Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 114 of 121
Found at i:19547645 original size:16 final size:16
Alignment explanation
Indices: 19547624--19547715 Score: 60
Period size: 18 Copynumber: 5.4 Consensus size: 16
19547614 TAATAATTAT
19547624 ATATATAATCATACAA
1 ATATATAATCATACAA
* *
19547640 ATATATAATTATGCAATA
1 ATATATAATCATAC-A-A
* *
19547658 ATATAAAATACCATGCAA
1 ATATATAAT--CATACAA
19547676 ATATATAATCATGA-AA
1 ATATATAATCAT-ACAA
* *
19547692 TCAAATATAATCACACAA
1 --ATATATAATCATACAA
19547710 ATATAT
1 ATATAT
19547716 TAACAATGAT
Statistics
Matches: 59, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
16 22 0.37
17 2 0.03
18 30 0.51
19 1 0.02
20 4 0.07
ACGTcount: A:0.54, C:0.12, G:0.03, T:0.30
Consensus pattern (16 bp):
ATATATAATCATACAA
Found at i:19547915 original size:24 final size:24
Alignment explanation
Indices: 19547855--19547916 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
19547845 CAATAATAAT
*
19547855 AAATAAATAAATAACTATGCAAAC
1 AAATAAATAAATAACTATACAAAC
* * * *
19547879 AAATATATTAATAATTATACAATC
1 AAATAAATAAATAACTATACAAAC
*
19547903 ATATAAATAAATAA
1 AAATAAATAAATAA
19547917 ATTAATAATC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (24 bp):
AAATAAATAAATAACTATACAAAC
Found at i:19547963 original size:20 final size:20
Alignment explanation
Indices: 19547938--19548053 Score: 148
Period size: 20 Copynumber: 5.8 Consensus size: 20
19547928 TGCAAATAGA
19547938 CATGCAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
19547958 CATGCAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
* * *
19547978 CATACAA-TCAATCTA-AAT
1 CATGCAATTAAATATATAAT
*
19547996 CATGCAATTAAATATATTAT
1 CATGCAATTAAATATATAAT
*
19548016 CATGCAATTAACA-ATGTAAAT
1 CATGCAATTAA-ATATAT-AAT
19548037 CATGCAATTAAATATAT
1 CATGCAATTAAATATAT
19548054 TATAACAATA
Statistics
Matches: 81, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
18 9 0.11
19 12 0.15
20 43 0.53
21 17 0.21
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (20 bp):
CATGCAATTAAATATATAAT
Found at i:19547997 original size:38 final size:40
Alignment explanation
Indices: 19547942--19548053 Score: 149
Period size: 38 Copynumber: 2.8 Consensus size: 40
19547932 AATAGACATG
*
19547942 CAATTA-AATATATAATCATGCAATTAAATATATAATCATA
1 CAATTACAATCTA-AATCATGCAATTAAATATATAATCATA
* *
19547982 CAA-T-CAATCTAAATCATGCAATTAAATATATTATCATG
1 CAATTACAATCTAAATCATGCAATTAAATATATAATCATA
*
19548020 CAATTAACAATGTAAATCATGCAATTAAATATAT
1 CAATT-ACAATCTAAATCATGCAATTAAATATAT
19548054 TATAACAATA
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
38 28 0.44
39 7 0.11
40 3 0.05
41 26 0.41
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.34
Consensus pattern (40 bp):
CAATTACAATCTAAATCATGCAATTAAATATATAATCATA
Found at i:19548048 original size:41 final size:40
Alignment explanation
Indices: 19547938--19548056 Score: 163
Period size: 41 Copynumber: 3.0 Consensus size: 40
19547928 TGCAAATAGA
*
19547938 CATGCAATTA-AATATATAATCATGCAATTAAATATATAAT
1 CATGCAATTACAATATA-AATCATGCAATTAAATATATTAT
* *
19547978 CATACAA-T-CAATCTAAATCATGCAATTAAATATATTAT
1 CATGCAATTACAATATAAATCATGCAATTAAATATATTAT
*
19548016 CATGCAATTAACAATGTAAATCATGCAATTAAATATATTAT
1 CATGCAATT-ACAATATAAATCATGCAATTAAATATATTAT
19548057 AACAATATAA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
38 28 0.40
39 7 0.10
40 6 0.09
41 29 0.41
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (40 bp):
CATGCAATTACAATATAAATCATGCAATTAAATATATTAT
Found at i:19548122 original size:29 final size:28
Alignment explanation
Indices: 19548067--19548125 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
19548057 AACAATATAA
* *
19548067 ATCATGAAAATAAATTTGTAAATAAAAT
1 ATCATGAAAATAAATATGAAAATAAAAT
19548095 ATCATGCAAAATAAATAT-AAAATCAAAAT
1 ATCATG-AAAATAAATATGAAAAT-AAAAT
19548124 AT
1 AT
19548126 TTTCTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (28 bp):
ATCATGAAAATAAATATGAAAATAAAAT
Found at i:19548223 original size:22 final size:22
Alignment explanation
Indices: 19548198--19548267 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
19548188 AAATCTACAA
*
19548198 AAAATCAAACCAAACAGAAAAT
1 AAAATCAAACCAAACAAAAAAT
*
19548220 AAAATCAAACCAAATAAAAAAT
1 AAAATCAAACCAAACAAAAAAT
*
19548242 AAAA--ATAACACAAACGAAAAAT
1 AAAATCA-AAC-CAAACAAAAAAT
19548264 AAAA
1 AAAA
19548268 ATCCAATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.02
21 3 0.07
22 38 0.90
ACGTcount: A:0.73, C:0.14, G:0.03, T:0.10
Consensus pattern (22 bp):
AAAATCAAACCAAACAAAAAAT
Found at i:19548329 original size:15 final size:16
Alignment explanation
Indices: 19548298--19548335 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
19548288 AAAATTAAAT
19548298 AAAAAATCAAAACAAA
1 AAAAAATCAAAACAAA
*
19548314 AAAAAATCTAAA-AAA
1 AAAAAATCAAAACAAA
*
19548329 AGAAAAT
1 AAAAAAT
19548336 GGGAAACTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.79, C:0.08, G:0.03, T:0.11
Consensus pattern (16 bp):
AAAAAATCAAAACAAA
Found at i:19548601 original size:19 final size:20
Alignment explanation
Indices: 19548574--19548615 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
19548564 AAATTCCCAG
19548574 AAATCAACATTGAAAAAA-TC
1 AAATCAACATT-AAAAAATTC
19548594 AAAT-AACATTAAAAAATTC
1 AAATCAACATTAAAAAATTC
19548613 AAA
1 AAA
19548616 GAAAACTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.29
19 11 0.52
20 4 0.19
ACGTcount: A:0.64, C:0.12, G:0.02, T:0.21
Consensus pattern (20 bp):
AAATCAACATTAAAAAATTC
Found at i:19549367 original size:6 final size:6
Alignment explanation
Indices: 19549358--19549450 Score: 89
Period size: 6 Copynumber: 15.3 Consensus size: 6
19549348 ACTTTTTTTT
* * ** **
19549358 AATTAA AATTAG AATTAC AATTAAA AACAAA AACCAA AATTAAA AATTAA
1 AATTAA AATTAA AATTAA AATT-AA AATTAA AATTAA AATT-AA AATTAA
* *
19549408 AATTAA AATTAA AATCAA AATCAA AATTAA AATT-A AATTAA AA
1 AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA AA
19549451 ATTTCAGACT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
5 5 0.07
6 60 0.81
7 9 0.12
ACGTcount: A:0.67, C:0.06, G:0.01, T:0.26
Consensus pattern (6 bp):
AATTAA
Found at i:19549398 original size:19 final size:18
Alignment explanation
Indices: 19549376--19549439 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 18
19549366 TTAGAATTAC
*
19549376 AATTAAAAACAAAAACCAA
1 AATTAAAAAC-AAAATCAA
* *
19549395 AATTAAAAATTAAAATTAA
1 AATTAAAAA-CAAAATCAA
*
19549414 AATTAAAATCAAAATCAA
1 AATTAAAAACAAAATCAA
19549432 AATTAAAA
1 AATTAAAA
19549440 TTAAATTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
18 15 0.39
19 23 0.61
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (18 bp):
AATTAAAAACAAAATCAA
Found at i:19550286 original size:20 final size:20
Alignment explanation
Indices: 19550261--19550344 Score: 143
Period size: 20 Copynumber: 4.2 Consensus size: 20
19550251 GCTTGCTTGT
*
19550261 ATTTAAGCTTATGCTTTAAG
1 ATTTAAGCTTACGCTTTAAG
19550281 ATTTAAGCTTACGCTTTAAG
1 ATTTAAGCTTACGCTTTAAG
19550301 ATTTAAGCTTACGCTTTAAG
1 ATTTAAGCTTACGCTTTAAG
*
19550321 ATTTAAGCTTATGCTTTAAG
1 ATTTAAGCTTACGCTTTAAG
19550341 -TTTA
1 ATTTA
19550345 TCTTGTCTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
19 4 0.06
20 58 0.94
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (20 bp):
ATTTAAGCTTACGCTTTAAG
Found at i:19550345 original size:13 final size:13
Alignment explanation
Indices: 19550262--19550344 Score: 53
Period size: 13 Copynumber: 6.3 Consensus size: 13
19550252 CTTGCTTGTA
*
19550262 TTTAAGC-TTATG
1 TTTAAGCTTTAAG
*
19550274 CTTTAAGATTTAAG
1 -TTTAAGCTTTAAG
* *
19550288 CTTACGCTTTAAG
1 TTTAAGCTTTAAG
*
19550301 ATTTAAGC-TTACG
1 -TTTAAGCTTTAAG
*
19550314 CTTTAAGATTTAAG
1 -TTTAAGCTTTAAG
* *
19550328 CTTATGCTTTAAG
1 TTTAAGCTTTAAG
19550341 TTTA
1 TTTA
19550345 TCTTGTCTTT
Statistics
Matches: 52, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
13 39 0.75
14 13 0.25
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (13 bp):
TTTAAGCTTTAAG
Found at i:19553250 original size:22 final size:22
Alignment explanation
Indices: 19553225--19553269 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
19553215 CTTATGGAAG
*
19553225 AACAATTTTTTTATCAGCAATC
1 AACAAATTTTTTATCAGCAATC
19553247 AACAAATTTTTTATCAGCAATC
1 AACAAATTTTTTATCAGCAATC
19553269 A
1 A
19553270 GGGGGGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (22 bp):
AACAAATTTTTTATCAGCAATC
Found at i:19554403 original size:15 final size:15
Alignment explanation
Indices: 19554383--19554431 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
19554373 TGGCCTAAAA
19554383 TTTTTTATTTTTTAT
1 TTTTTTATTTTTTAT
**
19554398 TTTTTTATTTTAAAT
1 TTTTTTATTTTTTAT
* *
19554413 TTATTTTAATTATTAT
1 TT-TTTTATTTTTTAT
19554429 TTT
1 TTT
19554432 AAGAAATAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
15 16 0.59
16 11 0.41
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTATTTTTTAT
Found at i:19555473 original size:19 final size:19
Alignment explanation
Indices: 19555448--19555502 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
19555438 TATTTTTAAC
19555448 AAAAAAAATAATAAAAA-A
1 AAAAAAAATAATAAAAAGA
* *
19555466 ACAAAAAAAGAAGAAAAAGA
1 A-AAAAAAATAATAAAAAGA
19555486 AAGAAAAAAT-ATAAAAA
1 AA-AAAAAATAATAAAAA
19555503 TTTTGGAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 1 0.03
19 21 0.70
20 8 0.27
ACGTcount: A:0.84, C:0.02, G:0.07, T:0.07
Consensus pattern (19 bp):
AAAAAAAATAATAAAAAGA
Found at i:19555971 original size:3 final size:3
Alignment explanation
Indices: 19555959--19555994 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
19555949 TATATTTTCG
