Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 86 of 129
Found at i:15289725 original size:23 final size:24
Alignment explanation
Indices: 15289699--15289759 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
15289689 AAAAATAAAT
* *
15289699 TAGGAATTC-AAGCTGCACTAATG
1 TAGGAAATCAAAGCTACACTAATG
*
15289722 TAGGAGAATCAAATCTACACTAATG
1 TAGGA-AATCAAAGCTACACTAATG
15289747 TAGGAAACTCAAA
1 TAGGAAA-TCAAA
15289760 TTTCTATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 5 0.16
24 5 0.16
25 22 0.69
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (24 bp):
TAGGAAATCAAAGCTACACTAATG
Found at i:15289983 original size:22 final size:22
Alignment explanation
Indices: 15289955--15289998 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15289945 CTAAATCTTC
*
15289955 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
15289977 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
15289999 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:15293691 original size:23 final size:23
Alignment explanation
Indices: 15293636--15293720 Score: 116
Period size: 23 Copynumber: 3.6 Consensus size: 23
15293626 TTGAAAGGGT
* * *
15293636 TCGGCAACGAAGGCCTAAACAGGAT
1 TCGGCAATGAAGGCCTAAA-A-AAG
15293661 TCGGCAATGAAGGCCTAAAAAAG
1 TCGGCAATGAAGGCCTAAAAAAG
15293684 TCGGCAATGAAGGCCTAAAAAAG
1 TCGGCAATGAAGGCCTAAAAAAG
*
15293707 TCAGCAATGAAGGC
1 TCGGCAATGAAGGC
15293721 TGAAAATTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
23 37 0.66
24 1 0.02
25 18 0.32
ACGTcount: A:0.40, C:0.20, G:0.27, T:0.13
Consensus pattern (23 bp):
TCGGCAATGAAGGCCTAAAAAAG
Found at i:15293895 original size:22 final size:22
Alignment explanation
Indices: 15293867--15293910 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15293857 CTAAATCTTC
*
15293867 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
15293889 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
15293911 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:15297419 original size:2 final size:2
Alignment explanation
Indices: 15297412--15297442 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15297402 CATCAAAACC
15297412 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15297443 TCTTTCTATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15300478 original size:269 final size:269
Alignment explanation
Indices: 15299999--15300539 Score: 1037
Period size: 269 Copynumber: 2.0 Consensus size: 269
15299989 GATTGTATAC
15299999 TCAAGGAGACCAAAATCTCAAAATGAGATAGGGACCGGTACATCTTCGACACAGAACCAAGATTC
1 TCAAGGAGACCAAAATCTCAAAATGAGATAGGGACCGGTACATCTTCGACACAGAACCAAGATTC
15300064 TGAACCAAATCCAGGGACTTTTGAAATTCATACAAGTAACACAATTACTAAACCTATCTCTAATG
66 TGAACCAAATCCAGGGACTTTTGAAATTCATACAAGTAACACAATTACTAAACCTATCTCTAATG
15300129 ATTTTCCTAGTGATCTTGATCAATCCATTGCTATAAGAAAAGGTGTAAGATCATGTACTCAACAC
131 ATTTTCCTAGTGATCTTGATCAATCCATTGCTATAAGAAAAGGTGTAAGATCATGTACTCAACAC
* **
15300194 CCTATTAGTAACTTTGTTTCCTATGAAGGATTGTTTCTTACTTACCAAGCACTACTTACATCATT
196 CCTATTAGTAACTTTGTTTCATATGAAAAATTGTTTCTTACTTACCAAGCACTACTTACATCATT
15300259 AACTGATAT
261 AACTGATAT
15300268 TCAAGGAGACCAAAATCTCAAAATGAGATAGGGACCGGTACATCTTCGACACAGAACCAAGATTC
1 TCAAGGAGACCAAAATCTCAAAATGAGATAGGGACCGGTACATCTTCGACACAGAACCAAGATTC
15300333 TGAACCAAATCCAGGGACTTTTGAAATTCATACAAGTAACACAATTACTAAACCTATCTCTAATG
66 TGAACCAAATCCAGGGACTTTTGAAATTCATACAAGTAACACAATTACTAAACCTATCTCTAATG
*
15300398 ATTTTCCTAGTGATCTTGATCAATCCATTGCTATAAGAAAAGGTGTGAGATCATGTACTCAACAC
131 ATTTTCCTAGTGATCTTGATCAATCCATTGCTATAAGAAAAGGTGTAAGATCATGTACTCAACAC
*
15300463 CCTATTAGTAACTTTGTTTCATATGAAAAATTGTTTCTTACTTACCAAGCACTGCTTACATCATT
196 CCTATTAGTAACTTTGTTTCATATGAAAAATTGTTTCTTACTTACCAAGCACTACTTACATCATT
15300528 AACTGATAT
261 AACTGATAT
15300537 TCA
1 TCA
15300540 TATACCGAAT
Statistics
Matches: 267, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
269 267 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (269 bp):
TCAAGGAGACCAAAATCTCAAAATGAGATAGGGACCGGTACATCTTCGACACAGAACCAAGATTC
TGAACCAAATCCAGGGACTTTTGAAATTCATACAAGTAACACAATTACTAAACCTATCTCTAATG
ATTTTCCTAGTGATCTTGATCAATCCATTGCTATAAGAAAAGGTGTAAGATCATGTACTCAACAC
CCTATTAGTAACTTTGTTTCATATGAAAAATTGTTTCTTACTTACCAAGCACTACTTACATCATT
AACTGATAT
Found at i:15305009 original size:29 final size:27
Alignment explanation
Indices: 15304933--15305011 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 27
15304923 ATTAATCATT
* *
15304933 ATTAAAATCATACAAAATATTATTTATT
1 ATTAAAATAATA-AAAATATTATTTATC
15304961 ATTAAAATAATAATATAATATTATTTACTAC
1 ATTAAAATAATAA-A-AATATTATTTA-T-C
* *
15304992 ATTAAAGTATTAAAAATATT
1 ATTAAAATAATAAAAATATT
15305012 TATTATTTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
27 1 0.02
28 12 0.28
29 17 0.40
30 2 0.05
31 11 0.26
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (27 bp):
ATTAAAATAATAAAAATATTATTTATC
Found at i:15305032 original size:25 final size:21
Alignment explanation
Indices: 15304999--15305099 Score: 60
Period size: 25 Copynumber: 4.4 Consensus size: 21
15304989 TACATTAAAG
*
15304999 TATTAAAAATATTTATTATTTGTAA
1 TATT-AAAATATTGA-TATTT-T-A
*
15305024 TATTCAAAATAGTGATATTTTA
1 TATT-AAAATATTGATATTTTA
*
15305046 TATTAAAATATTAAAAGACATTTTA
1 TATTAAAATATT----GATATTTTA
** *
15305071 TATTATTATATTAATATTTTA
1 TATTAAAATATTGATATTTTA
15305092 -ATTAAAAT
1 TATTAAAAT
15305100 TAAAATTAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
20 6 0.10
21 14 0.23
22 5 0.08
23 1 0.02
24 5 0.08
25 30 0.49
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (21 bp):
TATTAAAATATTGATATTTTA
Found at i:15305123 original size:21 final size:21
Alignment explanation
Indices: 15305098--15305137 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15305088 TTTAATTAAA
15305098 ATTAAAATTAA-AATATTTTTT
1 ATTAAAA-TAATAATATTTTTT
*
15305119 ATTAATATAATAATATTTT
1 ATTAAAATAATAATATTTT
15305138 AAATCAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTAAAATAATAATATTTTTT
Found at i:15305371 original size:108 final size:108
Alignment explanation
Indices: 15305247--15305464 Score: 427
Period size: 108 Copynumber: 2.0 Consensus size: 108
15305237 TTTTTTGAAA
15305247 AATATTTTTTAAAAAAGTAAAAGAGAATTTTTAAAAATTTGATTTTGTTTGTTGTTGACTAGCAA
1 AATATTTTTTAAAAAAGTAAAAGAGAATTTTTAAAAATTTGATTTTGTTTGTTGTTGACTAGCAA
*
15305312 TTAATTTTTTATTGATTAAATAGATTTTTATCAAATACATATT
66 TTAATTTTTTATTGATTAAATAGATTTTTATCAAATAAATATT
15305355 AATATTTTTTAAAAAAGTAAAAGAGAATTTTTAAAAATTTGATTTTGTTTGTTGTTGACTAGCAA
1 AATATTTTTTAAAAAAGTAAAAGAGAATTTTTAAAAATTTGATTTTGTTTGTTGTTGACTAGCAA
15305420 TTAATTTTTTATTGATTAAATAGATTTTTATCAAATAAATATT
66 TTAATTTTTTATTGATTAAATAGATTTTTATCAAATAAATATT
15305463 AA
1 AA
15305465 AAATTGTAAA
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 109 1.00
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (108 bp):
AATATTTTTTAAAAAAGTAAAAGAGAATTTTTAAAAATTTGATTTTGTTTGTTGTTGACTAGCAA
TTAATTTTTTATTGATTAAATAGATTTTTATCAAATAAATATT
Found at i:15305506 original size:15 final size:14
Alignment explanation
Indices: 15305471--15305504 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
15305461 TTAAAAATTG
15305471 TAAAAATTATATTT
1 TAAAAATTATATTT
15305485 TAAAAATTA-ATTTT
1 TAAAAATTATA-TTT
15305499 TAAAAA
1 TAAAAA
15305505 ATAAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 1 0.05
14 18 0.95
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TAAAAATTATATTT
Found at i:15306374 original size:26 final size:25
Alignment explanation
Indices: 15306331--15306382 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
15306321 TAGATTAATT
* *
15306331 AATTTTATTAATTAATAACATATTAA
1 AATTGTATTAAATAATAACAT-TTAA
* *
15306357 AATTGTATTAAATGATAATATTTAA
1 AATTGTATTAAATAATAACATTTAA
15306382 A
1 A
15306383 TTATATATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (25 bp):
AATTGTATTAAATAATAACATTTAA
Found at i:15307036 original size:25 final size:25
Alignment explanation
Indices: 15306998--15307057 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
15306988 GATAAAAAAT
15306998 TATAATTAATTTTTTATTCAATAGAA
1 TATAA-TAATTTTTTATTCAATAGAA
*
15307024 TATAATAATTTTTTATTGAATAGAA
1 TATAATAATTTTTTATTCAATAGAA
15307049 TATAA-AATT
1 TATAATAATT
15307058 ATAATATGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
24 4 0.12
25 24 0.73
26 5 0.15
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (25 bp):
TATAATAATTTTTTATTCAATAGAA
Found at i:15307208 original size:64 final size:64
Alignment explanation
Indices: 15307137--15307267 Score: 217
Period size: 64 Copynumber: 2.0 Consensus size: 64
15307127 TGGATGTCAA
*
15307137 AAACTCTAAAAATTTAAAGTAAATACGTATATTTAAAAATTATGTTTTATAGTTCATTCATTTT
1 AAACTCTAAAAATTAAAAGTAAATACGTATATTTAAAAATTATGTTTTATAGTTCATTCATTTT
* ** *
15307201 AAACTCTATAAATTAAAAGTAAATATTTATATTTAAAAATTATGTTTTGTAGTTCATTCATTTT
1 AAACTCTAAAAATTAAAAGTAAATACGTATATTTAAAAATTATGTTTTATAGTTCATTCATTTT
15307265 AAA
1 AAA
15307268 ATTTTTATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (64 bp):
AAACTCTAAAAATTAAAAGTAAATACGTATATTTAAAAATTATGTTTTATAGTTCATTCATTTT
