Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 46 of 195
Found at i:9582137 original size:31 final size:31
Alignment explanation
Indices: 9582099--9582162 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
9582089 GAGCCTTTGC
9582099 TTAGAGGAGCTTTATTTTTTTTCAAAAGTTG
1 TTAGAGGAGCTTTATTTTTTTTCAAAAGTTG
**
9582130 TTAGAGGAGCTTTATTTTTTTTTTAAAGTTG
1 TTAGAGGAGCTTTATTTTTTTTCAAAAGTTG
9582161 TT
1 TT
9582163 GAGCCTATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.05, G:0.19, T:0.53
Consensus pattern (31 bp):
TTAGAGGAGCTTTATTTTTTTTCAAAAGTTG
Found at i:9582188 original size:74 final size:75
Alignment explanation
Indices: 9582062--9582200 Score: 210
Period size: 74 Copynumber: 1.9 Consensus size: 75
9582052 GATTGTCGAT
*
9582062 GAGCTTTATTTATTTTTCAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTATTT-TTTTTCAAAA
1 GAGCTTTATTTATTTTTCAAAGTTGTTGAGCCTATGCTTAGAGGAGCTTTATTTATTTTTCAAAA
9582126 GTTGTTAGAG
66 GTTGTTAGAG
* * * *
9582136 GAGCTTTATTTTTTTTTTAAAGTTGTTGAGCCTATGTTTAGATGAG-TCTTATTTATTTTTCAAA
1 GAGCTTTATTTATTTTTCAAAGTTGTTGAGCCTATGCTTAGAGGAGCT-TTATTTATTTTTCAAA
9582200 A
65 A
9582201 TCATTGAGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
73 1 0.02
74 47 0.81
75 10 0.17
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.50
Consensus pattern (75 bp):
GAGCTTTATTTATTTTTCAAAGTTGTTGAGCCTATGCTTAGAGGAGCTTTATTTATTTTTCAAAA
GTTGTTAGAG
Found at i:9582402 original size:36 final size:34
Alignment explanation
Indices: 9582355--9582454 Score: 119
Period size: 36 Copynumber: 2.7 Consensus size: 34
9582345 TTATAGGAGT
9582355 TTTATTTATTTTTCAAAAGTTGTTAAAGGAGCTTTA
1 TTTATTTATTTTTC-AAAGTTGTTAAAGG-GCTTTA
*
9582391 TTTATTTATTTTTCAAAGTTATTGTTAGATGGGCTTTA
1 TTTATTTATTTTTCAAAG---TTGTTA-AAGGGCTTTA
*
9582429 TTTATTTATTTTTTTAAAGTTGTTAA
1 TTTATTTA-TTTTTCAAAGTTGTTAA
9582455 GCCTCTGTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
35 5 0.09
36 20 0.35
38 20 0.35
39 12 0.21
ACGTcount: A:0.27, C:0.04, G:0.13, T:0.56
Consensus pattern (34 bp):
TTTATTTATTTTTCAAAGTTGTTAAAGGGCTTTA
Found at i:9582427 original size:38 final size:36
Alignment explanation
Indices: 9582355--9582454 Score: 123
Period size: 38 Copynumber: 2.7 Consensus size: 36
9582345 TTATAGGAGT
9582355 TTTATTTATTTTTCAAAAGTTGTTAAAGGAGCTTTA
1 TTTATTTATTTTTCAAAAGTTGTTAAAGGAGCTTTA
*
9582391 TTTATTTATTTTTC-AAAGTTATTGTTAGATGG-GCTTTA
1 TTTATTTATTTTTCAAAAG---TTGTTA-AAGGAGCTTTA
**
9582429 TTTATTTATTTTTTTAAAGTTGTTAA
1 TTTATTTATTTTTCAAAAGTTGTTAA
9582455 GCCTCTGTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
35 5 0.09
36 20 0.35
38 25 0.44
39 7 0.12
ACGTcount: A:0.27, C:0.04, G:0.13, T:0.56
Consensus pattern (36 bp):
TTTATTTATTTTTCAAAAGTTGTTAAAGGAGCTTTA
Found at i:9582503 original size:247 final size:245
Alignment explanation
Indices: 9582069--9582614 Score: 586
Period size: 247 Copynumber: 2.2 Consensus size: 245
9582059 GATGAGCTTT
* *
9582069 ATTTATTTTTCAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTATTT-TTTTTCAAAAGTTGTTA
1 ATTTATTTTTCAAAGTTATTGAGCCTTTGCTTAAAGGAGCTTTATTTATTTTTCAAAAGTTGTTA
* * * * *
9582133 GAGGAGCTTTATTTTTTTTTTAAAGTTGTTGAGCCTATGTTTAGATGAGTCTTATTTATTTTTCA
66 AAGGAGCTTTATTTTTTTTTTAAAGTTATTGAGCATAGGCTT--ATGAGTCTTATTTATTTTTCA
* * * * * * *
9582198 AAATCATTGAGCTTCTACTTAGAGGTGCTTTATTTATTTTTCAAAGTCATTGAGCCTCTATTTAA
129 AAATCATTAAGCCTCTACTTAGAAGAGCTTCATTTATTTTTCAAAGTCATTAAGCCTCTACTTAA
* * *
9582263 ATG-AGCTTTTTTTATTTTTCAAAGTTGTTGAGCCTCTATTTAAAGGAG-TCTC
194 A-GAAGCTTTATTTATTTTTCAAAGTTGTTAAACCTCTATTTAAAGGAGAT-TC
* * *
9582315 ATTTATTTTTCAAAGTTATTAAGCCTTTGCTTATAGGAGTTTTATTTATTTTTCAAAAGTTGTTA
1 ATTTATTTTTCAAAGTTATTGAGCCTTTGCTTAAAGGAGCTTTATTTATTTTTCAAAAGTTGTTA
*
9582380 AAGGAGCTTTATTTATTTATTTTTCAAAGTTATTGTTAG-ATGGGCTT-T-A-T-TTATTTATTT
66 AAGGAGCTTTA-TT-TTT-TTTTT-AAAGTTATTG--AGCATAGGCTTATGAGTCTTATTTA-TT
* * ** ** ** *
9582440 TTTTAAAGTTGTTAAGCCTCTGTTTAGAAGAGCTTCATTTATTTTTCAAAGTTGTTAAGCCTCTG
124 TTTCAAAATCATTAAGCCTCTACTTAGAAGAGCTTCATTTATTTTTCAAAGTCATTAAGCCTCTA
* * * * *
9582505 CTTAGAGAAGCTTTATTTATTTTTTAAAGTTGTTAAACCTGTATTTAGAGGAGATTT
189 CTTAAAGAAGCTTTATTTATTTTTCAAAGTTGTTAAACCTCTATTTAAAGGAGATTC
* * * *
9582562 ATTTGTTTTTCAAAGTCATTGAGCCTTTGTTTAAATGAGCTTTATTTATTTTT
1 ATTTATTTTTCAAAGTTATTGAGCCTTTGCTTAAAGGAGCTTTATTTATTTTT
9582615 TTCAAAGTTG
Statistics
Matches: 249, Mismatches: 41, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
246 51 0.20
247 170 0.68
248 4 0.02
249 4 0.02
250 5 0.02
251 9 0.04
252 4 0.02
253 2 0.01
ACGTcount: A:0.25, C:0.10, G:0.16, T:0.49
Consensus pattern (245 bp):
ATTTATTTTTCAAAGTTATTGAGCCTTTGCTTAAAGGAGCTTTATTTATTTTTCAAAAGTTGTTA
AAGGAGCTTTATTTTTTTTTTAAAGTTATTGAGCATAGGCTTATGAGTCTTATTTATTTTTCAAA
ATCATTAAGCCTCTACTTAGAAGAGCTTCATTTATTTTTCAAAGTCATTAAGCCTCTACTTAAAG
AAGCTTTATTTATTTTTCAAAGTTGTTAAACCTCTATTTAAAGGAGATTC
Found at i:9582698 original size:46 final size:49
Alignment explanation
Indices: 9582602--9582700 Score: 114
Period size: 46 Copynumber: 2.1 Consensus size: 49
9582592 TTAAATGAGC
* *
9582602 TTTATTTATTTTTTTCAAAGTTGTTGAGCCTCTGCTTAGAAGAGCTTTA
1 TTTATTTATTTTTTTCAAAGTTGTTGAGCCTCTACTTAGAAGAGCCTTA
* * * **
9582651 TTTATTTA-TTTTTT-AAA-TTGTTGAGCTTTTATTTAGGGGAGCCTTA
1 TTTATTTATTTTTTTCAAAGTTGTTGAGCCTCTACTTAGAAGAGCCTTA
9582697 TTTA
1 TTTA
9582701 CTTTTCAAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
46 26 0.60
47 3 0.07
48 6 0.14
49 8 0.19
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (49 bp):
TTTATTTATTTTTTTCAAAGTTGTTGAGCCTCTACTTAGAAGAGCCTTA
Found at i:9582721 original size:134 final size:134
Alignment explanation
Indices: 9582454--9582790 Score: 372
Period size: 134 Copynumber: 2.6 Consensus size: 134
9582444 AAAGTTGTTA
* *
9582454 AGCCTCTGTTTAGAAGAGCTTCATTTA--TTTTTCAAAGTTGTTAAGCCTCTGCTTAG-AGAAGC
1 AGCCTCTGTTTA-AAGAGCTTTATTTATTTTTTTCAAAGTTGTTGAGCCTCTGCTTAGAAG-AGC
* **
9582516 ----TTTATTTATTTTTTAAAGTTGTTAAACCTGTATTTAGAGGAGATTTATTTGTTTTTCAAAG
64 TTTATTTATTTATTTTTTAAAGTTGTTAAACCTGTATTTAGAGGAGACTTATTTACTTTTCAAAG
9582577 TCATTG
129 TCATTG
*
9582583 AGCCTTTGTTTAAATGAGCTTTATTTATTTTTTTCAAAGTTGTTGAGCCTCTGCTTAGAAGAGCT
1 AGCCTCTGTTTAAA-GAGCTTTATTTATTTTTTTCAAAGTTGTTGAGCCTCTGCTTAGAAGAGCT
* * * * * *
9582648 TTATTTATTTATTTTTTAAA-TTGTTGAGCTTTTATTTAGGGGAGCCTTATTTACTTTTCAAAGT
65 TTATTTATTTATTTTTTAAAGTTGTTAAACCTGTATTTAGAGGAGACTTATTTACTTTTCAAAGT
9582712 CATTG
130 CATTG
* * * * * *
9582717 AGCCTGTGTTTAAGGGAGCTTT-TTTTTTTTTTTCAAAAGTCG-TGAGCCTCT-ATTTGAAGGAG
1 AGCCTCTGTTTAA-AGAGCTTTATTTATTTTTTTC-AAAGTTGTTGAGCCTCTGCTTAGAA-GAG
*
9582779 GTTTATTTATTT
63 CTTTATTTATTT
9582791 CTCAAAAGTT
Statistics
Matches: 178, Mismatches: 19, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
128 2 0.01
129 22 0.12
131 31 0.17
132 7 0.04
133 34 0.19
134 65 0.37
135 17 0.10
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.47
Consensus pattern (134 bp):
AGCCTCTGTTTAAAGAGCTTTATTTATTTTTTTCAAAGTTGTTGAGCCTCTGCTTAGAAGAGCTT
TATTTATTTATTTTTTAAAGTTGTTAAACCTGTATTTAGAGGAGACTTATTTACTTTTCAAAGTC
ATTG
Found at i:9583620 original size:44 final size:44
Alignment explanation
Indices: 9583572--9583671 Score: 148
Period size: 44 Copynumber: 2.3 Consensus size: 44
9583562 TTTCCAAAAA
* * *
9583572 TAGAAA-AAAAGAGATTTCTAAATAGACCTAAATGGTGAAAAATT
1 TAGAAATAAAAAAAATTT-TAAATAGACCTAAATGATGAAAAATT
*
9583616 TAGAAATAAAAAAAATTTTAAATTGACCTAAATGATGAAAAATT
1 TAGAAATAAAAAAAATTTTAAATAGACCTAAATGATGAAAAATT
9583660 TAGAAATAAAAA
1 TAGAAATAAAAA
9583672 TAAAAAAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 42 0.82
45 9 0.18
ACGTcount: A:0.57, C:0.05, G:0.12, T:0.26
Consensus pattern (44 bp):
TAGAAATAAAAAAAATTTTAAATAGACCTAAATGATGAAAAATT
Found at i:9587649 original size:25 final size:25
Alignment explanation
Indices: 9587615--9587666 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
9587605 TCATACCGAG
9587615 ATATCCCTACATCTATATCTGCTTT
1 ATATCCCTACATCTATATCTGCTTT
*
9587640 ATATTCCTACATCTATATCTGCTTT
1 ATATCCCTACATCTATATCTGCTTT
9587665 AT
1 AT
9587667 GTATACTCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.25, G:0.04, T:0.46
Consensus pattern (25 bp):
ATATCCCTACATCTATATCTGCTTT
Found at i:9592410 original size:15 final size:15
Alignment explanation
Indices: 9592386--9592415 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9592376 TCAATTTGAG
9592386 GAAAAATTAAAAAAA
1 GAAAAATTAAAAAAA
*
9592401 GAAAAGTTAAAAAAA
1 GAAAAATTAAAAAAA
9592416 AATTTATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (15 bp):
GAAAAATTAAAAAAA
Found at i:9605111 original size:3 final size:3
Alignment explanation
Indices: 9605097--9605151 Score: 57
Period size: 3 Copynumber: 20.0 Consensus size: 3
9605087 GCCAACAGGG
* *
