Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 65 of 130
Found at i:13648612 original size:6 final size:6
Alignment explanation
Indices: 13648601--13648659 Score: 68
Period size: 6 Copynumber: 9.8 Consensus size: 6
13648591 AAAAATACAT
* *
13648601 AAAATA AAAATA AAAAAA TAAAATA AAAATA AAAAT- AATAT- AAAATA
1 AAAATA AAAATA AAAATA -AAAATA AAAATA AAAATA AAAATA AAAATA
13648648 CAAAATA AAAAT
1 -AAAATA AAAAT
13648660 CAAATTGGGC
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
5 8 0.17
6 27 0.59
7 11 0.24
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:13648620 original size:23 final size:23
Alignment explanation
Indices: 13648590--13648659 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 23
13648580 ATAAATACAT
13648590 AAAAAATACATAAAATAAAAATA
1 AAAAAATACATAAAATAAAAATA
*
13648613 AAAAAATAAAATAAAAATAAAAATA
1 AAAAAAT-ACAT-AAAATAAAAATA
13648638 ATATAAAATAC--AAAATAAAAAT
1 A-A-AAAATACATAAAATAAAAAT
13648660 CAAATTGGGC
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
23 18 0.44
24 3 0.07
25 13 0.32
26 2 0.05
27 5 0.12
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.19
Consensus pattern (23 bp):
AAAAAATACATAAAATAAAAATA
Found at i:13648622 original size:30 final size:27
Alignment explanation
Indices: 13648591--13648658 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 27
13648581 TAAATACATA
13648591 AAAAATACATAAAATAAAAATAAAAAAAT
1 AAAAATA-A-AAAATAAAAATAAAAAAAT
13648620 -AAAAT-AAAAATAAAAATAATATAAAAT
1 AAAAATAAAAAATAAAAATAA-A-AAAAT
13648647 ACAAAATAAAAA
1 A-AAAATAAAAA
13648659 TCAAATTGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
25 13 0.38
26 2 0.06
27 5 0.15
28 5 0.15
29 5 0.15
30 4 0.12
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (27 bp):
AAAAATAAAAAATAAAAATAAAAAAAT
Found at i:13648645 original size:17 final size:17
Alignment explanation
Indices: 13648599--13648657 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
13648589 TAAAAAATAC
13648599 ATAAAATAAAAATAAAAAA
1 ATAAAATAAAAAT--AAAA
13648618 ATAAAATAAAAATAAAA
1 ATAAAATAAAAATAAAA
*
13648635 ATAATAT-AAAATACAAA
1 ATAAAATAAAAATA-AAA
13648652 ATAAAA
1 ATAAAA
13648658 ATCAAATTGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.16
17 18 0.49
19 13 0.35
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.19
Consensus pattern (17 bp):
ATAAAATAAAAATAAAA
Found at i:13648663 original size:12 final size:12
Alignment explanation
Indices: 13648601--13648659 Score: 68
Period size: 13 Copynumber: 4.9 Consensus size: 12
13648591 AAAAATACAT
13648601 AAAATAAAAATA
1 AAAATAAAAATA
*
13648613 AAAAAATAAAATA
1 AAAATA-AAAATA
13648626 AAAATAAAAAT-
1 AAAATAAAAATA
*
13648637 AATAT-AAAATA
1 AAAATAAAAATA
13648648 CAAAATAAAAAT
1 -AAAATAAAAAT
13648660 CAAATTGGGC
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 5 0.13
11 4 0.10
12 14 0.36
13 16 0.41
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.19
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:13649014 original size:41 final size:41
Alignment explanation
Indices: 13648836--13649091 Score: 305
Period size: 41 Copynumber: 6.1 Consensus size: 41
13648826 TTTGATCAAA
* * * * * *
13648836 GCTCCTCTAAGCAGAGGCTCAATGACTTTAAGAAACATAAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTT--GAAAAATAAATT
* * * * *
13648879 GCTACTCTAATCAGAGGCTCAACAACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAATAAATT
*
13648921 GTTCCTCTAAACAGAGGCACCACGACTTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAATAAATT
* * *
13648963 GCTCCTCTAAACAGAGGCACCATGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
*
13649004 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
* * *
13649045 GCTCATCTAAACAGAGGCACCACGATTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
13649086 GCTCCT
1 GCTCCT
13649092 TGACAATCAT
Statistics
Matches: 190, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
41 96 0.51
42 66 0.35
43 28 0.15
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.25
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
Found at i:13650123 original size:6 final size:7
Alignment explanation
Indices: 13650106--13650147 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
13650096 CTTTTTTAAT
*
13650106 TTTTTAA
1 TTTTTCA
13650113 TTTTTCA
1 TTTTTCA
13650120 TTTTTTTCA
1 --TTTTTCA
13650129 TTTTTCA
1 TTTTTCA
13650136 TTTTTCA
1 TTTTTCA
13650143 TTTTT
1 TTTTT
13650148 TTCAAGCATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 25 0.78
9 7 0.22
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCA
Found at i:13650148 original size:23 final size:24
Alignment explanation
Indices: 13650097--13650151 Score: 85
Period size: 23 Copynumber: 2.3 Consensus size: 24
13650087 TTTCATTCGC
*
13650097 TTTTTTAATTTTTTAATTTTTCAT
1 TTTTTTCATTTTTTAATTTTTCAT
*
13650121 TTTTTTCA-TTTTTCATTTTTCAT
1 TTTTTTCATTTTTTAATTTTTCAT
13650144 TTTTTTCA
1 TTTTTTCA
13650152 AGCATAGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 22 0.76
24 7 0.24
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTTTTCATTTTTTAATTTTTCAT
Found at i:13650151 original size:16 final size:16
Alignment explanation
Indices: 13650105--13650140 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
13650095 GCTTTTTTAA
13650105 TTTTTTAATTTTTCAT
1 TTTTTTAATTTTTCAT
*
13650121 TTTTTTCATTTTTCAT
1 TTTTTTAATTTTTCAT
13650137 TTTT
1 TTTT
13650141 CATTTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTAATTTTTCAT
Found at i:13657572 original size:59 final size:60
Alignment explanation
Indices: 13657387--13658195 Score: 927
Period size: 59 Copynumber: 13.7 Consensus size: 60
13657377 TTGTGTAGAA
* * * *
13657387 AAAATCGATACTTTCAACTTTTCC-CTAAAAATATTCTTTTG-AAAC-TTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGAAAACTTTTATTTTCAAGG
*
13657445 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTTGAAAA--TTTATTCTT-AAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA--TA-TTTTTTTGAAAACTTTTATT-TTCAAGG
*
13657506 AAAATTGATACTTTCAAC-TTTCCTCAAAAATATTTTTTTGAAAACTTTTATTTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAACTTTTATTTTCAAGG
*
13657565 AAAATTGATATTTTCAACTTTTCCTCAAAAATTAATTTTTTT-AAAA--TTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-T-ATTTTTTTGAAAACTTTTATTTTCAAGG
* * *
13657624 AAAATTGATACCTTCAACTTTTCCTCAAAAAT-TGATTTTTT-AAAA-ATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT--TTTTTTGAAAACTTTTATTTTCAAGG
* *
13657683 AAAATTGATACTTTCAACTTTT-CTCCAAAAATATTTTTTTGGAAACTTTTATTTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTGAAAACTTTTATTTTCAAGG
*
13657743 AAAATTGATACTTTCAACTTTTTCC-CAAAAATA-TTTTTTGAAAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTG-AAAACTTTTATTTTCAAGG
* * *** * *
13657803 AAAATTGATACTTTCAACTTTTTCTCATAAACCCTTTTTTG-AAA-TTTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAACTTTTATTTTCAAGG
*
13657861 AAAATTGATACTTTCAACTTTT-CTCCAAAAATA-TTTTTTGAAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTGAAAACTTTTATTTTCAAGG
* * ** *
13657920 AAAATTGATACTTTCAATTTTTTCTCAAAAACCTTTTTCTTG-AAA-TTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT-TTGAAAACTTTTATTTTCAAGG
* *
13657979 AAAATTGATACTTTCAACTTTTTCC-CAAAAATA-TTTTTTGAAAACTTTGATTTTCGAA-A
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTGAAAACTTTTATTTTC-AAGG
** * *
13658038 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGGAAA-TTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAACTTTTATTTTCAAGG
* * * * *
13658097 AAAATTGATATTTTCAACTTTT-TTCCAAAAATA-TTTTTTGGAAACTTTAATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTGAAAACTTTTATTTTCAAGG
*
13658156 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
13658196 TATTTTTATT
Statistics
Matches: 651, Mismatches: 59, Indels: 80
0.82 0.07 0.10
Matches are distributed among these distances:
56 1 0.00
57 24 0.04
58 119 0.18
59 307 0.47
60 135 0.21
61 51 0.08
62 14 0.02
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAACTTTTATTTTCAAGG
Found at i:13657595 original size:27 final size:27
Alignment explanation
Indices: 13657565--13657664 Score: 74
Period size: 27 Copynumber: 3.5 Consensus size: 27
13657555 ATTTTCGAGG
13657565 AAAATTGATATTTTCAACTTTTCCTCA
1 AAAATTGATATTTTCAACTTTTCCTCA
* * * * **
13657592 AAAATTAATTTTTTTAAAATTTATTTTCAA
1 AAAATTGA-TATTTTCAACTTT-TCCTC-A
**
13657622 GGAAAATTGATACCTTCAACTTTTCCTCA
1 --AAAATTGATATTTTCAACTTTTCCTCA
*
13657651 AAAATTGATTTTTT
1 AAAATTGATATTTT
13657665 AAAAATTTAT
Statistics
Matches: 51, Mismatches: 17, Indels: 10
0.65 0.22 0.13
Matches are distributed among these distances:
27 18 0.35
28 10 0.20
29 4 0.08
30 4 0.08
31 8 0.16
32 7 0.14
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (27 bp):
AAAATTGATATTTTCAACTTTTCCTCA
Found at i:13658246 original size:22 final size:22
Alignment explanation
Indices: 13658211--13658301 Score: 66
Period size: 23 Copynumber: 4.1 Consensus size: 22
13658201 TTATTTAAAG
13658211 AAAATAGAATAATAAA-ACAAAAT
1 AAAAT-GAA-AATAAAGACAAAAT
* *
13658234 AAAAGTGAAAATAAATAAAAAAT
1 AAAA-TGAAAATAAAGACAAAAT
13658257 -AAA-GAAAAGTAAA-ACAAAAAT
1 AAAATGAAAA-TAAAGAC-AAAAT
*
13658278 AAAAAT-AAAATAAAGATAAAAT
1 -AAAATGAAAATAAAGACAAAAT
13658300 AA
1 AA
13658302 TATTAAATAA
Statistics
Matches: 57, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
20 6 0.11
21 11 0.19
22 18 0.32
23 21 0.37
24 1 0.02
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (22 bp):
AAAATGAAAATAAAGACAAAAT
Found at i:13658257 original size:11 final size:10
Alignment explanation
Indices: 13658221--13658301 Score: 63
Period size: 11 Copynumber: 7.5 Consensus size: 10
13658211 AAAATAGAAT