Found at i:15307635 original size:14 final size:13
Alignment explanation
Indices: 15307605--15307653 Score: 80
Period size: 13 Copynumber: 3.7 Consensus size: 13
15307595 ACTTTCTCTT
*
15307605 TTTTTTTTTAATA
1 TTTTTATTTAATA
15307618 TTTTTATTTAATA
1 TTTTTATTTAATA
15307631 TTTTTATTTTAATA
1 TTTTTA-TTTAATA
15307645 TTTTTATTT
1 TTTTTATTT
15307654 TATGTTTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
13 21 0.62
14 13 0.38
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTATTTAATA
Found at i:15307661 original size:13 final size:14
Alignment explanation
Indices: 15307604--15307655 Score: 88
Period size: 14 Copynumber: 3.8 Consensus size: 14
15307594 CACTTTCTCT
*
15307604 TTTTTTTTTTAATA
1 TTTTTATTTTAATA
15307618 TTTTTA-TTTAATA
1 TTTTTATTTTAATA
15307631 TTTTTATTTTAATA
1 TTTTTATTTTAATA
15307645 TTTTTATTTTA
1 TTTTTATTTTA
15307656 TGTTTTATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
13 13 0.36
14 23 0.64
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTATTTTAATA
Found at i:15308223 original size:17 final size:17
Alignment explanation
Indices: 15308201--15308253 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 17
15308191 TATAAATATT
*
15308201 TTTTATTATTTATTTAA
1 TTTTATTATTTATATAA
15308218 TTTTA-TATTTATATAA
1 TTTTATTATTTATATAA
**
15308234 AATTATTATTTA-AT-A
1 TTTTATTATTTATATAA
15308249 TTTTA
1 TTTTA
15308254 ATTTAATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 4 0.13
16 15 0.50
17 11 0.37
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTATTATTTATATAA
Found at i:15308251 original size:40 final size:41
Alignment explanation
Indices: 15308177--15308260 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 41
15308167 ATTTCGTCTC
* *
15308177 AATTTGTATATATATATAAATATTTTTTATTA-TTT-ATTT
1 AATTTGTATATATATATAAATATTATTTAATATTTTAATTT
*
15308216 AATTT-TATATTTATATAAAATTATTATTTAATATTTTAATTT
1 AATTTGTATATATATAT-AAA-TATTATTTAATATTTTAATTT
15308258 AAT
1 AAT
15308261 ATAAAATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
38 10 0.26
39 8 0.21
40 10 0.26
41 3 0.08
42 7 0.18
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (41 bp):
AATTTGTATATATATATAAATATTATTTAATATTTTAATTT
Found at i:15308263 original size:31 final size:33
Alignment explanation
Indices: 15308203--15308277 Score: 104
Period size: 31 Copynumber: 2.4 Consensus size: 33
15308193 TAAATATTTT
*
15308203 TTATTATTTATTTAATTTTATATTTATATAAAA
1 TTATTATTTATATAATTTTATATTTATATAAAA
15308236 TTATTATTTA-AT-ATTTTA-ATTTAATATAAAA
1 TTATTATTTATATAATTTTATATTT-ATATAAAA
15308267 TTA-TATTTATA
1 TTATTATTTATA
15308278 CATAATTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
30 10 0.26
31 18 0.46
32 1 0.03
33 10 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (33 bp):
TTATTATTTATATAATTTTATATTTATATAAAA
Found at i:15308305 original size:24 final size:23
Alignment explanation
Indices: 15308257--15308312 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
15308247 TATTTTAATT
*
15308257 TAATATAAAATTATATTTATACA
1 TAATATAAAATTATATCTATACA
*
15308280 TAAT-TAAAATATAATATCTATTCA
1 TAATATAAAAT-T-ATATCTATACA
*
15308304 TAAAATAAA
1 TAATATAAA
15308313 TATTTTAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 6 0.22
23 5 0.19
24 12 0.44
25 4 0.15
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (23 bp):
TAATATAAAATTATATCTATACA
Found at i:15313312 original size:61 final size:62
Alignment explanation
Indices: 15313240--15313368 Score: 206
Period size: 61 Copynumber: 2.1 Consensus size: 62
15313230 TGATGTCTGA
*
15313240 ATTTTAGTTTACTAAGTTTTATGTATTTCATAATCCCATCATCTATGGTGAGAATTTGTGAG
1 ATTTTAATTTACTAAGTTTTATGTATTTCATAATCCCATCATCTATGGTGAGAATTTGTGAG
* * * *
15313302 -TTTTAATTTACTAAGTTTTATGTATTTCATAATTCCATTATTTATGGTGGGAATTTGTGAG
1 ATTTTAATTTACTAAGTTTTATGTATTTCATAATCCCATCATCTATGGTGAGAATTTGTGAG
15313363 ATTTTA
1 ATTTTA
15313369 CTAGATAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
61 56 0.92
62 5 0.08
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.49
Consensus pattern (62 bp):
ATTTTAATTTACTAAGTTTTATGTATTTCATAATCCCATCATCTATGGTGAGAATTTGTGAG
Found at i:15314359 original size:2 final size:2
Alignment explanation
Indices: 15314352--15314378 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15314342 AAACTAATTG
15314352 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
15314379 GAAATTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15315917 original size:42 final size:42
Alignment explanation
Indices: 15315832--15315917 Score: 95
Period size: 42 Copynumber: 2.0 Consensus size: 42
15315822 TTGGCTATTG
* * **
15315832 TTTAGCTTTTTTTTTTTTCATTTTCTTCTCTTTAAGTTTCCT
1 TTTAGCTTTTTTTTTTTTCATCTTCTTCTCTTTAACTAGCCT
*
15315874 TTTAGCTTTTTTTTTTTT-A-CTTCTTTTACTATTAACTAGCCT
1 TTTAGCTTTTTTTTTTTTCATCTTCTTCT-CT-TTAACTAGCCT
15315916 TT
1 TT
15315918 CATGGTAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
40 6 0.16
41 3 0.08
42 28 0.76
ACGTcount: A:0.13, C:0.16, G:0.05, T:0.66
Consensus pattern (42 bp):
TTTAGCTTTTTTTTTTTTCATCTTCTTCTCTTTAACTAGCCT
Found at i:15320287 original size:30 final size:31
Alignment explanation
Indices: 15320253--15320334 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 31
15320243 ATATGTTTAG
* * *
15320253 TATAATACATCTATTTAAGAAA-TTGCTAAA
1 TATAAAACATCTATTTAAGAAACCTACTAAA
*
15320283 TATAAAAGCATCCATTT-AGAAACCTACTAAA
1 TATAAAA-CATCTATTTAAGAAACCTACTAAA
* *
15320314 TATAACACATTTATTTAAGAA
1 TATAAAACATCTATTTAAGAA
15320335 CCTCAACAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
30 18 0.43
31 24 0.57
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (31 bp):
TATAAAACATCTATTTAAGAAACCTACTAAA
Found at i:15329142 original size:14 final size:13
Alignment explanation
Indices: 15329118--15329170 Score: 56
Period size: 14 Copynumber: 4.0 Consensus size: 13
15329108 TAATAAGAGT
15329118 AAATAAAAATAAACA
1 AAAT-AAAATAAA-A
15329133 AAATAAAATAAATA
1 AAATAAAATAAA-A
*
15329147 AAATAAGA-AAAA
1 AAATAAAATAAAA
15329159 AAATAAAA-AAAA
1 AAATAAAATAAAA
15329171 GAGTGAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
12 12 0.34
13 3 0.09
14 16 0.46
15 4 0.11
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.13
Consensus pattern (13 bp):
AAATAAAATAAAA
Found at i:15329170 original size:9 final size:9
Alignment explanation
Indices: 15329117--15329170 Score: 56
Period size: 9 Copynumber: 6.0 Consensus size: 9
15329107 ATAATAAGAG
15329117 TAAATAAAAA
1 TAAA-AAAAA
*
15329127 TAAACAAAA
1 TAAAAAAAA
*
15329136 TAAAATAAA
1 TAAAAAAAA
*
15329145 T-AAAATAA
1 TAAAAAAAA
*
15329153 GAAAAAAAA
1 TAAAAAAAA
15329162 TAAAAAAAA
1 TAAAAAAAA
15329171 GAGTGAAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
8 5 0.14
9 26 0.74
10 4 0.11
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:15332664 original size:522 final size:521
Alignment explanation
Indices: 15331680--15332728 Score: 1999
Period size: 522 Copynumber: 2.0 Consensus size: 521
15331670 AAGGCTTGGA
*
15331680 TAGTAACAAATCATTTACTGGCCTGACTCTCGATATCCCTAGTGGAATTGTCAAATTGTCATAAC
1 TAGTAACAAATCATTTACTGGCCTGACTCTCAATATCCCTAGTGGAATTGTCAAATTGTCATAAC
*
15331745 ATATAGATCTGTGGATCTACCACTAGACATGATATTTAGAAGTCACCATCAATTTTATTTTGTTT
66 ATATAGATCTGTGGATCTACCACTAGACATGATATTTAAAAGTCACCATCAATTTTATTTTGTTT
15331810 AGGTGTGATTGGATACCTAATTGAATCCATCCTATTTAAAAATGAGTATCTAGATTAACTTAGAT
131 AGGTGTGATTGGATACCTAATTGAATCCATCCTATTTAAAAATGAGTATCTAGATTAACTTAGAT
15331875 ATCTTTAAATAATAGATTTAAGTCCACGAAATCATATTTCATATTCAAGAGTGTAGTTACACGTG
196 ATCTTTAAATAATAGATTTAAGTCCACGAAATCATATTTCATATTCAAGAGTGTAGTTACACGTG
15331940 AGAAGGGTTATAGCACCCCTATAATGTTCTCACAGCGCCCATCCAAATGATGGTATCAATTTAAT
261 AGAAGGGTTATAGCACCCCTATAATGTTCTCACAGCGCCCATCCAAATGATGGTATCAATTTAAT
*
15332005 TTCAAATTATCTAAGCTTTAAATATGTTTATATTTTACCAAAATATTTAATATTAAAAATTAATC
326 TTCAAATTATCCAAGCTTTAAATATGTTTATATTTTACCAAAATATTTAATATTAAAAATTAATC
15332070 TTAAAATTACTCTAATAATTTGGTAGAAATTTAAAATAATTCTCTCACATCAAAAGTTTTCATGA
391 TTAAAATTACTCTAATAATTTGGTAGAAATTTAAAATAATTCTCTCACATCAAAAGTTTTCATGA
15332135 AGACTAGTGTCTCATCCTAAAAAGGGTCCATCGTCGGATTTATTATTGTATTTCATTCAAAAAAA
456 AGACTAGTGTCTCATCCTAAAAAGGGTCCATCGTCGGATTTATTATTGTATTTCATTC-AAAAAA
15332200 AT
520 AT
15332202 TAGTAACAAATCATTTACTGGCCTGACTCTCAATATCCCTAGTGGAATTGTCAAATTGTCATAAC
1 TAGTAACAAATCATTTACTGGCCTGACTCTCAATATCCCTAGTGGAATTGTCAAATTGTCATAAC
15332267 ATATAGATCTGTGGATCTACCACTAGACATGATATTTAAAAGTCACCATCAATTTTATTTTGTTT
66 ATATAGATCTGTGGATCTACCACTAGACATGATATTTAAAAGTCACCATCAATTTTATTTTGTTT
*
15332332 AGGTGTGATTGGATACCTAATTGAATCCATCCTATTTAAAAATGAGTCTCTAGATTAACTTAGAT
131 AGGTGTGATTGGATACCTAATTGAATCCATCCTATTTAAAAATGAGTATCTAGATTAACTTAGAT
* *
15332397 ATCTTTAAATAATAGATTTAAGTCCACGAAATCATATTTCATATTTAGGAGTGTAGTTACACGTG
196 ATCTTTAAATAATAGATTTAAGTCCACGAAATCATATTTCATATTCAAGAGTGTAGTTACACGTG
* *
15332462 AGAAGGGTTATAGCACCCCTATAATGTTCTCACAGTGCCCATCCAAATGATGGTATTAATTTAAT
261 AGAAGGGTTATAGCACCCCTATAATGTTCTCACAGCGCCCATCCAAATGATGGTATCAATTTAAT
15332527 TTCAAATTATCCAAGCTTTAAATATGTTTATATTTTACCAAAATATTTAATATTAAAAATTAATC