9605097 TTA TTT TTA TTA TTA TTA GTA TTA TT- TTA TTA -TA TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9605142 -TA TTA -TA TTA
1 TTA TTA TTA TTA
9605152 GACTATAGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
2 10 0.23
3 33 0.77
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:9605137 original size:18 final size:19
Alignment explanation
Indices: 9605101--9605152 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
9605091 ACAGGGTTAT
9605101 TTTTATTATTATTAGTATTA
1 TTTTATTA-TATTAGTATTA
*
9605121 TTTTATTATATT-TTATTA
1 TTTTATTATATTAGTATTA
*
9605139 TTATATTATATTAG
1 TTTTATTATATTAG
9605153 ACTATAGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 16 0.57
19 4 0.14
20 8 0.29
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTTATTATATTAGTATTA
Found at i:9605139 original size:13 final size:13
Alignment explanation
Indices: 9605106--9605151 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
9605096 GTTATTTTTA
9605106 TTATTATTAGTATT
1 TTATTATTA-TATT
9605120 ATT-TTATTATATT
1 -TTATTATTATATT
9605133 TTATTATTATATT
1 TTATTATTATATT
*
9605146 ATATTA
1 TTATTA
9605152 GACTATAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 2 0.07
13 19 0.66
14 6 0.21
15 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (13 bp):
TTATTATTATATT
Found at i:9605173 original size:13 final size:13
Alignment explanation
Indices: 9605134--9605193 Score: 50
Period size: 13 Copynumber: 4.4 Consensus size: 13
9605124 TATTATATTT
* *
9605134 TATTATTATATTA
1 TATTAATATAGTA
9605147 TATTAGACTATAGTA
1 TATTA-A-TATAGTA
9605162 TATTAATATAGTA
1 TATTAATATAGTA
*
9605175 -ATATATTATAGTA
1 TAT-TAATATAGTA
9605188 CTATTA
1 -TATTA
9605194 TTATTGTTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
12 2 0.05
13 21 0.54
14 3 0.08
15 13 0.33
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (13 bp):
TATTAATATAGTA
Found at i:9605211 original size:12 final size:12
Alignment explanation
Indices: 9605194--9605225 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
9605184 AGTACTATTA
9605194 TTATTGTTGTTG
1 TTATTGTTGTTG
9605206 TTATTGTTGTTG
1 TTATTGTTGTTG
*
9605218 TTGTTGTT
1 TTATTGTT
9605226 TTCCTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.00, G:0.25, T:0.69
Consensus pattern (12 bp):
TTATTGTTGTTG
Found at i:9606095 original size:6 final size:5
Alignment explanation
Indices: 9606031--9606078 Score: 60
Period size: 5 Copynumber: 8.8 Consensus size: 5
9606021 GGTTTTTCTT
9606031 TTTTCA TTTTA TTTTTA TTTTTGA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTT-A TTTTA -TTTTA -TTTT-A TTTTA TTTTA TTTTA TTTTA TTTT
9606079 TAACCCATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
5 21 0.52
6 18 0.45
7 1 0.03
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:9606294 original size:27 final size:26
Alignment explanation
Indices: 9606264--9606325 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
9606254 TTTAAATGAG
9606264 TTTTCAAAAATGTATAAAAA-AAAAATC-
1 TTTTCAAAAA--TA-AAAAATAAAAATCT
*
9606291 TTTTCAGTAAATAAAAAATAAAAATCT
1 TTTTCA-AAAATAAAAAATAAAAATCT
9606318 TTTTCAAA
1 TTTTCAAA
9606326 TAGAAATCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
25 5 0.17
26 10 0.33
27 12 0.40
28 3 0.10
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (26 bp):
TTTTCAAAAATAAAAAATAAAAATCT
Found at i:9609976 original size:12 final size:13
Alignment explanation
Indices: 9609959--9609990 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
9609949 CAACATCCAC
9609959 AAAGAAAAAA-AA
1 AAAGAAAAAAGAA
9609971 AAAGAAAAAAGAA
1 AAAGAAAAAAGAA
9609984 AAA-AAAA
1 AAAGAAAA
9609991 TTGATAGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAGAA
Found at i:9609992 original size:60 final size:64
Alignment explanation
Indices: 9609914--9610073 Score: 161
Period size: 60 Copynumber: 2.5 Consensus size: 64
9609904 TTTGACAAAT
* * * *
9609914 GAAAAATGAAAGAGAAATTAATGGGCGCAAAATGCCAACAT-C-CA-C-AAAGA-AAAAAAAAAA
1 GAAAAAAGAAAAAAAAATTAATAGG-GCAAAATGCCAACATACTCACCTAAAGAGAAAAAAAAAA
* * *
9609974 GAAAAAAGAAAAAAAAATTGATAGGGCAAAATGCCAATATACTTCACCTAAAGAGAAAAAGAAAA
1 GAAAAAAGAAAAAAAAATTAATAGGGCAAAATGCCAACATAC-TCACCTAAAGAGAAAAAAAAAA
*
9610039 CAAAAGAAGAAAAAGAAAATTAATTA-GGCAAAATG
1 GAAAA-AAGAAAAA-AAAATTAA-TAGGGCAAAATG
9610074 TCAAAGTGCC
Statistics
Matches: 82, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
59 14 0.17
60 21 0.26
62 2 0.02
63 1 0.01
64 5 0.06
65 13 0.16
66 8 0.10
67 16 0.20
68 2 0.02
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (64 bp):
GAAAAAAGAAAAAAAAATTAATAGGGCAAAATGCCAACATACTCACCTAAAGAGAAAAAAAAAA
Found at i:9610009 original size:59 final size:66
Alignment explanation
Indices: 9609922--9610073 Score: 158
Period size: 67 Copynumber: 2.4 Consensus size: 66
9609912 ATGAAAAATG
** *
9609922 AAAGAGAAATTAATGGGCGCAAAATGCCAACAT-C-CA-C-AAAGA-AAAAAAAAAAGAAAA-AA
1 AAAGA-AAATTAATTAG-GCAAAATGCCAACATACTCACCTAAAGAGAAAAAAAAAACAAAAGAA
9609981 GAA
64 GAA
* * *
9609984 AAA-AAAATTGA-TAGGGCAAAATGCCAATATACTTCACCTAAAGAGAAAAAGAAAACAAAAGAA
1 AAAGAAAATTAATTA-GGCAAAATGCCAACATAC-TCACCTAAAGAGAAAAAAAAAACAAAAGAA
9610047 GAA
64 GAA
9610050 AAAGAAAATTAATTAGGCAAAATG
1 AAAGAAAATTAATTAGGCAAAATG
9610074 TCAAAGTGCC
Statistics
Matches: 73, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
59 14 0.19
60 8 0.11
61 1 0.01
62 5 0.07
63 1 0.01
64 5 0.07
65 13 0.18
66 8 0.11
67 16 0.22
68 2 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (66 bp):
AAAGAAAATTAATTAGGCAAAATGCCAACATACTCACCTAAAGAGAAAAAAAAAACAAAAGAAGA
A
Found at i:9610333 original size:10 final size:10
Alignment explanation
Indices: 9610320--9610382 Score: 54
Period size: 10 Copynumber: 5.7 Consensus size: 10
9610310 GAAAAGGTGT
9610320 AAAAAAAGAA
1 AAAAAAAGAA
9610330 AAAAAAAGCAA
1 AAAAAAAG-AA
*
9610341 AAAACAAAAAA
1 AAAA-AAAGAA
*
9610352 ACACAATAAACAAA
1 A-A-AA-AAA-GAA
9610366 AAAAAAAGAA
1 AAAAAAAGAA
9610376 AAAAAAA
1 AAAAAAA
9610383 TTTAAACTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
10 17 0.38
11 12 0.27
12 6 0.13
13 6 0.13
14 4 0.09
ACGTcount: A:0.86, C:0.08, G:0.05, T:0.02
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:9610342 original size:17 final size:16
Alignment explanation
Indices: 9610322--9610382 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 16
9610312 AAAGGTGTAA
9610322 AAAAAGAAAAAAAAAGC
1 AAAAAGAAAAAAAAA-C
*
9610339 AAAAA-ACAAAAAAAC
1 AAAAAGAAAAAAAAAC
* * *
9610354 -ACAATAAACAAAAA-
1 AAAAAGAAAAAAAAAC
9610368 AAAAAGAAAAAAAAA
1 AAAAAGAAAAAAAAA
9610383 TTTAAACTGA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
14 3 0.09
15 19 0.54
16 8 0.23
17 5 0.14
ACGTcount: A:0.85, C:0.08, G:0.05, T:0.02
Consensus pattern (16 bp):
AAAAAGAAAAAAAAAC
Found at i:9611458 original size:86 final size:86
Alignment explanation
Indices: 9611256--9611511 Score: 282
Period size: 86 Copynumber: 3.0 Consensus size: 86
9611246 ATCTGAATGT
* * *
9611256 TCTTTGTGAATATAGAACCTTTGTGAAACTTGGAGTC-TATCGAATCTTTCTTTTTTACAAACCT
1 TCTTTGTGAATCTAGAACCTTTGTGAAACTTGGAGTCTTAT-GAATCTTTCTTTCTTACGAACCT
** *
9611320 GAAAAATCCTTGTGAATCTTGCA
65 G-AAAATCCTTACGAATCTTACA
* *** * *
9611343 TCTTTATGAATCTAGAACCTTTACAAAACTTAGAGTCTTATGAATCTTTCTTTCTTATGAACCTG
1 TCTTTGTGAATCTAGAACCTTTGTGAAACTTGGAGTCTTATGAATCTTTCTTTCTTACGAACCTG
*
9611408 TAAATCCTTACGAATCTTACA
66 AAAATCCTTACGAATCTTACA
* * * * *
9611429 TCTTTGCGAATCTAAAACATTTGTGAAACTTGGAGTCTTGCT-AATCTTTCTTTCTTGCGAACCT
1 TCTTTGTGAATCTAGAACCTTTGTGAAACTTGGAGTCTT-ATGAATCTTTCTTTCTTACGAACCT
* **
9611493 AAAAATTATTACGAATCTT
65 GAAAATCCTTACGAATCTT
9611512 GTATTTTTGT
Statistics
Matches: 139, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
86 83 0.60
87 53 0.38
88 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (86 bp):
TCTTTGTGAATCTAGAACCTTTGTGAAACTTGGAGTCTTATGAATCTTTCTTTCTTACGAACCTG
AAAATCCTTACGAATCTTACA
Found at i:9612066 original size:13 final size:13
Alignment explanation
Indices: 9612048--9612083 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
9612038 TTATTATTAG
*
9612048 TATTATTTTATCA
1 TATTATATTATCA
*
9612061 TATTATATTATTA
1 TATTATATTATCA
9612074 TATTATATTA
1 TATTATATTA
9612084 GAGTATAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTATATTATCA
Found at i:9612105 original size:13 final size:13
Alignment explanation
Indices: 9612064--9612120 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
9612054 TTTATCATAT
* *
9612064 TATATTATTATAT
1 TATATTAATATAG
9612077 TATATTAGAGTATAG
1 TATATTA-A-TATAG
9612092 TATATTAATATAG
1 TATATTAATATAG
*
9612105 TA-ATATATTATAG
1 TATAT-TAATATAG
9612118 TAT
1 TAT
9612121 TATTTTTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
12 2 0.05
13 23 0.62
14 1 0.03
15 11 0.30
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (13 bp):