*
13658221 AATAAAACAA
1 AATAAAAAAA
*
13658231 AATAAAAGTGAA
1 AATAAAA--AAA
13658243 AATAAATAAAA
1 AATAAA-AAAA
*
13658254 AATAAAGAAA
1 AATAAAAAAA
*
13658264 AGTAAAACAAA
1 AATAAAA-AAA
13658275 AATAAAAATAA
1 AATAAAAA-AA
*
13658286 AATAAAGATAA
1 AATAAA-AAAA
13658297 AATAA
1 AATAA
13658302 TATTAAATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
10 16 0.28
11 32 0.55
12 9 0.16
13 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (10 bp):
AATAAAAAAA
Found at i:13658269 original size:21 final size:20
Alignment explanation
Indices: 13658216--13658280 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 20
13658206 TAAAGAAAAT
13658216 AGAATAATAAAAC-AAAATAAA
1 AGAA-AATAAAACAAAAAT-AA
13658237 AGTGAAAATAAATA-AAAAATAA
1 A--GAAAATAAA-ACAAAAATAA
13658259 AGAAAAGTAAAACAAAAATAA
1 AGAAAA-TAAAACAAAAATAA
13658280 A
1 A
13658281 AATAAAATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
20 6 0.16
21 14 0.37
22 9 0.24
23 9 0.24
ACGTcount: A:0.75, C:0.03, G:0.08, T:0.14
Consensus pattern (20 bp):
AGAAAATAAAACAAAAATAA
Found at i:13658292 original size:27 final size:27
Alignment explanation
Indices: 13658218--13658298 Score: 76
Period size: 27 Copynumber: 2.9 Consensus size: 27
13658208 AAGAAAATAG
* * *
13658218 AATAATAAAACAAAATAAAAGTGAAAATA
1 AATAA-AAAATAAAAT-AAAGTAAAAAAA
13658247 AATAAAAAATAAAGA-AAAGTAAAACAAA
1 AATAAAAAATAAA-ATAAAGTAAAA-AAA
13658275 AAT-AAAAATAAAATAAAGATAAAA
1 AATAAAAAATAAAATAAAG-TAAAA
13658299 TAATATTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
26 1 0.02
27 21 0.47
28 17 0.38
29 6 0.13
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (27 bp):
AATAAAAAATAAAATAAAGTAAAAAAA
Found at i:13659222 original size:20 final size:21
Alignment explanation
Indices: 13659192--13659242 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 21
13659182 AAAGAGAGAA
*
13659192 AAAAAAGAAATCTGATAAACG
1 AAAAAAGAAATCAGATAAACG
13659213 AAAAAA-AAATCAGATAAACG
1 AAAAAAGAAATCAGATAAACG
13659233 AAAAAAGAAA
1 AAAAAAGAAA
13659243 AAAAACAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.71, C:0.08, G:0.12, T:0.10
Consensus pattern (21 bp):
AAAAAAGAAATCAGATAAACG
Found at i:13659274 original size:21 final size:21
Alignment explanation
Indices: 13659249--13659326 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
13659239 GAAAAAAAAC
13659249 AGATAATTAAAAATAATAATA
1 AGATAATTAAAAATAATAATA
* * *
13659270 AGATAAATAAAAA-ATATTACA
1 AGATAATTAAAAATA-ATAATA
*
13659291 AGATAAATAAAAAATAATAATA
1 AGAT-AATTAAAAATAATAATA
*
13659313 A-ATAA-TAATAATAA
1 AGATAATTAAAAATAA
13659327 ATATATAACT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
19 7 0.16
20 3 0.07
21 22 0.49
22 12 0.27
23 1 0.02
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.26
Consensus pattern (21 bp):
AGATAATTAAAAATAATAATA
Found at i:13659310 original size:46 final size:46
Alignment explanation
Indices: 13659249--13659348 Score: 129
Period size: 43 Copynumber: 2.3 Consensus size: 46
13659239 GAAAAAAAAC
* *
13659249 AGAT-AATTAAAAATAATAATAAGAT-A-AATAA-AAA-ATATTACA
1 AGATAAATAAAAAATAATAATAA-ATAATAATAATAAATATATAACA
*
13659291 AGATAAATAAAAAATAATAATAAATAATAATAATAAATATATAACT
1 AGATAAATAAAAAATAATAATAAATAATAATAATAAATATATAACA
13659337 AGATAAATAAAA
1 AGATAAATAAAA
13659349 TACATATATA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
42 6 0.12
43 18 0.36
44 5 0.10
45 3 0.06
46 18 0.36
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (46 bp):
AGATAAATAAAAAATAATAATAAATAATAATAATAAATATATAACA
Found at i:13659314 original size:13 final size:13
Alignment explanation
Indices: 13659296--13659327 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
13659286 TTACAAGATA
13659296 AATAAAAAATAAT
1 AATAAAAAATAAT
*
13659309 AATAAATAATAAT
1 AATAAAAAATAAT
13659322 AATAAA
1 AATAAA
13659328 TATATAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AATAAAAAATAAT
Found at i:13659329 original size:10 final size:10
Alignment explanation
Indices: 13659259--13659323 Score: 51
Period size: 10 Copynumber: 6.2 Consensus size: 10
13659249 AGATAATTAA
13659259 AAATAATAAT
1 AAATAATAAT
*
13659269 AAGATAAATAAA
1 AA-AT-AATAAT
*
13659281 AAATATTACA-
1 AAATAATA-AT
* *
13659291 AGATAAATAAA
1 AAAT-AATAAT
13659302 AAATAATAAT
1 AAATAATAAT
13659312 AAATAATAAT
1 AAATAATAAT
13659322 AA
1 AA
13659324 TAAATATATA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
10 26 0.59
11 11 0.25
12 7 0.16
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.25
Consensus pattern (10 bp):
AAATAATAAT
Found at i:13659431 original size:10 final size:10
Alignment explanation
Indices: 13659413--13659458 Score: 55
Period size: 9 Copynumber: 4.9 Consensus size: 10
13659403 ATACATAGTA
13659413 ATAATAAATAC
1 ATAA-AAATAC
13659424 ATAAAAATAC
1 ATAAAAATAC
13659434 AT-AAAATAC
1 ATAAAAATAC
13659443 A-AAAAA-A-
1 ATAAAAATAC
13659450 ATAAAAATA
1 ATAAAAATA
13659459 AAAATAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 1 0.03
8 6 0.19
9 13 0.41
10 8 0.25
11 4 0.12
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.20
Consensus pattern (10 bp):
ATAAAAATAC
Found at i:13659457 original size:6 final size:6
Alignment explanation
Indices: 13659436--13659485 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
13659426 AAAAATACAT
* *
13659436 AAAATA CAAA-A AAAATA AAAATA AAAAT- AATAT- AAAATA CAAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA -AAAATA
13659482 AAAA
1 AAAA
13659486 CCAAATTGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
5 12 0.32
6 19 0.51
7 6 0.16
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:13659472 original size:17 final size:17
Alignment explanation
Indices: 13659434--13659484 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
13659424 ATAAAAATAC
13659434 ATAAAATACAAAA-AAA
1 ATAAAATACAAAATAAA
*
13659450 ATAAAAATA-AAAATAAT
1 AT-AAAATACAAAATAAA
13659467 ATAAAATACAAAATAAA
1 ATAAAATACAAAATAAA
13659484 A
1 A
13659485 ACCAAATTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 12 0.40
17 18 0.60
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (17 bp):
ATAAAATACAAAATAAA
Found at i:13659476 original size:33 final size:35
Alignment explanation
Indices: 13659372--13659484 Score: 106
Period size: 33 Copynumber: 3.1 Consensus size: 35
13659362 ATTAACAGAA
* * *
13659372 AAAATAAATAAATAAAGATATACATATATTAATACATAGT
1 AAAATAAATACATAAA-A-ATACATA-A--AATACAAAAT
13659412 AATAATAAATACATAAAAATACATAAAATACAAAA-
1 AA-AATAAATACATAAAAATACATAAAATACAAAAT
*
13659447 AAAATAAA-A-ATAAAAATAATATAAAATACAAAAT
1 AAAATAAATACATAAAAAT-ACATAAAATACAAAAT
13659481 AAAA
1 AAAA
13659485 ACCAAATTGG
Statistics
Matches: 66, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
32 8 0.12
33 15 0.23
34 10 0.15
35 2 0.03
36 7 0.11
38 1 0.02
39 7 0.11
40 3 0.05
41 13 0.20
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (35 bp):
AAAATAAATACATAAAAATACATAAAATACAAAAT
Found at i:13660139 original size:13 final size:13
Alignment explanation
Indices: 13660121--13660145 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13660111 CTTTCTTTTA
13660121 TTTTTTTTTATTC
1 TTTTTTTTTATTC
13660134 TTTTTTTTTATT
1 TTTTTTTTTATT
13660146 ATTACCCCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.04, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTATTC
Found at i:13660508 original size:22 final size:22
Alignment explanation
Indices: 13660475--13660532 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
13660465 CAATCATTCA
13660475 TTTCTTTTCTTTTGTTCTC-TTTC
1 TTTC-TTTCTTTTGTTC-CATTTC
* *
13660498 TTTCTTTCTTTTTTTCCATTTT
1 TTTCTTTCTTTTGTTCCATTTC
*
13660520 TTTCTTTCATTTG
1 TTTCTTTCTTTTG
13660533 CTTTCCCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 1 0.03
22 25 0.83
23 4 0.13
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.74
Consensus pattern (22 bp):
TTTCTTTCTTTTGTTCCATTTC
Found at i:13668417 original size:145 final size:145
Alignment explanation
Indices: 13668165--13668468 Score: 346
Period size: 145 Copynumber: 2.1 Consensus size: 145
13668155 CTTTAGGACA
* * ** * * *
13668165 TTCAAATTA-CAAAAATATTCTTAAATGGCATTTTAGTAATTTTATGCCTTTTAAGGTGTGATCA
1 TTCAAATTATGAAAAATACTCTTAAATGGCATTTTAGTAATTTTACACATTTCAAGGTATGATCA
** * * * * *
13668229 TAGTTTTTAATGTACCACAAATCATGAAATAATATGAAAATATGATCTAGAGTCTTTTCACGAAA
66 TAGTTTTTAATACACAAAAAATCATGAAATAATATCAAAATATGATATAGAGT-TTTTCACAAAA
*
13668294 ATTCAATCTCGAGAAGG
130 ATCCAA-CTCGAGAAGG
* *
13668311 -TCAAATTATGAAAAATACTCTTAAA-GAGTATTTTGGTAATTTTACACATTTCAAGGTATGATC
1 TTCAAATTATGAAAAATACTCTTAAATG-GCATTTTAGTAATTTTACACATTTCAAGGTATGATC
* * * *
13668374 A-AGTTTTTAATACATAAAAAATCATGGAATGATATCAAAATATGATATGGAGTTTTTCACAAAA
65 ATAGTTTTTAATACACAAAAAATCATGAAATAATATCAAAATATGATATAGAGTTTTTCACAAAA
*
13668438 ATCCAACTTGAGAAGG
130 ATCCAACTCGAGAAGG
*
13668454 TTAAAATTATGAAAA
1 TTCAAATTATGAAAA
13668469 TACCTTTATA
Statistics
Matches: 132, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
143 9 0.07
144 28 0.21
145 51 0.39
146 44 0.33
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (145 bp):
TTCAAATTATGAAAAATACTCTTAAATGGCATTTTAGTAATTTTACACATTTCAAGGTATGATCA
TAGTTTTTAATACACAAAAAATCATGAAATAATATCAAAATATGATATAGAGTTTTTCACAAAAA
TCCAACTCGAGAAGG
Found at i:13670542 original size:26 final size:27
Alignment explanation
Indices: 13670488--13670548 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
13670478 TACATTTGGA
*
13670488 AAATAAATAGATATTATTAATAATATT
1 AAATAAATAAATATTATTAATAATATT
13670515 AAA-AAATAAATATATATT-AT-ATAGTT
1 AAATAAATAAATAT-TATTAATAATA-TT
13670541 AAATAAAT
1 AAATAAAT
13670549 TAATTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 3 0.10