19555959 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
19555995 ATGATGACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:19567491 original size:42 final size:42
Alignment explanation
Indices: 19567433--19567620 Score: 245
Period size: 42 Copynumber: 4.5 Consensus size: 42
19567423 GATTGTCAAT
*
19567433 GAGC-ATTTATTTTTCAAAATTGTGGTTGCCTCTGTTTAGAG
1 GAGCAATTTATTTTTCAAAATTGTGGTTGCCTCTGTTTAAAG
* *
19567474 GAGCAATTTATTTTTCAAAGTTTTGGTTGCCTCTGTTTAAAG
1 GAGCAATTTATTTTTCAAAATTGTGGTTGCCTCTGTTTAAAG
* * * *
19567516 GAGCAATTTATTTTTCAAAGTTGTGGTTGCCTTTGTTTATAT
1 GAGCAATTTATTTTTCAAAATTGTGGTTGCCTCTGTTTAAAG
* *
19567558 GAGCAATTTATTTTTCAAAAGTTGTGG-TGTCTTTGTTTAAAG
1 GAGCAATTTATTTTTCAAAA-TTGTGGTTGCCTCTGTTTAAAG
*
19567600 GAGCTTAATTTACTTTTCAAA
1 GAGC--AATTTATTTTTCAAA
19567621 GTCATTGAGC
Statistics
Matches: 131, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
41 4 0.03
42 107 0.82
43 6 0.05
44 14 0.11
ACGTcount: A:0.24, C:0.11, G:0.19, T:0.46
Consensus pattern (42 bp):
GAGCAATTTATTTTTCAAAATTGTGGTTGCCTCTGTTTAAAG
Found at i:19568306 original size:20 final size:21
Alignment explanation
Indices: 19568266--19568306 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19568256 AAACTTGAAT
*
19568266 TTTTCGACGGGTTTTTTCTAG
1 TTTTCGACGGGTTTGTTCTAG
*
19568287 TTTTCGACGTG-TTGTTCTAG
1 TTTTCGACGGGTTTGTTCTAG
19568307 ATTCTTATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.10, C:0.15, G:0.24, T:0.51
Consensus pattern (21 bp):
TTTTCGACGGGTTTGTTCTAG
Found at i:19568706 original size:10 final size:10
Alignment explanation
Indices: 19568693--19568719 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
19568683 TTTTTCTTAA
19568693 TTTTTTTTGT
1 TTTTTTTTGT
19568703 TTTTTTTTGT
1 TTTTTTTTGT
19568713 TTTTTTT
1 TTTTTTT
19568720 CTTTCATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:19569105 original size:201 final size:202
Alignment explanation
Indices: 19568764--19569138 Score: 455
Period size: 201 Copynumber: 1.9 Consensus size: 202
19568754 ATGGTAAAAT
** *
19568764 AAAATTTTGGTAATAAATATTAATTATCCAATGATGAAATTTATAAAAATTTCAAATGGTAAATT
1 AAAATTTTGGTAATAAATACAAATTACCCAATGATGAAATTTATAAAAATTTCAAATGGTAAATT
** * * **
19568829 TTTTATAAAATTCGTAGGTGAGAAATTTTGTCTAAATTTATCTTAAATGGTGGAATAATTTAGAT
66 TCCTATAAAATTCGTAAGTGAGAAATTTTCTCTAAATTTATCCCAAATGGTGGAATAATTTAGAT
19568894 AAAGTTTCAATGA-AAATAATTAATATTATTTTCC-AACAAAAAAATATAATAAAAAAAGAACAA
131 AAAGTTTCAAT-ACAAATAATT-ATATTATTTTCCAAACAAAAAAATATAATAAAAAAAGAACAA
19568957 AAAAATATA
194 AAAAATATA
* * *
19568966 AAAATTTTGG-AATTAAATACAAATTACCCAATGATGAGATTCT-TAGAAATTTTAAATGGTAAA
1 AAAATTTTGGTAA-TAAATACAAATTACCCAATGATGAAATT-TATAAAAATTTCAAATGGTAAA
*
19569029 -TTCCTA-AGAAATCTC-TAAGTGAGAAATTTTCTCTAAATTTGA-CCCAAATTGTGGAATAACT
64 TTTCCTATA-AAAT-TCGTAAGTGAGAAATTTTCTCTAAATTT-ATCCCAAATGGTGGAATAA-T
* * *
19569090 TT-GATGAAA-TTTCAATACAAGTAATTATATTCTTTTCCAAATAAAAAAA
125 TTAGAT-AAAGTTTCAATACAAATAATTATATTATTTTCCAAACAAAAAAA
19569139 ATTGATTGAA
Statistics
Matches: 148, Mismatches: 16, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
200 13 0.09
201 73 0.49
202 61 0.41
203 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.35
Consensus pattern (202 bp):
AAAATTTTGGTAATAAATACAAATTACCCAATGATGAAATTTATAAAAATTTCAAATGGTAAATT
TCCTATAAAATTCGTAAGTGAGAAATTTTCTCTAAATTTATCCCAAATGGTGGAATAATTTAGAT
AAAGTTTCAATACAAATAATTATATTATTTTCCAAACAAAAAAATATAATAAAAAAAGAACAAAA
AAATATA
Found at i:19575641 original size:57 final size:57
Alignment explanation
Indices: 19575519--19575667 Score: 217
Period size: 57 Copynumber: 2.6 Consensus size: 57
19575509 TATTTTTAAA
* * * *
19575519 GAAAATTGGTACTTCCAACTTTTCCCCAAAATATTTTTTTTTTGAAATTTTAATTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCTC-AAA-A-TTTTTTTTTAAAATTTTAATTTCAAG
*
19575579 AAAAATTGATACTTTCAACTTTTCCTCAAAATTTTTTTTTAAAATTTTAATTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAATTTTTTTTTAAAATTTTAATTTCAAG
*
19575636 GAAAATTAATACTTTCAACTTTTCCTCAAAAT
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAT
19575668 ACTTTTCTTG
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
57 55 0.67
58 1 0.01
59 3 0.04
60 23 0.28
ACGTcount: A:0.36, C:0.15, G:0.05, T:0.44
Consensus pattern (57 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAATTTTTTTTTAAAATTTTAATTTCAAG
Found at i:19575698 original size:57 final size:57
Alignment explanation
Indices: 19575454--19575699 Score: 201
Period size: 57 Copynumber: 4.1 Consensus size: 57
19575444 TTTGTACAAG
* * *
19575454 AAAAATTGATACTTTCAACTTTTCCTTAAAAAAAAATATTTTTCTCGATAATTTTTATTTTT
1 AAAAATTGATACTTTCAACTTTTCC-T----CAAAATATTTTTCTTGATAATTTTAATTTTT
* * * * **
19575516 AAAGAAAATTGGTACTTCCAACTTTTCCCCAAAATATTTTTTTTTTGA-AATTTTAATTTCAAG
1 --A-AAAATTGATACTTTCAACTTTTCCTCAAAATA--TTTTTCTTGATAATTTTAATTT--TT
* * **
19575579 AAAAATTGATACTTTCAACTTTTCCTCAAAAT-TTTTT-TTTAAAATTTTAATTTCA
1 AAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTCTTGATAATTTTAATTTTT
* * *
19575634 AGGAAAATTAATACTTTCAACTTTTCCTCAAAATACTTTTCTTGATAATTTTTATTTTT
1 A--AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTCTTGATAATTTTAATTTTT
19575693 AAAAATT
1 AAAAATT
19575700 TTATTTTTAG
Statistics
Matches: 150, Mismatches: 22, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
55 1 0.01
56 3 0.02
57 52 0.35
58 4 0.03
59 14 0.09
60 34 0.23
61 11 0.07
62 8 0.05
64 1 0.01
65 22 0.15
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (57 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTCTTGATAATTTTAATTTTT
Found at i:19575703 original size:15 final size:16
Alignment explanation
Indices: 19575683--19575715 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
19575673 TCTTGATAAT
19575683 TTTTATTTTTA-AAAA
1 TTTTATTTTTAGAAAA
19575698 TTTTATTTTTAGAAAA
1 TTTTATTTTTAGAAAA
19575714 TT
1 TT
19575716 GATACTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TTTTATTTTTAGAAAA
Found at i:19575757 original size:73 final size:73
Alignment explanation
Indices: 19575608--19575763 Score: 185
Period size: 73 Copynumber: 2.2 Consensus size: 73
19575598 TTTTCCTCAA
* *
19575608 AATTTT-TTTTTAAAATTTTAATTTCAAGGAAAATTAATACTTTCAACTTTTCCTCAAAATACTT
1 AATTTTATTTTTAAAATTTTAATTTCAAGGAAAATTAATACTTTCAACTTTACCTAAAAATACTT
* *
19575672 TTCTTGAT
66 TTCTTAAC
** *
19575680 AATTTTTATTTTTAAAAATTTT-ATTTTTA-GAAAATTGATACTTTCAACTTTACCTTAAAAATA
1 AA-TTTTATTTTT-AAAATTTTAATTTCAAGGAAAATTAATACTTTCAACTTTACC-TAAAAATA
*
19575743 -TTTTTTTAAC
63 CTTTTCTTAAC
19575753 AATTTTATTTT
1 AATTTTATTTT
19575764 CAAGGAAAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
72 11 0.15
73 36 0.50
74 17 0.24
75 8 0.11
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.52
Consensus pattern (73 bp):
AATTTTATTTTTAAAATTTTAATTTCAAGGAAAATTAATACTTTCAACTTTACCTAAAAATACTT
TTCTTAAC
Found at i:19575787 original size:60 final size:59
Alignment explanation
Indices: 19575688--19576068 Score: 338
Period size: 60 Copynumber: 6.5 Consensus size: 59
19575678 ATAATTTTTA
* * * *
19575688 TTTTTAAAAATTTTATTTT-TA-GAAAATTGATACTTTCAACTTTACCTTAAAAATATT
1 TTTTTAACAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATT
*
19575745 TTTTTAACAATTTTATTTTCAAGGAAAAATTGATACTTTCAACTTTTTTCTCAAAAATATT
1 TTTTTAACAATTTTATTTTCAAGG-AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATT
** * * * *
19575806 TTTAGAACACTTTTATTTTCAAGGGAAATTGATACTTTTAACTTTTTCT-AAAAATATT
1 TTTTTAACAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATT
* * *
19575864 TTTTTAAAACACTTTTATTTTCAAAGG-AACTTGATACTTTCAACTTTCTCCTCCCAAAATATAT
1 TTTTT--AACAATTTTATTTTC-AAGGAAAATTGATACTTTCAACTTT-TCCT-CAAAAATAT-T
* * ** ** *
19575928 TTTTT---ATTTTTGTACTCAAAAAAAATTGATACATTCAAC-TTTCCTTCAAAAATATT
1 TTTTTAACAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCC-TCAAAAATATT
* * * *
19575984 TTTTT-TC-ATTTTATTTTCAAGGAAAATTAATACTTTCAACTTTTTCTCAAAAGTA-T
1 TTTTTAACAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATT
** *
19576040 TTTTTAGGAATTTTACTTT--AGGAAAATTG
1 TTTTTAACAATTTTATTTTCAAGGAAAATTG
19576069 TTGAAAAAAA
Statistics
Matches: 267, Mismatches: 39, Indels: 37
0.78 0.11 0.11
Matches are distributed among these distances:
56 21 0.08
57 62 0.23
58 31 0.12
59 31 0.12
60 67 0.25
61 42 0.16
63 7 0.03
64 6 0.02
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (59 bp):
TTTTTAACAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATT
Found at i:19575868 original size:250 final size:255
Alignment explanation
Indices: 19575455--19575916 Score: 575
Period size: 250 Copynumber: 1.8 Consensus size: 255
19575445 TTGTACAAGA
* * * *
19575455 AAAATTGATACTTTCAACTTTTCCTTAAAAAAAAATATTTTTCTCGATAATTTTTATTTTTAAAG
1 AAAATTGATACTTTCAACTTTACCTT---AAAAAATATTTTTCTCAACAATTTTTATTTTCAAAG
* * *
19575520 AAAATTGGTACTTCCAACTTTTCCCCAAAATATTTTTTTTTTGAAATTTTAATTTCAAGAAAAAT
63 AAAATTGATACTTCCAACTTTTCCCCAAAATA-TTATTTTTAGAAATTTTAATTTCAAGAAAAAT
* *
19575585 TGATACTTTCAACTTTTCCTCAAAAT-TTTTTTTTAAA-A-TTTTAATTTC-AAGGAAAATTAAT
127 TGATACTTTCAACTTTTCCTAAAAATATTTTTTTAAAACACTTTTAATTTCAAAGG-AAATTAAT
19575646 ACTTTCAACTTT-TCCTCAAAATACTTTTCTTGATAATTTTTATTTTTAAAAATTTTATTTTTAG
191 ACTTTCAACTTTCTCCTCAAAATACTTTTCTTGATAATTTTTATTTTTAAAAATTTTATTTTTAG
* *
19575710 AAAATTGATACTTTCAACTTTACCTT-AAAAATATTTTT-TTAACAA-TTTTATTTTCAAGGAAA
1 AAAATTGATACTTTCAACTTTACCTTAAAAAATATTTTTCTCAACAATTTTTATTTTCAAAG-AA
* * * * **
19575772 AATTGATACTTTCAACTTTTTTCTCAAAA-A-TATTTTTAGAACACTTTTATTTTCAAGGGAAAT
65 AATTGATACTTCCAAC-TTTTCCCCAAAATATTATTTTTAGAA-A-TTTTAATTTCAAGAAAAAT
* * * * *
19575835 TGATACTTTTAACTTTTTCTAAAAATATTTTTTTAAAACACTTTTATTTTCAAAGGAACTTGATA
127 TGATACTTTCAACTTTTCCTAAAAATATTTTTTTAAAACACTTTTAATTTCAAAGGAAATTAATA