326 TTCAAATTATCCAAGCTTTAAATATGTTTATATTTTACCAAAATATTTAATATTAAAAATTAATC
*
15332592 TTAAAATTACTTTAATAATTTGGTAGAAATTTAAAATAATTCTCTCACATCAAAAGTTTTCATGA
391 TTAAAATTACTCTAATAATTTGGTAGAAATTTAAAATAATTCTCTCACATCAAAAGTTTTCATGA
*
15332657 AGACTAGTGTCTCATCCTAAAGAGGGTCCATCGTCGGATTTATTATTGTATTTCATTCAAAAAAA
456 AGACTAGTGTCTCATCCTAAAAAGGGTCCATCGTCGGATTTATTATTGTATTTCATTCAAAAAAA
15332722 T
521 T
15332723 TAGTAA
1 TAGTAA
15332729 AGTCCTCCAA
Statistics
Matches: 517, Mismatches: 10, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
521 14 0.03
522 503 0.97
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (521 bp):
TAGTAACAAATCATTTACTGGCCTGACTCTCAATATCCCTAGTGGAATTGTCAAATTGTCATAAC
ATATAGATCTGTGGATCTACCACTAGACATGATATTTAAAAGTCACCATCAATTTTATTTTGTTT
AGGTGTGATTGGATACCTAATTGAATCCATCCTATTTAAAAATGAGTATCTAGATTAACTTAGAT
ATCTTTAAATAATAGATTTAAGTCCACGAAATCATATTTCATATTCAAGAGTGTAGTTACACGTG
AGAAGGGTTATAGCACCCCTATAATGTTCTCACAGCGCCCATCCAAATGATGGTATCAATTTAAT
TTCAAATTATCCAAGCTTTAAATATGTTTATATTTTACCAAAATATTTAATATTAAAAATTAATC
TTAAAATTACTCTAATAATTTGGTAGAAATTTAAAATAATTCTCTCACATCAAAAGTTTTCATGA
AGACTAGTGTCTCATCCTAAAAAGGGTCCATCGTCGGATTTATTATTGTATTTCATTCAAAAAAA
T
Found at i:15333150 original size:5 final size:5
Alignment explanation
Indices: 15333104--15333182 Score: 51
Period size: 5 Copynumber: 16.0 Consensus size: 5
15333094 TTTTTCAATT
* *
15333104 TAAAA TAAAA -AACAA TAAGAG T-AAA TAAAA GT-AAA CAAAA TAAAA
1 TAAAA TAAAA TAA-AA TAA-AA TAAAA TAAAA -TAAAA TAAAA TAAAA
* *
15333149 T-AAA TAAAA TAAGA -AAAA TAAAA TCAAAA CAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA
15333183 AATATAGTGA
Statistics
Matches: 58, Mismatches: 8, Indels: 16
0.71 0.10 0.20
Matches are distributed among these distances:
4 11 0.19
5 38 0.66
6 9 0.16
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (5 bp):
TAAAA
Found at i:15333157 original size:14 final size:14
Alignment explanation
Indices: 15333126--15333177 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
15333116 CAATAAGAGT
*
15333126 AAATAAAAGTAAACA
1 AAATAAAA-TAAATA
15333141 AAATAAAATAAATA
1 AAATAAAATAAATA
15333155 AAATAAGAA-AAATA
1 AAATAA-AATAAATA
15333169 AAATCAAAA
1 AAAT-AAAA
15333178 CAAAAAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (14 bp):
AAATAAAATAAATA
Found at i:15335825 original size:17 final size:16
Alignment explanation
Indices: 15335803--15335837 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
15335793 TAAATTGATG
15335803 AACTATAAGCAAATATA
1 AACTATAAGCAAA-ATA
*
15335820 AACTATAATCAAAATA
1 AACTATAAGCAAAATA
15335836 AA
1 AA
15335838 GAGATAGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.63, C:0.11, G:0.03, T:0.23
Consensus pattern (16 bp):
AACTATAAGCAAAATA
Found at i:15341023 original size:3 final size:3
Alignment explanation
Indices: 15341015--15341107 Score: 63
Period size: 3 Copynumber: 32.7 Consensus size: 3
15341005 ATTTATTTTG
* * * * *
15341015 TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TT- TTT TTC TT- TGA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
15341061 TTT TCTG TTA -TA TTA -TA TCA -TA TTA -TA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15341103 TTA TT
1 TTA TT
15341108 GCTGTTGTTG
Statistics
Matches: 73, Mismatches: 10, Indels: 14
0.75 0.10 0.14
Matches are distributed among these distances:
2 10 0.14
3 61 0.84
4 2 0.03
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15341582 original size:10 final size:10
Alignment explanation
Indices: 15341569--15341602 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
15341559 TATCTAGGAA
*
15341569 TTTTTTGGAT
1 TTTTTTGGGT
15341579 TTTTTTGGGT
1 TTTTTTGGGT
15341589 TTTTTTGGGT
1 TTTTTTGGGT
15341599 TTTT
1 TTTT
15341603 GAAGAACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.03, C:0.00, G:0.24, T:0.74
Consensus pattern (10 bp):
TTTTTTGGGT
Found at i:15342096 original size:8 final size:8
Alignment explanation
Indices: 15342083--15342107 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15342073 ACTCTTTCTA
15342083 AAAAAAAT
1 AAAAAAAT
15342091 AAAAAAAT
1 AAAAAAAT
15342099 AAAAAAAT
1 AAAAAAAT
15342107 A
1 A
15342108 TAATCCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:15353253 original size:119 final size:118
Alignment explanation
Indices: 15353042--15353386 Score: 367
Period size: 119 Copynumber: 2.9 Consensus size: 118
15353032 GCTCAATCAA
* * * *
15353042 ATCATCTTTAATGATTTATGATTTCATCCTGATTATTTGTTTTCAACCTTGACTCGATCTTGGTC
1 ATCATCTTTAATGATTGATGATTTTATCCTGATAATTTATTTTCAACCTTGACTCGATCTTGGTC
15353107 ACTTTAATT-TGGCCTATG-A-TTTGATCCCGATCACTTGATCTTGACTTAGCCCAG
66 ACTTT-ATTCTGG-CT-TGTAGTTT-ATCCCGATCACTTGATCTTGACTTAGCCCAG
* * * * * *
15353161 ATCATTTTTAATGATTGATGGTTTTATCCCGATCATTTATTTTCAACCTCGACTCGATCTTGGTT
1 ATCATCTTTAATGATTGATGATTTTATCCTGATAATTTATTTTCAACCTTGACTCGATCTTGGTC
* * * *
15353226 ACTTTATTCTGGCTTGTAGTTTCATCCCAATCACTCGATCTTGGCTTAGTCCAG
66 ACTTTATTCTGGCTTGTAGTTT-ATCCCGATCACTTGATCTTGACTTAGCCCAG
* * * * * **
15353280 ATCATCTCTGATGACTCG-TGATTCTATCTTGATAATTTATTTTTGACCTTGACTCGATCTTGGT
1 ATCATCTTTAATGA-TTGATGATTTTATCCTGATAATTTATTTTCAACCTTGACTCGATCTTGGT
** *
15353344 CGTTTTATTCTGGCTTGT-GATTTAGTCCCGATCAGTTGATCTT
65 CACTTTATTCTGGCTTGTAG-TTTA-TCCCGATCACTTGATCTT
15353387 AGCTCAATCT
Statistics
Matches: 188, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
117 2 0.01
118 8 0.04
119 176 0.94
120 2 0.01
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.44
Consensus pattern (118 bp):
ATCATCTTTAATGATTGATGATTTTATCCTGATAATTTATTTTCAACCTTGACTCGATCTTGGTC
ACTTTATTCTGGCTTGTAGTTTATCCCGATCACTTGATCTTGACTTAGCCCAG
Found at i:15353401 original size:119 final size:120
Alignment explanation
Indices: 15353195--15353488 Score: 362
Period size: 119 Copynumber: 2.5 Consensus size: 120
15353185 TATCCCGATC
* * **
15353195 ATTTATTTTCAACCTCGACTCGATCTTGGTTACTTTATTCTGGCTTGT-AGTTTCATCCCAATCA
1 ATTTATTTTTAACCTTGACTCGATCTTGGTTGTTTTATTCTGGCTTGTGAGTTTCATCCCAATCA
* * * **
15353259 CTCGATCTTGGCTTAGTCCAGATCATCTCTGATGACTCGTGATTCTATCTTGATA
66 CTCGATCTTAGCTCAATCCAGATCATCTCTGATGACTCGTGATTCTATCTCAATA
* * *
15353314 ATTTATTTTTGACCTTGACTCGATCTTGGTCGTTTTATTCTGGCTTGTGA-TTT-AGTCCCGATC
1 ATTTATTTTTAACCTTGACTCGATCTTGGTTGTTTTATTCTGGCTTGTGAGTTTCA-TCCCAATC
* * * * *
15353377 AGTTGATCTTAGCTCAATCTAGATCATCTCTGATGACTCGTGCTTCTATCTCAATT
65 ACTCGATCTTAGCTCAATCCAGATCATCTCTGATGACTCGTGATTCTATCTCAATA
* * * *
15353433 ATTTATTTTTCACCTTGACTTGGTCTTGGTTGTTTTATTCTAGCTTGTG-GTTTCAT
1 ATTTATTTTTAACCTTGACTCGATCTTGGTTGTTTTATTCTGGCTTGTGAGTTTCAT
15353489 TTCGGTCACT
Statistics
Matches: 149, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
118 1 0.01
119 146 0.98
120 2 0.01
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (120 bp):
ATTTATTTTTAACCTTGACTCGATCTTGGTTGTTTTATTCTGGCTTGTGAGTTTCATCCCAATCA
CTCGATCTTAGCTCAATCCAGATCATCTCTGATGACTCGTGATTCTATCTCAATA
Found at i:15354051 original size:3 final size:3
Alignment explanation
Indices: 15354045--15354112 Score: 97
Period size: 3 Copynumber: 23.7 Consensus size: 3
15354035 TTTTCTTTTT
*
15354045 TTA TTA -TA TTA -TA TCA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
15354090 TTA TTA TTA TCA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
15354113 GCTTTATATA
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
2 5 0.09
3 53 0.91
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:15354149 original size:18 final size:17
Alignment explanation
Indices: 15354123--15354175 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 17
15354113 GCTTTATATA
*
15354123 TTTTCTTTTTTTCCTTTC
1 TTTT-TTTTTTTTCTTTC
15354141 TTTTTTTTTTCTTCTTTC
1 TTTTTTTTTT-TTCTTTC
* *
15354159 TTTTTTTGTTTTGTTTC
1 TTTTTTTTTTTTCTTTC
15354176 CCATATGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 12 0.39
18 19 0.61
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (17 bp):
TTTTTTTTTTTTCTTTC
Found at i:15354155 original size:14 final size:15
Alignment explanation
Indices: 15354128--15354165 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
15354118 ATATATTTTC
*
15354128 TTTTTTTCCTTTCTT
1 TTTTTTTTCTTTCTT
15354143 TTTTTTTTC-TTCTT
1 TTTTTTTTCTTTCTT
15354157 TCTTTTTTT
1 T-TTTTTTT
15354166 GTTTTGTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTTTCTTTCTT
Found at i:15354602 original size:22 final size:22
Alignment explanation
Indices: 15354563--15354604 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
15354553 GGACTATTTG
15354563 AAAAATGTTTTGGATTTTTTTC
1 AAAAATGTTTTGGATTTTTTTC
*
15354585 AAAAAT-TTTTGGGTTTTTTT
1 AAAAATGTTTTGGATTTTTTT
15354605 GGGTTTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.57
Consensus pattern (22 bp):
AAAAATGTTTTGGATTTTTTTC
Found at i:15359652 original size:19 final size:19
Alignment explanation
Indices: 15359624--15359664 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
15359614 AAAATATAGG
15359624 GAAGAAAAAAAGAGAAATA
1 GAAGAAAAAAAGAGAAATA
*
15359643 GAAGAGAAAAAGAGAAATA
1 GAAGAAAAAAAGAGAAATA