26 16 0.53
27 11 0.37
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (27 bp):
AAATAAATAAATATTATTAATAATATT
Found at i:13677877 original size:19 final size:19
Alignment explanation
Indices: 13677855--13677892 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13677845 AATTTTTTTT
13677855 TTTTGGATAATTTTTGTAA
1 TTTTGGATAATTTTTGTAA
**
13677874 TTTTTTATAATTTTTGTAA
1 TTTTGGATAATTTTTGTAA
13677893 ATAATATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (19 bp):
TTTTGGATAATTTTTGTAA
Found at i:13681691 original size:3 final size:3
Alignment explanation
Indices: 13681683--13681720 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
13681673 TATATTTGTT
13681683 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13681721 CAGTTAATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13685745 original size:26 final size:26
Alignment explanation
Indices: 13685700--13685750 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
13685690 CTCAGTTTTC
13685700 TTTATTCCCTTAGTCATTTCCTATCT
1 TTTATTCCCTTAGTCATTTCCTATCT
* * *
13685726 TTTATTCTCTTGGTCCTTTCCTATC
1 TTTATTCCCTTAGTCATTTCCTATC
13685751 CTTTCTACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.12, C:0.27, G:0.06, T:0.55
Consensus pattern (26 bp):
TTTATTCCCTTAGTCATTTCCTATCT
Found at i:13686131 original size:28 final size:26
Alignment explanation
Indices: 13686071--13686133 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
13686061 ACTACCTCGA
* *
13686071 TTTTTCCCTTATAAAGGATTGTAAAT
1 TTTTTTCCTTATAAAAGATTGTAAAT
* *
13686097 TCTTTTCCTTCATAAAAGATTGTACACT
1 TTTTTTCCTT-ATAAAAGATTGTA-AAT
13686125 TTTTTTCCT
1 TTTTTTCCT
13686134 GTTAGGGATC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 8 0.27
27 12 0.40
28 10 0.33
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.49
Consensus pattern (26 bp):
TTTTTTCCTTATAAAAGATTGTAAAT
Found at i:13688781 original size:28 final size:28
Alignment explanation
Indices: 13688749--13688810 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
13688739 TAATAAAATA
*
13688749 TTTAATGTGTT-TTTAAACTTAAAAATTT
1 TTTAATGTGTTATTCAAA-TTAAAAATTT
*
13688777 TTTAATGTGTTATTCAAATTATAAATTT
1 TTTAATGTGTTATTCAAATTAAAAATTT
*
13688805 ATTAAT
1 TTTAAT
13688811 TAATATGATC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.53
Consensus pattern (28 bp):
TTTAATGTGTTATTCAAATTAAAAATTT
Found at i:13689676 original size:16 final size:17
Alignment explanation
Indices: 13689645--13689682 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
13689635 TTGATGCTTC
*
13689645 TTTTCTTTTCTTTTTTA
1 TTTTGTTTTCTTTTTTA
13689662 TTTTGTTTT-TTTTTTA
1 TTTTGTTTTCTTTTTTA
13689678 TTTTG
1 TTTTG
13689683 AGGTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.05, C:0.05, G:0.05, T:0.84
Consensus pattern (17 bp):
TTTTGTTTTCTTTTTTA
Found at i:13704736 original size:2 final size:2
Alignment explanation
Indices: 13704729--13704758 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13704719 AGTATTGCAT
13704729 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13704759 GGAATCTCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13704833 original size:25 final size:26
Alignment explanation
Indices: 13704805--13704866 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
13704795 TCCCTTTCAC
* *
13704805 ATGTATATAT-AATGTATATGAATTT
1 ATGTATATATGAATGTATACGAATGT
* *
13704830 ATGT-TGTATGAATGTATACGTATGT
1 ATGTATATATGAATGTATACGAATGT
13704855 ATTGTATATATG
1 A-TGTATATATG
13704867 CCTGGTGTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
24 4 0.14
25 17 0.59
26 3 0.10
27 5 0.17
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.47
Consensus pattern (26 bp):
ATGTATATATGAATGTATACGAATGT
Found at i:13706264 original size:1 final size:1
Alignment explanation
Indices: 13706258--13706287 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
13706248 TCCCCACCAT
13706258 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13706288 CACACACACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13716285 original size:29 final size:30
Alignment explanation
Indices: 13716250--13716306 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
13716240 ACTAGTCTTA
13716250 TTAATAATTTTT-GTTAATTTTTATTTTAC
1 TTAATAATTTTTAGTTAATTTTTATTTTAC
13716279 TTAATAATTTTTAGTTAATTTTTATTTT
1 TTAATAATTTTTAGTTAATTTTTATTTT
13716307 TACATTATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (30 bp):
TTAATAATTTTTAGTTAATTTTTATTTTAC
Found at i:13716484 original size:18 final size:18
Alignment explanation
Indices: 13716461--13716502 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
13716451 GATAAAAAAT
13716461 TTATTTCTTACATTTTTA
1 TTATTTCTTACATTTTTA
* **
13716479 TTATTTTTTATTTTTTTA
1 TTATTTCTTACATTTTTA
13716497 TTATTT
1 TTATTT
13716503 TTTAAAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (18 bp):
TTATTTCTTACATTTTTA
Found at i:13716488 original size:10 final size:10
Alignment explanation
Indices: 13716473--13716506 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
13716463 ATTTCTTACA
13716473 TTTTTATTAT
1 TTTTTATTAT
13716483 TTTTTA-T-T
1 TTTTTATTAT
13716491 TTTTTATTAT
1 TTTTTATTAT
13716501 TTTTTA
1 TTTTTA
13716507 AAATTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 7 0.32
9 2 0.09
10 13 0.59
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTATTAT
Found at i:13718026 original size:13 final size:14
Alignment explanation
Indices: 13718005--13718034 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
13717995 TTTTGTTTGG
13718005 TTTTTTTGG-TTTT
1 TTTTTTTGGATTTT
13718018 TTTTTTTGGATTTT
1 TTTTTTTGGATTTT
13718032 TTT
1 TTT
13718035 ATTTAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.03, C:0.00, G:0.13, T:0.83
Consensus pattern (14 bp):
TTTTTTTGGATTTT
Found at i:13718345 original size:104 final size:104
Alignment explanation
Indices: 13718118--13718346 Score: 255
Period size: 104 Copynumber: 2.2 Consensus size: 104
13718108 ATAAAATAAG
* * * * * *
13718118 AGATCATGCCTAGATGTCTTATAAATCTCAACATCTTTGAGTGCTTATCGTATCAGAGGCATTAA
1 AGATTATGCCTAGATGTCTTACAAATCTCAACATATTTGAATGCTCATCGTATCAGAAGCATTAA
* ** * *
13718183 AACTTTAAAATTTTAAAATGTTTTGCTTGGAGGTCTTAC
66 AACTTTAAAATTTTAAAATCTTTTGCCCGAAAGTCTTAC
* * * * *
13718222 AGATTATGCATGGATGTCTTACAAATCTTAACATATTTGAATGCTCCTCGTATCTA-AAGCATTG
1 AGATTATGCCTAGATGTCTTACAAATCTCAACATATTTGAATGCTCATCGTATC-AGAAGCATTA
**
13718286 AAACTTTGAAAA-TTTAAAATCTTTTGCCCGAAAGTCTTGT
65 AAACTTT-AAAATTTTAAAATCTTTTGCCCGAAAGTCTTAC
*
13718326 AGATTATGCCTAGAAGTCTTA
1 AGATTATGCCTAGATGTCTTA
13718347 AAGATTACGT
Statistics
Matches: 102, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
104 97 0.95
105 5 0.05
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (104 bp):
AGATTATGCCTAGATGTCTTACAAATCTCAACATATTTGAATGCTCATCGTATCAGAAGCATTAA
AACTTTAAAATTTTAAAATCTTTTGCCCGAAAGTCTTAC
Found at i:13718458 original size:126 final size:126
Alignment explanation
Indices: 13718237--13718478 Score: 319
Period size: 126 Copynumber: 1.9 Consensus size: 126
13718227 ATGCATGGAT
* * *
13718237 GTCTTACAAATCTTAACATATTTGAATGCTCCTCGTATCTAAAGCATTGAAACTTTGAAAATTTA
1 GTCTTACAAATCTCAACATATTTGAATGCTCCTCATATCTAAAGCATTGAAACTTTAAAAATTTA
** * *
13718302 AAATCTTTTGCCCGAAAGTCTTGTAGATTATGCCTAGAA-GTCTTAAAGATTACGTCCGAAG
66 AAATCTTTTGCCCGAAAGTCTTACAAATTATGCCCA-AAGGTCTTAAAGATTACGTCCGAAG
* * *
13718363 GTCTTACAAATCTCAACATCTTTGAATGCTCCTCATATC-AGAGGTATTGAAACTTTAAAAATTT
1 GTCTTACAAATCTCAACATATTTGAATGCTCCTCATATCTA-AAGCATTGAAACTTTAAAAATTT
* * *
13718427 TAAATTTTTTGCCC-AAATGTCTTACAAATTATGCCCAAAGGTTTTAAAGATT
65 AAAATCTTTTGCCCGAAA-GTCTTACAAATTATGCCCAAAGGTCTTAAAGATT
13718479 TGGGTGCTAG
Statistics
Matches: 100, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
125 6 0.06
126 94 0.94
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (126 bp):
GTCTTACAAATCTCAACATATTTGAATGCTCCTCATATCTAAAGCATTGAAACTTTAAAAATTTA
AAATCTTTTGCCCGAAAGTCTTACAAATTATGCCCAAAGGTCTTAAAGATTACGTCCGAAG
Found at i:13718987 original size:6 final size:6
Alignment explanation
Indices: 13718964--13719015 Score: 63
Period size: 6 Copynumber: 8.8 Consensus size: 6
13718954 TTTTTTGCCA
* *
13718964 TCTTTT T-TTTAT TTTTTT TCTTTT TCTTTT TCTTTT T-TTTT TCTCTT
1 TCTTTT TCTTT-T TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
13719011 TCTTT
1 TCTTT
13719016 CTTTTATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
5 8 0.20
6 29 0.73
7 3 0.08
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (6 bp):
TCTTTT
Found at i:13718987 original size:17 final size:16
Alignment explanation
Indices: 13718942--13719025 Score: 62
Period size: 17 Copynumber: 4.9 Consensus size: 16
13718932 ATAGATTTGC
*
13718942 TTCTTTTTTTTTTTTT
1 TTCTTTCTTTTTTTTT
**
13718958 TTGCCATCTTTTTTTTATT
1 TT-CTTTC-TTTTTTT-TT
* *
13718977 TTTTTTCTTTTTCTTT
1 TTCTTTCTTTTTTTTT
13718993 TTCTTT-TTTTTTTCTCT
1 TTCTTTCTTTTTTT-T-T
13719010 TTCTTTCTTTTATTTT
1 TTCTTTCTTTT-TTTT
13719026 AATATTTACA
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
15 6 0.12
16 10 0.19
17 15 0.29
18 14 0.27
19 7 0.13
ACGTcount: A:0.04, C:0.13, G:0.01, T:0.82
Consensus pattern (16 bp):
TTCTTTCTTTTTTTTT
Found at i:13718993 original size:23 final size:22
Alignment explanation
Indices: 13718942--13719025 Score: 80
Period size: 23 Copynumber: 3.7 Consensus size: 22
13718932 ATAGATTTGC
*
13718942 TTCTTTTTTTTTTTTTTTGCCAT
1 TTCTTTTTTTTTTTTTTT-CTAT
* *
13718965 CTT-TTTTTTATTTTTTTTCTTT
1 -TTCTTTTTTTTTTTTTTTCTAT
*
13718987 TTCTTTTTCTTTTTTTTTTCTCT
1 TTCTTTTT-TTTTTTTTTTCTAT
* *
13719010 TTCTTTCTTTTATTTT
1 TTCTTTTTTTTTTTTT