19575900 CTTTCAACTTTCTCCTC
192 CTTTCAACTTTCTCCTC
19575917 CCAAAATATA
Statistics
Matches: 176, Mismatches: 22, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
248 9 0.05
249 13 0.07
250 60 0.34
251 32 0.18
252 1 0.01
253 27 0.15
254 9 0.05
255 25 0.14
ACGTcount: A:0.35, C:0.13, G:0.05, T:0.47
Consensus pattern (255 bp):
AAAATTGATACTTTCAACTTTACCTTAAAAAATATTTTTCTCAACAATTTTTATTTTCAAAGAAA
ATTGATACTTCCAACTTTTCCCCAAAATATTATTTTTAGAAATTTTAATTTCAAGAAAAATTGAT
ACTTTCAACTTTTCCTAAAAATATTTTTTTAAAACACTTTTAATTTCAAAGGAAATTAATACTTT
CAACTTTCTCCTCAAAATACTTTTCTTGATAATTTTTATTTTTAAAAATTTTATTTTTAG
Found at i:19577246 original size:44 final size:44
Alignment explanation
Indices: 19577180--19577389 Score: 253
Period size: 44 Copynumber: 4.8 Consensus size: 44
19577170 AAAAAAATCT
* * **
19577180 TCTAAACAAAAGCTCAATGACTTTGGAAAAATAAACAAAGCTCC
1 TCTAAACAGAGGCTCAACAACTTTGGAAAAATAAACAAAGCTCC
* *
19577224 TCTAAACAGAGGTTCAACGACTTTGGAAAAATAAACAAAGCTCC
1 TCTAAACAGAGGCTCAACAACTTTGGAAAAATAAACAAAGCTCC
* *
19577268 TCTAAACAGCA-GCTCAACAACTTAGAAAAAATAAACAAAGCTCC
1 TCTAAACAG-AGGCTCAACAACTTTGGAAAAATAAACAAAGCTCC
* * * *
19577312 TCTAAATAAAGGCTCAACAACTTT-GAAAAATAAATAAAGCTCA
1 TCTAAACAGAGGCTCAACAACTTTGGAAAAATAAACAAAGCTCC
* * * *
19577355 TTTAAATAGAGGCTTAACAACTTTGAAAAAATAAA
1 TCTAAACAGAGGCTCAACAACTTTGGAAAAATAAA
19577390 TTAAGCCACC
Statistics
Matches: 145, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
43 38 0.26
44 106 0.73
45 1 0.01
ACGTcount: A:0.49, C:0.19, G:0.11, T:0.21
Consensus pattern (44 bp):
TCTAAACAGAGGCTCAACAACTTTGGAAAAATAAACAAAGCTCC
Found at i:19577298 original size:88 final size:87
Alignment explanation
Indices: 19577145--19577389 Score: 261
Period size: 88 Copynumber: 2.9 Consensus size: 87
19577135 TTGAGAAACA
* * * * ** *
19577145 TAAACAAAGGCTCAACGACTTTG--AAA-AAA-AAA--TCTTCTAAACAAAAGCTCAATGACTTT
1 TAAACAAAGGCTCAACAACTTTGAAAAATAAACAAAGCTCATCTAAACAGAGGCTCAACAACTTA
*
19577204 GGAAAAATAAACAAAGCTCCTC
66 GAAAAAATAAACAAAGCTCCTC
* * * *
19577226 TAAACAGAGGTTCAACGACTTTGGAAAAATAAACAAAGCTCCTCTAAACAGCA-GCTCAACAACT
1 TAAACAAAGGCTCAACAACTTT-GAAAAATAAACAAAGCTCATCTAAACAG-AGGCTCAACAACT
19577290 TAGAAAAAATAAACAAAGCTCCTC
64 TAGAAAAAATAAACAAAGCTCCTC
* * * * * *
19577314 TAAATAAAGGCTCAACAACTTTGAAAAATAAATAAAGCTCATTTAAATAGAGGCTTAACAACTTT
1 TAAACAAAGGCTCAACAACTTTGAAAAATAAACAAAGCTCATCTAAACAGAGGCTCAACAACTTA
19577379 GAAAAAATAAA
66 GAAAAAATAAA
19577390 TTAAGCCACC
Statistics
Matches: 137, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
81 20 0.15
82 1 0.01
84 3 0.02
85 3 0.02
86 4 0.03
87 46 0.34
88 59 0.43
89 1 0.01
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.21
Consensus pattern (87 bp):
TAAACAAAGGCTCAACAACTTTGAAAAATAAACAAAGCTCATCTAAACAGAGGCTCAACAACTTA
GAAAAAATAAACAAAGCTCCTC
Found at i:19578436 original size:9 final size:8
Alignment explanation
Indices: 19578406--19578435 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
19578396 TTGAGTCTCC
19578406 TTTTTCATT
1 TTTTTC-TT
19578415 TTTTTCTT
1 TTTTTCTT
19578423 TTTTTCTT
1 TTTTTCTT
19578431 TTTTT
1 TTTTT
19578436 TTCAAGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 15 0.71
9 6 0.29
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTCTT
Found at i:19582737 original size:93 final size:93
Alignment explanation
Indices: 19582553--19582739 Score: 227
Period size: 93 Copynumber: 2.0 Consensus size: 93
19582543 TTTGCCAAGT
* * ** * *
19582553 ACCCCAAGTTTATACAGTGACGAAAGAGGCTGTTTCCAATTTCCGTGGAACTTCTCTGCACCAAT
1 ACCCCAAGTTTATACAGTGACAAAAGAGCCTGTCACCAATTTCCGTGGAACATCTCAGCACCAAT
* *
19582618 ATTCTGGTGGACGGAGTGTTTCTGAGGG
66 ATTCTGGTGGACGGAGCGTATCTGAGGG
* *
19582646 ACCCCAAGTTTATACAGTGACAAAAGAGCCTGTCACCAATATTTACCTTGGAACATCTCAGCATC
1 ACCCCAAGTTTATACAGTGACAAAAGAGCCTGTCACC-A-ATTT-CCGTGGAACATCTCAGCACC
*
19582711 AATGTTCTGGTGGAC-G-GCGTAT-TGAGGG
63 AATATTCTGGTGGACGGAGCGTATCTGAGGG
19582739 A
1 A
19582740 GGACCCCAAG
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
93 40 0.50
94 5 0.06
95 5 0.06
96 30 0.38
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (93 bp):
ACCCCAAGTTTATACAGTGACAAAAGAGCCTGTCACCAATTTCCGTGGAACATCTCAGCACCAAT
ATTCTGGTGGACGGAGCGTATCTGAGGG
Found at i:19585464 original size:36 final size:36
Alignment explanation
Indices: 19585415--19585487 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
19585405 AATGAAATTA
*
19585415 CAAGAAATAAAATTCAAACCTATACGTATTCATATT
1 CAAGAAATAAAATTCAAACCTATACGTATACATATT
* * *
19585451 CAAGAAATCAAATTCAAACCTCTATGTATACATATT
1 CAAGAAATAAAATTCAAACCTATACGTATACATATT
19585487 C
1 C
19585488 GACAAGAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.30
Consensus pattern (36 bp):
CAAGAAATAAAATTCAAACCTATACGTATACATATT
Found at i:19586545 original size:105 final size:105
Alignment explanation
Indices: 19586343--19586552 Score: 323
Period size: 105 Copynumber: 2.0 Consensus size: 105
19586333 GGTGGCAACG
*
19586343 GTTCCTCCCTGCCAAACCTGTGGCTCACCCAACCTATCTCCTCCAGCACCTGAAGCTGCTTCACC
1 GTTCCTCCCTGCCAAACCTGTGGCTCACCCAACCTATCTCCTCCAGCACATGAAGCTGCTTCACC
* * *
19586408 TGAACCAGCTCTCACTCAACCAGTTGAATCTCCAAAAACA
66 TGAACCAGCTCCCACACAACCAGCTGAATCTCCAAAAACA
19586448 GTTCCTCCCTGCCAAACCTGTGGCTCACCCAACCCT-TCTCCTCCAGCACATGAAGCTGCTTCAC
1 GTTCCTCCCTGCCAAACCTGTGGCTCACCCAA-CCTATCTCCTCCAGCACATGAAGCTGCTTCAC
* * * * *
19586512 CTGAACCGGCTCCCACACCATCAGCTGACTCTCCGAAAACA
65 CTGAACCAGCTCCCACACAACCAGCTGAATCTCCAAAAACA
19586553 AGTAAGGCAC
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
105 92 0.97
106 3 0.03
ACGTcount: A:0.24, C:0.41, G:0.13, T:0.21
Consensus pattern (105 bp):
GTTCCTCCCTGCCAAACCTGTGGCTCACCCAACCTATCTCCTCCAGCACATGAAGCTGCTTCACC
TGAACCAGCTCCCACACAACCAGCTGAATCTCCAAAAACA
Found at i:19588765 original size:14 final size:15
Alignment explanation
Indices: 19588748--19588777 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19588738 AAAAATGATT
19588748 AAGT-AAAAATTAAA
1 AAGTCAAAAATTAAA
19588762 AAGTCAAAAATTAAA
1 AAGTCAAAAATTAAA
19588777 A
1 A
19588778 TCGATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (15 bp):
AAGTCAAAAATTAAA
Found at i:19588992 original size:12 final size:12
Alignment explanation
Indices: 19588969--19589012 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
19588959 CTTTATCATT
19588969 TTAAAA-TTTTA
1 TTAAAATTTTTA
19588980 TTAAAATTTTTA
1 TTAAAATTTTTA
19588992 TTAAATTATTTTTA
1 TTAAA--ATTTTTA
*
19589006 TAAAAAT
1 TTAAAAT
19589013 ATTTCATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 6 0.21
12 12 0.41
14 11 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTAAAATTTTTA
Found at i:19589004 original size:14 final size:13
Alignment explanation
Indices: 19588975--19589016 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
19588965 CATTTTAAAA
19588975 TTTTATTAAA-AT
1 TTTTATTAAATAT
19588987 TTTTATTAAATTAT
1 TTTTATTAAA-TAT
*
19589001 TTTTATAAAAATAT
1 TTTTAT-TAAATAT
19589015 TT
1 TT
19589017 CATAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 10 0.38
14 13 0.50
15 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTATTAAATAT
Found at i:19589022 original size:26 final size:26
Alignment explanation
Indices: 19588975--19589024 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
19588965 CATTTTAAAA
* *
19588975 TTTTATTAAAATTTTTATTAAATTAT
1 TTTTATAAAAATTTTCATTAAATTAT
19589001 TTTTATAAAAATATTTCA-TAAATT
1 TTTTATAAAAAT-TTTCATTAAATT
19589025 TTACTAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
TTTTATAAAAATTTTCATTAAATTAT
Found at i:19597886 original size:15 final size:15
Alignment explanation
Indices: 19597863--19597898 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
19597853 AATTCGGTTA
*
19597863 ATTTTAAATTGAATT
1 ATTTAAAATTGAATT
19597878 ATTTAAAATTGAATT
1 ATTTAAAATTGAATT
*
19597893 AATTAA
1 ATTTAA
19597899 TTATTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (15 bp):
ATTTAAAATTGAATT
Found at i:19598271 original size:22 final size:23
Alignment explanation
Indices: 19598237--19598283 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
19598227 TAAAATTTTA
* *
19598237 AAAATTATTTTTGATAATTAATT
1 AAAATTATATTTGATAACTAATT
19598260 AAAATTA-ATTTGATAACTAATT
1 AAAATTATATTTGATAACTAATT
19598282 AA
1 AA
19598284 TAAACCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (23 bp):
AAAATTATATTTGATAACTAATT
Found at i:19601615 original size:18 final size:19
Alignment explanation
Indices: 19601573--19601630 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 19
19601563 TATTTTTATA
* *
19601573 ATAATACAAATTATAATATAT
1 ATAATATAAA-TAT-ATAAAT
* *
19601594 ATAATTTACATATA-AAAT
1 ATAATATAAATATATAAAT
19601612 ATAATATAAATATATAAAT
1 ATAATATAAATATATAAAT
19601631 TTTAATATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
18 15 0.50
19 5 0.17
20 3 0.10
21 7 0.23
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAATATAAATATATAAAT
Found at i:19601632 original size:32 final size:31
Alignment explanation
Indices: 19601587--19601662 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
19601577 TACAAATTAT
19601587 AATATATATAATTTACATATAAAATATAATATA
1 AATATATA-AATTTA-ATATAAAATATAATATA
***
19601620 AATATATAAATTTTAATATTTTATATAATATA
1 AATATATAAA-TTTAATATAAAATATAATATA
*
19601652 AATATACAAAT
1 AATATATAAAT
19601663 CATCAAATCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 1 0.03
32 25 0.66
33 12 0.32
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (31 bp):
AATATATAAATTTAATATAAAATATAATATA
Found at i:19603105 original size:12 final size:10
Alignment explanation
Indices: 19603073--19603158 Score: 56
Period size: 11 Copynumber: 8.6 Consensus size: 10