15359662 GAA
1 GAA
15359665 AAAGGTGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (19 bp):
GAAGAAAAAAAGAGAAATA
Found at i:15359980 original size:34 final size:34
Alignment explanation
Indices: 15359934--15359999 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
15359924 CATTATCTCT
* * *
15359934 TTATGGATATGCAAATTCATAAGTTTTTAAAAGG
1 TTATGGACATGCAAATCCATAAGCTTTTAAAAGG
*
15359968 TTATGGACATGCAAATCCCTAAGCTTTTAAAA
1 TTATGGACATGCAAATCCATAAGCTTTTAAAA
15360000 ACCTATGGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (34 bp):
TTATGGACATGCAAATCCATAAGCTTTTAAAAGG
Found at i:15360007 original size:34 final size:34
Alignment explanation
Indices: 15359935--15360008 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 34
15359925 ATTATCTCTT
* * * ***
15359935 TATGGATATGCAAATTCATAAGTTTTTAAAAGGT
1 TATGGACATGCAAATCCATAAGCTTTTAAAAACC
*
15359969 TATGGACATGCAAATCCCTAAGCTTTTAAAAACC
1 TATGGACATGCAAATCCATAAGCTTTTAAAAACC
15360003 TATGGA
1 TATGGA
15360009 TTAGCATATT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (34 bp):
TATGGACATGCAAATCCATAAGCTTTTAAAAACC
Found at i:15360339 original size:13 final size:13
Alignment explanation
Indices: 15360313--15360353 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
15360303 CAATATCGAC
15360313 TTTTCTTC-TTCT
1 TTTTCTTCTTTCT
15360325 TTTTCTTCTTTCT
1 TTTTCTTCTTTCT
15360338 TTTT-TCTCTTT-T
1 TTTTCT-TCTTTCT
15360350 TTTT
1 TTTT
15360354 TTTTTTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 14 0.52
13 13 0.48
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCTTCTTTCT
Found at i:15360347 original size:16 final size:14
Alignment explanation
Indices: 15360318--15360365 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 14
15360308 TCGACTTTTC
15360318 TTCTTCTTTTTCTTCT
1 TTCTT-TTTTTCTT-T
15360334 TTCTTTTTTCTCTTT
1 TTCTTTTTT-TCTTT
15360349 TT-TTTTTTT-TTT
1 TTCTTTTTTTCTTT
15360361 TTCTT
1 TTCTT
15360366 CTATTGTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 5 0.17
13 3 0.10
14 6 0.20
15 7 0.23
16 9 0.30
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTCTTTTTTTCTTT
Found at i:15360354 original size:13 final size:14
Alignment explanation
Indices: 15360313--15360365 Score: 58
Period size: 13 Copynumber: 4.0 Consensus size: 14
15360303 CAATATCGAC
15360313 TTTTCTTC-TTC-T
1 TTTTCTTCTTTCTT
15360325 TTTTCTTCTTTCTT
1 TTTTCTTCTTTCTT
*
15360339 TTTTC-TCTTTTTT
1 TTTTCTTCTTTCTT
* *
15360352 TTTTTTTTTTTCTT
1 TTTTCTTCTTTCTT
15360366 CTATTGTCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
12 8 0.24
13 14 0.41
14 12 0.35
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTCTTCTTTCTT
Found at i:15360505 original size:126 final size:128
Alignment explanation
Indices: 15360354--15360596 Score: 314
Period size: 129 Copynumber: 1.9 Consensus size: 128
15360344 TCTTTTTTTT
* * * *
15360354 TTTTTTTTTCTTCTATTGTCCAAAGGTAAC-TTTTTTCTTAT-TGTCTTATTATTATGTTTTATG
1 TTTTTCTTTCTTCTATTGTCCAAAGGTAACTTTTTTTCCTATAAGT-TTATTATCATGTTTTATG
*
15360417 CAATA-CACATTTCTCTCTTTGTTGAGTTAAAGTGAAAATCAGGATAAAATTTTTCTTCCACTTA
65 CAATATC-CATTTCTCTCTTTGTTGAGTTAAAGTGAAAATCAGGACAAAATTTTTCTTCCACTTA
* *
15360481 TTTTTCTTT-TTCTATTGTCCAAAGGTTACTTTTTTTTTCCTATAAGTTTGTTATCATGTTTTAT
1 TTTTTCTTTCTTCTATTGTCCAAAGGTAAC--TTTTTTTCCTATAAGTTTATTATCATGTTTTAT
* * * * *
15360545 GCAATATCTATTTCTCTTTTTGTTTAGTTAATGTGAAAATCATGACAAAATT
64 GCAATATCCATTTCTCTCTTTGTTGAGTTAAAGTGAAAATCAGGACAAAATT
15360597 ATTGACTTGT
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
126 19 0.19
127 8 0.08
129 69 0.70
130 3 0.03
ACGTcount: A:0.25, C:0.13, G:0.10, T:0.52
Consensus pattern (128 bp):
TTTTTCTTTCTTCTATTGTCCAAAGGTAACTTTTTTTCCTATAAGTTTATTATCATGTTTTATGC
AATATCCATTTCTCTCTTTGTTGAGTTAAAGTGAAAATCAGGACAAAATTTTTCTTCCACTTA
Found at i:15360817 original size:8 final size:8
Alignment explanation
Indices: 15360804--15360828 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15360794 AACATCAACA
15360804 TTTTTTTC
1 TTTTTTTC
15360812 TTTTTTTC
1 TTTTTTTC
15360820 TTTTTTTC
1 TTTTTTTC
15360828 T
1 T
15360829 CTTTATCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTC
Found at i:15362540 original size:21 final size:22
Alignment explanation
Indices: 15362509--15362561 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
15362499 ATTTTTATTT
15362509 ATATATTTATA-TTTAAAAAATA
1 ATAT-TTTATATTTTAAAAAATA
15362531 ATATTTTATATTTTAAAAAATA
1 ATATTTTATATTTTAAAAAATA
15362553 ATATTTTAT
1 ATATTTTAT
15362562 TAATTTCGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATTTTATATTTTAAAAAATA
Found at i:15363863 original size:20 final size:20
Alignment explanation
Indices: 15363838--15363878 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
15363828 TCATAAGGTC
15363838 AAATGCAGAATTGAAAGCTG
1 AAATGCAGAATTGAAAGCTG
15363858 AAATGCAGAATTGAAAGCTG
1 AAATGCAGAATTGAAAGCTG
15363878 A
1 A
15363879 TAGTTGTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.24, T:0.20
Consensus pattern (20 bp):
AAATGCAGAATTGAAAGCTG
Found at i:15367316 original size:21 final size:21
Alignment explanation
Indices: 15367292--15367335 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
15367282 ATGATTAATG
15367292 TTGCTCTCAAGTATGCTATAA
1 TTGCTCTCAAGTATGCTATAA
15367313 TTGCTCTCAAGTATGCTATAA
1 TTGCTCTCAAGTATGCTATAA
15367334 TT
1 TT
15367336 ACAAGTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (21 bp):
TTGCTCTCAAGTATGCTATAA
Found at i:15368245 original size:15 final size:15
Alignment explanation
Indices: 15368225--15368254 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
15368215 CGGTGACATG
15368225 GTAATTTCTAAAAAT
1 GTAATTTCTAAAAAT
15368240 GTAATTTCTAAAAAT
1 GTAATTTCTAAAAAT
15368255 TGAGGACATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (15 bp):
GTAATTTCTAAAAAT
Found at i:15374714 original size:12 final size:12
Alignment explanation
Indices: 15374697--15374728 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
15374687 ATTTATAAAT
15374697 TGTAATCAATAA
1 TGTAATCAATAA
15374709 TGTAATCAATAA
1 TGTAATCAATAA
15374721 TGTAATCA
1 TGTAATCA
15374729 TATTAATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.34
Consensus pattern (12 bp):
TGTAATCAATAA
Found at i:15390818 original size:46 final size:46
Alignment explanation
Indices: 15390749--15390838 Score: 126
Period size: 46 Copynumber: 2.0 Consensus size: 46
15390739 TGATAAGATG
* * *
15390749 TAGCTCATCATCTTAACATGATTAAATTCTAATCTAAGATTACAGC
1 TAGCTCATCATCTTAACAGGATTAAATCCTAATATAAGATTACAGC
* * *
15390795 TAGCTTATCATCTTAATAGGATTAAATCCTAATATAATATTACA
1 TAGCTCATCATCTTAACAGGATTAAATCCTAATATAAGATTACA
15390839 ACTTGTGGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.37
Consensus pattern (46 bp):
TAGCTCATCATCTTAACAGGATTAAATCCTAATATAAGATTACAGC
Found at i:15391058 original size:22 final size:22
Alignment explanation
Indices: 15391033--15391076 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
15391023 TTTTTTGTTC
15391033 TTAATTCTAGGGATACAAATAT
1 TTAATTCTAGGGATACAAATAT
15391055 TTAATTCTAGGGATACAAATAT
1 TTAATTCTAGGGATACAAATAT
15391077 AAATATACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (22 bp):
TTAATTCTAGGGATACAAATAT
Found at i:15395310 original size:22 final size:22
Alignment explanation
Indices: 15395284--15395328 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
15395274 ATTTTTTGTC
15395284 TTTAATTCTATG-GATACAAATA
1 TTTAATTCTA-GAGATACAAATA
*
15395306 TTTAATTCTAGAGATATAAATA
1 TTTAATTCTAGAGATACAAATA
15395328 T
1 T
15395329 AAATATACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (22 bp):
TTTAATTCTAGAGATACAAATA
Found at i:15399507 original size:22 final size:22
Alignment explanation
Indices: 15399472--15399514 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15399462 TTGTCTATCC
* *
15399472 TAATTTTAGGGATACAAATATT
1 TAATTCTAGAGATACAAATATT
15399494 TAATTCTAGAGATACAAATAT
1 TAATTCTAGAGATACAAATAT
15399515 AAATATACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (22 bp):
TAATTCTAGAGATACAAATATT
Found at i:15407265 original size:21 final size:21
Alignment explanation
Indices: 15407239--15407288 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
15407229 ATCCTTTGAA
15407239 CAAAGAAGGAAACATGTTTCT
1 CAAAGAAGGAAACATGTTTCT
15407260 CAAAGAAGGAAACATGTTTCT
1 CAAAGAAGGAAACATGTTTCT
15407281 CAAAGAAG
1 CAAAGAAG
15407289 AATGTCCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (21 bp):
CAAAGAAGGAAACATGTTTCT
Found at i:15408077 original size:25 final size:25
Alignment explanation
Indices: 15408038--15408122 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
15408028 TAGAATGGTT
*
15408038 ATGAAGGCCTT-AACAGGGTTCAACA
1 ATGAAGG-CTTAAACAGAGTTCAACA
*
15408063 ATGAAGGCTTAAACAGAGTTCGACA
1 ATGAAGGCTTAAACAGAGTTCAACA
* * *
15408088 ATGAAGGCCTAAAATAGAAGTT-AGCA
1 ATGAAGG-CTTAAACAG-AGTTCAACA
15408114 ATGAAGGCT
1 ATGAAGGCT
15408123 GAAAATTTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
24 3 0.06
25 28 0.55
26 16 0.31
27 4 0.08