13719026 AATATTTACA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.04
22 14 0.27
23 33 0.65
24 2 0.04
ACGTcount: A:0.04, C:0.13, G:0.01, T:0.82
Consensus pattern (22 bp):
TTCTTTTTTTTTTTTTTTCTAT
Found at i:13719020 original size:21 final size:19
Alignment explanation
Indices: 13718943--13719002 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 19
13718933 TAGATTTGCT
*
13718943 TCTTTTTTTTTTTTTTTGCC
1 TCTTTTTTTTTTTTTTT-TC
13718963 ATCTTTTTTTTATTTTTTTTC
1 -TCTTTTTTTT-TTTTTTTTC
13718984 T-TTTTCTTTTTCTTTTTTT
1 TCTTTT-TTTTT-TTTTTTT
13719003 TTTCTCTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
19 5 0.14
20 12 0.34
21 11 0.31
22 7 0.20
ACGTcount: A:0.03, C:0.12, G:0.02, T:0.83
Consensus pattern (19 bp):
TCTTTTTTTTTTTTTTTTC
Found at i:13727577 original size:29 final size:30
Alignment explanation
Indices: 13727542--13727598 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
13727532 ACTAGTCTTA
13727542 TTAATAATTTTT-GTTAATTTTTATTTTAC
1 TTAATAATTTTTAGTTAATTTTTATTTTAC
13727571 TTAATAATTTTTAGTTAATTTTTATTTT
1 TTAATAATTTTTAGTTAATTTTTATTTT
13727599 TCCTTCATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (30 bp):
TTAATAATTTTTAGTTAATTTTTATTTTAC
Found at i:13727777 original size:9 final size:9
Alignment explanation
Indices: 13727765--13727814 Score: 59
Period size: 9 Copynumber: 5.6 Consensus size: 9
13727755 TTCTTACATT
13727765 TTTTTATTA
1 TTTTTATTA
13727774 -TTTT-TTA
1 TTTTTATTA
13727781 TTTTTATTA
1 TTTTTATTA
13727790 TTTTTTAATTA
1 -TTTTT-ATTA
*
13727801 TTTTTCTTA
1 TTTTTATTA
13727810 TTTTT
1 TTTTT
13727815 TAAAATTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
7 3 0.08
8 8 0.22
9 11 0.31
10 10 0.28
11 4 0.11
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTATTA
Found at i:13727786 original size:16 final size:16
Alignment explanation
Indices: 13727765--13727796 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13727755 TTCTTACATT
13727765 TTTTTATTATTTTTTA
1 TTTTTATTATTTTTTA
13727781 TTTTTATTATTTTTTA
1 TTTTTATTATTTTTTA
13727797 ATTATTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTATTATTTTTTA
Found at i:13727803 original size:20 final size:19
Alignment explanation
Indices: 13727762--13727817 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
13727752 AATTTCTTAC
13727762 ATTTTTTTATTATTTT--TT
1 ATTTTTTTATT-TTTTAATT
13727780 ATTTTTATTATTTTTTAATT
1 ATTTTT-TTATTTTTTAATT
13727800 ATTTTTCTTATTTTTTAA
1 ATTTTT-TTATTTTTTAA
13727818 AATTTAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
19 5 0.15
20 19 0.56
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (19 bp):
ATTTTTTTATTTTTTAATT
Found at i:13727862 original size:3 final size:3
Alignment explanation
Indices: 13727854--13727907 Score: 71
Period size: 3 Copynumber: 19.0 Consensus size: 3
13727844 AACCATTTTA
13727854 TAT TAT TAT TAT TAT TAT TAT TAT TAGT TAT T-T T-T TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
13727897 TAT TAT T-T TAT
1 TAT TAT TAT TAT
13727908 AAGATTTATC
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 8 0.17
3 36 0.77
4 3 0.06
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:13729092 original size:37 final size:37
Alignment explanation
Indices: 13729051--13729143 Score: 87
Period size: 37 Copynumber: 2.5 Consensus size: 37
13729041 TTTTTTGCTA
** * *
13729051 TTTTTTTATTGATTAATTGTTTTTTTTCTTGTTTTAT
1 TTTTTTTATTGATTAATTCATTGTTTTCTTATTTTAT
* * * *
13729088 TTTTTTCATTCATTCATTCATTGTTTTGTTATTTTAT
1 TTTTTTTATTGATTAATTCATTGTTTTCTTATTTTAT
*
13729125 TTTTTAATATTTGATTAAT
1 TTTTT-TTA-TTGATTAAT
13729144 AAAATCAGGC
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
37 34 0.81
38 1 0.02
39 7 0.17
ACGTcount: A:0.18, C:0.05, G:0.06, T:0.70
Consensus pattern (37 bp):
TTTTTTTATTGATTAATTCATTGTTTTCTTATTTTAT
Found at i:13732346 original size:30 final size:30
Alignment explanation
Indices: 13732310--13732382 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
13732300 TATTACACTT
* * * *
13732310 AAATAAATTCTTAATTTTTATTTTGCATGC
1 AAATAAACTCTTAAATTTTAGTTTACATGC
* *
13732340 AAATAAACTCTTAAATTTTAGTTTATATGT
1 AAATAAACTCTTAAATTTTAGTTTACATGC
13732370 AAATAAACTCTTA
1 AAATAAACTCTTA
13732383 CCCTTTAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (30 bp):
AAATAAACTCTTAAATTTTAGTTTACATGC
Found at i:13735206 original size:29 final size:30
Alignment explanation
Indices: 13735152--13735218 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 30
13735142 TTATTACACT
* *
13735152 CAAATAAATTTTTAATTTTTATTTTGCATC
1 CAAATAAATTTTTAATTTTTAATTTGCATA
13735182 CAAATAAATTTTTAA-TTTTAATTTGCATA
1 CAAATAAATTTTTAATTTTTAATTTGCATA
*
13735211 TAAATAAA
1 CAAATAAA
13735219 CTCTTATCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 19 0.56
30 15 0.44
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (30 bp):
CAAATAAATTTTTAATTTTTAATTTGCATA
Found at i:13739673 original size:12 final size:12
Alignment explanation
Indices: 13739656--13739684 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13739646 TCATTCAAAA
13739656 ATTTTATTAATT
1 ATTTTATTAATT
13739668 ATTTTATTAATT
1 ATTTTATTAATT
13739680 -TTTTA
1 ATTTTA
13739685 ATTTTGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTTATTAATT
Found at i:13740246 original size:10 final size:9
Alignment explanation
Indices: 13740221--13740245 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13740211 AAATAATATA
13740221 TAAAAAATT
1 TAAAAAATT
13740230 TAAAAAATT
1 TAAAAAATT
13740239 TAAAAAA
1 TAAAAAA
13740246 AATTTTTTAC
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
TAAAAAATT
Found at i:13742471 original size:21 final size:22
Alignment explanation
Indices: 13742429--13742481 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
13742419 CCTAAAATTA
13742429 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
13742451 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
13742472 ATAAATATAT
1 ATAAA-ATAT
13742482 AATTATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 9 0.30
22 21 0.70
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:13742503 original size:18 final size:18
Alignment explanation
Indices: 13742470--13742504 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13742460 TATTTTTTAA
* *
13742470 ATATAAATATATAATTAT
1 ATATAAATAAAAAATTAT
13742488 ATATAAATAAAAAATTA
1 ATATAAATAAAAAATTA
13742505 AAAAATAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATAAATAAAAAATTAT
Found at i:13742646 original size:21 final size:21
Alignment explanation
Indices: 13742616--13742659 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
13742606 TTATAAGATC
*
13742616 AGGTCGGATCGAAATCCGTCA
1 AGGTCAGATCGAAATCCGTCA
13742637 AGGTCAGATCGAAATCCGTCA
1 AGGTCAGATCGAAATCCGTCA
13742658 AG
1 AG
13742660 CTCGGAGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.18
Consensus pattern (21 bp):
AGGTCAGATCGAAATCCGTCA
Found at i:13756605 original size:45 final size:46
Alignment explanation
Indices: 13756528--13756614 Score: 117
Period size: 45 Copynumber: 1.9 Consensus size: 46
13756518 AATCCTCTAC
*
13756528 TACATTTTAAAGATGATTATTTAAGGTGTTTTT-AGACAAAAAATGA
1 TACATTTTAAAGATGATTATTTAAGGTATTTTTGA-ACAAAAAATGA
*
13756574 TACATTTTAAA-A-GAGTTGTTTAAGGTATTTTTGAACAAAAA
1 TACATTTTAAAGATGA-TTATTTAAGGTATTTTTGAACAAAAA
13756615 CGCATCAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
44 2 0.05
45 23 0.62
46 12 0.32
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (46 bp):
TACATTTTAAAGATGATTATTTAAGGTATTTTTGAACAAAAAATGA
Found at i:13762123 original size:27 final size:27
Alignment explanation
Indices: 13762074--13762126 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
13762064 TATTAGTGAT
* *
13762074 TTTTGATAACTTTTGATATAATTTTGA
1 TTTTAATAACTTTTGATAAAATTTTGA
13762101 TTTTAATAACTTTTGATAAAATTTTG
1 TTTTAATAACTTTTGATAAAATTTTG
13762127 GTAACTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.09, T:0.55
Consensus pattern (27 bp):
TTTTAATAACTTTTGATAAAATTTTGA
Found at i:13762131 original size:21 final size:21
Alignment explanation
Indices: 13762100--13762227 Score: 105
Period size: 21 Copynumber: 6.0 Consensus size: 21
13762090 TATAATTTTG
*
13762100 ATTTTAATAACTTTTGATAAA
1 ATTTTAGTAACTTTTGATAAA
* * * *
13762121 ATTTTGGTAACTTATAATATA
1 ATTTTAGTAACTTTTGATAAA
* * *
13762142 ATTTTAGCAACTATTGATATA
1 ATTTTAGTAACTTTTGATAAA
*
13762163 ATTTT-GATAATTTTTGATAAA
1 ATTTTAG-TAACTTTTGATAAA
* *
13762184 ATTTTAGTAACCTCTTGATGTAA
1 ATTTTAGTAA-CTTTTGAT-AAA
*
13762207 ATTTAAGTAATCTTTTGATAA
1 ATTTTAGTAA-CTTTTGATAA
13762228 CTTATAATAT
Statistics
Matches: 82, Mismatches: 21, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
20 1 0.01
21 55 0.67
22 8 0.10
23 18 0.22
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (21 bp):
ATTTTAGTAACTTTTGATAAA
Found at i:13762209 original size:23 final size:23
Alignment explanation
Indices: 13762182--13762225 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
13762172 ATTTTTGATA
*
13762182 AAATTTTAGTAACCTCTTGATGT
1 AAATTTAAGTAACCTCTTGATGT
* *
13762205 AAATTTAAGTAATCTTTTGAT
1 AAATTTAAGTAACCTCTTGAT
13762226 AACTTATAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (23 bp):
AAATTTAAGTAACCTCTTGATGT
Found at i:13762549 original size:22 final size:22
Alignment explanation
Indices: 13762508--13763289 Score: 250
Period size: 22 Copynumber: 35.3 Consensus size: 22
13762498 TAAAAAAAAT
* * *
13762508 TTATCAATTATTGACAATTAAG
1 TTATCAATGATTTACTATTAAG
* *
13762530 TTATCAATGATTTATTATTATG
1 TTATCAATGATTTACTATTAAG
*
13762552 TTATCAATGATTTACTACTAAG
1 TTATCAATGATTTACTATTAAG
* * * *
13762574 CTATCAATGATATACTACTAAA