TATATTAATATAG
Found at i:9612974 original size:22 final size:22
Alignment explanation
Indices: 9612942--9612989 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
9612932 ATTGTAAGTT
*
9612942 TTTTTTTTTTCAATTTT-TTTTA
1 TTTTTTATTTC-ATTTTATTTTA
9612964 TTTTTTATTTCATTTTATTTTA
1 TTTTTTATTTCATTTTATTTTA
9612986 TTTT
1 TTTT
9612990 ATTTTTAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTTTATTTCATTTTATTTTA
Found at i:9612978 original size:12 final size:11
Alignment explanation
Indices: 9612943--9612995 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
9612933 TTGTAAGTTT
9612943 TTTTTTTTTCA
1 TTTTTTTTTCA
*
9612954 ATTTTTTTT-A
1 TTTTTTTTTCA
9612964 TTTTTTATTTCA
1 TTTTTT-TTTCA
*
9612976 TTTTATTTT-A
1 TTTTTTTTTCA
9612986 TTTTATTTTT
1 TTTT-TTTTT
9612996 AACCCATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 11 0.31
11 18 0.51
12 6 0.17
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTTTTTCA
Found at i:9612983 original size:26 final size:26
Alignment explanation
Indices: 9612954--9613019 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
9612944 TTTTTTTTCA
***
9612954 ATTTTTTTTATTTTTTATTTCATTTT
1 ATTTTTTTTATTTTTTAACCCATTTT
9612980 ATTTTATTTTA-TTTTTAACCCATTTT
1 ATTTT-TTTTATTTTTTAACCCATTTT
*
9613006 ATTTTTTATATTTT
1 ATTTTTTTTATTTT
9613020 ACATTATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 4 0.12
26 25 0.74
27 5 0.15
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (26 bp):
ATTTTTTTTATTTTTTAACCCATTTT
Found at i:9613130 original size:2 final size:2
Alignment explanation
Indices: 9613125--9613155 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9613115 ATCTTTTCAA
9613125 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9613156 AACCCTTTTC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9613229 original size:26 final size:26
Alignment explanation
Indices: 9613200--9613259 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
9613190 TTCAAATGGG
* *
9613200 TTTTCAAAAATGTATAAA-AAAAATCT
1 TTTTCAAAAAT-AAAAAATAAAAATCT
9613226 TTTT-AATAAATAAAAAATAAAAATCT
1 TTTTCAA-AAATAAAAAATAAAAATCT
9613252 TTTTCAAA
1 TTTTCAAA
9613260 TAGAAATCCC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
25 6 0.21
26 21 0.72
27 2 0.07
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.37
Consensus pattern (26 bp):
TTTTCAAAAATAAAAAATAAAAATCT
Found at i:9614044 original size:21 final size:21
Alignment explanation
Indices: 9614020--9614059 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9614010 TTCCTCCATA
*
9614020 TCTTCATTTTTTTCATCATTT
1 TCTTCATCTTTTTCATCATTT
*
9614041 TCTTTATCTTTTTCATCAT
1 TCTTCATCTTTTTCATCAT
9614060 CTTATTCTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.20, G:0.00, T:0.65
Consensus pattern (21 bp):
TCTTCATCTTTTTCATCATTT
Found at i:9614059 original size:24 final size:24
Alignment explanation
Indices: 9614032--9614086 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
9614022 TTCATTTTTT
* *
9614032 TCATCATT-TTCTTTATCTTTTTCA
1 TCATC-TTATTCTGTATCTTCTTCA
9614056 TCATCTTATTCTGTATCTTCTTCA
1 TCATCTTATTCTGTATCTTCTTCA
*
9614080 TCTTCTT
1 TCATCTT
9614087 CCTTGTCACC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 2 0.07
24 25 0.93
ACGTcount: A:0.15, C:0.24, G:0.02, T:0.60
Consensus pattern (24 bp):
TCATCTTATTCTGTATCTTCTTCA
Found at i:9617660 original size:3 final size:3
Alignment explanation
Indices: 9617652--9617686 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
9617642 TTCATTTATG
9617652 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9617687 TATGCAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9617735 original size:3 final size:3
Alignment explanation
Indices: 9617727--9617761 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
9617717 TTTCACATCA
9617727 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9617762 CATAAATGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9618329 original size:15 final size:16
Alignment explanation
Indices: 9618309--9618339 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9618299 ACGAGTAATG
9618309 AAAAAT-AGTAATATA
1 AAAAATAAGTAATATA
9618324 AAAAATAAGTAATATA
1 AAAAATAAGTAATATA
9618340 TATTTTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (16 bp):
AAAAATAAGTAATATA
Found at i:9619517 original size:3 final size:3
Alignment explanation
Indices: 9619446--9619502 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
9619436 TTTAATTTTT
9619446 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
9619494 TAA TGA TAA
1 TAA TAA TAA
9619503 CAACAACGAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9621675 original size:15 final size:15
Alignment explanation
Indices: 9621651--9621680 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9621641 AACTTGAAAT
9621651 GGAAAAAAAATTTAA
1 GGAAAAAAAATTTAA
*
9621666 GGAAAGAAAATTTAA
1 GGAAAAAAAATTTAA
9621681 AACTCTAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (15 bp):
GGAAAAAAAATTTAA
Found at i:9631154 original size:34 final size:34
Alignment explanation
Indices: 9631013--9631185 Score: 148
Period size: 34 Copynumber: 5.0 Consensus size: 34
9631003 TTAGGCATTT
* * * *
9631013 TCATCTTTATTTTCTGGCTTACGGCTTTGTCCTAA
1 TCATCTTTATTTT-TGGTTTGCGACTTTGTCCTAG
* ** * *
9631048 TCATTTTTATTTTTTGACTTGCGATTTTGTCCTGG
1 TCATCTTTA-TTTTTGGTTTGCGACTTTGTCCTAG
* * * * *
9631083 TCATCCTTATTTTTGGTTTGTGGCTTCGTCCAAG
1 TCATCTTTATTTTTGGTTTGCGACTTTGTCCTAG
* * *
9631117 TCATCGTTATTTTTGGTTTACGACTTTGTCCTGG
1 TCATCTTTATTTTTGGTTTGCGACTTTGTCCTAG
* **
9631151 TCATCTTTATTTCTAATTTGCGACTTTGTCCTAG
1 TCATCTTTATTTTTGGTTTGCGACTTTGTCCTAG
9631185 T
1 T
9631186 TATTCTTGTT
Statistics
Matches: 107, Mismatches: 30, Indels: 3
0.76 0.21 0.02
Matches are distributed among these distances:
34 73 0.68
35 30 0.28
36 4 0.04
ACGTcount: A:0.13, C:0.19, G:0.17, T:0.51
Consensus pattern (34 bp):
TCATCTTTATTTTTGGTTTGCGACTTTGTCCTAG
Found at i:9631222 original size:102 final size:103
Alignment explanation
Indices: 9631013--9631232 Score: 237
Period size: 102 Copynumber: 2.1 Consensus size: 103
9631003 TTAGGCATTT
* * * * *
9631013 TCATCTTTATTTTCTGGCTTACGGCTTTGTCCTAATCATTTTTATTTTTTGACTTGCGATTTTGT
1 TCATCTTTATTTT-TGGCTTACGACTTTGTCCTAATCATCTTTATTTTCTAACTTGCGACTTTGT
* * ** *
9631078 CCTGGTCATCCTTATTTTTGGTTTGTGGCTTCGTCCAAG
65 CCTAGTCATCCTTATTCTTGACTTGTGGCTTCATCCAAG
* * ** *
9631117 TCATCGTTATTTTTGGTTTACGACTTTGTCCTGGTCATCTTTA-TTTCTAATTTGCGACTTTGTC
1 TCATCTTTATTTTTGGCTTACGACTTTGTCCTAATCATCTTTATTTTCTAACTTGCGACTTTGTC
* * * *
9631181 CTAGTTATTCTTGTTCTTGACTTGTGGCTTCATCTC-GG
66 CTAGTCATCCTTATTCTTGACTTGTGGCTTCATC-CAAG
9631219 TCATCTTTATTTTT
1 TCATCTTTATTTTT
9631233 TGACTTGCGG
Statistics
Matches: 95, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
102 57 0.60
103 26 0.27
104 12 0.13
ACGTcount: A:0.13, C:0.19, G:0.16, T:0.52
Consensus pattern (103 bp):
TCATCTTTATTTTTGGCTTACGACTTTGTCCTAATCATCTTTATTTTCTAACTTGCGACTTTGTC
CTAGTCATCCTTATTCTTGACTTGTGGCTTCATCCAAG
Found at i:9631251 original size:35 final size:35
Alignment explanation
Indices: 9631197--9631265 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
9631187 ATTCTTGTTC
*
9631197 TTGACTTGTGGCTTCATCTCGGTCATCTTTATTTT
1 TTGACTTGCGGCTTCATCTCGGTCATCTTTATTTT
* *
9631232 TTGACTTGCGGC-TCTATCTCGTTCATTTTTATTT
1 TTGACTTGCGGCTTC-ATCTCGGTCATCTTTATTT
9631266 CTGAATTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 2 0.07
35 28 0.93
ACGTcount: A:0.12, C:0.20, G:0.16, T:0.52
Consensus pattern (35 bp):
TTGACTTGCGGCTTCATCTCGGTCATCTTTATTTT
Found at i:9631436 original size:35 final size:35
Alignment explanation
Indices: 9631013--9631437 Score: 129
Period size: 34 Copynumber: 12.4 Consensus size: 35
9631003 TTAGGCATTT
* * * * * *
9631013 TCATCTTTATTTTCTGGCTTACGGCTTTGTCCTAA
1 TCATCTTTATTTTTTGACTTGCGACTTTGTCCCAG
* * **
9631048 TCATTTTTATTTTTTGACTTGCGATTTTGTCCTGG
1 TCATCTTTATTTTTTGACTTGCGACTTTGTCCCAG
* ** * * * *
9631083 TCATCCTTA-TTTTTGGTTTGTGGCTTCGTCCAAG
1 TCATCTTTATTTTTTGACTTGCGACTTTGTCCCAG
* ** * **
9631117 TCATCGTTA-TTTTTGGTTTACGACTTTGTCCTGG
1 TCATCTTTATTTTTTGACTTGCGACTTTGTCCCAG
* * * *
9631151 TCATCTTTA-TTTCTAATTTGCGACTTTGTCCTAG
1 TCATCTTTATTTTTTGACTTGCGACTTTGTCCCAG
* * * * * ** * *
9631185 TTAT-TCTT-GTTCTTGACTTGTGGCTTCATCTCGG
1 TCATCT-TTATTTTTTGACTTGCGACTTTGTCCCAG
* * * *
9631219 TCATCTTTATTTTTTGACTTGCGGCTCTATCTC-G
1 TCATCTTTATTTTTTGACTTGCGACTTTGTCCCAG
* * * * * * *
9631253 TTCATTTTTA-TTTCTGAATTGTGACTTCGTTCCAA
1 -TCATCTTTATTTTTTGACTTGCGACTTTGTCCCAG
* * * * * *
9631288 TCATCTTTATTTTCTAACTTACAACTTTTTCCCGG
1 TCATCTTTATTTTTTGACTTGCGACTTTGTCCCAG
* * ** * *
9631323 TCATCTTTA-TTTTTGACTTACAACTTCATTCCAA
1 TCATCTTTATTTTTTGACTTGCGACTTTGTCCCAG
