTGGCAGAGCCA
1 CTAGAAACAGATA-TTGTGACAAAGCCACCAGATACAGATA-TTGTGGCAAAGCCA
*
34603625 CCAGAA
1 CTAGAA
34603631 CGCTTCATCA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
53 4 0.08
54 13 0.25
55 34 0.67
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (54 bp):
CTAGAAACAGATATTGTGACAAAGCCACCAGATACAGATATTGTGGCAAAGCCA
Found at i:34607077 original size:49 final size:49
Alignment explanation
Indices: 34606957--34607370 Score: 696
Period size: 49 Copynumber: 8.6 Consensus size: 49
34606947 CCCTTCGGGA
* * * * * *
34606957 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGACCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34607004 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34607051 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34607100 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34607149 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34607198 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34607247 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34607296 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34607345 CTTATCAC--ATATATACACTTTCACAT
1 CTTATCACATATATATACACTTTCACAT
34607371 CACAATTATC
Statistics
Matches: 351, Mismatches: 12, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 60 0.17
49 290 0.83
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34610352 original size:49 final size:47
Alignment explanation
Indices: 34610132--34610388 Score: 352
Period size: 47 Copynumber: 5.4 Consensus size: 47
34610122 CCCTTCGGGA
* *
34610132 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
34610179 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
34610226 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
34610273 CTTATGACATATATACACTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
34610320 CCTATCACATATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
34610369 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
34610389 GTACATCAAT
Statistics
Matches: 188, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
47 145 0.77
49 43 0.23
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:34616343 original size:27 final size:26
Alignment explanation
Indices: 34616294--34616349 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
34616284 AGCATGACTG
* *
34616294 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTATGACAGAGCCA
**
34616320 CCAGATACAGATATTATGGTAGAGCCA
1 CCAGA-ACAGATATTATGACAGAGCCA
34616347 CCA
1 CCA
34616350 AAAACAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTATGACAGAGCCA
Found at i:34616514 original size:26 final size:27
Alignment explanation
Indices: 34616485--34616546 Score: 101
Period size: 26 Copynumber: 2.3 Consensus size: 27
34616475 AAATTAACCA
34616485 TAGGGGTATAATGGTAATTTTGCAT-C-
1 TAGGGGTATAATGGTAATTTT-CATACT
34616511 TAGGGGTATAATGGTAATTTTCATACT
1 TAGGGGTATAATGGTAATTTTCATACT
34616538 TAGGGGTAT
1 TAGGGGTAT
34616547 TTTAGTAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
25 3 0.09
26 22 0.65
27 9 0.26
ACGTcount: A:0.27, C:0.06, G:0.27, T:0.39
Consensus pattern (27 bp):
TAGGGGTATAATGGTAATTTTCATACT
Found at i:34622612 original size:47 final size:47
Alignment explanation
Indices: 34622561--34622711 Score: 203
Period size: 47 Copynumber: 3.1 Consensus size: 47
34622551 TTAGGATTTT
* **
34622561 ATGTGATGAATGTGTACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCA
*
34622608 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGTATATGTGTGATAAGGCCGAATGGCCA
* * *
34622659 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCA
34622706 ATGTGA
1 ATGTGA
34622712 AATGTGTATG
Statistics
Matches: 92, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
47 47 0.51
49 2 0.02
51 43 0.47
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCA
Found at i:34622647 original size:51 final size:49
Alignment explanation
Indices: 34622583--34622711 Score: 199
Period size: 51 Copynumber: 2.6 Consensus size: 49
34622573 TGTACATGCG
*
34622583 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--CATATATA
*
34622634 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATATATA
*
34622683 TATGTG-G-TAAGGCCGAATGGCTAATGTGA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGA
34622712 AATGTGTATG
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
47 21 0.28
48 1 0.01
49 12 0.16
51 41 0.55
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.28
Consensus pattern (49 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATATATA
Found at i:34622818 original size:46 final size:46
Alignment explanation
Indices: 34622682--34622818 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
34622672 GAACATGTAT
* *
34622682 ATATGTGGTAAGGCCGAATGGCTAATGTGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
* *
34622728 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
* * *
34622774 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATG
34622819 TGTATATATA
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.34, C:0.07, G:0.31, T:0.27
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
Found at i:34623070 original size:37 final size:37
Alignment explanation
Indices: 34622962--34623070 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
34622952 GGAAATATAT
*
34622962 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
34622999 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
34623036 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
34623071 CGCCTGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:34625090 original size:18 final size:20
Alignment explanation
Indices: 34625054--34625094 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
34625044 AGTTGTAAGT
34625054 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
34625074 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
34625093 AT
1 AT
34625095 GATAGAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:34625596 original size:50 final size:50
Alignment explanation
Indices: 34625538--34625780 Score: 270
Period size: 50 Copynumber: 4.8 Consensus size: 50
34625528 TTAACTTCGA
* *
34625538 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAG
* * * * *
34625588 TCATGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAG
* * * ** * * ** *
34625638 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGTTAACTTTAG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTTAAG
* * *
34625689 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAG
* * *
34625739 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
34625781 GAGCTTCGGT
Statistics
Matches: 153, Mismatches: 39, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
50 117 0.76
51 36 0.24
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAG
Done.