1 TTATCAATGATTTACTATTAAG
* * * *
13762596 TTATTAATGATTCACTACTAAA
1 TTATCAATGATTTACTATTAAG
* * * *
13762618 TTAGCATTGATTTACTGTTAAT
1 TTATCAATGATTTACTATTAAG
* *
13762640 TTATGAATGATTTACTACTAAG
1 TTATCAATGATTTACTATTAAG
* * * * * *
13762662 TTATGACTAATTTTCTACTAAA
1 TTATCAATGATTTACTATTAAG
** * *
13762684 TTATTGATGATTTACAATTAAA
1 TTATCAATGATTTACTATTAAG
** *
13762706 TTA-CTAATGATTTGTTATAAAG
1 TTATC-AATGATTTACTATTAAG
* *
13762728 TTAT-AACTGATTTATTATTAAT
1 TTATCAA-TGATTTACTATTAAG
** *
13762750 TTATTGATGATTTACTATGAAG
1 TTATCAATGATTTACTATTAAG
* *
13762772 TTATTAATGATTAACTAATTAA-
1 TTATCAATGATTTACT-ATTAAG
* * * * *
13762794 ATATTAAATTATCACTTATTAATAACTAAA
1 TTA-TCAATGAT---TTACT-AT---TAAG
* * *
13762824 TTATTAGTGATTTACTACTAAG
1 TTATCAATGATTTACTATTAAG
* *
13762846 TTATCAATAATTTAC-ATCTAAA
1 TTATCAATGATTTACTAT-TAAG
* *
13762868 TTATTAATGATTTACTATTCTA-
1 TTATCAATGATTTACTATT-AAG
* * * *
13762890 TTAT-TATGCATTTATTACTATG
1 TTATCAATG-ATTTACTATTAAG
*
13762912 TTATCATTGATTTAC---TAAG
1 TTATCAATGATTTACTATTAAG
* ** * * *
13762931 TTTTTGATTATTTACTA-CAAA
1 TTATCAATGATTTACTATTAAG
* * ** *
13762952 TCATC-ATAGATTTATTACAAAA
1 TTATCAAT-GATTTACTATTAAG
* * *
13762974 TTAATC-ATAATTCATTATTAAG
1 TT-ATCAATGATTTACTATTAAG
* * *
13762996 TTATCATTAATTTA-TATTAAA
1 TTATCAATGATTTACTATTAAG
* * *
13763017 TTATCCATAATTTACTTTTAA-
1 TTATCAATGATTTACTATTAAG
* *
13763038 TTATCATTGATTAACTATTAAG
1 TTATCAATGATTTACTATTAAG
** * *
13763060 TTATTGATTATTAACTACTACTAAG
1 TTATCAATGATT---TACTATTAAG
* * *
13763085 TTAT-ATTGATTTATTTTTAAG
1 TTATCAATGATTTACTATTAAG
* * * * *
13763106 TT-TCTAATAATTAATTACTAAA
1 TTATC-AATGATTTACTATTAAG
*
13763128 TTATCATTGATTTTACTATTAAG
1 TTATCAATGA-TTTACTATTAAG
** *
13763151 TTATTTATAATTTACTATTAAG
1 TTATCAATGATTTACTATTAAG
* * * *
13763173 TTTATCAATTAATTAATATTAAA
1 -TTATCAATGATTTACTATTAAG
* *
13763196 TTA-AAACTGATTTATTATTAAG
1 TTATCAA-TGATTTACTATTAAG
*
13763218 TTAT-AACTAATTTACTATTAAG
1 TTATCAA-TGATTTACTATTAAG
* * **
13763240 TTATTATTGATTTGTTATTAAG
1 TTATCAATGATTTACTATTAAG
* *
13763262 TTATCAATTATTAACTATTAAG
1 TTATCAATGATTTACTATTAAG
13763284 TTATCA
1 TTATCA
13763290 CTTATTTTTA
Statistics
Matches: 556, Mismatches: 166, Indels: 76
0.70 0.21 0.10
Matches are distributed among these distances:
19 13 0.02
20 3 0.01
21 65 0.12
22 384 0.69
23 54 0.10
24 4 0.01
25 13 0.02
26 10 0.02
29 8 0.01
30 2 0.00
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.47
Consensus pattern (22 bp):
TTATCAATGATTTACTATTAAG
Found at i:13763175 original size:67 final size:67
Alignment explanation
Indices: 13763075--13763241 Score: 171
Period size: 67 Copynumber: 2.5 Consensus size: 67
13763065 GATTATTAAC
* * * * * * ** *
13763075 TACTACTAAGTTATAT-TGATTTATTTTTAAGTTTCT-AA-TAATTAATTACTAAATTATCATTG
1 TACTATTAAGTTATTTATAATTTACTATTAAGTTTATCAATTAATTAA-TACTAAATTAAAACTG
13763137 ATTT
65 A-TT
*
13763141 TACTATTAAGTTATTTATAATTTACTATTAAGTTTATCAATTAATTAATATTAAATTAAAACTGA
1 TACTATTAAGTTATTTATAATTTACTATTAAGTTTATCAATTAATTAATACTAAATTAAAACTGA
13763206 TT
66 TT
* *
13763208 TATTATTAAGTTA-TAACTAATTTACTATTAAGTT
1 TACTATTAAGTTATTTA-TAATTTACTATTAAGTT
13763242 ATTATTGATT
Statistics
Matches: 85, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
66 16 0.19
67 47 0.55
68 15 0.18
69 7 0.08
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (67 bp):
TACTATTAAGTTATTTATAATTTACTATTAAGTTTATCAATTAATTAATACTAAATTAAAACTGA
TT
Found at i:13763184 original size:111 final size:110
Alignment explanation
Indices: 13762987--13763289 Score: 242
Period size: 111 Copynumber: 2.7 Consensus size: 110
13762977 ATCATAATTC
* * * * * * * *
13762987 ATTATTAAGTTATCATTAATTTA-TATTAAATTATCCA-TAATTTACTT-TTAA-TTATCATTGA
1 ATTATTAAGTTATAACTAATTAACTACTAAATTAT-CATTGATTT-GTTATTAAGTTATCAATAA
* * * * *
13763048 TTAACTATTAAGTTATTGATTATTAACTACTACTAAGTT-ATATTGATTT
64 TTAACTATTAAGTTA-TCA--ATTAACTAATACTAAATTAAAACTGATTT
* * * **
13763097 ATTTTTAAGTTTCTAA-TAATTAATTACTAAATTATCATTGATTT-TACTATTAAGTTATTTATA
1 ATTATTAAG-TTATAACTAATTAACTACTAAATTATCATTGATTTGT--TATTAAGTTATCAATA
* * *
13763160 ATTTACTATTAAGTTTATCAATTAATTAATATTAAATTAAAACTGATTT
63 ATTAACTATTAAG-TTATCAATTAACTAATACTAAATTAAAACTGATTT
* * * * *
13763209 ATTATTAAGTTATAACTAATTTACTATTAAGTTATTATTGATTTGTTATTAAGTTATCAATTATT
1 ATTATTAAGTTATAACTAATTAACTACTAAATTATCATTGATTTGTTATTAAGTTATCAATAATT
13763274 AACTATTAAGTTATCA
66 AACTATTAAGTTATCA
13763290 CTTATTTTTA
Statistics
Matches: 153, Mismatches: 29, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
109 1 0.01
110 22 0.14
111 64 0.42
112 43 0.28
113 20 0.13
114 3 0.02
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.50
Consensus pattern (110 bp):
ATTATTAAGTTATAACTAATTAACTACTAAATTATCATTGATTTGTTATTAAGTTATCAATAATT
AACTATTAAGTTATCAATTAACTAATACTAAATTAAAACTGATTT
Found at i:13763900 original size:16 final size:16
Alignment explanation
Indices: 13763878--13763911 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13763868 ATGTTTATGG
*
13763878 GAATTTTT-GTTTTTT
1 GAATTTTTAGTTTTAT
13763893 GAATTTTTAGTTTTAT
1 GAATTTTTAGTTTTAT
13763909 GAA
1 GAA
13763912 AATTCTAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.62
Consensus pattern (16 bp):
GAATTTTTAGTTTTAT
Found at i:13764481 original size:22 final size:23
Alignment explanation
Indices: 13764453--13764514 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
13764443 GGTTTTCATT
13764453 TTTTTTTATTATTT-TGT-TAGAC
1 TTTTTTTATTATTTATGTCT-GAC
* *
13764475 TTTTTTTTTTATTTATGTCTTAC
1 TTTTTTTATTATTTATGTCTGAC
13764498 TTTTTTTATATATTTAT
1 TTTTTTTAT-TATTTAT
13764515 ATTTTAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 13 0.38
23 13 0.38
24 8 0.24
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.73
Consensus pattern (23 bp):
TTTTTTTATTATTTATGTCTGAC
Found at i:13764499 original size:23 final size:23
Alignment explanation
Indices: 13764452--13764514 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
13764442 TGGTTTTCAT
13764452 TTTTTTTTATTATTT-TGTTAGAC
1 TTTTTTTT-TTATTTATGTTAGAC
*
13764475 TTTTTTTTTTATTTATGTCT-TAC
1 TTTTTTTTTTATTTATGT-TAGAC
*
13764498 TTTTTTTATATATTTAT
1 TTTTTTT-TTTATTTAT
13764515 ATTTTAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 6 0.17
23 20 0.57
24 9 0.26
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.73
Consensus pattern (23 bp):
TTTTTTTTTTATTTATGTTAGAC
Found at i:13764502 original size:24 final size:24
Alignment explanation
Indices: 13764451--13764514 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
13764441 TTGGTTTTCA
13764451 TTTTTTTTTATTATTT-TGTTAGAC
1 TTTTTTTTT-TTATTTATGTTAGAC
*
13764475 -TTTTTTTTTTATTTATGTCT-TAC
1 TTTTTTTTTTTATTTATGT-TAGAC
* *
13764498 TTTTTTTATATATTTAT
1 TTTTTTTTTTTATTTAT
13764515 ATTTTAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 6 0.18
23 13 0.38
24 15 0.44
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.73
Consensus pattern (24 bp):
TTTTTTTTTTTATTTATGTTAGAC
Found at i:13769896 original size:46 final size:45
Alignment explanation
Indices: 13769839--13770058 Score: 196
Period size: 46 Copynumber: 4.8 Consensus size: 45
13769829 TAAAAAAGCC
* *
13769839 TTTTTGAATGAGAATCTTTGAAATTTTAGATGCGAAAATTTAAAA
1 TTTTTGAATGAGAATCTTTAAAATTTTAGATGTGAAAATTTAAAA
* **
13769884 TTTTTAGAATGAGAATCTTTGAAATTTTAGATGTGAATTTTTAAAA
1 TTTTT-GAATGAGAATCTTTAAAATTTTAGATGTGAAAATTTAAAA
* * * * *
13769930 TTTTTTTGAATGTA-AATTTTTAAAACTTTGGATGT-AAAACTCTGAAA
1 --TTTTTGAATG-AGAATCTTTAAAATTTTAGATGTGAAAA-TTTAAAA
* * *
13769977 TTTTAT-AGATGAGAATCTTTAAAATTTTGGTTGTG-AAATATTAAAG
1 TTTT-TGA-ATGAGAATCTTTAAAATTTTAGATGTGAAAAT-TTAAAA
* * *
13770023 TTTTTGAATGTGAATTTTTAAAATTTTCGATGTGAA
1 TTTTTGAATGAGAATCTTTAAAATTTTAGATGTGAA
13770059 TCTCTAAGTT
Statistics
Matches: 142, Mismatches: 21, Indels: 23
0.76 0.11 0.12
Matches are distributed among these distances:
45 36 0.25
46 73 0.51
47 27 0.19
48 6 0.04
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (45 bp):
TTTTTGAATGAGAATCTTTAAAATTTTAGATGTGAAAATTTAAAA
Found at i:13769978 original size:93 final size:91
Alignment explanation
Indices: 13769881--13770055 Score: 235
Period size: 93 Copynumber: 1.9 Consensus size: 91
13769871 CGAAAATTTA
* * * *
13769881 AAATTTT-TAGAATGAGAATCTTTGAAATTTTAGATGTGAATTTTTAAAATTTTTTTGAATGTAA
1 AAATTTTATAG-ATGAGAATCTTTAAAATTTTAGATGTGAAATATT-AAA-GTTTTTGAATGTAA
*
13769945 ATTTTTAAAACTTTGGATGTAAAACTCTG
63 ATTTTTAAAACTTTCGATGTAAAACTCTG
* * *
13769974 AAATTTTATAGATGAGAATCTTTAAAATTTTGGTTGTGAAATATTAAAGTTTTTGAATGTGAATT
1 AAATTTTATAGATGAGAATCTTTAAAATTTTAGATGTGAAATATTAAAGTTTTTGAATGTAAATT
*
13770039 TTTAAAATTTTCGATGT
66 TTTAAAACTTTCGATGT
13770056 GAATCTCTAA
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
91 30 0.42
92 3 0.04
93 36 0.50
94 3 0.04
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (91 bp):
AAATTTTATAGATGAGAATCTTTAAAATTTTAGATGTGAAATATTAAAGTTTTTGAATGTAAATT
TTTAAAACTTTCGATGTAAAACTCTG
Found at i:13770055 original size:22 final size:22
Alignment explanation
Indices: 13769839--13770171 Score: 146
Period size: 22 Copynumber: 14.6 Consensus size: 22
13769829 TAAAAAAGCC
* * *
13769839 TTTTTGAATGAGAATCTTTGAAA
1 TTTTTG-ATGTGAATTTTTAAAA
* * **
13769862 TTTTAGATGCGAAAATTTAAAA
1 TTTTTGATGTGAATTTTTAAAA
* * *
13769884 TTTTTAGAATGAGAATCTTTGAAA
1 TTTTT-G-ATGTGAATTTTTAAAA
*
13769908 TTTTAGATGTGAATTTTTAAAA
1 TTTTTGATGTGAATTTTTAAAA
*
13769930 TTTTTTTGAATGTAAATTTTTAAAA
1 --TTTTTG-ATGTGAATTTTTAAAA
* * * ** * *
13769955 CTTTGGATGTAAAACTCTGAAA
1 TTTTTGATGTGAATTTTTAAAA
* *
13769977 TTTTATAGATGAGAATCTTTAAAA
1 TTTT-T-GATGTGAATTTTTAAAA
* * * * *
13770001 TTTTGGTTGTGAAATATTAAAG