19603063 ATAAAATTTA
19603073 TTTT-TTAAT
1 TTTTATTAAT
19603082 TTTTATTAAT
1 TTTTATTAAT
19603092 TTTATATGTAAT
1 TTT-TAT-TAAT
*
19603104 TTTTATTAAAA
1 TTTTATT-AAT
19603115 TTTTA--AA-
1 TTTTATTAAT
**
19603122 TCATATT-AT
1 TTTTATTAAT
*
19603131 TTTTATATATT
1 TTTTAT-TAAT
19603142 TTTTATATAAT
1 TTTTAT-TAAT
19603153 TTTTAT
1 TTTTAT
19603159 ATCATGTTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
7 3 0.05
8 3 0.05
9 8 0.13
10 10 0.16
11 30 0.49
12 7 0.11
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (10 bp):
TTTTATTAAT
Found at i:19603168 original size:22 final size:22
Alignment explanation
Indices: 19603124--19603168 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
19603114 ATTTTAAATC
* *
19603124 ATATTATTTTTATATATTTTTT
1 ATATAATTTTTATATATTGTTT
19603146 ATATAATTTTTATATCA-TGTTT
1 ATATAATTTTTATAT-ATTGTTT
19603168 A
1 A
19603169 AAATTATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (22 bp):
ATATAATTTTTATATATTGTTT
Found at i:19605026 original size:12 final size:12
Alignment explanation
Indices: 19605009--19605033 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19604999 CAATAATATA
19605009 TAAAAATATTAT
1 TAAAAATATTAT
19605021 TAAAAATATTAT
1 TAAAAATATTAT
19605033 T
1 T
19605034 TTTAATTCAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAAAATATTAT
Found at i:19605437 original size:29 final size:29
Alignment explanation
Indices: 19605403--19605458 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
19605393 TAAAGTATAA
19605403 TAAAA-TATTAGATATGATATTTAAATTTT
1 TAAAATTATTA-ATATGATATTTAAATTTT
* *
19605432 TAAAATTTTTAATATGATATTTGAATT
1 TAAAATTATTAATATGATATTTAAATT
19605459 ATATATCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (29 bp):
TAAAATTATTAATATGATATTTAAATTTT
Found at i:19605667 original size:41 final size:41
Alignment explanation
Indices: 19605603--19605685 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
19605593 AACATATTAA
* * *
19605603 AAATTTTTTAAGTTTAAATATCAAATTAAATATTTTTTTAT
1 AAATTTTTTAAGTTCAAACATCAAATTAAATATTTTGTTAT
* *
19605644 AAATTTTTTAGGTTCAAGCATCAAATTAAATATTTTGTTAT
1 AAATTTTTTAAGTTCAAACATCAAATTAAATATTTTGTTAT
19605685 A
1 A
19605686 GTTTAAGGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (41 bp):
AAATTTTTTAAGTTCAAACATCAAATTAAATATTTTGTTAT
Found at i:19608445 original size:24 final size:25
Alignment explanation
Indices: 19608398--19608445 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
19608388 AGATTTACCG
19608398 TAACATTATTTCTAAAAATAATAAAA
1 TAACATTATTTCT-AAAATAATAAAA
*
19608424 TAACATTATTTGT-AAATAATAA
1 TAACATTATTTCTAAAATAATAA
19608446 TTATTGATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.43
26 12 0.57
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (25 bp):
TAACATTATTTCTAAAATAATAAAA
Found at i:19609088 original size:3 final size:3
Alignment explanation
Indices: 19609080--19609126 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
19609070 CTTGCTTTCT
19609080 TTA TTA TTA 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 TTA TTA TTA TT
19609127 GACTTAAACT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19609492 original size:34 final size:34
Alignment explanation
Indices: 19609448--19609656 Score: 106
Period size: 34 Copynumber: 6.2 Consensus size: 34
19609438 TTTCTTTATA
* * * *
19609448 TAAAA-TTTCATTGAGTGCCAGTTAAACTGGGTT
1 TAAAATTTTCATTAAGTGCCAGGTAAACTAGGCT
* * *
19609481 TAAATTTTTCATCAAGTGCTAGGTAAACTAGGCT
1 TAAAATTTTCATTAAGTGCCAGGTAAACTAGGCT
* * * *
19609515 TAAAATTTTCATTACGTGCCGACG-AAGCTGGGCT
1 TAAAATTTTCATTAAGTGCC-AGGTAAACTAGGCT
* ** * *
19609549 TAAAA-CTTCATT-AGTGCCAAATAAAATTGGGCT
1 TAAAATTTTCATTAAGTGCCAGGT-AAACTAGGCT
* * ** *
19609582 TAAAATCTTTTCATCAAGTGCCAGTTAAGTTGGGCT
1 TAAAA--TTTTCATTAAGTGCCAGGTAAACTAGGCT
* * * *
19609618 TAAAA-CTTCATTAA-TGCCAAGTAAAATTGGGCT
1 TAAAATTTTCATTAAGTGCCAGGT-AAACTAGGCT
19609651 TAAAAT
1 TAAAAT
19609657 CTTTTTTTGG
Statistics
Matches: 136, Mismatches: 30, Indels: 19
0.74 0.16 0.10
Matches are distributed among these distances:
31 1 0.01
32 11 0.08
33 44 0.32
34 51 0.38
35 2 0.01
36 19 0.14
37 8 0.06
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (34 bp):
TAAAATTTTCATTAAGTGCCAGGTAAACTAGGCT
Found at i:19609580 original size:33 final size:33
Alignment explanation
Indices: 19609543--19609655 Score: 138
Period size: 33 Copynumber: 3.3 Consensus size: 33
19609533 CCGACGAAGC
*
19609543 TGGGCTTAAAACTTCATTAGTGCCAAATAAAAT
1 TGGGCTTAAAACTTCATTAGTGCCAAGTAAAAT
* * *
19609576 TGGGCTTAAAATCTTTTCATCAAGTGCC-AGTTAAGT
1 TGGGCTTAAAA-C--TTCAT-TAGTGCCAAGTAAAAT
*
19609612 TGGGCTTAAAACTTCATTAATGCCAAGTAAAAT
1 TGGGCTTAAAACTTCATTAGTGCCAAGTAAAAT
19609645 TGGGCTTAAAA
1 TGGGCTTAAAA
19609656 TCTTTTTTTG
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
32 5 0.07
33 33 0.49
34 1 0.01
35 1 0.01
36 21 0.31
37 6 0.09
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (33 bp):
TGGGCTTAAAACTTCATTAGTGCCAAGTAAAAT
Found at i:19615677 original size:3 final size:3
Alignment explanation
Indices: 19615669--19615714 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
19615659 TAAAATTAAA
19615669 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
19615715 AACAAATACT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:19615740 original size:21 final size:21
Alignment explanation
Indices: 19615714--19615753 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
19615704 TATTATTATT
19615714 AAACAAATACT-TAAATAAATG
1 AAACAAATA-TGTAAATAAATG
19615735 AAACAAATATGTAAATAAA
1 AAACAAATATGTAAATAAA
19615754 ACTAAGTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (21 bp):
AAACAAATATGTAAATAAATG
Found at i:19618195 original size:20 final size:19
Alignment explanation
Indices: 19618153--19618195 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
19618143 TTTTTTTTCT
* * *
19618153 TTTTTTGTAATTTATTTAT
1 TTTTTTGTAAATTAATTAA
19618172 TTTTTTGTAAATTAATTACA
1 TTTTTTGTAAATTAATTA-A
19618192 TTTT
1 TTTT
19618196 ATTTTAGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTTTGTAAATTAATTAA
Found at i:19621226 original size:41 final size:41
Alignment explanation
Indices: 19621181--19621260 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
19621171 ATAGCGTAAC
** *
19621181 AATTTATTATTCAA-TTAATTATATGAATGTAATACTTAATT
1 AATTTATTAAGCAATTTAATTATATAAATGTAAT-CTTAATT
*
19621222 AATTTATTAAGCAATTTGATTATATAAATGTAATCTTAA
1 AATTTATTAAGCAATTTAATTATATAAATGTAATCTTAA
19621261 ATAAACTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 17 0.50
42 17 0.50
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.46
Consensus pattern (41 bp):
AATTTATTAAGCAATTTAATTATATAAATGTAATCTTAATT
Found at i:19624619 original size:20 final size:18
Alignment explanation
Indices: 19624583--19624621 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
19624573 AAAAAAGTTG
*
19624583 AAAAAATTTTATTTTTAT
1 AAAAAATTTTATATTTAT
19624601 AAAAATATTATTATATTTAT
1 AAAAA-ATT-TTATATTTAT
19624621 A
1 A
19624622 TTTTTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 3 0.17
20 10 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AAAAAATTTTATATTTAT
Found at i:19624817 original size:26 final size:26
Alignment explanation
Indices: 19624787--19624839 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
19624777 TAATATATCT
* *
19624787 TATCGTATTAAACATGTTTAGTTTTA
1 TATCGAATTAAACATGTTCAGTTTTA
*
19624813 TATCGAATTAAATATGTTCAGTTTTA
1 TATCGAATTAAACATGTTCAGTTTTA
19624839 T
1 T
19624840 TTAAAAAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.49
Consensus pattern (26 bp):
TATCGAATTAAACATGTTCAGTTTTA
Found at i:19625430 original size:26 final size:26
Alignment explanation
Indices: 19625400--19625450 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
19625390 TAAAAGTAGG
*
19625400 AAATTATACATTTATTATTGAATTAA
1 AAATTATACATTAATTATTGAATTAA
* *
19625426 AAATTATGCATTAATTATTTAATTA
1 AAATTATACATTAATTATTGAATTA
19625451 CATGCTTGAG
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:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (26 bp):
AAATTATACATTAATTATTGAATTAA
Found at i:19639115 original size:12 final size:12
Alignment explanation
Indices: 19639098--19639131 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
19639088 TCATAGATAT
* *
19639098 ATATATTTTTAC
1 ATATATTTATAA
19639110 ATATATTTATAA
1 ATATATTTATAA
19639122 ATATATTTAT
1 ATATATTTAT
19639132 TTAATGTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (12 bp):
ATATATTTATAA
Found at i:19640169 original size:23 final size:24
Alignment explanation
Indices: 19640131--19640182 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
19640121 GGTATGATAT
19640131 AAAT-ATAAAATTTAAAA-TTTAA
1 AAATAATAAAATTTAAAATTTTAA
*
19640153 AAATAATATAATTTAAAATTTTAA
1 AAATAATAAAATTTAAAATTTTAA
*
19640177 TAATAA
1 AAATAA
19640183 CTTTATCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 4 0.15
23 12 0.46
24 10 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AAATAATAAAATTTAAAATTTTAA
Found at i:19640539 original size:35 final size:35
Alignment explanation
Indices: 19640499--19640571 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
19640489 CGAATTCAAC
*
19640499 TTACGAAAATTCATCTCTTAAAATAAACTTTAAAG
1 TTACGAAAATTCATCTCTTAAAATAAACTCTAAAG
* *
19640534 TTACGAGAATTTATCTCTTAAAATAAACTCTAAAG
1 TTACGAAAATTCATCTCTTAAAATAAACTCTAAAG
19640569 TTA
1 TTA
19640572 AAATCGCTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.36
Consensus pattern (35 bp):
TTACGAAAATTCATCTCTTAAAATAAACTCTAAAG
Found at i:19640866 original size:24 final size:25
Alignment explanation