* * * **
9631357 TCATCCTTATTTTCT-AGCTTGCGA-TGT-TCTGA-
1 TCATCTTTATTTTTTGA-CTTGCGACTTTGTCCCAG
* *
9631389 TTAT-TCTTATTTTTTGACTTGCGACTTTATCCCAG
1 TCATCT-TTATTTTTTGACTTGCGACTTTGTCCCAG
9631424 TCATCTTTATTTTT
1 TCATCTTTATTTTT
9631438 AACTTGTGGC
Statistics
Matches: 281, Mismatches: 94, Indels: 30
0.69 0.23 0.07
Matches are distributed among these distances:
32 18 0.06
33 6 0.02
34 150 0.53
35 106 0.38
36 1 0.00
ACGTcount: A:0.16, C:0.20, G:0.13, T:0.51
Consensus pattern (35 bp):
TCATCTTTATTTTTTGACTTGCGACTTTGTCCCAG
Found at i:9631462 original size:34 final size:34
Alignment explanation
Indices: 9631424--9631514 Score: 92
Period size: 35 Copynumber: 2.6 Consensus size: 34
9631414 TTTATCCCAG
***
9631424 TCATCTTTATTTTTAACTTGTGGCATCATCTTGA
1 TCATCTTTATTTTTAACTTGCAACATCATCTTGA
* * *
9631458 TCATCGTTATTTTTTTACTTGCAACTTCATCTTGA
1 TCATCTTTA-TTTTTAACTTGCAACATCATCTTGA
* *
9631493 TCATTTTTATTTTCTGACTTGC
1 TCATCTTTATTTT-TAACTTGC
9631515 TGATTTATCA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
34 12 0.26
35 34 0.74
ACGTcount: A:0.19, C:0.19, G:0.10, T:0.53
Consensus pattern (34 bp):
TCATCTTTATTTTTAACTTGCAACATCATCTTGA
Found at i:9632875 original size:60 final size:56
Alignment explanation
Indices: 9632818--9633156 Score: 265
Period size: 60 Copynumber: 5.8 Consensus size: 56
9632808 ACTTGAAAAT
* * *
9632818 TTTTTATTTTCTAAGAAAAATTGATACTTTTAACTTTTTCTCAAAATATTTTTTGAAA
1 TTTTTATTTT-TAAGAAAAATTGATACTTTCAAC-TTTCCTAAAAATATTTTTTGAAA
* * *
9632876 TTTTTATTTTTAAGGAAAATTGATAC-TTCAACTTTCCT-TAAATCCATCTTTTGAAA
1 TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTCCTAAAAAT--ATTTTTTGAAA
* * * * *
9632932 TATTCATTTTCAAG-GAAATTAATACTTTCAACTTTTCCTCAAAAAAAATATTTTTTGAAA
1 TTTTTATTTTTAAGAAAAATTGATACTTTCAAC-TTTCCT----AAAAATATTTTTTGAAA
* * * *
9632992 ATTTCATTTTTAAGGAAAATTGATAC-TTCAACTTTTCTTAAAAATATTTTTTTTTGAAA
1 TTTTTATTTTTAAGAAAAATTGATACTTTCAAC-TTTCCTAAAAATA---TTTTTTGAAA
* * * * *
9633051 TTTTTATCTTTAAAAAAAATTTATAGTTTCAACATTTCCTTAAACAAATATTTTTTGTAA
1 TTTTTATTTTTAAGAAAAATTGATACTTTCAAC-TTTCC-T-AA-AAATATTTTTTGAAA
* *
9633111 TTTTTATTTTCAAGAAAAAATTGATA-ATTCAACCTTTCCTTAAAAA
1 TTTTTATTTTTAAG-AAAAATTGATACTTTCAA-CTTTCC-TAAAAA
9633157 AAATCTCTTT
Statistics
Matches: 229, Mismatches: 33, Indels: 38
0.76 0.11 0.13
Matches are distributed among these distances:
54 4 0.02
55 14 0.06
56 39 0.17
57 21 0.09
58 13 0.06
59 31 0.14
60 75 0.33
61 21 0.09
62 6 0.03
63 5 0.02
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (56 bp):
TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTCCTAAAAATATTTTTTGAAA
Found at i:9633014 original size:116 final size:117
Alignment explanation
Indices: 9632860--9633154 Score: 342
Period size: 116 Copynumber: 2.5 Consensus size: 117
9632850 ACTTTTTCTC
9632860 AAAATATTTTTTGAAATTTTTATTTTTAAGGAAAATTGATACTTCAACTTTCCTTAAAT-CCATC
1 AAAATATTTTTTGAAATTTTTATTTTTAAGGAAAATTGATACTTCAACTTTCCTTAAATACCATC
* ** *
9632924 TTTTGAAATATTCAT-TTTCAAGGAAATTAATACTTTCAACTTTTCCTCAAAA
66 TTTTGAAATATTCATCTTTAAAAAAAATTAATACTTTCAACATTTCCT-AAAA
* * * ***
9632976 AAAATATTTTTTGAAAATTTCATTTTTAAGGAAAATTGATACTTCAACTTTTCTTAAAAATATTT
1 AAAATATTTTTTGAAATTTTTATTTTTAAGGAAAATTGATACTTCAACTTTCCTT--AAATACCA
* * * * * *
9633041 TTTTTTGAAATTTTTATCTTTAAAAAAAATTTATAGTTTCAACATTTCCTTAAA
64 TCTTTTGAAATATTCATCTTTAAAAAAAATTAATACTTTCAACATTTCCTAAAA
* * * * *
9633095 CAAATATTTTTTGTAATTTTTATTTTCAAGAAAAAATTGATAATTCAACCTTTCCTTAAA
1 AAAATATTTTTTGAAATTTTTATTTTTAAG-GAAAATTGATACTTCAA-CTTTCCTTAAA
9633155 AAAAATCTCT
Statistics
Matches: 149, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
116 52 0.35
118 4 0.03
119 45 0.30
120 41 0.28
121 7 0.05
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (117 bp):
AAAATATTTTTTGAAATTTTTATTTTTAAGGAAAATTGATACTTCAACTTTCCTTAAATACCATC
TTTTGAAATATTCATCTTTAAAAAAAATTAATACTTTCAACATTTCCTAAAA
Found at i:9635048 original size:20 final size:20
Alignment explanation
Indices: 9635011--9635048 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9635001 TTTCAATTTA
*
9635011 AAATAAGAAATAATAAAAGT
1 AAATAAGAAATAACAAAAGT
9635031 AAATAA-AAATAAACAAAA
1 AAATAAGAAAT-AACAAAA
9635049 TAAGAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (20 bp):
AAATAAGAAATAACAAAAGT
Found at i:9635057 original size:19 final size:19
Alignment explanation
Indices: 9635035--9635075 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
9635025 AAAAGTAAAT
9635035 AAAAATA-AA-CAAAATAAG
1 AAAAATAGAATCAAAAT-AG
9635053 AAAAATAGAATCAAAATAG
1 AAAAATAGAATCAAAATAG
9635072 AAAA
1 AAAA
9635076 TGAAATGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.33
19 8 0.38
20 6 0.29
ACGTcount: A:0.76, C:0.05, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAAATAGAATCAAAATAG
Found at i:9635671 original size:52 final size:50
Alignment explanation
Indices: 9635554--9635698 Score: 155
Period size: 52 Copynumber: 2.8 Consensus size: 50
9635544 TTGATTTCCG
* * **
9635554 TTTTAATGAGAATTGATTTTGAAATTAAATCCCAAAATCTCTCCTTATCA
1 TTTTAATGAGAATTGATTATAAAATTAAATCCCAAAATCTCTCCACATCA
* * * *
9635604 ATTTAATGTGAATTGATTATAAAATTAAATCTCGACAATCTCTCCACATCA
1 TTTTAATGAGAATTGATTATAAAATTAAATC-CCAAAATCTCTCCACATCA
** * *
9635655 TTTTTAATGCCAATTGATTCTAGAATTAAATCCCAAAAATCTCT
1 -TTTTAATGAGAATTGATTATAAAATTAAATCCC-AAAATCTCT
9635699 TAATTACAAT
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
50 27 0.35
51 16 0.21
52 34 0.44
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (50 bp):
TTTTAATGAGAATTGATTATAAAATTAAATCCCAAAATCTCTCCACATCA
Found at i:9636405 original size:116 final size:116
Alignment explanation
Indices: 9635927--9636502 Score: 464
Period size: 116 Copynumber: 5.0 Consensus size: 116
9635917 AATAACTAGG
* * * * * * *
9635927 ATGAAACCACAAGTCATAAGAAATGACCTGGACTAAGTCAAGATAAGGTGACTGGGATAAAATCA
1 ATGAAATCACAAATCAT-A-AAATGATCTGGACTAAGCCAAGATCAGGTGACTGGGATGAAACCA
* * * * *
9635992 CGAGTCAAAAATGAAGTGACCAAGACTGAGTCAAGGTCGAGAATGACAA-G--GAC
64 TGAGTCAAAAATGAAGTGACCAAGATTGAGTCAAGATC-AAAAT-A-AATGACGAA
** * * * * * *
9636045 A--AAATCATGAATCATAAAATGATTTGGATTGAGCCAAGATTAGGTGA-TCGGGATAAAATCAT
1 ATGAAATCACAAATCATAAAATGATCTGGACTAAGCCAAGATCAGGTGACT-GGGATGAAACCAT
*
9636107 GAGTCAAAAAATGAAGTGA-TAAGATTGAG----G-TCAAAATAAATGATCGAA
65 GAGTC-AAAAATGAAGTGACCAAGATTGAGTCAAGATCAAAATAAATGA-CGAA
* * * * * * * ** **
9636155 ATGAAACCATAAATCCTAAAATAATCTGGACTGATCGAAGATTTGGTGA-TCGAAATGAAACCAT
1 ATGAAATCACAAATCATAAAATGATCTGGACTAAGCCAAGATCAGGTGACT-GGGATGAAACCAT
* * * **
9636219 GAGTCAAAATATGAAGTGATCAGGATTAAGTCAA-AGTCAAAATAAATGACTGGG
65 GAGTCAAAA-ATGAAGTGACCAAGATTGAGTCAAGA-TCAAAATAAATGAC-GAA
* * *
9636273 ATGAAATCACAAATCATAAAATGATTTAGACTAAGCCAAGATCATGTGACTGGGATGAAACCATG
1 ATGAAATCACAAATCATAAAATGATCTGGACTAAGCCAAGATCAGGTGACTGGGATGAAACCATG
* *
9636338 AGTC-AAAATGAAGTGACCAAGATTGAGTCGAGATCGAAATAAATGATCGAA
66 AGTCAAAAATGAAGTGACCAAGATTGAGTCAAGATCAAAATAAATGA-CGAA
* * **
9636389 ATGAAATCACGAATCATAAAATGATCTGGACTAAGCCAAGATCAAGTGACTGGGATGAAACCACA
1 ATGAAATCACAAATCATAAAATGATCTGGACTAAGCCAAGATCAGGTGACTGGGATGAAACCATG
* * *
9636454 AGTC-AAAATGAAATGACCAAGATCGAGTCAAGATAAAAAAATAAATGAC
66 AGTCAAAAATGAAGTGACCAAGATTGAGTCAAGAT--CAAAATAAATGAC
9636503 TGGGACGAAA
Statistics
Matches: 371, Mismatches: 65, Indels: 45
0.77 0.14 0.09
Matches are distributed among these distances:
106 2 0.01
107 2 0.01
108 4 0.01
109 2 0.01
110 4 0.01
111 4 0.01
112 62 0.17
113 8 0.02
114 50 0.13
115 14 0.04
116 133 0.36
117 7 0.02
118 78 0.21
119 1 0.00
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (116 bp):
ATGAAATCACAAATCATAAAATGATCTGGACTAAGCCAAGATCAGGTGACTGGGATGAAACCATG
AGTCAAAAATGAAGTGACCAAGATTGAGTCAAGATCAAAATAAATGACGAA
Found at i:9636460 original size:234 final size:225
Alignment explanation
Indices: 9635927--9636475 Score: 525
Period size: 234 Copynumber: 2.4 Consensus size: 225
9635917 AATAACTAGG
* * * * *
9635927 ATGAAACCACAAGTCATAAGAAATGACCTGGACTAAGTCAAGATAAGGTGACTGGGATAAAATCA
1 ATGAAACCACAAATCAT-A-AAATGATCTGGACTAAGCCAAGATAA-GTGACTGGGATGAAACCA
* * * * **
9635992 CGAGTCAAAA-ATGAAGTGACCAAGACTGAGTCAAGGTCGAGAATGACAAGGACAAAATCATGAA
63 CGAGTCAAAATATGAAGTGACCAAGACTAAGTCAAAGTCAAAAATGACAAGGACAAAATCACAAA
* * * * *
9636056 TCATAAAATGATTTGGATTGAGCCAAGATTAGGTGATCGGGATAAAATCATGAGTCAAAAAATGA
128 TCATAAAATGATTTAGACTAAGCCAAGATCAGGTGATCGGGATAAAACCATGAGTC-AAAAATGA
*
9636121 AGTGATAAGATTGAGGTCAAAATAAATGATCGAA
192 AGTGACAAGATTGAGGTCAAAATAAATGATCGAA
* * * * * * ** ** *
9636155 ATGAAACCATAAATCCTAAAATAATCTGGACTGATCGAAGATTTGGTGA-TCGAAATGAAACCAT
1 ATGAAACCACAAATCATAAAATGATCTGGACTAAGCCAAGA-TAAGTGACT-GGGATGAAACCAC
* * * ** **
9636219 GAGTCAAAATATGAAGTGATCAGGATTAAGTCAAAGTCAAAATAAATGACTGGGATGAAATCACA
64 GAGTCAAAATATGAAGTGACCAAGACTAAGTCAAAGTC--AA-AAATGACAAGGACAAAATCACA