1 TTTTTGATGTGAATTTTTAAAA
13770023 TTTTTGAATGTGAATTTTTAAAA
1 TTTTTG-ATGTGAATTTTTAAAA
* * * **
13770046 TTTTCGATGTGAATCTCTAAGT
1 TTTTTGATGTGAATTTTTAAAA
* * * *
13770068 TTTTTTATTTGAATATCTAAAA
1 TTTTTGATGTGAATTTTTAAAA
* *
13770090 TTTTTTGAATGTGAATATTTGAAA
1 -TTTTTG-ATGTGAATTTTTAAAA
* ** *
13770114 TTTTGGATGAAAATTTCTAAAA
1 TTTTTGATGTGAATTTTTAAAA
*
13770136 TTTTTTGATTGTGAA-TTTTGAAA
1 -TTTTTGA-TGTGAATTTTTAAAA
* *
13770159 TTTTGGATATGAA
1 TTTTTGATGTGAA
13770172 ACCTTCAAAT
Statistics
Matches: 229, Mismatches: 69, Indels: 26
0.71 0.21 0.08
Matches are distributed among these distances:
21 5 0.02
22 105 0.46
23 50 0.22
24 54 0.24
25 15 0.07
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (22 bp):
TTTTTGATGTGAATTTTTAAAA
Found at i:13770075 original size:93 final size:92
Alignment explanation
Indices: 13769882--13770055 Score: 226
Period size: 91 Copynumber: 1.9 Consensus size: 92
13769872 GAAAATTTAA
* * * * *
13769882 AATTTTTAGAATGAGAATCTTTGAAATTTTAGATGTGAATTTTTAAAATTTTTTTGAATGTAAAT
1 AATTTTTATAATGAGAATCTTTAAAATTTTAGATGTGAAATATTAAAATGTTTTTGAATGTAAAT
*
13769947 TTTTAAAACTTTGGATGTAAAACTCTG
66 TTTTAAAACTTTCGATGTAAAACTCTG
* * * *
13769974 AAATTTTATAGATGAGAATCTTTAAAATTTTGGTTGTGAAATATT-AAA-GTTTTTGAATGTGAA
1 AATTTTTATA-ATGAGAATCTTTAAAATTTTAGATGTGAAATATTAAAATGTTTTTGAATGTAAA
*
13770037 TTTTTAAAATTTTCGATGT
65 TTTTTAAAACTTTCGATGT
13770056 GAATCTCTAA
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
91 30 0.43
92 11 0.16
93 29 0.41
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (92 bp):
AATTTTTATAATGAGAATCTTTAAAATTTTAGATGTGAAATATTAAAATGTTTTTGAATGTAAAT
TTTTAAAACTTTCGATGTAAAACTCTG
Found at i:13770133 original size:68 final size:70
Alignment explanation
Indices: 13769984--13770151 Score: 177
Period size: 68 Copynumber: 2.5 Consensus size: 70
13769974 AAATTTTATA
* * * * *
13769984 GATGAGAATCTTTAAAA--TTTTGGTTGTGAAATAT-T-AAAGTTTTTGAATGTGAATTTTTAAA
1 GATGAAAATCTCTAAAATTTTTTGATTGTG-AATATCTAAAATTTTTTGAATGTGAATATTTAAA
13770045 ATTTTC
65 ATTTTC
** * * *
13770051 GATGTGAATCTCT-AAGTTTTTTTATT-TGAATATCTAAAATTTTTTGAATGTGAATATTTGAAA
1 GATGAAAATCTCTAAAATTTTTTGATTGTGAATATCTAAAATTTTTTGAATGTGAATATTTAAAA
*
13770114 TTTTG
66 TTTTC
*
13770119 GATGAAAATTTCTAAAATTTTTTGATTGTGAAT
1 GATGAAAATCTCTAAAATTTTTTGATTGTGAAT
13770152 TTTGAAATTT
Statistics
Matches: 81, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
66 7 0.09
67 14 0.17
68 44 0.54
69 11 0.14
70 5 0.06
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (70 bp):
GATGAAAATCTCTAAAATTTTTTGATTGTGAATATCTAAAATTTTTTGAATGTGAATATTTAAAA
TTTTC
Found at i:13770182 original size:45 final size:46
Alignment explanation
Indices: 13770086--13770211 Score: 143
Period size: 45 Copynumber: 2.8 Consensus size: 46
13770076 TTGAATATCT
*
13770086 AAAATTTTTTGAATGTGAATATTTGAAATTTTGG--ATGAAAATTTC
1 AAAATTTTTTGAATGTGAAT-TTTGAAATTTTGGATATGAAAACTTC
* *
13770131 TAAAATTTTTTGATTGTGAATTTTGAAATTTTGGATATGAAACCTTC
1 -AAAATTTTTTGAATGTGAATTTTGAAATTTTGGATATGAAAACTTC
** *
13770178 -AAATTTTTCAAATGAGAATTTTTG-AATTTTGGAT
1 AAAATTTTTTGAATGTGAA-TTTTGAAATTTTGGAT
13770212 GTGAGACTTG
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
45 37 0.53
46 24 0.34
47 9 0.13
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (46 bp):
AAAATTTTTTGAATGTGAATTTTGAAATTTTGGATATGAAAACTTC
Found at i:13770427 original size:16 final size:17
Alignment explanation
Indices: 13770388--13770436 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
13770378 CTTATGAACC
13770388 TGAAATTTTTACAAATA
1 TGAAATTTTTACAAATA
*
13770405 TGAAATTTTTACGAATA
1 TGAAATTTTTACAAATA
*
13770422 T-TAATTTTTACAAAT
1 TGAAATTTTTACAAAT
13770437 CTTCCATTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 12 0.41
17 17 0.59
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (17 bp):
TGAAATTTTTACAAATA
Found at i:13770680 original size:18 final size:19
Alignment explanation
Indices: 13770658--13770711 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
13770648 AAACTTCTAA
13770658 GAATTTTGAAATTTTTGAT
1 GAATTTTGAAATTTTTGAT
13770677 -AATTTTG-AATTATTT-AT
1 GAATTTTGAAATT-TTTGAT
*
13770694 GAACTTTCGAAATTTTTG
1 GAA-TTTTGAAATTTTTG
13770712 CAAATCTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
17 6 0.21
18 12 0.41
19 7 0.24
20 4 0.14
ACGTcount: A:0.31, C:0.04, G:0.13, T:0.52
Consensus pattern (19 bp):
GAATTTTGAAATTTTTGAT
Found at i:13770722 original size:17 final size:18
Alignment explanation
Indices: 13770702--13770759 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
13770692 ATGAACTTTC
13770702 GAAATTTTTGCAAATC-T
1 GAAATTTTTGCAAATCTT
* *
13770719 GAAAATCTTTGCGAATCTT
1 G-AAATTTTTGCAAATCTT
* *
13770738 G-AACTTTTGCAAATTTT
1 GAAATTTTTGCAAATCTT
13770755 GAAAT
1 GAAAT
13770760 CATTTGAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
17 14 0.45
18 15 0.48
19 2 0.06
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (18 bp):
GAAATTTTTGCAAATCTT
Found at i:13771269 original size:21 final size:19
Alignment explanation
Indices: 13771243--13771291 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
13771233 TTATTTTTTT
13771243 AAAAAAAGGTCAAAAGTTAAA
1 AAAAAAAGGTCAAAAG--AAA
***
13771264 AAAAAATCTTCAAAAGAAA
1 AAAAAAAGGTCAAAAGAAA
13771283 AAAAAAAGG
1 AAAAAAAGG
13771292 AAATGAAATT
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
19 9 0.41
21 13 0.59
ACGTcount: A:0.69, C:0.06, G:0.12, T:0.12
Consensus pattern (19 bp):
AAAAAAAGGTCAAAAGAAA
Found at i:13772256 original size:14 final size:14
Alignment explanation
Indices: 13772237--13772263 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13772227 TATTTTACAT
13772237 TTTTGCATGATATA
1 TTTTGCATGATATA
13772251 TTTTGCATGATAT
1 TTTTGCATGATAT
13772264 GATTATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.52
Consensus pattern (14 bp):
TTTTGCATGATATA
Found at i:13772293 original size:19 final size:18
Alignment explanation
Indices: 13772269--13772308 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
13772259 GATATGATTA
*
13772269 TATATTTTATTCATATGAT
1 TATATTTAATT-ATATGAT
*
13772288 TATATTTAATTGTATGAT
1 TATATTTAATTATATGAT
13772306 TAT
1 TAT
13772309 TAATATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (18 bp):
TATATTTAATTATATGAT
Found at i:13772310 original size:21 final size:20
Alignment explanation
Indices: 13772261--13772310 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
13772251 TTTTGCATGA
*
13772261 TATGATTA-TATATTTTATT
1 TATGATTATTATATTTAATT
* *
13772280 CAT-ATGATTATATTTAATT
1 TATGATTATTATATTTAATT
13772299 GTATGATTATTA
1 -TATGATTATTA
13772311 ATATATTTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
18 3 0.13
19 12 0.52
20 2 0.09
21 6 0.26
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (20 bp):
TATGATTATTATATTTAATT
Found at i:13772818 original size:178 final size:177
Alignment explanation
Indices: 13772519--13772877 Score: 630
Period size: 178 Copynumber: 2.0 Consensus size: 177
13772509 AATATTTTTC
13772519 AATCTTACCAAACTATTAAAAGAGTTAATGAATTTTTTAAAAAAATATTTTAAAAAATCCTATTA
1 AATCTTACCAAACTATTAAAAGAGTTAATGAATTTTTTAAAAAAATATTTTAAAAAATCCTATTA
* *
13772584 ATAGATTAAAGGATAATTCTTGACAAAAAATCTTATCAATATATTAGAAGATATTTCTGAGAATA
66 ATAGATTAAAGGATAATTCTTGACAAAAAATCTTATCAACATATTAGAAGATATTTCTAAGAATA
13772649 AATTATTTTTACAAGTAAAAAAGTTTTTTACAATAAAAAGATTAAATG
131 AATTATTTTTACAAGT-AAAAAGTTTTTTACAATAAAAAGATTAAATG
* *
13772697 AATCTTACCAAACTATTAGAAGAGTTAATGAATTTTTTACAAAAATATTTTAAAAAATCCTATTA
1 AATCTTACCAAACTATTAAAAGAGTTAATGAATTTTTTAAAAAAATATTTTAAAAAATCCTATTA
* * *
13772762 ATAGATTAAAGGATAATTTTTGACAGAAAATTTTA-CTAACATATTAGAAGATATTTCTAAGAAT
66 ATAGATTAAAGGATAATTCTTGACAAAAAATCTTATC-AACATATTAGAAGATATTTCTAAGAAT
13772826 AAATTATTTTTACAAGTAAAAAGTTTTTTACAATAAAAAGATTAAATG
130 AAATTATTTTTACAAGTAAAAAGTTTTTTACAATAAAAAGATTAAATG
13772874 AATC
1 AATC
13772878 CAACGATGGA
Statistics
Matches: 173, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
177 36 0.21
178 137 0.79
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.36
Consensus pattern (177 bp):
AATCTTACCAAACTATTAAAAGAGTTAATGAATTTTTTAAAAAAATATTTTAAAAAATCCTATTA
ATAGATTAAAGGATAATTCTTGACAAAAAATCTTATCAACATATTAGAAGATATTTCTAAGAATA
AATTATTTTTACAAGTAAAAAGTTTTTTACAATAAAAAGATTAAATG
Found at i:13772855 original size:18 final size:17
Alignment explanation
Indices: 13772832--13772865 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
13772822 GAATAAATTA
13772832 TTTTTACAAGTAAAAAGT
1 TTTTTACAA-TAAAAAGT
13772850 TTTTTACAATAAAAAG
1 TTTTTACAATAAAAAG
13772866 ATTAAATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (17 bp):
TTTTTACAATAAAAAGT
Found at i:13773636 original size:22 final size:22
Alignment explanation
Indices: 13773576--13773637 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
13773566 GATTCGTCAT
* *
13773576 TAAGTTATGAATAATTTACCAT
1 TAAGTTATTAATAATTTACCAC
**
13773598 TATA-TTATTGGTAATTTACCAC
1 TA-AGTTATTAATAATTTACCAC
*
13773620 TAAGTTATTAATGATTTA
1 TAAGTTATTAATAATTTA
13773638 TTATAAAGTT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
21 1 0.03
22 29 0.94
23 1 0.03
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (22 bp):
TAAGTTATTAATAATTTACCAC
Found at i:13773646 original size:22 final size:22
Alignment explanation
Indices: 13773621--13773706 Score: 68
Period size: 22 Copynumber: 3.9 Consensus size: 22
13773611 ATTTACCACT
*
13773621 AAGTTATTAATGATTTATTATA
1 AAGTTATTAATGATTTACTATA
* *
13773643 AAGTTA-TAATTAATTTACTATT
1 AAGTTATTAA-TGATTTACTATA
* * * *
13773665 AATTTACCT-ATTATTTACTAAA
1 AAGTTA-TTAATGATTTACTATA
*
13773687 AAGTTATTAATGATTAACTA
1 AAGTTATTAATGATTTACTA