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (25 bp):
ATGAAGGCTTAAACAGAGTTCAACA
Found at i:15408127 original size:26 final size:25
Alignment explanation
Indices: 15408060--15408128 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 25
15408050 ACAGGGTTCA
* * *
15408060 ACAATGAAGGCTTAAACAGAGTTCG
1 ACAATGAAGGCTAAAATAGAGTTAG
15408085 ACAATGAAGGCCTAAAATAGAAGTTAG
1 ACAATGAAGG-CTAAAATAG-AGTTAG
15408112 -CAATGAAGGCTGAAAAT
1 ACAATGAAGGCT-AAAAT
15408129 TTTGCTTCCC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 12 0.32
26 21 0.55
27 5 0.13
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (25 bp):
ACAATGAAGGCTAAAATAGAGTTAG
Found at i:15408373 original size:22 final size:22
Alignment explanation
Indices: 15408346--15408389 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
15408336 TTTTTTTGTC
* *
15408346 CTTAATTTTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
15408368 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
15408390 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:15409257 original size:3 final size:3
Alignment explanation
Indices: 15409249--15409289 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
15409239 AAACATGGAA
15409249 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT AC
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT AC
15409290 ATTATCTCCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (3 bp):
ACT
Found at i:15411925 original size:5 final size:6
Alignment explanation
Indices: 15411910--15411935 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15411900 TTGGCTTCCC
15411910 TTTTTA TTTTTA TTTTTA TTTTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TT
15411936 ATCTGGTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:15416773 original size:51 final size:52
Alignment explanation
Indices: 15416694--15416812 Score: 132
Period size: 51 Copynumber: 2.2 Consensus size: 52
15416684 TAATAAATAA
* *
15416694 AAATAAAAATAATTCAAAAAATTAAG-AAAAAGTTGAAGTATCAATTTTTTT
1 AAATAAAAATAATTCAAAAAATTAAGAAAAAAGTTAAAATATCAATTTTTTT
* * * * *
15416745 AAATAAAAATATTTCCAAAATTTGAGAAAAAAGTTAAAATATTAATTTTTCTTT
1 AAATAAAAATAATTCAAAAAATTAAGAAAAAAGTTAAAATATCAA-TTTT-TTT
*
15416799 GAAATAAAATTAAT
1 -AAATAAAAATAAT
15416813 AAGAAGGAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
51 22 0.40
52 15 0.27
53 4 0.07
54 3 0.05
55 11 0.20
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (52 bp):
AAATAAAAATAATTCAAAAAATTAAGAAAAAAGTTAAAATATCAATTTTTTT
Found at i:15416879 original size:19 final size:19
Alignment explanation
Indices: 15416835--15416878 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
15416825 TTGGAATATC
15416835 AATTTTCCTTAAATAAAAA
1 AATTTTCCTTAAATAAAAA
15416854 AATTTTCCTTAAATAAAAA
1 AATTTTCCTTAAATAAAAA
15416873 ATATTT
1 A-ATTT
15416879 CAAAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTTTCCTTAAATAAAAA
Found at i:15416920 original size:55 final size:55
Alignment explanation
Indices: 15416854--15417091 Score: 211
Period size: 55 Copynumber: 4.3 Consensus size: 55
15416844 TAAATAAAAA
* * *
15416854 AATTTTCCTTAAATAAAAAATATTTCAAAAA-AATTTGACAAAAAGTTGAAATAT
1 AATTTTTCTTAAATAAAAAATATTTCAAAAATAATTTAAGAAAAAGTTGAAATAT
** * * *
15416908 CAATTTTTCTTAAATAAAAAATATTTCAAGAAATGTTTTGAGGAAATGTTGAAATAT
1 -AATTTTTCTTAAATAAAAAATATTTCAA-AAATAATTTAAGAAAAAGTTGAAATAT
* * * * *
15416965 AATTTTCCTAAAAT-AAAAATA--T-AAAAATATGTTTAAGAAAAAATTGAAGTAT
1 AATTTTTCTTAAATAAAAAATATTTCAAAAATA-ATTTAAGAAAAAGTTGAAATAT
* **
15417017 AATTTTTTTTAAAT-AAAAATATTTTTAAAAT-ATTTAAGGAAAAAGTTGAAAGTAT
1 AATTTTTCTTAAATAAAAAATATTTCAAAAATAATTTAA-GAAAAAGTTGAAA-TAT
*
15417072 CAATTTTTCCTTAAACAAAA
1 -AATTTTT-CTTAAATAAAA
15417092 CATTAATTTT
Statistics
Matches: 148, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
51 4 0.03
52 36 0.24
53 6 0.04
54 12 0.08
55 42 0.28
56 22 0.15
57 23 0.16
58 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (55 bp):
AATTTTTCTTAAATAAAAAATATTTCAAAAATAATTTAAGAAAAAGTTGAAATAT
Found at i:15424760 original size:45 final size:45
Alignment explanation
Indices: 15424655--15424779 Score: 128
Period size: 45 Copynumber: 2.7 Consensus size: 45
15424645 TTTTTTTTAT
* * *
15424655 GTGAATCCCTAAA-ATTTTTGAATGAGAAACTTTTGAAATATTGGAT
1 GTGAATCCCTAAAGTTTTTTGAATGA-AAAC-TTTGAAATATTGAAA
* * *
15424701 GTGAA-ACATAAAAGTTTTTTGAATGAAAACTTTGAAATCTTGAAA
1 GTGAATCCCT-AAAGTTTTTTGAATGAAAACTTTGAAATATTGAAA
**
15424746 GTGAATCCCTAAAGTTTTTCAAATGAAAATCTTT
1 GTGAATCCCTAAAGTTTTTTGAATGAAAA-CTTT
15424780 AACTTTCTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
45 36 0.55
46 18 0.28
47 11 0.17
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (45 bp):
GTGAATCCCTAAAGTTTTTTGAATGAAAACTTTGAAATATTGAAA
Found at i:15424819 original size:21 final size:21
Alignment explanation
Indices: 15424793--15424833 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15424783 TTTCTAATTT
*
15424793 TTGAATGTGAATATTTGAATG
1 TTGAATGTGAACATTTGAATG
*
15424814 TTGAATGTGAACCTTTGAAT
1 TTGAATGTGAACATTTGAAT
15424834 TTGGGTGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (21 bp):
TTGAATGTGAACATTTGAATG
Found at i:15427030 original size:56 final size:56
Alignment explanation
Indices: 15426969--15427083 Score: 160
Period size: 56 Copynumber: 2.1 Consensus size: 56
15426959 TCTAAAAAAT
* *
15426969 AAAAATAATTTCAAAAAATTATG-AAAAAATTGAAATATCAATTTTTTCTTAAACAA
1 AAAAATAATTTCAAAAAA-TACGTAAAAAATTGAAATATCAATTTTTCCTTAAACAA
* * * *
15427025 AAAAATAATTTTAAAAAATACGTAAAAAGTTGAATTATCAATTTTTCCTTAAATAA
1 AAAAATAATTTCAAAAAATACGTAAAAAATTGAAATATCAATTTTTCCTTAAACAA
15427081 AAA
1 AAA
15427084 TATTTTCAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 3 0.06
56 49 0.94
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.34
Consensus pattern (56 bp):
AAAAATAATTTCAAAAAATACGTAAAAAATTGAAATATCAATTTTTCCTTAAACAA
Found at i:15427241 original size:57 final size:57
Alignment explanation
Indices: 15427173--15427377 Score: 235
Period size: 56 Copynumber: 3.6 Consensus size: 57
15427163 ATTCATAAGA
15427173 AGGAAAAGTTGAAA-TATAAATTTTCCTTAAATAAAGAAATATTTTCAAAAAATTTTG
1 AGGAAAAGTTGAAAGTATAAATTTTCCTTAAATAAA-AAATATTTTCAAAAAATTTTG
* * ***
15427230 AGGAAAAGTTGAAA-TATCAATTTTTCTTAAATAAAAAATA-TTTCAAGATTGTTTTG
1 AGGAAAAGTTGAAAGTATAAATTTTCCTTAAATAAAAAATATTTTCAA-AAAATTTTG
* *
15427286 AGGAAAAGTT-AAAGTATCAATTTTCTTTAAAT-AAAAATATTTT--AAAAATATTTG
1 AGGAAAAGTTGAAAGTATAAATTTTCCTTAAATAAAAAATATTTTCAAAAAAT-TTTG
* *
15427340 AAGAGAAAGTTGAAAGTATTAATTTTTCCTTAAATAAA
1 AGGA-AAAGTTGAAAGTA-TAAATTTTCCTTAAATAAA
15427378 GATTTAACTT
Statistics
Matches: 126, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
53 2 0.02
54 8 0.06
55 22 0.17
56 46 0.37
57 46 0.37
58 2 0.02
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (57 bp):
AGGAAAAGTTGAAAGTATAAATTTTCCTTAAATAAAAAATATTTTCAAAAAATTTTG
Found at i:15427372 original size:113 final size:113
Alignment explanation
Indices: 15427173--15427377 Score: 294
Period size: 113 Copynumber: 1.8 Consensus size: 113
15427163 ATTCATAAGA
*
15427173 AGGAAAAGTTGAAATATAAATTTTCCTTAAATAAAGAAATATTTTCAAAAAATTTTGAGGAAAAG
1 AGGAAAAGTTGAAATATAAATTTTCCTTAAATAAAGAAATATTTTCAAAAAATTTTGAAGAAAAG
15427238 TTGAAATATCAATTTTTCTTAAATAAAAAATATTTCAAGATTGTTTTG
66 TTGAAATATCAATTTTTCTTAAATAAAAAATATTTCAAGATTGTTTTG
* *
15427286 AGGAAAAGTT-AAAGTATCAATTTTCTTTAAAT-AA-AAATATTTT--AAAAATATTTGAAGAGA
1 AGGAAAAGTTGAAA-TATAAATTTTCCTTAAATAAAGAAATATTTTCAAAAAAT-TTTGAAGA-A
*
15427346 AAGTTGAAAGTATTAATTTTTCCTTAAATAAA
63 AAGTTGAAA-TATCAATTTTT-CTTAAATAAA
15427378 GATTTAACTT
Statistics
Matches: 83, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
109 6 0.07
110 7 0.08
111 19 0.23
112 15 0.18
113 36 0.43
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (113 bp):
AGGAAAAGTTGAAATATAAATTTTCCTTAAATAAAGAAATATTTTCAAAAAATTTTGAAGAAAAG
TTGAAATATCAATTTTTCTTAAATAAAAAATATTTCAAGATTGTTTTG
Found at i:15429344 original size:3 final size:3
Alignment explanation
Indices: 15429336--15429394 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
15429326 GACTTTTCTC
15429336 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15429384 TTA TTA TTA TT
1 TTA TTA TTA TT
15429395 TGTTGACAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:15429717 original size:3 final size:3
Alignment explanation
Indices: 15429709--15429755 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
15429699 AAGTCAATGC
15429709 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
15429756 TTAATGCGAT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:15443661 original size:16 final size:13
Alignment explanation
Indices: 15443627--15443652 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15443617 ATACAATGTA
15443627 ATAAAAATAATAT
1 ATAAAAATAATAT
15443640 ATAAAAATAATAT
1 ATAAAAATAATAT
15443653 TATTTAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAAAAATAATAT
Found at i:15443737 original size:29 final size:28
Alignment explanation
Indices: 15443664--15443747 Score: 82
Period size: 29 Copynumber: 3.0 Consensus size: 28