* *
9636284 AATCATAAAATGATTTAGACTAAGCCAAGATCATGTGA-CTGGGATGAAACCATGAGTC-AAAAT
126 AATCATAAAATGATTTAGACTAAGCCAAGATCAGGTGATC-GGGATAAAACCATGAGTCAAAAAT
*
9636347 GAAGTGACCAAGATTGAGTCGAGATCGAAATAAATGATCGAA
190 GAAGTGA-CAAGATTGA---G-G-TCAAAATAAATGATCGAA
* * *
9636389 ATGAAATCACGAATCATAAAATGATCTGGACTAAGCCAAGATCAAGTGACTGGGATGAAACCACA
1 ATGAAACCACAAATCATAAAATGATCTGGACTAAGCCAAGAT-AAGTGACTGGGATGAAACCACG
*
9636454 AGTC-AAA-ATGAAATGACCAAGA
65 AGTCAAAATATGAAGTGACCAAGA
9636476 TCGAGTCAAG
Statistics
Matches: 251, Mismatches: 55, Indels: 26
0.76 0.17 0.08
Matches are distributed among these distances:
225 1 0.00
226 38 0.15
227 25 0.10
228 26 0.10
229 10 0.04
230 64 0.25
232 13 0.05
233 5 0.02
234 68 0.27
235 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.21
Consensus pattern (225 bp):
ATGAAACCACAAATCATAAAATGATCTGGACTAAGCCAAGATAAGTGACTGGGATGAAACCACGA
GTCAAAATATGAAGTGACCAAGACTAAGTCAAAGTCAAAAATGACAAGGACAAAATCACAAATCA
TAAAATGATTTAGACTAAGCCAAGATCAGGTGATCGGGATAAAACCATGAGTCAAAAATGAAGTG
ACAAGATTGAGGTCAAAATAAATGATCGAA
Found at i:9636540 original size:64 final size:63
Alignment explanation
Indices: 9636435--9636579 Score: 202
Period size: 64 Copynumber: 2.3 Consensus size: 63
9636425 CAAGATCAAG
* *
9636435 TGACTGGGATGAAACCACAAGTCAAAATGAAATGACCAAGATCGAGTCAAGATAAAAAAATAAA
1 TGACTGGGACGAAACCATAAGTCAAAATGAAATGACCAAGATCGAGTCAAGAT-AAAAAATAAA
* * * *
9636499 TGACTGGGACGAAACCATAAGTCAAAATGAAGTGACTAAGATTGAGTCAAGGTAAAAAATAAA
1 TGACTGGGACGAAACCATAAGTCAAAATGAAATGACCAAGATCGAGTCAAGATAAAAAATAAA
*
9636562 TGA-TCAGGACGAAACCAT
1 TGACT-GGGACGAAACCAT
9636580 GATTCATAAG
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
62 1 0.01
63 25 0.34
64 47 0.64
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.17
Consensus pattern (63 bp):
TGACTGGGACGAAACCATAAGTCAAAATGAAATGACCAAGATCGAGTCAAGATAAAAAATAAA
Found at i:9636953 original size:18 final size:18
Alignment explanation
Indices: 9636930--9636978 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
9636920 CAAAGATACA
*
9636930 AGGTTCGTAAGAATTTTT
1 AGGTTCGTAAGAATTTTC
9636948 AGGTTCGTAAGAATTTTC
1 AGGTTCGTAAGAATTTTC
*
9636966 AGGTTTGTAAGAA
1 AGGTTCGTAAGAA
9636979 ATATTCACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.31, C:0.06, G:0.24, T:0.39
Consensus pattern (18 bp):
AGGTTCGTAAGAATTTTC
Found at i:9638058 original size:25 final size:22
Alignment explanation
Indices: 9638029--9638091 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
9638019 TGTCTCTTTC
9638029 ATTCTTTTTGCTTTTTTTTTTGT
1 ATTCTTTTTGCTTTTTTTTTT-T
9638052 AATT-TCTTTTG-TTTTTTTTTTT
1 -ATTCT-TTTTGCTTTTTTTTTTT
*
9638074 A-TCTTTTTTCTTTTTTTT
1 ATTCTTTTTGCTTTTTTTT
9638092 CCATCTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
20 5 0.14
21 10 0.29
22 1 0.03
23 11 0.31
24 8 0.23
ACGTcount: A:0.06, C:0.08, G:0.05, T:0.81
Consensus pattern (22 bp):
ATTCTTTTTGCTTTTTTTTTTT
Found at i:9638081 original size:20 final size:19
Alignment explanation
Indices: 9638056--9638131 Score: 64
Period size: 20 Copynumber: 3.9 Consensus size: 19
9638046 TTTTGTAATT
*
9638056 TCTTTTGTTTTTTTTTTTA
1 TCTTTTTTTTTTTTTTTTA
**
9638075 TCTTTTTTCTTTTTTTTCCA
1 TCTTTTTT-TTTTTTTTTTA
**
9638095 TCTTTTTTCATTTTTTTT-
1 TCTTTTTTTTTTTTTTTTA
*
9638113 GCTTTTTACTTTTTTTTTT
1 TCTTTTT--TTTTTTTTTT
9638132 GCACACCTTT
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
18 6 0.14
19 13 0.30
20 25 0.57
ACGTcount: A:0.05, C:0.12, G:0.03, T:0.80
Consensus pattern (19 bp):
TCTTTTTTTTTTTTTTTTA
Found at i:9638101 original size:21 final size:18
Alignment explanation
Indices: 9638056--9638129 Score: 78
Period size: 18 Copynumber: 3.9 Consensus size: 18
9638046 TTTTGTAATT
*
9638056 TCTTTTGTTTTTTTTTTTA
1 TCTTTT-TTCTTTTTTTTA
9638075 TCTTTTTTCTTTTTTTTCCA
1 TCTTTTTTCTTTTTTTT--A
9638095 TCTTTTTTCATTTTTTTT-
1 TCTTTTTTC-TTTTTTTTA
* *
9638113 GCTTTTTACTTTTTTTT
1 TCTTTTTTCTTTTTTTT
9638130 TTGCACACCT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
17 8 0.16
18 17 0.35
19 6 0.12
20 10 0.20
21 8 0.16
ACGTcount: A:0.05, C:0.12, G:0.03, T:0.80
Consensus pattern (18 bp):
TCTTTTTTCTTTTTTTTA
Found at i:9638119 original size:10 final size:10
Alignment explanation
Indices: 9638065--9638112 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
9638055 TTCTTTTGTT
*
9638065 TTTTTTTTTA
1 TTTTTTTTCA
*
9638075 TCTTTTTTC-
1 TTTTTTTTCA
9638084 TTTTTTTTCCA
1 TTTTTTTT-CA
*
9638095 TCTTTTTTCA
1 TTTTTTTTCA
9638105 TTTTTTTT
1 TTTTTTTT
9638113 GCTTTTTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
9 7 0.23
10 17 0.55
11 7 0.23
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:9638129 original size:10 final size:9
Alignment explanation
Indices: 9638003--9638119 Score: 58
Period size: 9 Copynumber: 12.0 Consensus size: 9
9637993 AGTTTAAGTC
9638003 TTTCTTTTT
1 TTTCTTTTT
9638012 TTTCCTTTGTCT
1 TTT-CTTT-T-T
9638024 CTTTCATTCTTT
1 -TTTC-TT-TTT
*
9638036 TTGCTTTTT
1 TTTCTTTTT
**
9638045 TTT-TTGTAA
1 TTTCTT-TTT
*
9638054 TTTCTTTTG
1 TTTCTTTTT
9638063 TTT-TTTTT
1 TTTCTTTTT
* *
9638071 TTTATCTTT
1 TTTCTTTTT
9638080 TTTCTTTTT
1 TTTCTTTTT
*
9638089 TTTCCATCTTT
1 TTT-C-TTTTT
9638100 TTTCATTTTT
1 TTTC-TTTTT
9638110 TTTGCTTTTT
1 TTT-CTTTTT
9638120 ACTTTTTTTT
Statistics
Matches: 84, Mismatches: 12, Indels: 23
0.71 0.10 0.19
Matches are distributed among these distances:
8 9 0.11
9 30 0.36
10 23 0.27
11 12 0.14
12 3 0.04
13 6 0.07
14 1 0.01
ACGTcount: A:0.05, C:0.14, G:0.04, T:0.77
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:9638142 original size:42 final size:39
Alignment explanation
Indices: 9638075--9638167 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 39
9638065 TTTTTTTTTA
* * * *
9638075 TCTTTTT-TCTTTTTTTTCCATCTTTTTTCATTT-TTTT
1 TCTTTTTCTTTTTTTTTTCCACCTTTTCTCATTTCTCTT
9638112 TGCTTTTTACTTTTTTTTTTGCACACCTTTTCTCATTTCTCTT
1 T-CTTTTT-CTTTTTTTTTT-C-CACCTTTTCTCATTTCTCTT
9638155 TCTTTTTCTTTTT
1 TCTTTTTCTTTTT
9638168 CTTCTTTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
37 1 0.02
38 6 0.13
40 9 0.20
41 7 0.15
42 19 0.41
43 4 0.09
ACGTcount: A:0.06, C:0.19, G:0.02, T:0.72
Consensus pattern (39 bp):
TCTTTTTCTTTTTTTTTTCCACCTTTTCTCATTTCTCTT
Found at i:9638433 original size:11 final size:11
Alignment explanation
Indices: 9638412--9638450 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
9638402 TCATAACAAT
9638412 TTTTCTTCTTTA
1 TTTT-TTCTTTA
9638424 TTTTTTCTTTA
1 TTTTTTCTTTA
*
9638435 TTTTATCTTT-
1 TTTTTTCTTTA
9638445 TTTTTT
1 TTTTTT
9638451 GTAGCATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 5 0.20
11 16 0.64
12 4 0.16
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTTCTTTA
Found at i:9641385 original size:18 final size:19
Alignment explanation
Indices: 9641332--9641385 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 19
9641322 ATACACAATA
9641332 AAAAGGAAA-ATAAATAAT
1 AAAAGGAAATATAAATAAT
* *
9641350 -AAAGCAAATATAAGTAAT
1 AAAAGGAAATATAAATAAT
9641368 AAAAGGAAATA-AAATAAT
1 AAAAGGAAATATAAATAAT
9641386 TTCAAACTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 7 0.23
18 14 0.47
19 9 0.30
ACGTcount: A:0.69, C:0.02, G:0.11, T:0.19
Consensus pattern (19 bp):
AAAAGGAAATATAAATAAT
Found at i:9642330 original size:18 final size:19
Alignment explanation
Indices: 9642307--9642347 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
9642297 AAAAGTAAAT
9642307 AAAAAT-AAA-CAAAATAAG
1 AAAAATAAAATCAAAAT-AG
9642325 AAAAATAAAATCAAAATAG
1 AAAAATAAAATCAAAATAG
9642344 AAAA
1 AAAA
9642348 TGAAGTGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.29
19 9 0.43
20 6 0.29
ACGTcount: A:0.78, C:0.05, G:0.05, T:0.12
Consensus pattern (19 bp):
AAAAATAAAATCAAAATAG
Found at i:9642884 original size:50 final size:51
Alignment explanation
Indices: 9642822--9642959 Score: 152
Period size: 50 Copynumber: 2.7 Consensus size: 51
9642812 TTATTTCCAT
**
9642822 TTTAATGAGAATTGATTCTGAAATTAAATCCCAAAATCTATCCTTATCA-A
1 TTTAATGAGAATTGATTCTGAAATTAAATCCCAAAATCTATCCACATCATA
* * * ** * * *
9642872 TTTAATGTGAATTGATTATGAAGTTAAATCATGACAATCTCTCCACATCATT
1 TTTAATGAGAATTGATTCTGAAATTAAATC-CCAAAATCTATCCACATCATA
**
9642924 TTTAATGCCAATTGATTCTGAAATTAAATCCCAAAA
1 TTTAATGAGAATTGATTCTGAAATTAAATCCCAAAA
9642960 ATCTCTCAAT
Statistics
Matches: 69, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
50 27 0.39
51 16 0.23
52 26 0.38
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.36
Consensus pattern (51 bp):
TTTAATGAGAATTGATTCTGAAATTAAATCCCAAAATCTATCCACATCATA
Found at i:9642963 original size:52 final size:50
Alignment explanation
Indices: 9642819--9642966 Score: 161
Period size: 52 Copynumber: 2.9 Consensus size: 50
9642809 ATTTTATTTC
* **