13773707 ATTTACTATT
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
21 4 0.08
22 43 0.88
23 1 0.02
24 1 0.02
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (22 bp):
AAGTTATTAATGATTTACTATA
Found at i:13773665 original size:11 final size:11
Alignment explanation
Indices: 13773651--13773684 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
13773641 TAAAGTTATA
13773651 ATTAATTTACT
1 ATTAATTTACT
13773662 ATTAATTTACCT
1 ATTAATTTA-CT
13773674 ATT-ATTTACT
1 ATTAATTTACT
13773684 A
1 A
13773685 AAAAGTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.14
11 14 0.64
12 5 0.23
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (11 bp):
ATTAATTTACT
Found at i:13773971 original size:22 final size:22
Alignment explanation
Indices: 13773707--13774086 Score: 100
Period size: 22 Copynumber: 17.4 Consensus size: 22
13773697 TGATTAACTA
* *
13773707 ATTTACTATTAAAATATTATTG
1 ATTTACTATTAAATTATCATTG
* * * * *
13773729 TTTTA-TAACTAAATTATTAGTA
1 ATTTACT-ATTAAATTATCATTG
** * * *
13773751 ATTTACTATTATGTTATTAGTA
1 ATTTACTATTAAATTATCATTG
* * *
13773773 ATTTAGTAATAAATTATCAATG
1 ATTTACTATTAAATTATCATTG
* * *
13773795 ATTTACTATTATATTTTTATAT-
1 ATTTACTATTAAATTATCAT-TG
** ** * *
13773817 ATTTGTTATTATGTGATCATTA
1 ATTTACTATTAAATTATCATTG
* * *
13773839 ATTTACTACTTAATTTTTAATT-
1 ATTTACTA-TTAAATTATCATTG
*
13773861 ATTTA-TCA-CAAAGTTATCATTG
1 ATTTACT-ATTAAA-TTATCATTG
*
13773883 ATTTA-TCACTAAATTATC-TATG
1 ATTTACT-ATTAAATTATCAT-TG
* * * * * * *
13773905 ATTCATTACTAAGTTATTACTA
1 ATTTACTATTAAATTATCATTG
*
13773927 ATTTA-TATTAAATTAT-GTATG
1 ATTTACTATTAAATTATCAT-TG
13773948 ATTTACTATTAAATTATCATTG
1 ATTTACTATTAAATTATCATTG
* **
13773970 ATTGACTATTATGTTATCGA-TG
1 ATTTACTATTAAATTATC-ATTG
* *
13773992 ATTTATTATTAAGTTAT-ATTG
1 ATTTACTATTAAATTATCATTG
* * * * * *
13774013 ATTTAATTTTAAGTTTTCAATA
1 ATTTACTATTAAATTATCATTG
* *
13774035 AATAACTATTAAATTATCAATT-
1 ATTTACTATTAAATTATC-ATTG
* * * *
13774057 ATTTACAACTAATTTATAATTG
1 ATTTACTATTAAATTATCATTG
13774079 ATTTACTA
1 ATTTACTA
13774087 CTATGTTATT
Statistics
Matches: 261, Mismatches: 77, Indels: 40
0.69 0.20 0.11
Matches are distributed among these distances:
20 3 0.01
21 44 0.17
22 196 0.75
23 18 0.07
ACGTcount: A:0.37, C:0.07, G:0.06, T:0.50
Consensus pattern (22 bp):
ATTTACTATTAAATTATCATTG
Found at i:13774089 original size:22 final size:21
Alignment explanation
Indices: 13774039--13774111 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 21
13774029 TCAATAAATA
* *
13774039 ACTATTAAATTATCAATTATTT
1 ACTACTAATTTAT-AATTATTT
*
13774061 ACAACTAATTTATAATTGATTT
1 ACTACTAATTTATAATT-ATTT
*
13774083 ACTACT-ATGTTATTTATTATTT
1 ACTACTAAT-TTA-TAATTATTT
13774105 ACTACTA
1 ACTACTA
13774112 TAAATTAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
21 6 0.14
22 32 0.76
23 4 0.10
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (21 bp):
ACTACTAATTTATAATTATTT
Found at i:13774150 original size:11 final size:11
Alignment explanation
Indices: 13774118--13774226 Score: 55
Period size: 11 Copynumber: 9.9 Consensus size: 11
13774108 ACTATAAATT
13774118 AATTACTATTA
1 AATTACTATTA
* *
13774129 AACTGA-AATTA
1 AA-TTACTATTA
13774140 AATTACTATTA
1 AATTACTATTA
13774151 AATTA-TCATTA
1 AATTACT-ATTA
* *
13774162 ATTTACTATTC
1 AATTACTATTA
*
13774173 AGTTA-TCATTA
1 AATTACT-ATTA
* *
13774184 ATTTATTATTA
1 AATTACTATTA
* * *
13774195 AGTTATTAAT-
1 AATTACTATTA
13774205 AATTAACTATTA
1 AATT-ACTATTA
*
13774217 AATTATTATT
1 AATTACTATT
13774227 TATTTTTTGT
Statistics
Matches: 75, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
10 7 0.09
11 60 0.80
12 8 0.11
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (11 bp):
AATTACTATTA
Found at i:13774161 original size:22 final size:22
Alignment explanation
Indices: 13774118--13774222 Score: 88
Period size: 22 Copynumber: 4.8 Consensus size: 22
13774108 ACTATAAATT
* *
13774118 AATTACTATTAAACTGA-AATTA
1 AATTACTATTAAA-TTATCATTA
13774140 AATTACTATTAAATTATCATTA
1 AATTACTATTAAATTATCATTA
* * *
13774162 ATTTACTATTCAGTTATCATTA
1 AATTACTATTAAATTATCATTA
* * * * *
13774184 ATTTATTATTAAGTTATTAAT-
1 AATTACTATTAAATTATCATTA
13774205 AATTAACTATTAAATTAT
1 AATT-ACTATTAAATTAT
13774223 TATTTATTTT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
21 5 0.07
22 64 0.93
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.47
Consensus pattern (22 bp):
AATTACTATTAAATTATCATTA
Found at i:13774347 original size:22 final size:22
Alignment explanation
Indices: 13774142--13774349 Score: 89
Period size: 22 Copynumber: 9.5 Consensus size: 22
13774132 TGAAATTAAA
*
13774142 TTACTATTAAATTATCATTAAT
1 TTACTATTAAATTATCATTTAT
* * *
13774164 TTACTATTCAGTTATCATTAAT
1 TTACTATTAAATTATCATTTAT
* * * * *
13774186 TTATTATTAAGTTATTAATAAT
1 TTACTATTAAATTATCATTTAT
* *
13774208 TAACTATTAAATTATTATTTAT
1 TTACTATTAAATTATCATTTAT
** * *
13774230 TTTTTGTTAAGTTATC-TTTGAT
1 TTACTATTAAATTATCATTT-AT
* ** * **
13774252 TTACTACTATGTCTATTATGCAT
1 TTACTATTAAAT-TATCATTTAT
* ** * * *
13774275 TTATTATTTTATTATTACTGAT
1 TTACTATTAAATTATCATTTAT
* **
13774297 TTACTA-AAAAGTTATCAACT-T
1 TTACTATTAAA-TTATCATTTAT
*
13774318 TAACTATTAAATTATCATTTAT
1 TTACTATTAAATTATCATTTAT
13774340 TTACTATTAA
1 TTACTATTAA
13774350 GTTAATACTA
Statistics
Matches: 135, Mismatches: 45, Indels: 12
0.70 0.23 0.06
Matches are distributed among these distances:
21 17 0.13
22 104 0.77
23 13 0.10
24 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.52
Consensus pattern (22 bp):
TTACTATTAAATTATCATTTAT
Found at i:13774363 original size:22 final size:21
Alignment explanation
Indices: 13774338--13774404 Score: 84
Period size: 21 Copynumber: 3.1 Consensus size: 21
13774328 ATTATCATTT
*
13774338 ATTTACTATTAAGTTAATACTA
1 ATTTACTACTAAGTT-ATACTA
13774360 ATTTACTACTAAGTTAT-C-A
1 ATTTACTACTAAGTTATACTA
13774379 ATGATTACTACTAAGTTATACTA
1 AT--TTACTACTAAGTTATACTA
13774402 ATT
1 ATT
13774405 ACATTTAAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
19 3 0.08
20 1 0.03
21 18 0.45
22 15 0.38
23 3 0.08
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (21 bp):
ATTTACTACTAAGTTATACTA
Found at i:13775561 original size:30 final size:30
Alignment explanation
Indices: 13775521--13775582 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
13775511 TATTATTAGT
*
13775521 TTCATAAAAGTATAACTAAAATAACATAGA
1 TTCAAAAAAGTATAACTAAAATAACATAGA
13775551 TTCAAAAAAGTATAACTAAAATAACATAGA
1 TTCAAAAAAGTATAACTAAAATAACATAGA
13775581 TT
1 TT
13775583 AATCAACTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.27
Consensus pattern (30 bp):
TTCAAAAAAGTATAACTAAAATAACATAGA
Found at i:13776724 original size:17 final size:17
Alignment explanation
Indices: 13776680--13776724 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
13776670 AATTTTCCTT
*
13776680 TTATTTAAAAA-TTTTA
1 TTATATAAAAATTTTTA
* *
13776696 TTATACATAAATTTTTA
1 TTATATAAAAATTTTTA
13776713 TTATATAAAAAT
1 TTATATAAAAAT
13776725 ATTAAAATAC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATATAAAAATTTTTA
Found at i:13776724 original size:33 final size:32
Alignment explanation
Indices: 13776680--13776742 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
13776670 AATTTTCCTT
* * **
13776680 TTATTTAAAAATTTTATTATACATAAATTTTTA
1 TTATATAAAAATATTAAAATACAT-AATTTTTA
13776713 TTATATAAAAATATTAAAATACATAATTTT
1 TTATATAAAAATATTAAAATACATAATTTT
13776743 AAAAAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 6 0.23
33 20 0.77
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (32 bp):
TTATATAAAAATATTAAAATACATAATTTTTA
Found at i:13778815 original size:4 final size:4
Alignment explanation
Indices: 13778806--13778830 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
13778796 AAGCCAATTA
13778806 ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC A
13778831 ACTAATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:13780347 original size:3 final size:3
Alignment explanation
Indices: 13780339--13780382 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
13780329 ACAAAGCTAA
13780339 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13780383 AGTCCATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13780471 original size:30 final size:29
Alignment explanation
Indices: 13780408--13780510 Score: 109
Period size: 30 Copynumber: 3.5 Consensus size: 29
13780398 AGATTTTATT
* *
13780408 TAAATAAATTTTTATATTTTTA-TTGCACT
1 TAAATAAATTCTTA-ATTTTTATTTGCACG
13780437 TAAATAAATTCTTAATTTTTATTTTGCACG
1 TAAATAAATTCTTAATTTTTA-TTTGCACG
* * ** *
13780467 TAAATAAACTCTTAAATTTTAATTTATATG
1 TAAATAAATTCTT-AATTTTTATTTGCACG
13780497 TAAATAAATTCTTA
1 TAAATAAATTCTTA
13780511 CCCTTTAATT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
28 7 0.11
29 14 0.22
30 35 0.56
31 7 0.11
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.50
Consensus pattern (29 bp):
TAAATAAATTCTTAATTTTTATTTGCACG
Found at i:13781578 original size:22 final size:22
Alignment explanation
Indices: 13781539--13781595 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
13781529 AAATTCTATA
* * *
13781539 AGAGATTTATTTAAGATTTGTT
1 AGAGATTTGTTTGAGATTTGTC
*
13781561 AGAGATTTGTTTGGGATTTGTC
1 AGAGATTTGTTTGAGATTTGTC
*
13781583 AGATA-TTGTTTGA
1 AGAGATTTGTTTGA
13781596 TGGACAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
21 7 0.24
22 22 0.76
ACGTcount: A:0.26, C:0.02, G:0.25, T:0.47
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTC
Found at i:13781697 original size:51 final size:51
Alignment explanation
Indices: 13781606--13781760 Score: 161
Period size: 51 Copynumber: 3.0 Consensus size: 51