Indices: 19640839--19640893 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
19640829 TTTATGTATA
19640839 ATTATTATTAAAATTTTA-AATTAT
1 ATTATTATTAAAATTTTATAATTAT
* * *
19640863 ATTA-TATTTATATTTTATATTTAT
1 ATTATTATTAAAATTTTATAATTAT
19640887 ATT-TTAT
1 ATTATTAT
19640894 ATTCTTATCG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
ATTATTATTAAAATTTTATAATTAT
Found at i:19640875 original size:6 final size:6
Alignment explanation
Indices: 19640859--19640896 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
19640849 AAATTTTAAA
19640859 TTATA- TTATAT TTATATT TTATAT TTATATT TTATAT T
1 TTATAT TTATAT TTATA-T TTATAT TTATA-T TTATAT T
19640897 CTTATCGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.17
6 13 0.43
7 12 0.40
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTATAT
Found at i:19640879 original size:7 final size:7
Alignment explanation
Indices: 19640864--19640901 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
19640854 TTAAATTATA
19640864 TTATA-T
1 TTATATT
19640870 TTATATT
1 TTATATT
19640877 TTATA-T
1 TTATATT
19640883 TTATATT
1 TTATATT
19640890 TTATATT
1 TTATATT
19640897 CTTAT
1 -TTAT
19640902 CGTATTCGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 11 0.38
7 14 0.48
8 4 0.14
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (7 bp):
TTATATT
Found at i:19640880 original size:13 final size:13
Alignment explanation
Indices: 19640864--19640896 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
19640854 TTAAATTATA
19640864 TTATATTTATATT
1 TTATATTTATATT
19640877 TTATATTTATATT
1 TTATATTTATATT
19640890 TTATATT
1 TTATATT
19640897 CTTATCGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTATATTTATATT
Found at i:19641707 original size:20 final size:20
Alignment explanation
Indices: 19641682--19641739 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
19641672 TCTGAAATTA
19641682 ATAAAATATTAATTTTTAAT
1 ATAAAATATTAATTTTTAAT
*
19641702 ATAAAATATTGCA-TTTTAAT
1 ATAAAATATT-AATTTTTAAT
* *
19641722 AT-AAACATTATTTTTTAA
1 ATAAAATATTAATTTTTAA
19641740 ATATTAAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 12 0.38
20 19 0.59
21 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (20 bp):
ATAAAATATTAATTTTTAAT
Found at i:19641775 original size:24 final size:23
Alignment explanation
Indices: 19641748--19641792 Score: 81
Period size: 24 Copynumber: 1.9 Consensus size: 23
19641738 AAATATTAAG
19641748 ATAAAATTAAATAAATATATAAAT
1 ATAAAATTAAATAAATA-ATAAAT
19641772 ATAAAATTAAATAAATAATAA
1 ATAAAATTAAATAAATAATAA
19641793 TAAAATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (23 bp):
ATAAAATTAAATAAATAATAAAT
Found at i:19641784 original size:20 final size:20
Alignment explanation
Indices: 19641759--19641807 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
19641749 TAAAATTAAA
19641759 TAAATATATAA-ATATAAAAT
1 TAAATATATAATA-ATAAAAT
*
19641779 TAAATAAATAATAATAAAAT
1 TAAATATATAATAATAAAAT
*
19641799 TATATATAT
1 TAAATATAT
19641808 CAAGTTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAATATATAATAATAAAAT
Found at i:19642845 original size:23 final size:23
Alignment explanation
Indices: 19642819--19642870 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
19642809 TGACCCAATA
*
19642819 TATATTATTTTTT-TTATTATTTT
1 TATATTATTTTTTATT-TTATATT
19642842 TATA-TATTTTTTAATTTTATATT
1 TATATTATTTTTT-ATTTTATATT
19642865 TATATT
1 TATATT
19642871 TAAAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 8 0.32
23 14 0.56
24 3 0.12
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (23 bp):
TATATTATTTTTTATTTTATATT
Found at i:19642888 original size:20 final size:20
Alignment explanation
Indices: 19642863--19642907 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
19642853 TAATTTTATA
*
19642863 TTTATATTTAAAAATAATAT
1 TTTATATTAAAAAATAATAT
19642883 TTTATATTAAAAAATAATAT
1 TTTATATTAAAAAATAATAT
19642903 TTTAT
1 TTTAT
19642908 TGATTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTATATTAAAAAATAATAT
Found at i:19644527 original size:12 final size:12
Alignment explanation
Indices: 19644510--19644543 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
19644500 TTGAAAAGGG
*
19644510 TTGTTTTTGTTT
1 TTGTTTCTGTTT
19644522 TTGTTTCTGTTT
1 TTGTTTCTGTTT
*
19644534 CTGTTTCTGT
1 TTGTTTCTGT
19644544 CTTCAGCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.09, G:0.18, T:0.74
Consensus pattern (12 bp):
TTGTTTCTGTTT
Found at i:19651998 original size:3 final size:3
Alignment explanation
Indices: 19651990--19652031 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
19651980 TAATAAACAA
19651990 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19652032 GTTGTGTTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19654581 original size:26 final size:26
Alignment explanation
Indices: 19654530--19654588 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
19654520 TAAATTTAAT
* **
19654530 TATATTATTTTAATTTAATTTTAATA
1 TATATTTTTTTAATTTAATTCAAATA
19654556 TATATTTTTATTAATTT-ATTCAAATA
1 TATATTTTT-TTAATTTAATTCAAATA
19654582 TATATTT
1 TATATTT
19654589 AAAATATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 22 0.76
27 7 0.24
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (26 bp):
TATATTTTTTTAATTTAATTCAAATA
Found at i:19655646 original size:12 final size:12
Alignment explanation
Indices: 19655625--19655662 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
19655615 ACAGGTAAGC
19655625 TTTTTA-TTTCA
1 TTTTTATTTTCA
19655636 TTTTTATTTTCA
1 TTTTTATTTTCA
*
19655648 TTTTGATTTTCA
1 TTTTTATTTTCA
19655660 TTT
1 TTT
19655663 ACTTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 6 0.24
12 19 0.76
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTTTATTTTCA
Found at i:19656800 original size:3 final size:3
Alignment explanation
Indices: 19656794--19656819 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
19656784 ACCACCACCA
19656794 GCT GCT GCT GCT GCT GCT GCT GCT GC
1 GCT GCT GCT GCT GCT GCT GCT GCT GC
19656820 AAATGCTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.35, T:0.31
Consensus pattern (3 bp):
GCT
Found at i:19657071 original size:36 final size:36
Alignment explanation
Indices: 19657028--19657104 Score: 129
Period size: 36 Copynumber: 2.1 Consensus size: 36
19657018 TTTCAGTTTC
19657028 TATATTTTCCCTC-GGATAATAGAATTTTCAGTGACA
1 TATATTTTCCCTCAGG-TAATAGAATTTTCAGTGACA
*
19657064 TATATTTTCCCTCAGGTAATAGAATTTTTAGTGACA
1 TATATTTTCCCTCAGGTAATAGAATTTTCAGTGACA
19657100 TATAT
1 TATAT
19657105 CGGGCTATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
36 37 0.95
37 2 0.05
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (36 bp):
TATATTTTCCCTCAGGTAATAGAATTTTCAGTGACA
Found at i:19665569 original size:110 final size:110
Alignment explanation
Indices: 19665371--19665593 Score: 392
Period size: 110 Copynumber: 2.0 Consensus size: 110
19665361 TGCTGTCCTA
**
19665371 ATTTCAATGGTCCTAATCTTTTTTTTTTTGACTTTTGAGATTGCTGCTTTCAAAACTCTCCTCAA
1 ATTTCAATGGTCCTAATCTTTTTTTCCTTGACTTTTGAGATTGCTGCTTTCAAAACTCTCCTCAA
* *
19665436 CCCCTTGTCCCTAAAGGACTTTTGGCTATTCACATTTTTTCCCAT
66 CCCCTTGTCCCTAAAGGAATTTTGGCTATTCACATTGTTTCCCAT
* *
19665481 ATTTCAATGGTCTTAATCTTTTTTTCCTTGACTTTTGAGATTGCTGCTTTCAAATCTCTCCTCAA
1 ATTTCAATGGTCCTAATCTTTTTTTCCTTGACTTTTGAGATTGCTGCTTTCAAAACTCTCCTCAA
19665546 CCCCTTGTCCCTAAAGGAATTTTGGCTATTCACATTGTTTCCCAT
66 CCCCTTGTCCCTAAAGGAATTTTGGCTATTCACATTGTTTCCCAT
19665591 ATT
1 ATT
19665594 CTCTTACTCC
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.20, C:0.24, G:0.11, T:0.44
Consensus pattern (110 bp):
ATTTCAATGGTCCTAATCTTTTTTTCCTTGACTTTTGAGATTGCTGCTTTCAAAACTCTCCTCAA
CCCCTTGTCCCTAAAGGAATTTTGGCTATTCACATTGTTTCCCAT
Found at i:19671414 original size:14 final size:14
Alignment explanation
Indices: 19671366--19671429 Score: 51
Period size: 13 Copynumber: 4.5 Consensus size: 14
19671356 AAAGAATCAC
*
19671366 AATATTAAA-ATAA
1 AATATTAAATTTAA
* * *
19671379 AAAAATAAATTTTA
1 AATATTAAATTTAA
19671393 AATATTAAGATTTAA
1 AATATTAA-ATTTAA
19671408 AAT-TTAAATTTATTA
1 AATATTAAATTTA--A
19671423 AATATTA
1 AATATTA
19671430 CTTCTTAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
13 12 0.31
14 12 0.31
15 12 0.31
16 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (14 bp):
AATATTAAATTTAA
Found at i:19675261 original size:222 final size:222
Alignment explanation
Indices: 19674875--19675321 Score: 770
Period size: 222 Copynumber: 2.0 Consensus size: 222
19674865 CTGCTACTGC
*
19674875 TGCTGCTGCTGCCACTGCTGTAATTGTTGTGATAATCTTCGTTGTAGTGATCAATCCTACTGTAA
1 TGCTGCTGCTGCCACTGCTGTAATTGTTGTGATAATCTTCATTGTAGTGATCAATCCTACTGTAA
*
19674940 TGCATGTACCGTGGTGGTGAATGAACATATTCATATTCTGTTACATATGGTGAGCGCTTGTATGT
66 TGCATGAACCGTGGTGGTGAATGAACATATTCATATTCTGTTACATATGGTGAGCGCTTGTATGT
* *
19675005 GTTGTAGCTATGAGTTACAAAGGCAGGTTGAGGTGGTTCATGGTGGAAAACTTGGCTATTGGGGT
131 GTTATAGCTATGAGTTACAAAGGCAGGTTGAGGTGGTTCATGGTGGAAAACTTGGCTATTAGGGT
19675070 GTCGGCTTAGTGGTTCAGGATAGAAAT
196 GTCGGCTTAGTGGTTCAGGATAGAAAT
*
19675097 TGCTGCTGCTGCCACTGCTGTAATTGTTGTGATAGTCTTCATTGTAGTGATCAATCCTACTGTAA
1 TGCTGCTGCTGCCACTGCTGTAATTGTTGTGATAATCTTCATTGTAGTGATCAATCCTACTGTAA
* *
19675162 TGCGTGAACCGTGGTGGTGAATGAACATATTCATATTCTGTTACATATGGTG-GTGGCTTGTATG
66 TGCATGAACCGTGGTGGTGAATGAACATATTCATATTCTGTTACATATGGTGAG-CGCTTGTATG
* * * *
19675226 TGTTATAGCTGTGAGTTGCGAAGGCAGGTTGAGGTGGTTCATGGTGGAAAATTTGGCTATTAGGG
130 TGTTATAGCTATGAGTTACAAAGGCAGGTTGAGGTGGTTCATGGTGGAAAACTTGGCTATTAGGG
*
19675291 TGTCTGCTTAGTGGTTCAGGATAGAAAT
195 TGTCGGCTTAGTGGTTCAGGATAGAAAT
19675319 TGC
1 TGC
19675322 CTTGGCTATT
Statistics