9642819 CATTTTAATGAGAATTGATTCTGAAATTAAATCCCAAAATCTATCCTTAT
1 CATTTTAATGAGAATTGATTCTGAAATTAAATCCCAAAATCTCTCCACAT
* * * * ** *
9642869 CAATTTAATGTGAATTGATTATGAAGTTAAATCATGACAATCTCTCCACAT
1 CATTTTAATGAGAATTGATTCTGAAATTAAATC-CCAAAATCTCTCCACAT
**
9642920 CATTTTTAATGCCAATTGATTCTGAAATTAAATCCCAAAAATCTCTC
1 CA-TTTTAATGAGAATTGATTCTGAAATTAAATCCC-AAAATCTCTC
9642967 AATTACAGTT
Statistics
Matches: 77, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
50 29 0.38
51 13 0.17
52 35 0.45
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (50 bp):
CATTTTAATGAGAATTGATTCTGAAATTAAATCCCAAAATCTCTCCACAT
Found at i:9643726 original size:86 final size:86
Alignment explanation
Indices: 9643551--9643835 Score: 302
Period size: 86 Copynumber: 3.3 Consensus size: 86
9643541 ATGTAAGCCA
* * ** * * *
9643551 AAATTCGAAAACAACATGACCTGGATTAAACCAAAGTCTAAAATAAACAACTTGGACTAAGCCAA
1 AAATTCAAAAACAAAATGACCTGGATTAAACTGAAGTCTAAAATAAATAACTTAGACTAAGCTAA
** * * *
9643616 AAAATTATTTAGCATAAGTTG
66 AAAAGGATTTGGCGTAAGTCG
* * *
9643637 AAATTCAAAAACAACATGACCTGGATTGAACTGTAGTCTAAAATAAATAACTTAGACTAAGCTAA
1 AAATTCAAAAACAAAATGACCTGGATTAAACTGAAGTCTAAAATAAATAACTTAGACTAAGCTAA
* *
9643702 AAAAGGATTTGGTGCAAGTCG
66 AAAAGGATTTGGCGTAAGTCG
* * * ** * *
9643723 AAATACAAAACCAAAATGACTTGGATTAAACTGAAGTCTAAAATGGATAACTTCGACTAAGCTGA
1 AAATTCAAAAACAAAATGACCTGGATTAAACTGAAGTCTAAAATAAATAACTTAGACTAAGCTAA
*
9643788 AGAAGGATTTGGCGTAAG-CTG
66 AAAAGGATTTGGCGTAAGTC-G
* * *
9643809 AAATTTAAAAGCAAAATGACTTGGATT
1 AAATTCAAAAACAAAATGACCTGGATT
9643836 GAACCAAAGT
Statistics
Matches: 167, Mismatches: 31, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
85 1 0.01
86 166 0.99
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (86 bp):
AAATTCAAAAACAAAATGACCTGGATTAAACTGAAGTCTAAAATAAATAACTTAGACTAAGCTAA
AAAAGGATTTGGCGTAAGTCG
Found at i:9648543 original size:21 final size:21
Alignment explanation
Indices: 9648492--9648543 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
9648482 CTAAATTTAG
9648492 CCATCATTC-TCTCTTTCTTGT
1 CCATC-TTCATCTCTTTCTTGT
* *
9648513 -CTTCTATCATCTTTTTCTTGT
1 CCATCT-TCATCTCTTTCTTGT
9648534 CCATCTTCAT
1 CCATCTTCAT
9648544 AAGCTTGTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
19 1 0.04
20 5 0.20
21 15 0.60
22 4 0.16
ACGTcount: A:0.12, C:0.31, G:0.04, T:0.54
Consensus pattern (21 bp):
CCATCTTCATCTCTTTCTTGT
Found at i:9649577 original size:22 final size:22
Alignment explanation
Indices: 9649535--9649576 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9649525 TTTTTTGTTC
*
9649535 CTTTTTTCTTCTCCAACTTTTA
1 CTTTTTCCTTCTCCAACTTTTA
*
9649557 CTTTTTCCTTC-CTAACTTTT
1 CTTTTTCCTTCTCCAACTTTT
9649577 TCTAACATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.12, C:0.29, G:0.00, T:0.60
Consensus pattern (22 bp):
CTTTTTCCTTCTCCAACTTTTA
Found at i:9655270 original size:119 final size:118
Alignment explanation
Indices: 9655147--9655377 Score: 322
Period size: 119 Copynumber: 1.9 Consensus size: 118
9655137 CCTCTTTTCT
* * *
9655147 TTTTTTTATTTAAGAAAAATTGATATTTTTAACTTTTCCTT-AAAACGTTTCTTTTGAAATACAT
1 TTTTTTTATTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAACATTTCTTTTGAAATACAT
9655211 TTTTGAAAAATTTTTATTTTCTAA-AGAAAATTGATACTTTCAACTTTTTTTAAAA
66 TTTTGAAAAATTTTTA-TTTCTAAGA-AAAATTGATACTTTCAA-TTTTTTTAAAA
* * *
9655266 TTTTTTTATTTAAGAAAAATTGATACTTTCAACTTTTCTTTAAAAACATTTCTTTTGAAGTATAT
1 TTTTTTTATTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAACATTTCTTTTGAAATACAT
* ** * *
9655331 TTTTTAAATTTTTTTATTTCTACGAAAAATTGATATTTTCAATTTTT
66 TTTTGAAAAATTTTTATTTCTAAGAAAAATTGATACTTTCAATTTTT
9655378 CCTCAAAACA
Statistics
Matches: 99, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
118 5 0.05
119 60 0.61
120 34 0.34
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (118 bp):
TTTTTTTATTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAACATTTCTTTTGAAATACAT
TTTTGAAAAATTTTTATTTCTAAGAAAAATTGATACTTTCAATTTTTTTAAAA
Found at i:9655335 original size:74 final size:73
Alignment explanation
Indices: 9655256--9655394 Score: 192
Period size: 75 Copynumber: 1.9 Consensus size: 73
9655246 ACTTTCAACT
*
9655256 TTTTTTAAAATTTTTTTA-TT-TAAGAAAAATTGATACTTTCAACTTTTCTTTAAAAACATTTCT
1 TTTTTT-AAATTTTTTTATTTCTAAGAAAAATTGATACTTTCAACTTTTC-CTAAAAACATTT-T
9655319 TTTGAAGTATA
63 TTTGAAGTATA
* * * *
9655330 TTTTTTAAATTTTTTTATTTCTACGAAAAATTGATATTTTCAATTTTTCCTCAAAACATTTTTTT
1 TTTTTTAAATTTTTTTATTTCTAAGAAAAATTGATACTTTCAACTTTTCCTAAAAACATTTTTTT
9655395 AAATTTTCAT
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
73 15 0.26
74 18 0.31
75 25 0.43
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.54
Consensus pattern (73 bp):
TTTTTTAAATTTTTTTATTTCTAAGAAAAATTGATACTTTCAACTTTTCCTAAAAACATTTTTTT
GAAGTATA
Found at i:9655445 original size:55 final size:56
Alignment explanation
Indices: 9655386--9655494 Score: 148
Period size: 55 Copynumber: 2.0 Consensus size: 56
9655376 TTCCTCAAAA
* * * * *
9655386 CATTTTTTTAAATTTTCATTTTTAAGG-AAATTAATACTTCAACTTTTCTTAAATC
1 CATTTTTTAAAATCTTCATTTTCAAGGAAAATTAATACTTCAACATTTCCTAAATC
* *
9655441 CATTTTTTAAAATCTTCATTTTCAAGGAAAATTGATATTTCAACATTTCCTAAA
1 CATTTTTTAAAATCTTCATTTTCAAGGAAAATTAATACTTCAACATTTCCTAAA
9655495 AAAAAATCTC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
55 24 0.52
56 22 0.48
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.47
Consensus pattern (56 bp):
CATTTTTTAAAATCTTCATTTTCAAGGAAAATTAATACTTCAACATTTCCTAAATC
Found at i:9656560 original size:18 final size:19
Alignment explanation
Indices: 9656523--9656562 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
9656513 AAAACTTTGT
* *
9656523 TTTTATTTATTTTTTATTC
1 TTTTATTTATTATCTATTC
9656542 TTTTATTT-TTATCTATTC
1 TTTTATTTATTATCTATTC
9656560 TTT
1 TTT
9656563 ATCCAAACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTATTTATTATCTATTC
Found at i:9661294 original size:10 final size:10
Alignment explanation
Indices: 9661281--9661310 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
9661271 TCAAGTTTTT
9661281 TATATTTTAA
1 TATATTTTAA
9661291 TATATTTTAA
1 TATATTTTAA
9661301 T-TATTTTAA
1 TATATTTTAA
9661310 T
1 T
9661311 TGATAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:9664521 original size:130 final size:131
Alignment explanation
Indices: 9664330--9664590 Score: 366
Period size: 130 Copynumber: 2.0 Consensus size: 131
9664320 AAGCTTGAAA
* * * *
9664330 CTTTCATCTTATATAAATATATAAAAACTAAAGCTTTTTAGAAAAAAAGGCAATTATCTTATGTG
1 CTTTCATCTTATATAAATACATAAAAACTAAAGATCTTTAGAAAAAAAGACAATTATCTTATGTG
* **
9664395 TATGGTCTAATTTTTTTACACTCCGATAATCTAAATTAATGTTATGTGTTCCT-TAAATTAATTT
66 TATGGTCTAATTTTTTTACACTCCGAAAATCTAAATTAATGCCATGTG-TCCTATAAATTAATTT
9664459 AT
130 AT
* **
9664461 CTTTTATCTTATATAAATACATAAAAGTTAAA-ATCTTT-GATAAAAAAGACAATTATCTTATGT
1 CTTTCATCTTATATAAATACATAAAAACTAAAGATCTTTAGA-AAAAAAGACAATTATCTTATGT
* **
9664524 GTGTGGTCTAATTTTTTTACACTTTGAAAATCTAAATTAATGCCATGTGTCCTATAAATTAATTT
65 GTATGGTCTAATTTTTTTACACTCCGAAAATCTAAATTAATGCCATGTGTCCTATAAATTAATTT
9664589 AT
130 AT
9664591 TTGACTAAAT
Statistics
Matches: 115, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
129 6 0.05
130 81 0.70
131 28 0.24
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (131 bp):
CTTTCATCTTATATAAATACATAAAAACTAAAGATCTTTAGAAAAAAAGACAATTATCTTATGTG
TATGGTCTAATTTTTTTACACTCCGAAAATCTAAATTAATGCCATGTGTCCTATAAATTAATTTA
T
Found at i:9664759 original size:24 final size:25
Alignment explanation
Indices: 9664712--9664759 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
9664702 AATACACCTT
* *
9664712 AAATCATGCTAATTTTATGGTAAAA
1 AAATCATGCTAATTTAATGATAAAA
*
9664737 AAATTATGCTAATTTAAT-ATAAA
1 AAATCATGCTAATTTAATGATAAA
9664760 TAAGATAGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (25 bp):
AAATCATGCTAATTTAATGATAAAA
Found at i:9667421 original size:86 final size:86
Alignment explanation
Indices: 9667275--9667477 Score: 216
Period size: 86 Copynumber: 2.4 Consensus size: 86
9667265 ACAAAATGGA
* * * * *
9667275 CTCCTTTATA-CAATGGCAAAACAACTTTAAATCAAGAAATGGGCTCTTCTATATAAAGGCTTAA
1 CTCCTCTATACCAA-GGCTAAACAACTTTAAATCAAGAAATGGACTCTTCTATACAAAGGCTAAA
*
9667339 CAACTTTAAATTAAGAAAT-GAG
65 CAACTTTAAAATAAGAAATAG-G
* * **
9667361 CTCCTCTATACCAAGGCTAAACAACTTTAAATTAAGAAATGAGAC-CTTTTATACGGAGGCTAAA
1 CTCCTCTATACCAAGGCTAAACAACTTTAAATCAAGAAATG-GACTCTTCTATACAAAGGCTAAA
* *
9667425 CAATTTTAAAATAAGGAATAGG
65 CAACTTTAAAATAAGAAATAGG
* *
9667447 C-CTCTCTATACAAAGGCTAAATAACTTTAAA
1 CTC-CTCTATACCAAGGCTAAACAACTTTAAA
9667478 ATGAAATCCT
Statistics
Matches: 99, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
85 1 0.01
86 92 0.93
87 6 0.06
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (86 bp):