13781596 TGGACAAAAA
* *
13781606 GACTTGCAAAAGAAGAATTCTAAGAGAAAGAGAATTTTAATAGGTAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAGAGAAAAAGAATTTTAATAGGCAAGTTT
*
13781657 GACTTGCAAAAGAA-AATTTCTAA-AGAAAAAGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAAAGAAGAA-TTCTAAGAGAAAAAGAATT-TTAATAGGCAAGTTT
* ** * * * * * *
13781708 GACTTACAGGAGAATAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAGAGAAAAAGAATT-TTAATAGGCAAGTTT
13781760 G
1 G
13781761 TATGGTTATA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
50 12 0.13
51 51 0.57
52 27 0.30
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.27
Consensus pattern (51 bp):
GACTTGCAAAAGAAGAATTCTAAGAGAAAAAGAATTTTAATAGGCAAGTTT
Found at i:13782628 original size:11 final size:11
Alignment explanation
Indices: 13782612--13782653 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
13782602 AATCCCATAA
13782612 GAGATTTGTTT
1 GAGATTTGTTT
*
13782623 GAGATTTGTTA
1 GAGATTTGTTT
13782634 GAGATTTGTTT
1 GAGATTTGTTT
13782645 GAGATTTGT
1 GAGATTTGT
13782654 CAGATATTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:13782639 original size:22 final size:22
Alignment explanation
Indices: 13782611--13782653 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
13782601 AAATCCCATA
13782611 AGAGATTTGTTTGAGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
13782633 AGAGATTTGTTTGAGATTTGT
1 AGAGATTTGTTTGAGATTTGT
13782654 CAGATATTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTT
Found at i:13782757 original size:51 final size:52
Alignment explanation
Indices: 13782678--13782803 Score: 177
Period size: 52 Copynumber: 2.4 Consensus size: 52
13782668 TGGACAAGAA
* * *
13782678 GACTTGCAAAAGAAGAATT-TCAAGAGAAAGAT-GATT-TTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCT-AAAAGAAA-ATGGATTCTTAATAGGCAAGTTT
13782729 GACTTGCAAGAGAAGAATTCTAAAAGAAAATGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAGAAAATGGATTCTTAATAGGCAAGTTT
*
13782781 GACTTACAAGAGAAGAATTCTAA
1 GACTTGCAAGAGAAGAATTCTAA
13782804 GATGAGAGGG
Statistics
Matches: 68, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
50 2 0.03
51 29 0.43
52 37 0.54
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.27
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAAAGAAAATGGATTCTTAATAGGCAAGTTT
Found at i:13782816 original size:52 final size:51
Alignment explanation
Indices: 13782710--13782832 Score: 160
Period size: 52 Copynumber: 2.4 Consensus size: 51
13782700 AGAGAAAGAT
* * *
13782710 GATTTTAATAGGTAAGTTTGACTTGCAAGAGAAGAATTCTAAAAGAAAATG
1 GATTTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAGAAAAGG
* *
13782761 GATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAGATG-AGAGG
1 GATT-TTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAA-AAGAAAAGG
13782813 GATTTTTAAT-GGCAAGTTTG
1 GA-TTTTAATAGGCAAGTTTG
13782833 TATGGTTATA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
51 14 0.22
52 46 0.72
53 4 0.06
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (51 bp):
GATTTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAGAAAAGG
Found at i:13785067 original size:2 final size:2
Alignment explanation
Indices: 13785005--13785052 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
13784995 CATTCCCTCG
*
13785005 TC TC TC T- TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
13785046 TC TC TC T
1 TC TC TC T
13785053 ACAAACAGCT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:13785729 original size:16 final size:15
Alignment explanation
Indices: 13785708--13785739 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
13785698 ATTTTGCTGC
13785708 TTTGATTTTATTTGCT
1 TTTGATTTT-TTTGCT
13785724 TTTGATTTTTTTGCT
1 TTTGATTTTTTTGCT
13785739 T
1 T
13785740 GGTTGATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.09, C:0.06, G:0.12, T:0.72
Consensus pattern (15 bp):
TTTGATTTTTTTGCT
Found at i:13792942 original size:6 final size:6
Alignment explanation
Indices: 13792900--13792935 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
13792890 CAATAAACAT
13792900 GTAAAA GTAAAA GTAAAA GTAAAA GTAAAA GTAAAA
1 GTAAAA GTAAAA GTAAAA GTAAAA GTAAAA GTAAAA
13792936 AATAAAATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
GTAAAA
Found at i:13793251 original size:17 final size:18
Alignment explanation
Indices: 13793216--13793261 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
13793206 ATGATGAAGG
*
13793216 GATGCAAAAGAAAATGAGA
1 GATG-AAAAGAAAAAGAGA
13793235 GATGAAAA-AAAAAGAGA
1 GATGAAAAGAAAAAGAGA
13793252 GA-GAAAAGAA
1 GATGAAAAGAA
13793262 GAAAACTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 5 0.20
17 12 0.48
18 4 0.16
19 4 0.16
ACGTcount: A:0.65, C:0.02, G:0.26, T:0.07
Consensus pattern (18 bp):
GATGAAAAGAAAAAGAGA
Found at i:13793266 original size:19 final size:19
Alignment explanation
Indices: 13793216--13793258 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
13793206 ATGATGAAGG
*
13793216 GATGCAAAAGAAAATGAGA
1 GATGAAAAAGAAAATGAGA
13793235 GATGAAAAA-AAAA-GAGA
1 GATGAAAAAGAAAATGAGA
13793252 GA-GAAAA
1 GATGAAAA
13793259 GAAGAAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.22
17 6 0.26
18 4 0.17
19 8 0.35
ACGTcount: A:0.65, C:0.02, G:0.26, T:0.07
Consensus pattern (19 bp):
GATGAAAAAGAAAATGAGA
Found at i:13805794 original size:11 final size:11
Alignment explanation
Indices: 13805763--13805813 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
13805753 TATATAATTG
*
13805763 ATATAAATAAT
1 ATATAAAAAAT
13805774 ATATAAAAAAT
1 ATATAAAAAAT
*
13805785 ATTAATAAAAAAG
1 A-T-ATAAAAAAT
*
13805798 ATATTAAAAAT
1 ATATAAAAAAT
13805809 -TATAA
1 ATATAA
13805814 CTGATTATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
10 4 0.12
11 18 0.55
12 2 0.06
13 9 0.27
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (11 bp):
ATATAAAAAAT
Found at i:13818976 original size:20 final size:20
Alignment explanation
Indices: 13818946--13818991 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
13818936 TATTAAAAAT
*
13818946 AATT-AAATAAAAATT-AAA
1 AATTAAAATTAAAATTGAAA
*
13818964 AATTAAAATTAAAATTGATA
1 AATTAAAATTAAAATTGAAA
13818984 AATTAAAA
1 AATTAAAA
13818992 GATTTCGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 10 0.42
20 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
AATTAAAATTAAAATTGAAA
Found at i:13819775 original size:20 final size:20
Alignment explanation
Indices: 13819717--13819775 Score: 50
Period size: 23 Copynumber: 2.9 Consensus size: 20
13819707 ATATTTGTTT
*
13819717 ATAAAAAAT-TAT-TAATTA
1 ATAAAAAATATATATGATTA
* *
13819735 ACATAAAAATGATTTATTGATTA
1 ATA-AAAAAT-ATATA-TGATTA
13819758 ATAAAAAATATATATGAT
1 ATAAAAAATATATATGAT
13819776 ATTTTAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
18 2 0.06
19 6 0.19
20 4 0.13
21 6 0.19
22 6 0.19
23 7 0.23
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (20 bp):
ATAAAAAATATATATGATTA
Found at i:13819982 original size:16 final size:16
Alignment explanation
Indices: 13819944--13819985 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
13819934 TTATTTTTAT
13819944 TTATTTTAAT-TAAAA
1 TTATTTTAATATAAAA
* *
13819959 -AATATTAATATAAAA
1 TTATTTTAATATAAAA
13819974 TTATTTTAATAT
1 TTATTTTAATAT
13819986 TTTAATTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
14 7 0.33
15 5 0.24
16 9 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATTTTAATATAAAA
Found at i:13820086 original size:24 final size:24
Alignment explanation
Indices: 13820059--13820106 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
13820049 TTCTTTAAAA
* *
13820059 AATACTTTATTATTAAAATATTTT
1 AATACTTTAATAATAAAATATTTT
* *
13820083 AATATTTTAATAATAAAGTATTTT
1 AATACTTTAATAATAAAATATTTT
13820107 TATTCAATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
AATACTTTAATAATAAAATATTTT
Found at i:13820205 original size:38 final size:39
Alignment explanation
Indices: 13820156--13820240 Score: 111
Period size: 38 Copynumber: 2.2 Consensus size: 39
13820146 TTTCAATATA
* *
13820156 AATAATAAATATTAATATGATA-AACAATATT-TTATTTT
1 AATAATAAATATTAAT-TAATATAACAATATTATTAATTT
* *
13820194 AATAATGAATATTACTTAATATAACAATATTATTAATTT
1 AATAATAAATATTAATTAATATAACAATATTATTAATTT
13820233 AATAATAA
1 AATAATAA
13820241 TTTTTTAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
37 4 0.10
38 23 0.57
39 13 0.32
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (39 bp):
AATAATAAATATTAATTAATATAACAATATTATTAATTT
Found at i:13820239 original size:17 final size:18
Alignment explanation
Indices: 13820195--13820239 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
13820185 TTTTATTTTA
13820195 ATAATGAATATTACTTAAT
1 ATAAT-AATATTACTTAAT
*
13820214 ATAACAATATTA-TTAAT
1 ATAATAATATTACTTAAT
*
13820231 TTAATAATA
1 ATAATAATA
13820240 ATTTTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 12 0.52
18 7 0.30
19 4 0.17
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
ATAATAATATTACTTAAT
Found at i:13820250 original size:36 final size:38
Alignment explanation
Indices: 13820141--13820238 Score: 108
Period size: 38 Copynumber: 2.5 Consensus size: 38
13820131 GTACTATACA
* * * *
13820141 AATATTTTCAATATAAATAATAAATATTAATATGATA-AAC
1 AATATTTT-AAT-TTAATAATGAATATTACT-TAATATAAC
*
13820181 AATATTTTATTTTAATAATGAATATTACTTAATATAAC
1 AATATTTTAATTTAATAATGAATATTACTTAATATAAC
13820219 AATATTATTAATTTAATAAT
1 AATATT-TTAATTTAATAAT
13820239 AATTTTTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
37 4 0.08
38 24 0.48
39 14 0.28
40 8 0.16
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (38 bp):
AATATTTTAATTTAATAATGAATATTACTTAATATAAC
Done.