15443654 ATTTAAAATT
*
15443664 TTAAAAATAAT-TAA-ATATATTTTTTA
1 TTAAAAATAATATAATATATAATTTTTA
* * * *
15443690 TTGATATTAATTATTATATATAATTTTTA
1 TTAAAAATAA-TATAATATATAATTTTTA
*
15443719 TATAAAAATAATATAATATATAAATTTTA
1 T-TAAAAATAATATAATATATAATTTTTA
15443748 ATATTTTATA
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
26 7 0.16
27 1 0.02
28 2 0.05
29 28 0.64
30 6 0.14
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (28 bp):
TTAAAAATAATATAATATATAATTTTTA
Found at i:15445162 original size:12 final size:12
Alignment explanation
Indices: 15445145--15445171 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15445135 TTTTTAAAAT
15445145 TTAAATATTTTA
1 TTAAATATTTTA
15445157 TTAAATATTTTA
1 TTAAATATTTTA
15445169 TTA
1 TTA
15445172 TAATTTAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTAAATATTTTA
Found at i:15454551 original size:14 final size:14
Alignment explanation
Indices: 15454516--15454553 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
15454506 GTTTGGTAAG
15454516 AAAATTTATTTTTT
1 AAAATTTATTTTTT
**
15454530 ATTA-TTATTTTTT
1 AAAATTTATTTTTT
15454543 AAAATTTATTT
1 AAAATTTATTT
15454554 ATGAAATTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
AAAATTTATTTTTT
Found at i:15454758 original size:10 final size:10
Alignment explanation
Indices: 15454745--15454826 Score: 53
Period size: 11 Copynumber: 7.6 Consensus size: 10
15454735 AAAAGTCTGT
15454745 AAAATAAATA
1 AAAATAAATA
15454755 AAAAT--ATA
1 AAAATAAATA
15454763 AAAATGTAAAATA
1 AAAA--T-AAATA
15454776 TAAAATAAATA
1 -AAAATAAATA
*
15454787 GAAATAAAATCAA
1 AAAAT-AAAT--A
15454800 AAAATAAA-A
1 AAAATAAATA
15454809 TAAAATAAAATA
1 -AAAAT-AAATA
15454821 AAAATA
1 AAAATA
15454827 CTATCAGGTT
Statistics
Matches: 58, Mismatches: 2, Indels: 24
0.69 0.02 0.29
Matches are distributed among these distances:
8 7 0.12
9 1 0.02
10 16 0.28
11 17 0.29
12 5 0.09
13 8 0.14
14 4 0.07
ACGTcount: A:0.76, C:0.01, G:0.02, T:0.21
Consensus pattern (10 bp):
AAAATAAATA
Found at i:15454770 original size:25 final size:26
Alignment explanation
Indices: 15454719--15454775 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
15454709 TTACTCAGTA
**
15454719 AAAATAAATAAACAATAAAAGTCTGT
1 AAAATAAATAAACAATAAAAGAATGT
15454745 AAAATAAATAAA-AATATAAA-AATGT
1 AAAATAAATAAACAATA-AAAGAATGT
15454770 AAAATA
1 AAAATA
15454776 TAAAATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.68, C:0.04, G:0.05, T:0.23
Consensus pattern (26 bp):
AAAATAAATAAACAATAAAAGAATGT
Found at i:15454778 original size:27 final size:27
Alignment explanation
Indices: 15454716--15454784 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 27
15454706 AAATTACTCA
**
15454716 GTAAAAATAAATAAACAATAAAAGTCT
1 GTAAAAATAAATAAACAATAAAAGAAT
15454743 GT-AAAATAAATAAA-AATATAAA-AAT
1 GTAAAAATAAATAAACAATA-AAAGAAT
15454768 GTAAAATATAAAATAAA
1 GTAAAA-AT-AAATAAA
15454785 TAGAAATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
25 7 0.19
26 18 0.50
27 4 0.11
28 7 0.19
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.23
Consensus pattern (27 bp):
GTAAAAATAAATAAACAATAAAAGAAT
Found at i:15454796 original size:5 final size:5
Alignment explanation
Indices: 15454775--15454823 Score: 59
Period size: 5 Copynumber: 10.2 Consensus size: 5
15454765 AATGTAAAAT
*
15454775 ATAAA AT-AA ATAGAA ATAAA AT-CA A-AAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATA-AA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
15454823 A
1 A
15454824 ATACTATCAG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
4 8 0.21
5 25 0.66
6 5 0.13
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (5 bp):
ATAAA
Found at i:15454801 original size:28 final size:28
Alignment explanation
Indices: 15454770--15454823 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
15454760 ATAAAAATGT
*
15454770 AAAATATAAAAT-AAATAGAAATAAAATC
1 AAAAAATAAAATAAAATA-AAATAAAATC
15454798 AAAAAATAAAATAAAATAAAATAAAA
1 AAAAAATAAAATAAAATAAAATAAAA
15454824 ATACTATCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (28 bp):
AAAAAATAAAATAAAATAAAATAAAATC
Found at i:15454807 original size:23 final size:22
Alignment explanation
Indices: 15454744--15454824 Score: 80
Period size: 22 Copynumber: 3.7 Consensus size: 22
15454734 TAAAAGTCTG
15454744 TAAAAT-AAAT-AAAAATATAAA
1 TAAAATAAAATAAAAAATA-AAA
** *
15454765 -AATGTAAAATATAAAAT-AAA
1 TAAAATAAAATAAAAAATAAAA
15454785 TAGAAATAAAATCAAAAAATAAAA
1 TA-AAATAAAAT-AAAAAATAAAA
15454809 TAAAATAAAATAAAAA
1 TAAAATAAAATAAAAA
15454825 TACTATCAGG
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
20 6 0.12
21 5 0.10
22 17 0.35
23 15 0.31
24 5 0.10
ACGTcount: A:0.75, C:0.01, G:0.02, T:0.21
Consensus pattern (22 bp):
TAAAATAAAATAAAAAATAAAA
Found at i:15454811 original size:18 final size:18
Alignment explanation
Indices: 15454782--15454818 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15454772 AATATAAAAT
15454782 AAATAGAAATAAAATCAAA
1 AAATAGAAATAAAAT-AAA
15454801 AAATA-AAATAAAATAAA
1 AAATAGAAATAAAATAAA
15454818 A
1 A
15454819 TAAAAATACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 9 0.50
19 5 0.28
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (18 bp):
AAATAGAAATAAAATAAA
Found at i:15455713 original size:3 final size:3
Alignment explanation
Indices: 15455700--15455778 Score: 124
Period size: 3 Copynumber: 26.7 Consensus size: 3
15455690 ATACTATATA
* * *
15455700 TAC TA- TAC TAC TAC TAC TAC TAC TAT TGC TAC CAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
15455747 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
15455779 ATAATAATAA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
2 2 0.03
3 67 0.97
ACGTcount: A:0.33, C:0.32, G:0.01, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:15455783 original size:3 final size:3
Alignment explanation
Indices: 15455777--15455846 Score: 103
Period size: 3 Copynumber: 24.7 Consensus size: 3
15455767 CTACTACTAC
15455777 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
15455824 T-A CAA T-A TAA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
15455847 TACTATAATG
Statistics
Matches: 61, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
2 7 0.11
3 54 0.89
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:15455832 original size:10 final size:10
Alignment explanation
Indices: 15455779--15455883 Score: 95
Period size: 10 Copynumber: 9.8 Consensus size: 10
15455769 ACTACTACTA
15455779 ATAATAATAAT
1 ATAAT-ATAAT
15455790 AATAATAATAAT
1 -ATAAT-ATAAT
15455802 AATAATAATAAT
1 -ATAAT-ATAAT
15455814 AATAATATAAT
1 -ATAATATAAT
*
15455825 ACAATATAAT
1 ATAATATAAT
15455835 AATAATATAAT
1 -ATAATATAAT
*
15455846 ATACTATAAT
1 ATAATATAAT
*
15455856 GA-AATAAAAT
1 -ATAATATAAT
15455866 ATAATATAAT
1 ATAATATAAT
*
15455876 ACAATATA
1 ATAATATA
15455884 CCATACTATA
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
9 1 0.01
10 38 0.46
11 15 0.18
12 29 0.35
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (10 bp):
ATAATATAAT
Found at i:15458309 original size:21 final size:21
Alignment explanation
Indices: 15458285--15458325 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15458275 AGCACGAGGT
*
15458285 GGAAAAAGGGCAAAAAGGTTC
1 GGAAAAAGGACAAAAAGGTTC
*
15458306 GGAAAAAGGACCAAAAGGTT
1 GGAAAAAGGACAAAAAGGTT
15458326 AGTTTTGTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.10, G:0.32, T:0.10
Consensus pattern (21 bp):
GGAAAAAGGACAAAAAGGTTC
Found at i:15459412 original size:6 final size:6
Alignment explanation
Indices: 15459401--15459438 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
15459391 TAATTTGTTT
*
15459401 AGTGGG AGTGGG AGTGGG AGTGGG AGTGGG AGTTGG AG
1 AGTGGG AGTGGG AGTGGG AGTGGG AGTGGG AGTGGG AG
15459439 AGTGTTAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.18, C:0.00, G:0.63, T:0.18
Consensus pattern (6 bp):
AGTGGG
Found at i:15464397 original size:30 final size:30
Alignment explanation
Indices: 15464354--15464435 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 30
15464344 TTTGATCAAA
* * * **
15464354 TTTTAGGATGTTTGAATTTTTTGATTTTTT
1 TTTTATGAAGTTTGAACTTTTTGATAATTT
*
15464384 TTTTATGAGGTTTGAAGC-TTTTGATAATTT
1 TTTTATGAAGTTTGAA-CTTTTTGATAATTT
*
15464414 TTTAAT-AAGTTTGAACTTTTTG
1 TTTTATGAAGTTTGAACTTTTTG
15464436 TGGGATCTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
28 1 0.02
29 13 0.30
30 29 0.67
ACGTcount: A:0.22, C:0.02, G:0.17, T:0.59
Consensus pattern (30 bp):
TTTTATGAAGTTTGAACTTTTTGATAATTT
Found at i:15464747 original size:18 final size:18
Alignment explanation
Indices: 15464711--15464749 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15464701 TTTATTTTCC
*
15464711 TTTATTTTTGATTATTTA
1 TTTATTTTTGATTAATTA
15464729 TTTA-TTTTGATTAAATTA
1 TTTATTTTTGATT-AATTA
15464747 TTT
1 TTT
15464750 GTTGTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (18 bp):
TTTATTTTTGATTAATTA
Found at i:15468694 original size:9 final size:9
Alignment explanation