Matches: 212, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
221 1 0.00
222 211 1.00
ACGTcount: A:0.22, C:0.14, G:0.29, T:0.35
Consensus pattern (222 bp):
TGCTGCTGCTGCCACTGCTGTAATTGTTGTGATAATCTTCATTGTAGTGATCAATCCTACTGTAA
TGCATGAACCGTGGTGGTGAATGAACATATTCATATTCTGTTACATATGGTGAGCGCTTGTATGT
GTTATAGCTATGAGTTACAAAGGCAGGTTGAGGTGGTTCATGGTGGAAAACTTGGCTATTAGGGT
GTCGGCTTAGTGGTTCAGGATAGAAAT
Found at i:19679911 original size:20 final size:18
Alignment explanation
Indices: 19679863--19679911 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
19679853 CCTTTATATG
* *
19679863 ATATAAATTATATAATAT
1 ATATAAATTATAAAATAA
19679881 ATATAAA-TATAAAATAAA
1 ATATAAATTATAAAAT-AA
19679899 ATATAAGATTATA
1 ATATAA-ATTATA
19679912 TAATTGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 7 0.27
18 14 0.54
19 1 0.04
20 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
ATATAAATTATAAAATAA
Found at i:19686819 original size:29 final size:29
Alignment explanation
Indices: 19686787--19686864 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
19686777 TTTATATTTT
**
19686787 TAATGTTAAAAAATAAAAAATTTAAAATA
1 TAATGTTAAAAAATAAAAAATAAAAAATA
* * *
19686816 TAATTTTAAAATATAAAAAATAAAAAATT
1 TAATGTTAAAAAATAAAAAATAAAAAATA
*
19686845 TAAATGTTCAAAAAAGAAAA
1 T-AATGTT-AAAAAATAAAA
19686865 TAACACATAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 25 0.64
30 5 0.13
31 9 0.23
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (29 bp):
TAATGTTAAAAAATAAAAAATAAAAAATA
Found at i:19686822 original size:36 final size:38
Alignment explanation
Indices: 19686765--19686848 Score: 104
Period size: 36 Copynumber: 2.3 Consensus size: 38
19686755 AATTTTTTAT
* * *
19686765 AAAAA-TTAAAATTTTATATTTT-TAATGTTAAAAAATA
1 AAAAATTTAAAATTATATATTTTAAAAT-ATAAAAAATA
19686802 AAAAATTTAAAA-TATA-ATTTTAAAATATAAAAAATA
1 AAAAATTTAAAATTATATATTTTAAAATATAAAAAATA
19686838 AAAAATTTAAA
1 AAAAATTTAAA
19686849 TGTTCAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
36 25 0.60
37 11 0.26
38 6 0.14
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (38 bp):
AAAAATTTAAAATTATATATTTTAAAATATAAAAAATA
Found at i:19686825 original size:13 final size:13
Alignment explanation
Indices: 19686807--19686831 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19686797 AAATAAAAAA
19686807 TTTAAAATATAAT
1 TTTAAAATATAAT
19686820 TTTAAAATATAA
1 TTTAAAATATAA
19686832 AAAATAAAAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAAAATATAAT
Found at i:19701881 original size:21 final size:23
Alignment explanation
Indices: 19701838--19701882 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
19701828 TTGGATTAAA
* *
19701838 TATATTGATTTTACTTGACAAAT
1 TATATTGAATTTACTTGAAAAAT
19701861 TATATT-AATTTA-TTGAAAAAT
1 TATATTGAATTTACTTGAAAAAT
19701882 T
1 T
19701883 TTAAAATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 5 0.25
23 6 0.30
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (23 bp):
TATATTGAATTTACTTGAAAAAT
Found at i:19703121 original size:2 final size:2
Alignment explanation
Indices: 19703114--19703141 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19703104 CATAATTTCC
19703114 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
19703142 ACTCCATTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19707711 original size:20 final size:20
Alignment explanation
Indices: 19707686--19707723 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19707676 TAGTATTATT
* *
19707686 TATTTTTTTCTTTTTTTTTC
1 TATTTTTCTATTTTTTTTTC
19707706 TATTTTTCTATTTTTTTT
1 TATTTTTCTATTTTTTTT
19707724 CTTTTTCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (20 bp):
TATTTTTCTATTTTTTTTTC
Found at i:19707713 original size:18 final size:17
Alignment explanation
Indices: 19707689--19707736 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 17
19707679 TATTATTTAT
19707689 TTTTTTCTTTTTTTTTC
1 TTTTTTCTTTTTTTTTC
19707706 TATTTTTCTATTTTTTTTC
1 T-TTTTTCT-TTTTTTTTC
*
19707725 TTTTTCCTTTTT
1 TTTTTTCTTTTT
19707737 CCTTTTTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 5 0.18
18 13 0.46
19 10 0.36
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTCTTTTTTTTTC
Found at i:19711787 original size:16 final size:16
Alignment explanation
Indices: 19711766--19711798 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19711756 AACGATTTGA
19711766 ATGATAATAATGATTT
1 ATGATAATAATGATTT
*
19711782 ATGATAATGATGATTT
1 ATGATAATAATGATTT
19711798 A
1 A
19711799 CGATGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (16 bp):
ATGATAATAATGATTT
Found at i:19722315 original size:12 final size:12
Alignment explanation
Indices: 19722298--19722328 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
19722288 CATGCTTATA
*
19722298 GAACATTAGTCT
1 GAACATCAGTCT
19722310 GAACATCAGTCT
1 GAACATCAGTCT
19722322 GAACATC
1 GAACATC
19722329 TACTGGGCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (12 bp):
GAACATCAGTCT
Found at i:19723663 original size:50 final size:50
Alignment explanation
Indices: 19723589--19723958 Score: 325
Period size: 50 Copynumber: 7.8 Consensus size: 50
19723579 TTTTGAGAAT
* * * *
19723589 AGATGA-GATTTTTAAAGTTATTGAGCCTCTGCTT-GAAGGAACTTTTTCA
1 AGATGATGAATTTTAAAGTTGTTGAGCCTCTGCTTAGAA-GAGCTTTTCCA
* * * *
19723638 AGATGATGAATTTTAAAATTGTTGAGCCTTTGCTTAGATGAGCCTTTCCA
1 AGATGATGAATTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGCTTTTCCA
* * * *
19723688 AGATGATGAATTTTAAAGTTGTTGAGCTTCT-ATATAGATGAGCTTTCCCA
1 AGATGATGAATTTTAAAGTTGTTGAGCCTCTGCT-TAGAAGAGCTTTTCCA
* * * * **
19723738 AGATGA-GATTTTTAAA---GTT-A----CTGTTTCGAAAAGCTTTT-TT
1 AGATGATGAATTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGCTTTTCCA
19723778 A-A-GATGAATTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGCTTTTCCA
1 AGATGATGAATTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGCTTTTCCA
* * *
19723826 AGATGATGGATTTTTAAAGTTGTTGAGCCTCTACTTAGAAGAGCTTTTTCA
1 AGATGAT-GAATTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGCTTTTCCA
* * *
19723877 GGATGATGAATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGTCTTTT-TA
1 AGATGATGAATTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAG-CTTTTCCA
*
19723927 A-AT--T---TTTAAAAGTTGTTGAGCCTCTGCTTAGA
1 AGATGATGAATTTTAAAGTTGTTGAGCCTCTGCTTAGA
19723959 GGAACCTCTT
Statistics
Matches: 265, Mismatches: 38, Indels: 41
0.77 0.11 0.12
Matches are distributed among these distances:
38 2 0.01
39 10 0.04
40 1 0.00
41 11 0.04
42 4 0.02
43 1 0.00
44 27 0.10
45 1 0.00
46 3 0.01
47 16 0.06
48 1 0.00
49 19 0.07
50 116 0.44
51 53 0.20
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (50 bp):
AGATGATGAATTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGCTTTTCCA
Found at i:19723850 original size:51 final size:50
Alignment explanation
Indices: 19723780--19723958 Score: 228
Period size: 51 Copynumber: 3.7 Consensus size: 50
19723770 GCTTTTTTAA
19723780 GATGAATTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGCTTTTCCAAGAT
1 GATGAATTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGCTTTTCCAAGAT
* * * *
19723830 GATGGATTTTTAAAGTTGTTGAGCCTCTACTTAGAAGAGCTTTTTCAGGAT
1 GAT-GAATTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGCTTTTCCAAGAT
* *
19723881 GATGAATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGTCTTTT-TAA-AT
1 GATGAATTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAG-CTTTTCCAAGAT
*
19723930 --T---TTTAAAAGTTGTTGAGCCTCTGCTTAGA
1 GATGAATTTTAAAGTTGTTGAGCCTCTGCTTAGA
19723959 GGAACCTCTT
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
44 27 0.23
47 1 0.01
49 2 0.02
50 36 0.31
51 51 0.44
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.39
Consensus pattern (50 bp):
GATGAATTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGCTTTTCCAAGAT
Found at i:19723946 original size:44 final size:44
Alignment explanation
Indices: 19723887--19724122 Score: 314
Period size: 44 Copynumber: 5.4 Consensus size: 44
19723877 GGATGATGAA
*
19723887 TTTT-AAAGTTGTTGAGCCTCTGCTTAGAGGAGTCTTTTTAAAT
1 TTTTAAAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTTAAAT
* *
19723930 TTTTAAAAGTTGTTGAGCCTCTGCTTAGAGGAACCTCTTTAAAT
1 TTTTAAAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTTAAAT
* * *
19723974 TTTTAAAAGTTGTTGAGCTTCTACTTAGATGAGCCTTTTTAAAT
1 TTTTAAAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTTAAAT
* * * * *
19724018 TTTTAAAAATTGTTGAGCCTTTGCTTAAAGGGGCCTCTTTAAAT
1 TTTTAAAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTTAAAT
* * *
19724062 TTTCAAAAGTTGTTGAACCTCTGCTCAGAGGAG-CTTTTTAAAT
1 TTTTAAAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTTAAAT
19724105 TTTTAAAAATGTTGTTGA
1 TTTT-AAAA-GTTGTTGA
19724123 ACTTTTGTTT
Statistics
Matches: 165, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
43 16 0.10
44 141 0.85
45 8 0.05
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (44 bp):
TTTTAAAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTTAAAT
Found at i:19724084 original size:132 final size:133
Alignment explanation
Indices: 19723835--19724122 Score: 343
Period size: 132 Copynumber: 2.1 Consensus size: 133
19723825 AAGATGATGG
*
19723835 ATTTTT-AAAGTTGTTGAGCCTCTACTTAGAAGAGCTTTTTCAGGATGATGAATTTTAAAGTTGT
1 ATTTTTAAAAGTTGTTGAGCCTCTACTTAGAAGAGCTTTTTCA-GA-GAT--ATTTTAAAATTGT
* * * * * *
19723899 TGAGCCTCTGCTTAGAGGAGTCTTTTTAAATTTTTAAAAGTTGTTGAGCCTCTGCTTAGAGGAAC
62 TGAGCCTCTGCTTAAAGGAGCCTCTTTAAATTTTCAAAAGTTGTTGAACCTCTGCTCAGAGG-AC
19723964 CTCTTTAA
126 CTCTTTAA
* *
19723972 ATTTTTAAAAGTTGTTGAGCTTCTACTTAGATGAGCCTTTTT-A-A-AT-TTTTAAAAATTGTTG
1 ATTTTTAAAAGTTGTTGAGCCTCTACTTAGAAGAG-CTTTTTCAGAGATATTTT-AAAATTGTTG
* * * *