CTCCTCTATACCAAGGCTAAACAACTTTAAATCAAGAAATGGACTCTTCTATACAAAGGCTAAAC
AACTTTAAAATAAGAAATAGG
Found at i:9667478 original size:43 final size:42
Alignment explanation
Indices: 9667281--9667479 Score: 188
Period size: 43 Copynumber: 4.6 Consensus size: 42
9667271 TGGACTCCTT
* * *
9667281 TATACAATGGCAAAACAACTTT-AAATCAAGAAATGGGCTCTTC
1 TATACAAAGGCTAAACAACTTTAAAAT-AAGAAATGGCCTC-TC
* * *
9667324 TATATAAAGGCTTAACAACTTTAAATTAAGAAATGAG-CTCCTC
1 TATACAAAGGCTAAACAACTTTAAAATAAGAAATG-GCCT-CTC
* * *
9667367 TATACCAAGGCTAAACAACTTTAAATTAAGAAATGAGACCT-TT
1 TATACAAAGGCTAAACAACTTTAAAATAAGAAATG-G-CCTCTC
** * *
9667410 TATACGGAGGCTAAACAATTTTAAAATAAGGAATAGGCCTCTC
1 TATACAAAGGCTAAACAACTTTAAAATAAGAAAT-GGCCTCTC
*
9667453 TATACAAAGGCTAAATAACTTTAAAAT
1 TATACAAAGGCTAAACAACTTTAAAAT
9667480 GAAATCCTCT
Statistics
Matches: 130, Mismatches: 19, Indels: 14
0.80 0.12 0.09
Matches are distributed among these distances:
42 3 0.02
43 119 0.92
44 6 0.05
45 2 0.02
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (42 bp):
TATACAAAGGCTAAACAACTTTAAAATAAGAAATGGCCTCTC
Found at i:9679211 original size:4 final size:4
Alignment explanation
Indices: 9679187--9679228 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
9679177 GTATTCGAAG
* * *
9679187 AATA AACA AATA AATG GATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
9679229 GCAGAAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:9679619 original size:19 final size:19
Alignment explanation
Indices: 9679595--9679633 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
9679585 TAGATTCTAG
9679595 CCACTGGCAACTTTAAACA
1 CCACTGGCAACTTTAAACA
9679614 CCACTGGCAACTTTAAACA
1 CCACTGGCAACTTTAAACA
9679633 C
1 C
9679634 ATATTCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.33, G:0.10, T:0.21
Consensus pattern (19 bp):
CCACTGGCAACTTTAAACA
Found at i:9679987 original size:4 final size:4
Alignment explanation
Indices: 9679980--9680049 Score: 61
Period size: 4 Copynumber: 17.5 Consensus size: 4
9679970 GTATTTGAAG
* * * **
9679980 AATA AATA AAGA AATA AATA AATA AACA AATG AAGG AATA AATA AATAA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT-A
* *
9680029 AATA AATA GA-A AACA AATA AA
1 AATA AATA AATA AATA AATA AA
9680050 ATACTTGAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
3 2 0.04
4 47 0.89
5 4 0.08
ACGTcount: A:0.73, C:0.03, G:0.07, T:0.17
Consensus pattern (4 bp):
AATA
Found at i:9680010 original size:24 final size:24
Alignment explanation
Indices: 9679983--9680029 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
9679973 TTTGAAGAAT
9679983 AAATAAAGAAATAAATAAATAAAC
1 AAATAAAGAAATAAATAAATAAAC
* *
9680007 AAATGAAGGAATAAATAAATAAA
1 AAATAAAGAAATAAATAAATAAA
9680030 ATAAATAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.17
Consensus pattern (24 bp):
AAATAAAGAAATAAATAAATAAAC
Found at i:9680986 original size:60 final size:58
Alignment explanation
Indices: 9680822--9680990 Score: 140
Period size: 60 Copynumber: 2.8 Consensus size: 58
9680812 ATTTTTTTGT
* * * *
9680822 AAGGGATTATTCAAGGTGTTTTCTGACCAAAAACAGCTTCAATAATCCCCAAAACATTTG
1 AAGGGATTATTGAAGGTGTTTTTTG-CCAAAAA-AGCTTCAATAATCCCCAAAAAAATTG
* * * ** ** * * * *
9680882 GAGTAGATTATTGAAAGCATTTTTTGTTAGAAACGCCTTGAATAATCTCCAAAAAAATTG
1 AAG-GGATTATTGAAGGTGTTTTTTGCCAAAAAAG-CTTCAATAATCCCCAAAAAAATTG
*
9680942 AAAGGGATTATTGAAGGTGTTTTTTGCCAAAAATGTCTTCAATAATCCC
1 -AAGGGATTATTGAAGGTGTTTTTTGCCAAAAAAG-CTTCAATAATCCC
9680991 ACTTTCCTAC
Statistics
Matches: 79, Mismatches: 27, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
59 1 0.01
60 60 0.76
61 18 0.23
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (58 bp):
AAGGGATTATTGAAGGTGTTTTTTGCCAAAAAAGCTTCAATAATCCCCAAAAAAATTG
Found at i:9683356 original size:21 final size:21
Alignment explanation
Indices: 9683330--9683370 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
9683320 AATGGGGTGT
*
9683330 TTACAAAAATGTTATATTTAA
1 TTACAAAAAGGTTATATTTAA
9683351 TTACAAAAAGGTTATATTTA
1 TTACAAAAAGGTTATATTTA
9683371 GTTAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (21 bp):
TTACAAAAAGGTTATATTTAA
Found at i:9685817 original size:33 final size:33
Alignment explanation
Indices: 9685754--9685829 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 33
9685744 TATATTTTTT
* *
9685754 AATTTACATGTTCGTATCGAAATTATTTTTTTGAA
1 AATTT-CATGTTCATATCGAAAATATTTTTTT-AA
9685789 AATTTCATGTTCAATATC-AAAATA-TTTTTTAA
1 AATTTCATGTTC-ATATCGAAAATATTTTTTTAA
9685821 AAGTTTCAT
1 AA-TTTCAT
9685830 ATTTAACTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
32 4 0.11
33 12 0.32
34 12 0.32
35 9 0.24
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.47
Consensus pattern (33 bp):
AATTTCATGTTCATATCGAAAATATTTTTTTAA
Found at i:9701776 original size:16 final size:16
Alignment explanation
Indices: 9701757--9701805 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
9701747 CAGAAAACTA
* *
9701757 AAAAATAAAATGAATT
1 AAAAATAAAATAAAAT
9701773 AAAAATAAAATAAAAT
1 AAAAATAAAATAAAAT
9701789 AAAAATCAAAAATAAAA
1 AAAAAT--AAAATAAAA
9701806 AGAAATGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 20 0.69
18 9 0.31
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (16 bp):
AAAAATAAAATAAAAT
Found at i:9701777 original size:17 final size:17
Alignment explanation
Indices: 9701750--9701793 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
9701740 ATAAAACCAG
9701750 AAAACTAAAAAATAAAAT
1 AAAA-TAAAAAATAAAAT
* *
9701768 -GAATTAAAAATAAAAT
1 AAAATAAAAAATAAAAT
9701784 AAAATAAAAA
1 AAAATAAAAA
9701794 TCAAAAATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (17 bp):
AAAATAAAAAATAAAAT
Found at i:9702104 original size:31 final size:31
Alignment explanation
Indices: 9702068--9702137 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
9702058 AAATCCCATA
* **
9702068 AAAAAATTCATATTCCGTCGAAAAACTCATC
1 AAAAAATTCATATCCCACCGAAAAACTCATC
* *
9702099 GAAAAATTCATATCCCACCGAAAAATTCATC
1 AAAAAATTCATATCCCACCGAAAAACTCATC
9702130 AAAAAATT
1 AAAAAATT
9702138 TAAACATTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.49, C:0.21, G:0.06, T:0.24
Consensus pattern (31 bp):
AAAAAATTCATATCCCACCGAAAAACTCATC
Found at i:9702676 original size:3 final size:3
Alignment explanation
Indices: 9702668--9702706 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
9702658 TATGTACAAT
9702668 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9702707 CTATGTTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9703372 original size:115 final size:114
Alignment explanation
Indices: 9702969--9703466 Score: 408
Period size: 114 Copynumber: 4.3 Consensus size: 114
9702959 AAGTTATAAA
* * * ** *
9702969 AAATGATCTGGACTGAGCCAAGATC-AGATGATCGAGGTAAAATCATAAGTCTAGAAGATAAAAC
1 AAATGATTTGGACTGAGCCAAGATCAAG-TGATCGAGATGAAATCACGAGTC-A-AA-ATAAAGC
* * * * * *
9703033 GATCAAGACCGAGTCGAGATAAAAAATAAATGATCGAGACGAAA-CTACAAATCATGAG
62 GACCAGGATCGAGTCAAGAT---AAA-AAATGATCG-GACAAAATC-ACGAATCATGAG
* * * * * * *
9703091 AAATGATCTAGACTGAGTCAAGATCAAGTAATCGAGATGAAATCATGAGTCAAAATGAAGCGATC
1 AAATGATTTGGACTGAGCCAAGATCAAGTGATCGAGATGAAATCACGAGTCAAAATAAAGCGACC
* **
9703156 AGGATTGAGTCAAGATAAAAAATGATCGGATGAAATCACGAATCATGAG
66 AGGATCGAGTCAAGATAAAAAATGATCGGACAAAATCACGAATCATGAG
* * * * * *
9703205 AAATGATTTGAACTGAGCCAAGATCAAGCGACCGAGATGAAACCACGGGTCAAAATAAAGTGACC
1 AAATGATTTGGACTGAGCCAAGATCAAGTGATCGAGATGAAATCACGAGTCAAAATAAAGCGACC
* * * *
9703270 AGGATCGAGTCAAGGTTAAAAATGATCGGGACAAAATCATGAATTATGAG
66 AGGATCGAGTCAAGATAAAAAATGATC-GGACAAAATCACGAATCATGAG
* * * * *
9703320 AAATGATTTGGATTGAGCCAAGATCAAGTGATCGGGATAAAATCACGAGTCAAAAAATAAGGCAA
1 AAATGATTTGGACTGAGCCAAGATCAAGTGATCGAGATGAAATCACGAGTC--AAAATAAAGCGA
* * * * ** * * *
9703385 CCAAGATTGAGTCGAG-TAAAAAATGACCAGGATGAAACCATGAACCATGAG
64 CCAGGATCGAGTCAAGATAAAAAATGATC-GGACAAAATCACGAATCATGAG
* * *
9703436 AAATGATCTAGACTGAGCTAAGATCAAGTGA
1 AAATGATTTGGACTGAGCCAAGATCAAGTGA
9703467 CCAGGATTGA
Statistics
Matches: 311, Mismatches: 60, Indels: 16
0.80 0.16 0.04
Matches are distributed among these distances:
114 93 0.30
115 71 0.23
116 57 0.18
117 22 0.07
119 21 0.07
120 2 0.01
121 1 0.00
122 42 0.14
123 2 0.01
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.19
Consensus pattern (114 bp):
AAATGATTTGGACTGAGCCAAGATCAAGTGATCGAGATGAAATCACGAGTCAAAATAAAGCGACC
AGGATCGAGTCAAGATAAAAAATGATCGGACAAAATCACGAATCATGAG
Found at i:9703627 original size:17 final size:17
Alignment explanation
Indices: 9703582--9703644 Score: 54
Period size: 17 Copynumber: 3.7 Consensus size: 17
9703572 CAAGAAAGAA
**
9703582 AAATTCATAAAATTTCT
1 AAATTCATAAAGGTTCT
* * *
9703599 AATTTTACAAAGGTTCT
1 AAATTCATAAAGGTTCT
* * *
9703616 AGATTCGTAAAGGTTTT
1 AAATTCATAAAGGTTCT
9703633 AAATTCATAAAG
1 AAATTCATAAAG