Indices: 15468673--15468710 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
15468663 TTAATGTATA
*
15468673 AATGATTAT
1 AATGATTAC
*
15468682 AATGACTAC
1 AATGATTAC
15468691 AATGATTAC
1 AATGATTAC
15468700 AATGATTAC
1 AATGATTAC
15468709 AA
1 AA
15468711 AAAAACAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATGATTAC
Found at i:15469952 original size:16 final size:16
Alignment explanation
Indices: 15469933--15469972 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
15469923 GAATGTAAAA
*
15469933 AATTTGAACTTGAAGC
1 AATTTGAACTTGAAAC
* *
15469949 AATTTGAATTTGAAAT
1 AATTTGAACTTGAAAC
15469965 AATTTGAA
1 AATTTGAA
15469973 ATAATATGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (16 bp):
AATTTGAACTTGAAAC
Found at i:15472534 original size:21 final size:20
Alignment explanation
Indices: 15472509--15472555 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
15472499 ATTATCATGT
15472509 ACTTAATGGATTAATTCTATG
1 ACTTAATGGATTAATTCT-TG
* *
15472530 ACTTACTTGATTAATTCTTG
1 ACTTAATGGATTAATTCTTG
15472550 -CTTAAT
1 ACTTAAT
15472556 TATCCACCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 5 0.22
20 2 0.09
21 16 0.70
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.47
Consensus pattern (20 bp):
ACTTAATGGATTAATTCTTG
Found at i:15489650 original size:181 final size:181
Alignment explanation
Indices: 15489346--15489705 Score: 569
Period size: 181 Copynumber: 2.0 Consensus size: 181
15489336 TTTTATTAGC
* * **
15489346 TTAATCTCCAATTAAAAATGCTAACTTTCCTTTTTATATTTTGTTAGGTCAATTTTTTATTTTAA
1 TTAATCTCCAATTAAAAATGCTAACTTTCCCTTGTATATTTTGTTAGGTCAATTTTCGATTTTAA
* **
15489411 TTTTCTACATCAAAGTTCTGATTTCTATCTCTTCTCTTTTTAATTGCGAATTTATTTCATGCTTT
66 TTTGCTACATCAAAGTTCTGATTTCTATCTCTTCTCTTTTTAATCACGAATTTATTTCATGCTTT
* *
15489476 TAATTTTGCTTAGTTTGTAACTTTCTAATTTTAGTAGCTTGCTATTTTATG
131 TAATTTTGCTTAGTTTGTAACTTTCTAATTTTAGTAACCTGCTATTTTATG
*
15489527 TTAATCTCCAATTAAAAATGCTAACTTTCCCTTGTATATTTTGTTAGGTTAATTTTCGATTTTAA
1 TTAATCTCCAATTAAAAATGCTAACTTTCCCTTGTATATTTTGTTAGGTCAATTTTCGATTTTAA
* * * *
15489592 TTTGCTACATCTAGGTTTTGATTTCTGTCTCTTCTCTTTTTAATCAC-AATTTTATTTCATGCTT
66 TTTGCTACATCAAAGTTCTGATTTCTATCTCTTCTCTTTTTAATCACGAA-TTTATTTCATGCTT
*
15489656 TTAATTTTGCTTAGTTTGTAACTTTCTATTTTTAGTAACCTGCTATTTTA
130 TTAATTTTGCTTAGTTTGTAACTTTCTAATTTTAGTAACCTGCTATTTTA
15489706 GGTAATTGCT
Statistics
Matches: 163, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
180 2 0.01
181 161 0.99
ACGTcount: A:0.23, C:0.14, G:0.09, T:0.53
Consensus pattern (181 bp):
TTAATCTCCAATTAAAAATGCTAACTTTCCCTTGTATATTTTGTTAGGTCAATTTTCGATTTTAA
TTTGCTACATCAAAGTTCTGATTTCTATCTCTTCTCTTTTTAATCACGAATTTATTTCATGCTTT
TAATTTTGCTTAGTTTGTAACTTTCTAATTTTAGTAACCTGCTATTTTATG
Found at i:15495564 original size:23 final size:23
Alignment explanation
Indices: 15495516--15495564 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
15495506 TAAAAAAGAC
* *
15495516 AAAAATTAAAATTAAAAAATTAA
1 AAAAATCAAAATTAAAAAATAAA
* *
15495539 AAAAATCAAAA-TAAAAGATAAT
1 AAAAATCAAAATTAAAAAATAAA
15495561 AAAA
1 AAAA
15495565 GGGGAAAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (23 bp):
AAAAATCAAAATTAAAAAATAAA
Found at i:15498339 original size:16 final size:16
Alignment explanation
Indices: 15498318--15498352 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
15498308 ATTTAGCAAG
15498318 AGAGAAAATAAAATAT
1 AGAGAAAATAAAATAT
* *
15498334 AGAGAAAGTAAAATGT
1 AGAGAAAATAAAATAT
15498350 AGA
1 AGA
15498353 AACTTAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (16 bp):
AGAGAAAATAAAATAT
Found at i:15498790 original size:36 final size:36
Alignment explanation
Indices: 15498722--15498790 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
15498712 ATAATTGGTC
* * *
15498722 TGGGCCCAAGCCCATTAGGCTTGGTTCCATAGGATT
1 TGGGCCCAAGCCCATTAGGCCTGGCTCAATAGGATT
*
15498758 TGGGCCTAAGCCCATTAGGCCTGGCTCAATAGG
1 TGGGCCCAAGCCCATTAGGCCTGGCTCAATAGG
15498791 GTCCAAGTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.20, C:0.26, G:0.29, T:0.25
Consensus pattern (36 bp):
TGGGCCCAAGCCCATTAGGCCTGGCTCAATAGGATT
Found at i:15499312 original size:31 final size:31
Alignment explanation
Indices: 15499277--15499342 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
15499267 AAATTTCTAG
** *
15499277 TTTTTTGATGAATTTTTTGACATTGGTTGAA
1 TTTTTTGATGAATTTTTCAACATCGGTTGAA
15499308 TTTTTTGATGAATTTTTCAACATCGGTTGAA
1 TTTTTTGATGAATTTTTCAACATCGGTTGAA
15499339 TTTT
1 TTTT
15499343 CAATGAGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.06, G:0.17, T:0.55
Consensus pattern (31 bp):
TTTTTTGATGAATTTTTCAACATCGGTTGAA
Found at i:15500677 original size:68 final size:68
Alignment explanation
Indices: 15500563--15500698 Score: 245
Period size: 68 Copynumber: 2.0 Consensus size: 68
15500553 TTTCCGACAA
* *
15500563 CGGAACCTCTTTAAGGAAACAAATGGGATCCTTAATACTCTTAAGATGAGAAAATATTTTTTAAG
1 CGGAACCTCTTTAAAGAAACAAATGGGATCCTTAATACTCTTAAGATAAGAAAATATTTTTTAAG
15500628 AGT
66 AGT
*
15500631 CGGAGCCTCTTTAAAGAAACAAATGGGATCCTTAATACTCTTAAGATAAGAAAATATTTTTTAAG
1 CGGAACCTCTTTAAAGAAACAAATGGGATCCTTAATACTCTTAAGATAAGAAAATATTTTTTAAG
15500696 AGT
66 AGT
15500699 TCTACCATAT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (68 bp):
CGGAACCTCTTTAAAGAAACAAATGGGATCCTTAATACTCTTAAGATAAGAAAATATTTTTTAAG
AGT
Found at i:15504544 original size:23 final size:24
Alignment explanation
Indices: 15504511--15504562 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
15504501 TAATGGATAA
15504511 AAAAATAAGAAGA-AA-AAAATATG
1 AAAAATAAGAAGAGAATAAAA-ATG
*
15504534 AAAAATGAGAAGAGAATAAAAATG
1 AAAAATAAGAAGAGAATAAAAATG
15504558 AAAAA
1 AAAAA
15504563 AAATAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 12 0.46
24 10 0.38
25 4 0.15
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (24 bp):
AAAAATAAGAAGAGAATAAAAATG
Found at i:15504556 original size:17 final size:16
Alignment explanation
Indices: 15504509--15504586 Score: 70
Period size: 16 Copynumber: 4.8 Consensus size: 16
15504499 ACTAATGGAT
*
15504509 AAAAAAATAAGAA-GA
1 AAAAAAATAAAAATGA
15504524 AAAAAATATGAAAAATGA
1 AAAAAA-AT-AAAAATGA
* *
15504542 GAAGAGAATAAAAATGA
1 -AAAAAAATAAAAATGA
15504559 AAAAAAATAAAAA-GA
1 AAAAAAATAAAAATGA
*
15504574 TGAAAAAATAAAA
1 -AAAAAAATAAAA
15504587 CCAAAAAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
15 8 0.15
16 24 0.46
17 12 0.23
18 4 0.08
19 4 0.08
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.12
Consensus pattern (16 bp):
AAAAAAATAAAAATGA
Found at i:15504586 original size:25 final size:24
Alignment explanation
Indices: 15504509--15504586 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 24
15504499 ACTAATGGAT
15504509 AAAAAAATAAGAAGA-AAAAAATA
1 AAAAAAATAAGAAGAGAAAAAATA
** *
15504532 TGAAAAATGAGAAGAGAATAAAAATGA
1 AAAAAAATAAGAAGAG-A-AAAAAT-A
*
15504559 AAAAAAATAAAAAGATGAAAAAATA
1 AAAAAAATAAGAAGA-GAAAAAATA
15504584 AAA
1 AAA
15504587 CCAAAAAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
23 12 0.28
25 5 0.12
26 12 0.28
27 13 0.30
28 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.12
Consensus pattern (24 bp):
AAAAAAATAAGAAGAGAAAAAATA
Found at i:15504592 original size:22 final size:22
Alignment explanation
Indices: 15504558--15504627 Score: 76
Period size: 21 Copynumber: 3.3 Consensus size: 22
15504548 AATAAAAATG
*
15504558 AAAAAAAA-TAAAAAGAT-GAA
1 AAAAAAAACAAAAAAGATGGAA
15504578 AAAATAAAACCAAAAAA-ATGGAA
1 AAAA-AAAA-CAAAAAAGATGGAA
*
15504601 AAAAAAAAGAAAAAAG-TGGAA
1 AAAAAAAACAAAAAAGATGGAA
15504622 AAAAAA
1 AAAAAA
15504628 GAAAAGAAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
20 4 0.09
21 21 0.49
22 6 0.14
23 12 0.28
ACGTcount: A:0.79, C:0.03, G:0.11, T:0.07
Consensus pattern (22 bp):
AAAAAAAACAAAAAAGATGGAA
Found at i:15504669 original size:38 final size:39
Alignment explanation
Indices: 15504598--15504673 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
15504588 CAAAAAAATG
15504598 GAAAAAAAAAAGAAAAAAGTGGAAAAAAAAGAAAAGAAA
1 GAAAAAAAAAAGAAAAAAGTGGAAAAAAAAGAAAAGAAA
* * *
15504637 GAAAAAAAATAGAAAAGA-T-GAAAAAGAGAGAAAAGAA
1 GAAAAAAAAAAGAAAAAAGTGGAAAAA-AAAGAAAAGAA
15504674 CAACTCAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 6 0.18
38 11 0.33
39 16 0.48
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (39 bp):
GAAAAAAAAAAGAAAAAAGTGGAAAAAAAAGAAAAGAAA
Found at i:15505836 original size:21 final size:20
Alignment explanation
Indices: 15505810--15505857 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
15505800 ATTTTGATAA
15505810 AATCTTGAATCCTTAAATGAG
1 AATCTTGAAT-CTTAAATGAG
* *
15505831 AATCTTTTAGTCTTAAATGAG
1 AATC-TTGAATCTTAAATGAG
15505852 AATCTT
1 AATCTT
15505858 TGAGAATCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 18 0.75
22 4 0.17
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (20 bp):
AATCTTGAATCTTAAATGAG
Found at i:15505863 original size:10 final size:10
Alignment explanation
Indices: 15505848--15505925 Score: 75
Period size: 10 Copynumber: 7.4 Consensus size: 10
15505838 TAGTCTTAAA
15505848 TGAGAATCTT