19724033 AGCCTTTGCTTAAAGGGGCCTCTTTAAATTTTCAAAAGTTGTTGAACCTCTGCTCAGAGGAGCTT
64 AGCCTCTGCTTAAAGGAGCCTCTTTAAATTTTCAAAAGTTGTTGAACCTCTGCTCAGAGGACCTC
19724098 TTTAA
129 TTTAA
19724103 ATTTTTAAAAATGTTGTTGA
1 ATTTTT-AAAA-GTTGTTGA
19724123 ACTTTTGTTT
Statistics
Matches: 133, Mismatches: 13, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
131 18 0.14
132 65 0.49
133 8 0.06
134 2 0.02
136 1 0.01
137 6 0.05
138 27 0.20
139 6 0.05
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.41
Consensus pattern (133 bp):
ATTTTTAAAAGTTGTTGAGCCTCTACTTAGAAGAGCTTTTTCAGAGATATTTTAAAATTGTTGAG
CCTCTGCTTAAAGGAGCCTCTTTAAATTTTCAAAAGTTGTTGAACCTCTGCTCAGAGGACCTCTT
TAA
Found at i:19729078 original size:36 final size:36
Alignment explanation
Indices: 19729031--19729104 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
19729021 CTCAATATTG
*
19729031 GGATTTTTAGTAGGCATCAGGATTTGCCAAGAGGTA
1 GGATTTTTAGTAAGCATCAGGATTTGCCAAGAGGTA
*
19729067 GGATTTTTAGTAAGCATCGGGATTTGCCAAGAGGTA
1 GGATTTTTAGTAAGCATCAGGATTTGCCAAGAGGTA
19729103 GG
1 GG
19729105 CTTCAATGGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.27, C:0.11, G:0.32, T:0.30
Consensus pattern (36 bp):
GGATTTTTAGTAAGCATCAGGATTTGCCAAGAGGTA
Found at i:19729631 original size:28 final size:28
Alignment explanation
Indices: 19729591--19729695 Score: 165
Period size: 28 Copynumber: 3.8 Consensus size: 28
19729581 TAATGAATAA
*
19729591 TTAGATGTGTGTTAGTGGTTTACGGAAG
1 TTAGATGTGTGTTAGTGGTTTATGGAAG
*
19729619 TTAGATGTTTGTTAGTGGTTTATGGAAG
1 TTAGATGTGTGTTAGTGGTTTATGGAAG
* *
19729647 TTAGATATGTGTTAGTGGTTTATGAAAG
1 TTAGATGTGTGTTAGTGGTTTATGGAAG
*
19729675 TTAGGTGTGTGTTAGTGGTTT
1 TTAGATGTGTGTTAGTGGTTT
19729696 TTGTTTATGG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.21, C:0.01, G:0.33, T:0.45
Consensus pattern (28 bp):
TTAGATGTGTGTTAGTGGTTTATGGAAG
Found at i:19732168 original size:59 final size:59
Alignment explanation
Indices: 19732102--19732263 Score: 256
Period size: 59 Copynumber: 2.7 Consensus size: 59
19732092 TGCTTTTGTA
*
19732102 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTC
19732161 TAAGAAAAATTGATACTTTCAACTTTTCCTC-AAAATATTTTTTTAGAAAACTTATTTTC
1 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTAGAAAACTTATTTTC
* * *
19732220 AAAG-AAAATTGATACTTTTAACTTTTCCTTAAAAATATATTTTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTT
19732264 TAAAATTTTA
Statistics
Matches: 96, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
58 31 0.32
59 65 0.68
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (59 bp):
TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTC
Found at i:19732275 original size:59 final size:58
Alignment explanation
Indices: 19732107--19732286 Score: 251
Period size: 59 Copynumber: 3.1 Consensus size: 58
19732097 TTGTATAAGA
*
19732107 AAAATTGATACTTTCAACTTTTCCTCAAAA-ATATTTTTTAGAAAACTTATTTTTTAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTAGAAAACTTA-TTTTAAAG
19732165 AAAAATTGATACTTTCAACTTTTCCTCAAAATAT-TTTTTTAGAAAACTTATTTTCAAAG
1 -AAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTAGAAAACTTATTTT-AAAG
* * **
19732224 AAAATTGATACTTTTAACTTTTCCTTAAAAATATATTTTTTA-AAATTTTA-TTTAAAG
1 AAAATTGATACTTTCAACTTTTCC-TCAAAATATATTTTTTAGAAAACTTATTTTAAAG
19732281 AAAATT
1 AAAATT
19732287 ATTTAAAAAA
Statistics
Matches: 112, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
57 10 0.09
58 30 0.27
59 63 0.56
60 9 0.08
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTAGAAAACTTATTTTAAAG
Found at i:19733224 original size:24 final size:24
Alignment explanation
Indices: 19733189--19733282 Score: 108
Period size: 24 Copynumber: 4.1 Consensus size: 24
19733179 AAAAATAAAA
*
19733189 AATATATATTAATAGATAAATAAT
1 AATATATGTTAATAGATAAATAAT
19733213 AATATATGTTAATAGATAAATAAT
1 AATATATGTTAATAGATAAATAAT
* *
19733237 AA-ATAT-ATATTA-ATAAATAAT
1 AATATATGTTAATAGATAAATAAT
*
19733258 AATAGTA-G-TAATAAATAAATAAT
1 AATA-TATGTTAATAGATAAATAAT
19733281 AA
1 AA
19733283 AAAAATAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
21 11 0.18
22 9 0.15
23 17 0.27
24 25 0.40
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (24 bp):
AATATATGTTAATAGATAAATAAT
Found at i:19733669 original size:42 final size:41
Alignment explanation
Indices: 19733493--19733684 Score: 190
Period size: 41 Copynumber: 4.6 Consensus size: 41
19733483 TTTGATCAAA
* * * **
19733493 GCTCCTCTAAGCAGAGGCTCAACAACATTGAGAAACATAAACAAA
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGA-AAA-GT-AA-ATG
* * *
19733538 GCTCCTCTAATCAGAGGCAT-TATAACTTTGAAAAATAAATG
1 GCTCCTCTAATCAGAGGC-TCAACAACTTTGAAAAGTAAATG
* *
19733579 GCTTCTCTAATCAAAGGCTCAACAACTTTGAAAAGTAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATG
* * *
19733620 GCTCCTCTAAAT-AGAGGCTCAACGACTTTTGGAAAGTAAATT
1 GCTCCTCT-AATCAGAGGCTCAACAAC-TTTGAAAAGTAAATG
19733662 GCTCCTCTAATCAGAGGCTCAAC
1 GCTCCTCTAATCAGAGGCTCAAC
19733685 TGCTCCTCTA
Statistics
Matches: 126, Mismatches: 16, Indels: 13
0.81 0.10 0.08
Matches are distributed among these distances:
40 1 0.01
41 57 0.45
42 37 0.29
43 2 0.02
44 3 0.02
45 25 0.20
46 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATG
Found at i:19733688 original size:24 final size:24
Alignment explanation
Indices: 19733661--19733708 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
19733651 GAAAGTAAAT
19733661 TGCTCCTCTAATCAGAGGCTCAAC
1 TGCTCCTCTAATCAGAGGCTCAAC
19733685 TGCTCCTCTAATCAGAGGCTCAAC
1 TGCTCCTCTAATCAGAGGCTCAAC
19733709 GATTTTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (24 bp):
TGCTCCTCTAATCAGAGGCTCAAC
Found at i:19733738 original size:65 final size:66
Alignment explanation
Indices: 19733620--19733749 Score: 219
Period size: 65 Copynumber: 2.0 Consensus size: 66
19733610 AAAGTAAATG
*
19733620 GCTCCTCTAAATAGAGGCTCAACGACTTTTGGAAAGTAAATTGCTCCTCTAATCAGAGGCTCAAC
1 GCTCCTCTAAATAGAGGCTCAACGACTTTTGAAAAGTAAATTGCTCCTCTAATCAGAGGCTCAAC
19733685 T
66 T
*
19733686 GCTCCTCT-AATCAGAGGCTCAACGA-TTTTGAAAAGTAAATTGCTCCTTTAATCAGAGGCTCAA
1 GCTCCTCTAAAT-AGAGGCTCAACGACTTTTGAAAAGTAAATTGCTCCTCTAATCAGAGGCTCAA
19733749 C
65 C
19733750 GACTTTGAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
65 40 0.66
66 21 0.34
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (66 bp):
GCTCCTCTAAATAGAGGCTCAACGACTTTTGAAAAGTAAATTGCTCCTCTAATCAGAGGCTCAAC
T
Found at i:19733806 original size:148 final size:148
Alignment explanation
Indices: 19733538--19733832 Score: 432
Period size: 148 Copynumber: 2.0 Consensus size: 148
19733528 CATAAACAAA
* *
19733538 GCTCCTCTAATCAGAGGCATTATAACTTTGAAAAATAAATGGCTTCTCTAATCAAAGGCTCAACA
1 GCTCCTCTAATCAGAGGCATCATAACTTTGAAAAATAAATGGCTCCTCTAATCAAAGGCTCAACA
* * *
19733603 ACTTTGAAAAGTAAATGGCTCCTCTAAATAGAGGCTCAACGACTTTTGGAAAGTAAATTGCTCCT
66 ACTTTGAAAAATAAATGGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAGTAAATTGCTCCT
*
19733668 CTAATCAGAGGCTCAACT
131 CTAATCAGAAGCTCAACT
* * * * *
19733686 GCTCCTCTAATCAGAGGC-TCA-ACGATTTTGAAAAGTAAATTGCTCCTTTAATCAGAGGCTCAA
1 GCTCCTCTAATCAGAGGCATCATA--ACTTTGAAAAATAAATGGCTCCTCTAATCAAAGGCTCAA
* * *
19733749 CGACTTTGAAAAATAAATGGTTCCTTTAAACAGAGGCTCAACGACTTTTGAAAAGTAAATTGCTC
64 CAACTTTGAAAAATAAATGGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAGTAAATTGCTC
19733814 CTCTAATCAGAAGCTCAAC
129 CTCTAATCAGAAGCTCAAC
19733833 AACTTTGGAA
Statistics
Matches: 131, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
146 1 0.01
147 2 0.02
148 128 0.98
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (148 bp):
GCTCCTCTAATCAGAGGCATCATAACTTTGAAAAATAAATGGCTCCTCTAATCAAAGGCTCAACA
ACTTTGAAAAATAAATGGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAGTAAATTGCTCCT
CTAATCAGAAGCTCAACT
Found at i:19733830 original size:42 final size:42
Alignment explanation
Indices: 19733685--19733838 Score: 222
Period size: 41 Copynumber: 3.7 Consensus size: 42
19733675 GAGGCTCAAC
19733685 TGCTCCTCTAATCAGAGGCTCAACGA-TTTTGAAAAGTAAAT
1 TGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAGTAAAT
* *
19733726 TGCTCCTTTAATCAGAGGCTCAACGAC-TTTGAAAAATAAAT
1 TGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAGTAAAT
* * * *
19733767 GGTTCCTTTAAACAGAGGCTCAACGACTTTTGAAAAGTAAAT
1 TGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAGTAAAT
* *
19733809 TGCTCCTCTAATCAGAAGCTCAACAACTTT
1 TGCTCCTCTAATCAGAGGCTCAACGACTTT
19733839 GGAAGTAAAT
Statistics
Matches: 99, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
41 62 0.63
42 37 0.37
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (42 bp):
TGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAGTAAAT
Found at i:19733838 original size:83 final size:82
Alignment explanation
Indices: 19733688--19733839 Score: 250
Period size: 83 Copynumber: 1.8 Consensus size: 82
19733678 GCTCAACTGC
* * * *
19733688 TCCTCTAATCAGAGGCTCAACGATTTTGAAAAGTAAATTGCTCCTTTAATCAGAGGCTCAACGAC
1 TCCTCTAAACAGAGGCTCAACGATTTTGAAAAGTAAATTGCTCCTCTAATCAGAAGCTCAACAAC
19733753 TTTGAAAAATAAATGGT
66 TTTGAAAAATAAATGGT
*
19733770 TCCTTTAAACAGAGGCTCAACGACTTTTGAAAAGTAAATTGCTCCTCTAATCAGAAGCTCAACAA
1 TCCTCTAAACAGAGGCTCAACGA-TTTTGAAAAGTAAATTGCTCCTCTAATCAGAAGCTCAACAA
19733835 CTTTG
65 CTTTG
19733840 GAAGTAAATG
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
82 21 0.33
83 43 0.67
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (82 bp):
TCCTCTAAACAGAGGCTCAACGATTTTGAAAAGTAAATTGCTCCTCTAATCAGAAGCTCAACAAC
TTTGAAAAATAAATGGT
Found at i:19734892 original size:10 final size:10
Alignment explanation
Indices: 19734868--19734923 Score: 67
Period size: 10 Copynumber: 5.4 Consensus size: 10
19734858 TTTCATTCAC
*
19734868 TTTTTCCTTT
1 TTTTTCATTT
*
19734878 CTTTTCATTT
1 TTTTTCATTT
19734888 TTTTTCATTT
1 TTTTTCATTT
19734898 TTCATTTCATTT
1 TT--TTTCATTT
*
19734910 TTTCTCATTT
1 TTTTTCATTT
19734920 TTTT
1 TTTT
19734924 AAGCATAGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
10 29 0.74
12 10 0.26
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTTCATTT
Found at i:19734900 original size:22 final size:22
Alignment explanation
Indices: 19734875--19734921 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
19734865 CACTTTTTCC
* *
19734875 TTTCTTTTCATTTTTTTTCATT
1 TTTCATTTCATTTTTTCTCATT
19734897 TTTCATTTCATTTTTTCTCATT
1 TTTCATTTCATTTTTTCTCATT
19734919 TTT
1 TTT
19734922 TTAAGCATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTCATTTCATTTTTTCTCATT
Found at i:19736629 original size:20 final size:20
Alignment explanation
Indices: 19736604--19736641 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
19736594 TCGCCCTAAT
19736604 TCCAACACTTTTCTTCATTC
1 TCCAACACTTTTCTTCATTC
19736624 TCCAACACTTTTCTTCAT
1 TCCAACACTTTTCTTCAT
19736642 GCTTCCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (20 bp):
TCCAACACTTTTCTTCATTC
Found at i:19745505 original size:59 final size:59
Alignment explanation
Indices: 19745429--19745580 Score: 213
Period size: 59 Copynumber: 2.6 Consensus size: 59
19745419 TGATACTTTG
*
19745429 AAAATA-TTTTTTAGAAAACTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCT-CA
1 AAAATATTTTTTTAGAAAACTTATTTTCAAAGAAAATTGATACTTTCAACTTTT-CTGCA
*
19745487 AAAATATTTTTTTAGAAAACTTATTTTCAAAGAAAATTGATACTTTCAACTTTTTTGCA
1 AAAATATTTTTTTAGAAAACTTATTTTCAAAGAAAATTGATACTTTCAACTTTTCTGCA
* * **
19745546 AAAATTTTTTTTTTGAAATTTTA-TTT-AAAGAAAAT
1 AAAATATTTTTTTAGAAAACTTATTTTCAAAGAAAAT
19745581 CATTTAAAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
57 9 0.10
58 10 0.12
59 67 0.78
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (59 bp):
AAAATATTTTTTTAGAAAACTTATTTTCAAAGAAAATTGATACTTTCAACTTTTCTGCA
Found at i:19746531 original size:24 final size:24
Alignment explanation
Indices: 19746497--19746591 Score: 86
Period size: 24 Copynumber: 3.9 Consensus size: 24
19746487 AAAAAAAAAC
19746497 ATATATATTAATAGATAAATAATA
1 ATATATATTAATAGATAAATAATA
* *
19746521 ATATATGTTAATGGATAAATAATA
1 ATATATATTAATAGATAAATAATA
* * *
19746545 A-AAAAATATATTA-ATAAATAATA
1 ATATATAT-TAATAGATAAATAATA
* *
19746568 ATAGTAGTAATAATAAATAAATAA
1 ATA-TA-TATTAATAGATAAATAA
19746592 AAATTTTAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
23 14 0.25
24 27 0.49
25 5 0.09
26 9 0.16
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (24 bp):
ATATATATTAATAGATAAATAATA
Found at i:19751329 original size:115 final size:115
Alignment explanation
Indices: 19751127--19751349 Score: 419
Period size: 115 Copynumber: 1.9 Consensus size: 115
19751117 CGACACTTAT
19751127 CAAACAAAATCAGACATGGATATAAAGATCCATAAAGGTTCAACTCTCCAAATATATGAAAAAAC
1 CAAACAAAATCAGACATGGATATAAAGATCCATAAAGGTTCAACTCTCCAAATATATGAAAAAAC
19751192 TTTTTAAAAAATTAAACATGATCATGTCAGATACATACCCGTACACATAG
66 TTTTTAAAAAATTAAACATGATCATGTCAGATACATACCCGTACACATAG
*
19751242 CAAACAAAATCGGACATGGATATAAAGATCCATAAAGGTTCAACTCTCCAAATATATGAAAAAAC
1 CAAACAAAATCAGACATGGATATAAAGATCCATAAAGGTTCAACTCTCCAAATATATGAAAAAAC
* *
19751307 TTTTTAAAAAATTAAACATGATCGTGTCAGATACATACTCGTA
66 TTTTTAAAAAATTAAACATGATCATGTCAGATACATACCCGTA
19751350 TCTGACATAC
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 105 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.25
Consensus pattern (115 bp):
CAAACAAAATCAGACATGGATATAAAGATCCATAAAGGTTCAACTCTCCAAATATATGAAAAAAC
TTTTTAAAAAATTAAACATGATCATGTCAGATACATACCCGTACACATAG
Found at i:19764512 original size:43 final size:43
Alignment explanation
Indices: 19764459--19764603 Score: 134
Period size: 43 Copynumber: 3.3 Consensus size: 43
19764449 CAAATAAATC
* * * *
19764459 TAAATTAAGAAATGTGATCTTCTATGCATAGGCTAAACAACTT
1 TAAAATAAGAAATGAGCTCTTCTATGCAGAGGCTAAACAACTT
* * *
19764502 TAAAATAAGAAATGGGCTCCTT-TATACAGAGAG-TAAGCAACTT
1 TAAAATAAGAAATGAGCT-CTTCTATGCAGAG-GCTAAACAACTT
* *
19764545 TAAAATTAAGAAATGAGCT-TCTCTATGTAGAAGCTAAAACAACTT
1 TAAAA-TAAGAAATGAGCTCT-TCTATGCAGAGGCT-AAACAACTT
*
19764590 TAAATTAAGAAATG
1 TAAAATAAGAAATG
19764604 GGTTCCTTTC
Statistics
Matches: 83, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
42 1 0.01
43 38 0.46
44 32 0.39
45 12 0.14
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.29
Consensus pattern (43 bp):
TAAAATAAGAAATGAGCTCTTCTATGCAGAGGCTAAACAACTT
Found at i:19764595 original size:44 final size:43
Alignment explanation
Indices: 19764459--19764603 Score: 141
Period size: 44 Copynumber: 3.3 Consensus size: 43
19764449 CAAATAAATC
* * * *
19764459 TAAATTAAGAAATGTG-ATCTTCTATGCATAGGCTAAACAACTT
1 TAAATTAAGAAATGAGCTTC-TCTATGCAGAAGCTAAACAACTT
* * * * * *
19764502 TAAAATAAGAAATGGGCTCCTTTATACAGAGAG-TAAGCAACTT
1 TAAATTAAGAAATGAGCTTCTCTATGCAGA-AGCTAAACAACTT
*
19764545 TAAAATTAAGAAATGAGCTTCTCTATGTAGAAGCTAAAACAACTT
1 T-AAATTAAGAAATGAGCTTCTCTATGCAGAAGCT-AAACAACTT
19764590 TAAATTAAGAAATG
1 TAAATTAAGAAATG
19764604 GGTTCCTTTC
Statistics
Matches: 81, Mismatches: 16, Indels: 9
0.76 0.15 0.08
Matches are distributed among these distances:
43 33 0.41
44 39 0.48
45 9 0.11
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.29
Consensus pattern (43 bp):
TAAATTAAGAAATGAGCTTCTCTATGCAGAAGCTAAACAACTT
Found at i:19765066 original size:34 final size:34
Alignment explanation
Indices: 19764979--19765066 Score: 97
Period size: 35 Copynumber: 2.6 Consensus size: 34
19764969 TCACAAAATT
* ** *
19764979 TTTTAGATTTTCAGACATTCTAGATTCGTAAAAG
1 TTTTAGTTTTTCAGAGGTTCCAGATTCGTAAAAG
* *
19765013 TTTTACGTTTTGCATAGGTTCCAGATTCGTAAGAA-
1 TTTTA-GTTTTTCAGAGGTTCCAGATTCGTAA-AAG
19765048 TTTTAGTTTTTCAGAGGTT
1 TTTTAGTTTTTCAGAGGTT
19765067 TCAAATTTGC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
34 17 0.39
35 25 0.57
36 2 0.05
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.44
Consensus pattern (34 bp):
TTTTAGTTTTTCAGAGGTTCCAGATTCGTAAAAG
Found at i:19765216 original size:11 final size:11
Alignment explanation
Indices: 19765191--19765223 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
19765181 TATTAATTTT
*
19765191 TAAAACAAAAG
1 TAAAAAAAAAG
19765202 -AAAAAAAAAG
1 TAAAAAAAAAG
19765212 TAAAAAAAAAG
1 TAAAAAAAAAG
19765223 T
1 T
19765224 CTTTGATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.79, C:0.03, G:0.09, T:0.09
Consensus pattern (11 bp):
TAAAAAAAAAG
Found at i:19766020 original size:23 final size:22
Alignment explanation
Indices: 19765978--19766020 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19765968 TTCGTTTTAA
*
19765978 TTTTTTATGTTGATTTTTATGT
1 TTTTTTATGTTGATTATTATGT
*
19766000 TTTTTTATGATTTATTATTAT
1 TTTTTTATG-TTGATTATTAT
19766021 TATTATTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (22 bp):
TTTTTTATGTTGATTATTATGT
Found at i:19766098 original size:17 final size:19
Alignment explanation
Indices: 19766075--19766121 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
19766065 TATTTTTTAA
19766075 AAATAAATAAAT-AAA-TG
1 AAATAAATAAATGAAACTG
*
19766092 GAATAAA-AAATGAAACTG
1 AAATAAATAAATGAAACTG
19766110 AAATAAAATAAA
1 AAAT-AAATAAA
19766122 AACATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 4 0.17
17 9 0.38
18 5 0.21
19 3 0.12
20 3 0.12
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (19 bp):
AAATAAATAAATGAAACTG
Found at i:19766160 original size:22 final size:22
Alignment explanation
Indices: 19766115--19766160 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
19766105 AACTGAAATA
* *
19766115 AAATAAAAACATAAAAAATTAT
1 AAATAAAAAAATAAAAAATAAT
* *
19766137 AAATAAAAAAATTAATAATAAT
1 AAATAAAAAAATAAAAAATAAT
19766159 AA
1 AA
19766161 TTATTTAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAAAAAATAAAAAATAAT
Found at i:19766441 original size:11 final size:11
Alignment explanation
Indices: 19766418--19766450 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
19766408 TGATTGATTT
19766418 AAACAAT-ATA
1 AAACAATAATA
19766428 AAACAATAATA
1 AAACAATAATA
*
19766439 AAAAAATAATA
1 AAACAATAATA
19766450 A
1 A
19766451 TAATAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (11 bp):
AAACAATAATA
Found at i:19766449 original size:3 final size:3
Alignment explanation
Indices: 19766432--19766469 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
19766422 AATATAAAAC
* *
19766432 AAT AAT AA- AAA AAT AAT AAT AAT AAA AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19766470 TGATATTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:19766460 original size:15 final size:15
Alignment explanation
Indices: 19766422--19766469 Score: 71
Period size: 15 Copynumber: 3.2 Consensus size: 15
19766412 TGATTTAAAC
*
19766422 AATATAAAACAATAAT
1 AATA-AAAATAATAAT
19766438 AA-AAAAATAATAAT
1 AATAAAAATAATAAT
19766452 AATAAAAATAATAAT
1 AATAAAAATAATAAT
19766467 AAT
1 AAT
19766470 TGATATTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 12 0.40
15 16 0.53
16 2 0.07
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (15 bp):
AATAAAAATAATAAT
Found at i:19778454 original size:40 final size:40
Alignment explanation
Indices: 19778377--19778454 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
19778367 TCAGATTTTG
* * *
19778377 AATTTAAAGTTTGTTGCCTCTAGTGAGATGAGCTTTTTAA
1 AATTTAAAGTTTATTGCCTCTAGTGAAAGGAGCTTTTTAA
* * * *
19778417 AATTTAAAGTTTATTGCCTTTGGTTAAAGGAGTTTTTT
1 AATTTAAAGTTTATTGCCTCTAGTGAAAGGAGCTTTTT
19778455 TTTTAATTTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.46
Consensus pattern (40 bp):
AATTTAAAGTTTATTGCCTCTAGTGAAAGGAGCTTTTTAA
Done.