1 TGAGAATCTT
15505858 TGAGAATCTT
1 TGAGAATCTT
15505868 TGAGAATCTT
1 TGAGAATCTT
**
15505878 TGAGTTTCTT
1 TGAGAATCTT
**
15505888 TGAGTTTCTTT
1 TGAGAATC-TT
*
15505899 AAATGAAAATCTT
1 ---TGAGAATCTT
15505912 TGAGAATCTT
1 TGAGAATCTT
15505922 TGAG
1 TGAG
15505926 TTTTTCAAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
10 49 0.84
11 2 0.03
13 2 0.03
14 5 0.09
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (10 bp):
TGAGAATCTT
Found at i:15505941 original size:33 final size:34
Alignment explanation
Indices: 15505872--15505950 Score: 115
Period size: 34 Copynumber: 2.4 Consensus size: 34
15505862 AATCTTTGAG
** *
15505872 AATCTTTGAGTTTCTTTGAGTTTCTTTAAATGAA
1 AATCTTTGAGAATCTTTGAGTTTCTTCAAATGAA
15505906 AATCTTTGAGAATCTTTGAGTTT-TTCAAATGAA
1 AATCTTTGAGAATCTTTGAGTTTCTTCAAATGAA
*
15505939 AATCTTTAAGAA
1 AATCTTTGAGAA
15505951 GAACTCAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 20 0.49
34 21 0.51
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (34 bp):
AATCTTTGAGAATCTTTGAGTTTCTTCAAATGAA
Found at i:15506495 original size:41 final size:41
Alignment explanation
Indices: 15506426--15506835 Score: 353
Period size: 41 Copynumber: 9.8 Consensus size: 41
15506416 AAGAGCTTTG
** *
15506426 TTTATTTTTCAAAAGTTATTGAGCCTCTATTTAGAGGAGCTT
1 TTTATTTTTC-AAAGTCGTTGAGCCTCTGTTTAGAGGAGCTT
* * *
15506468 TTTATTTTTCAAAGTCGTTGAGTCTCTATTTA-ATGAGGC-T
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGA-GCTT
* * * * *
15506508 TTTATTTTTCAAAGTCGTTAAACTTCTGTTTAGATGAGCCT
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTT
* * *
15506549 TTTATTTTTTAAAAGTTGTTAAGCCTCTGTTTAGAGGAG-TCT
1 TTTA-TTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCT-T
* * *
15506591 TTTATTTTTCAAAGTC-ATGGGCCTCTGTTTAAAGGAGCTT
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTT
* * * ** *
15506631 TTTATTTTTTAAAGTCCTTAAGCCTCTGTTTAGATAAGCCT
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTT
* * *
15506672 TTTATTTTTCAAAGTCGTTGAGCTTTTGTTTAGAAGAGCTTT
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC-TT
* * * *
15506714 ATTTATTTTT-GAAGTAGTTGAGCCTCTGTTTAAAGAAGCTTT
1 -TTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC-TT
** **
15506756 ATTTAATTTTTTTAAGTCGTTGAGCCTCTACTTAGAGGAGCCTAAT
1 -TTT-ATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAG-CT--T
* *
15506802 TTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGA
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGA
15506836 AGAAGTCTAA
Statistics
Matches: 300, Mismatches: 54, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
40 66 0.22
41 90 0.30
42 74 0.25
43 15 0.05
44 50 0.17
45 4 0.01
46 1 0.00
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.46
Consensus pattern (41 bp):
TTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTT
Found at i:15506645 original size:123 final size:123
Alignment explanation
Indices: 15506426--15506835 Score: 393
Period size: 123 Copynumber: 3.3 Consensus size: 123
15506416 AAGAGCTTTG
* * *
15506426 TTTATTTTTCAAAAGTTATTGAGCCTCTATTTAGAGGAG-CTTTTTATTTTTCAAAGTCGTTGAG
1 TTTATTTTTTAAAAGTTGTTGAGCCTCTATTTAGAGGAGTC-TTTTATTTTTCAAAGTC-ATGAG
* * * * * *
15506490 TCTCTATTT-AATGAGGC-TTTTATTTTTCAAAGTCGTTAAACTTCTGTTTAGATGAGCCT
64 CCTCTGTTTAAAGGA-GCTTTTTATTTTTTAAAGTCGTTAAGCCTCTGTTTAGATGAGCCT
* * *
15506549 TTTATTTTTTAAAAGTTGTTAAGCCTCTGTTTAGAGGAGTCTTTTATTTTTCAAAGTCATGGGCC
1 TTTATTTTTTAAAAGTTGTTGAGCCTCTATTTAGAGGAGTCTTTTATTTTTCAAAGTCATGAGCC
* *
15506614 TCTGTTTAAAGGAGCTTTTTATTTTTTAAAGTCCTTAAGCCTCTGTTTAGATAAGCCT
66 TCTGTTTAAAGGAGCTTTTTATTTTTTAAAGTCGTTAAGCCTCTGTTTAGATGAGCCT
* * * * * * * *
15506672 TTTA-TTTTTCAAAGTCGTTGAGCTTTTGTTTAGAAGAGCTTTATTTATTTTT-GAAGT-AGTTG
1 TTTATTTTTTAAAAGTTGTTGAGCCTCTATTTAGAGGAG-TCT-TTTATTTTTCAAAGTCA--TG
* * * ** *
15506734 AGCCTCTGTTTAAAGAAGCTTTATTTAATTTTTTTAAGTCGTTGAGCCTCTACTTAGAGGAGCCT
62 AGCCTCTGTTTAAAGGAGC-TT-TTT-ATTTTTTAAAGTCGTTAAGCCTCTGTTTAGATGAGCCT
*
15506799 AATTT-TATTTTTCAAAGTTGTTGAGCCTCTATTTAGA
1 --TTTAT-TTTTTAAAAGTTGTTGAGCCTCTATTTAGA
15506836 AGAAGTCTAA
Statistics
Matches: 238, Mismatches: 35, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
122 41 0.17
123 103 0.43
124 29 0.12
125 2 0.01
126 3 0.01
127 31 0.13
129 3 0.01
130 26 0.11
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.46
Consensus pattern (123 bp):
TTTATTTTTTAAAAGTTGTTGAGCCTCTATTTAGAGGAGTCTTTTATTTTTCAAAGTCATGAGCC
TCTGTTTAAAGGAGCTTTTTATTTTTTAAAGTCGTTAAGCCTCTGTTTAGATGAGCCT
Found at i:15507132 original size:6 final size:5
Alignment explanation
Indices: 15507111--15507179 Score: 50
Period size: 5 Copynumber: 12.8 Consensus size: 5
15507101 TTTTTATGGG
*
15507111 TTTTA TTTTA TTTTA TTTTTA TTTTGA TGTTTA TCTATGA TTTTA TTATTA
1 TTTTA TTTTA TTTTA -TTTTA TTTT-A T-TTTA T-T-TTA TTTTA TT-TTA
* *
15507162 -TTTA TTTTC TTTTC TTTT
1 TTTTA TTTTA TTTTA TTTT
15507180 TTAAGTTGAT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
4 3 0.06
5 31 0.57
6 14 0.26
7 6 0.11
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:15508085 original size:8 final size:8
Alignment explanation
Indices: 15508072--15508099 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
15508062 AGCCATTTCA
15508072 TTTTTTAT
1 TTTTTTAT
15508080 TTTTTTAT
1 TTTTTTAT
15508088 TTTTTTAT
1 TTTTTTAT
15508096 TTTT
1 TTTT
15508100 ATTTATGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTAT
Found at i:15510101 original size:23 final size:22
Alignment explanation
Indices: 15510054--15510101 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
15510044 TATGGTTCCC
*
15510054 AAAAAGTAAGCAATACCTTCTT
1 AAAAAGTAAGCAATACCTTCAT
*
15510076 AAAAAGTAAGTAATACCTCTCAT
1 AAAAAGTAAGCAATACCT-TCAT
15510099 AAA
1 AAA
15510102 TCCTTGCATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.50, C:0.17, G:0.08, T:0.25
Consensus pattern (22 bp):
AAAAAGTAAGCAATACCTTCAT
Found at i:15510431 original size:9 final size:9
Alignment explanation
Indices: 15510417--15510449 Score: 50
Period size: 8 Copynumber: 3.7 Consensus size: 9
15510407 TTTTTACCCA
15510417 CTTTTCTTT
1 CTTTTCTTT
15510426 CTTTTC-TT
1 CTTTTCTTT
15510434 CTTTTCTTT
1 CTTTTCTTT
15510443 GCTTTTC
1 -CTTTTC
15510450 ACTACTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 8 0.36
10 6 0.27
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.73
Consensus pattern (9 bp):
CTTTTCTTT
Found at i:15523292 original size:3 final size:3
Alignment explanation
Indices: 15523284--15523314 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
15523274 TGATTATTTA
15523284 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
15523315 CTCCATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15529853 original size:11 final size:11
Alignment explanation
Indices: 15529837--15529863 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
15529827 TTTTAAAATT
15529837 TAATTTTCTAA
1 TAATTTTCTAA
15529848 TAATTTTCTAA
1 TAATTTTCTAA
15529859 TAATT
1 TAATT
15529864 AGTTTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (11 bp):
TAATTTTCTAA
Found at i:15532041 original size:2 final size:2
Alignment explanation
Indices: 15532028--15532057 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
15532018 AAAGAAAATG
*
15532028 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15532058 CTTATTTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:15533045 original size:22 final size:22
Alignment explanation
Indices: 15533004--15533045 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15532994 ATATATTTTT
*
15533004 ATTTTTATTAAACTTATAAATG
1 ATTTTTATTAAAATTATAAATG
*
15533026 ATTTTTATTAAAATTTTAAA
1 ATTTTTATTAAAATTATAAA
15533046 CCATATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTTTTATTAAAATTATAAATG
Found at i:15534844 original size:29 final size:29
Alignment explanation
Indices: 15534801--15534856 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
15534791 TATCTTCATG
* *
15534801 CAAATCATATTCTTGGAATGAATACCCTA
1 CAAATCATATCCTTGGAAGGAATACCCTA
* *
15534830 CAAATCCTATCCTTGGTAGGAATACCC
1 CAAATCATATCCTTGGAAGGAATACCC
15534857 ATTTAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (29 bp):
CAAATCATATCCTTGGAAGGAATACCCTA
Found at i:15545529 original size:10 final size:10
Alignment explanation
Indices: 15545516--15545550 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
15545506 TCATATTTGA
*
15545516 TCAAACTAAG
1 TCAAACTTAG
*
15545526 TCAAAATTAG
1 TCAAACTTAG
15545536 TCAAACTTAG
1 TCAAACTTAG
15545546 TCAAA
1 TCAAA
15545551 ATTCCTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.49, C:0.17, G:0.09, T:0.26
Consensus pattern (10 bp):
TCAAACTTAG
Found at i:15545539 original size:20 final size:20
Alignment explanation
Indices: 15545516--15545553 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15545506 TCATATTTGA
15545516 TCAAACTAAGTCAAAATTAG
1 TCAAACTAAGTCAAAATTAG
*
15545536 TCAAACTTAGTCAAAATT
1 TCAAACTAAGTCAAAATT
15545554 CCTCAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (20 bp):
TCAAACTAAGTCAAAATTAG
Done.