9703645 ACTTTTAGAT
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (17 bp):
AAATTCATAAAGGTTCT
Found at i:9703809 original size:18 final size:17
Alignment explanation
Indices: 9703754--9703818 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 17
9703744 AAGACCTTAA
*
9703754 ATTTCGTAAAAATTTTAG
1 ATTT-GTAAGAATTTTAG
* * *
9703772 ATTTATAAGGATTCTCAG
1 ATTTGTAAGAATT-TTAG
9703790 ATTTGTAAGAACTTTTAG
1 ATTTGTAAGAA-TTTTAG
*
9703808 ATTCGTAAGAA
1 ATTTGTAAGAA
9703819 AGAAATATTA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
17 6 0.16
18 29 0.78
19 2 0.05
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (17 bp):
ATTTGTAAGAATTTTAG
Found at i:9703997 original size:86 final size:85
Alignment explanation
Indices: 9703907--9704187 Score: 291
Period size: 86 Copynumber: 3.3 Consensus size: 85
9703897 ACAATACCCT
* * * ** *
9703907 AAGTTTCGCAAAAGTTTTAGATTGGCAAAGATGCAAGATTCACATGGATTTTCACATTCATAAAA
1 AAGTTTCGCAAAAGTTTTAGATTCGCAAAGATGTAAGATTCACAAGGATTTTCAGGTTCGTAAAA
*
9703972 AAAAAAGATTCGTAATATCTC
66 AAGAAAGATTCGTAA-ATCTC
* * * * *
9703993 AAGTTTCACAAAAGTTTTAGATTCGTAAAGATGTAAGATTCGCAAGGA-TTT-AGGTTCGCAAGA
1 AAGTTTCGCAAAAGTTTTAGATTCGCAAAGATGTAAGATTCACAAGGATTTTCAGGTTCGTAAAA
** *
9704056 AAGAAAGATTCACAAAACTTC
66 AAGAAAGATTCGTAAATC-TC
* * * * * *
9704077 AAGTTTCGTAGAGGTTTTAGATTTGCAAAGATGTAAGATT-ATCAAAGATTTTCAGGTTTGTAAA
1 AAGTTTCGCAAAAGTTTTAGATTCGCAAAGATGTAAGATTCA-CAAGGATTTTCAGGTTCGTAAA
9704141 AAAGAAAGATTCGTAAGAT-TC
65 AAAGAAAGATTCGTAA-ATCTC
*
9704162 AAAGTTTCGTAAAAGTTTTAGATTCG
1 -AAGTTTCGCAAAAGTTTTAGATTCG
9704188 TAAAAATTTT
Statistics
Matches: 157, Mismatches: 32, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
83 2 0.01
84 60 0.38
85 8 0.05
86 86 0.55
87 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (85 bp):
AAGTTTCGCAAAAGTTTTAGATTCGCAAAGATGTAAGATTCACAAGGATTTTCAGGTTCGTAAAA
AAGAAAGATTCGTAAATCTC
Found at i:9704096 original size:170 final size:171
Alignment explanation
Indices: 9703844--9704191 Score: 427
Period size: 170 Copynumber: 2.0 Consensus size: 171
9703834 ATTTCAAGTA
* * *
9703844 TCGTAAAGGTGCAAGGTTCGCAAGAACTTTCAGGTTCACAAAAAGAAAGATTCACAATACCCTAA
1 TCGTAAAGATGCAAGATTCGCAAGAACTTTCAGGTTCACAAAAAGAAAGATTCACAAAACCCTAA
**
9703909 GTTTCGCAAAAGTTTTAGATTGGCAAAGATGCAAGATTCA-CATGGATTTTCACATTCATAAAAA
66 GTTTCGCAAAAGTTTTAGATTGGCAAAGATGCAAGATT-ATCAAAGATTTTCACATTCATAAAAA
*
9703973 AAAAAGATTCGTAATATCTC-AAGTTTCACAAAAGTTTTAGAT
130 AAAAAGATTCGTAAGAT-TCAAAGTTTCACAAAAGTTTTAGAT
* * * *
9704015 TCGTAAAGATGTAAGATTCGCAAGGA-TTT-AGGTTCGCAAGAAAGAAAGATTCACAAAA-CTTC
1 TCGTAAAGATGCAAGATTCGCAAGAACTTTCAGGTTCACAA-AAAGAAAGATTCACAAAACCCT-
* * * * * ** **
9704077 AAGTTTCGTAGAGGTTTTAGATTTGCAAAGATGTAAGATTATCAAAGATTTTCAGGTTTGTAAAA
64 AAGTTTCGCAAAAGTTTTAGATTGGCAAAGATGCAAGATTATCAAAGATTTTCACATTCATAAAA
* **
9704142 AAGAAAGATTCGTAAGATTCAAAGTTTCGTAAAAGTTTTAGAT
129 AAAAAAGATTCGTAAGATTCAAAGTTTCACAAAAGTTTTAGAT
9704185 TCGTAAA
1 TCGTAAA
9704192 AATTTTCAGG
Statistics
Matches: 151, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
169 14 0.09
170 115 0.76
171 22 0.15
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (171 bp):
TCGTAAAGATGCAAGATTCGCAAGAACTTTCAGGTTCACAAAAAGAAAGATTCACAAAACCCTAA
GTTTCGCAAAAGTTTTAGATTGGCAAAGATGCAAGATTATCAAAGATTTTCACATTCATAAAAAA
AAAAGATTCGTAAGATTCAAAGTTTCACAAAAGTTTTAGAT
Found at i:9705107 original size:7 final size:7
Alignment explanation
Indices: 9705095--9705181 Score: 54
Period size: 7 Copynumber: 11.9 Consensus size: 7
9705085 TCCTTTGTCT
9705095 TTTTTTC
1 TTTTTTC
9705102 TTTTTTC
1 TTTTTTC
*
9705109 TTTTTGC
1 TTTTTTC
*
9705116 TTTTGGTTG
1 TTTT--TTC
9705125 TTGTTGTTC
1 TT-TT-TTC
9705134 TTTTTT-
1 TTTTTTC
9705140 TTTCTTT-
1 TTT-TTTC
*
9705147 TTTTTCC
1 TTTTTTC
9705154 ATTTTTTTC
1 --TTTTTTC
*
9705163 CTTTTTC
1 TTTTTTC
9705170 TTTTTT-
1 TTTTTTC
9705176 TTTTTT
1 TTTTTT
9705182 TTTGTACATT
Statistics
Matches: 65, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
6 11 0.17
7 36 0.55
8 2 0.03
9 14 0.22
10 2 0.03
ACGTcount: A:0.01, C:0.11, G:0.07, T:0.80
Consensus pattern (7 bp):
TTTTTTC
Found at i:9705178 original size:20 final size:19
Alignment explanation
Indices: 9705131--9705213 Score: 64
Period size: 17 Copynumber: 4.3 Consensus size: 19
9705121 GTTGTTGTTG
9705131 TTCTTTTTTTTTCTTTTTT
1 TTCTTTTTTTTTCTTTTTT
** *
9705150 TTCCATTTTTTTC--CTTT
1 TTCTTTTTTTTTCTTTTTT
9705167 TTCTTTTTTTTT-TTTTTT
1 TTCTTTTTTTTTCTTTTTT
* *
9705185 GTACATTTTTTTCTCATTTTTT
1 -TTC-TTTTTTTTTC-TTTTTT
9705207 CTTCTTT
1 -TTCTTT
9705214 CTTTGTTGAC
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
17 13 0.27
18 3 0.06
19 13 0.27
20 8 0.17
21 3 0.06
22 8 0.17
ACGTcount: A:0.05, C:0.14, G:0.01, T:0.80
Consensus pattern (19 bp):
TTCTTTTTTTTTCTTTTTT
Found at i:9705184 original size:10 final size:10
Alignment explanation
Indices: 9705131--9705182 Score: 61
Period size: 10 Copynumber: 5.2 Consensus size: 10
9705121 GTTGTTGTTG
9705131 TTCTTTTTTT
1 TTCTTTTTTT
9705141 TTCTTTTTTT
1 TTCTTTTTTT
* *
9705151 TCCATTTTTT
1 TTCTTTTTTT
*
9705161 TCCTTTTTCTT
1 TTCTTTTT-TT
9705172 TT-TTTTTTT
1 TTCTTTTTTT
9705181 TT
1 TT
9705183 TTGTACATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
9 4 0.11
10 30 0.81
11 3 0.08
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:9705193 original size:26 final size:25
Alignment explanation
Indices: 9705138--9705194 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
9705128 TTGTTCTTTT
*
9705138 TTTTTCTTTTTTTTCCATTTTTTTCC
1 TTTTTCTTTTTTTT-CATTTTTTTCA
*
9705164 TTTTTCTTTTTTTT-TTTTTTTGTACA
1 TTTTTCTTTTTTTTCATTTTTT-T-CA
9705190 TTTTT
1 TTTTT
9705195 TTCTCATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 6 0.22
25 1 0.04
26 20 0.74
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.81
Consensus pattern (25 bp):
TTTTTCTTTTTTTTCATTTTTTTCA
Found at i:9705226 original size:35 final size:35
Alignment explanation
Indices: 9705153--9705228 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
9705143 CTTTTTTTTC
* * * *
9705153 CATTTTTTTCCTTTTTCTTTTTTTTTTTTTTTGTA
1 CATTTTTTTCCTTTTTCTCTTCTTTCTTTGTTGTA
9705188 CATTTTTTTCTCATTTTT-TCTTCTTTCTTTGTTG-A
1 CATTTTTTTC-C-TTTTTCTCTTCTTTCTTTGTTGTA
9705223 CATTTT
1 CATTTT
9705229 GATCAAAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
35 17 0.49
36 13 0.37
37 5 0.14
ACGTcount: A:0.08, C:0.14, G:0.04, T:0.74
Consensus pattern (35 bp):
CATTTTTTTCCTTTTTCTCTTCTTTCTTTGTTGTA
Found at i:9707662 original size:26 final size:26
Alignment explanation
Indices: 9707633--9707684 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
9707623 AGGATATAGT
9707633 GGCTCAGTATCTTCATATGAGATGTC
1 GGCTCAGTATCTTCATATGAGATGTC
9707659 GGCTCAGTATCTTCATATGAGATGTC
1 GGCTCAGTATCTTCATATGAGATGTC
9707685 TTCTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (26 bp):
GGCTCAGTATCTTCATATGAGATGTC
Found at i:9707946 original size:16 final size:16
Alignment explanation
Indices: 9707925--9707958 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
9707915 TATGCATGAA
9707925 ATGAATGCAGTG-ATAC
1 ATGAATGCA-TGAATAC
9707941 ATGAATGCATGAATAC
1 ATGAATGCATGAATAC
9707957 AT
1 AT
9707959 AATAAAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (16 bp):
ATGAATGCATGAATAC
Found at i:9709274 original size:26 final size:28
Alignment explanation
Indices: 9709230--9709281 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 28
9709220 TTGTAAATAT
9709230 TTTTGTTTGAAAAGGATTTTCTTTTTCA
1 TTTTGTTTGAAAAGGATTTTCTTTTTCA
*
9709258 TTTT-TTTG-AAAGGATTTTTTTTTT
1 TTTTGTTTGAAAAGGATTTTCTTTTT
9709282 ATAAATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 15 0.65
27 4 0.17
28 4 0.17
ACGTcount: A:0.19, C:0.04, G:0.13, T:0.63
Consensus pattern (28 bp):
TTTTGTTTGAAAAGGATTTTCTTTTTCA
Found at i:9709356 original size:32 final size:34
Alignment explanation
Indices: 9709311--9709385 Score: 82
Period size: 32 Copynumber: 2.2 Consensus size: 34
9709301 TTAAAAATAT
9709311 TTTTTATTATTTTTTGAAAACTTATTTG-AAAAGA
1 TTTTT-TTATTTTTTGAAAACTTATTTGAAAAAGA
**** *
9709345 TTTTTTT-TTTTTTTTTTACTTATTTGAAAAAGG
1 TTTTTTTATTTTTTGAAAACTTATTTGAAAAAGA
9709378 TTTTTTTA
1 TTTTTTTA
9709386 AATTTTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
32 15 0.44
33 14 0.41
34 5 0.15
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.63
Consensus pattern (34 bp):
TTTTTTTATTTTTTGAAAACTTATTTGAAAAAGA
Found at i:9709392 original size:32 final size:32
Alignment explanation
Indices: 9709330--9709393 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
9709320 TTTTTTGAAA
* ***
9709330 ACTTATTTGAAAAGATTTTTTTTTTTTTTTTT
1 ACTTATTTGAAAAGAGTTTTTTTAAATTTTTT
9709362 ACTTATTTGAAAA-AGGTTTTTTTAAATTTTTT
1 ACTTATTTGAAAAGA-GTTTTTTTAAATTTTTT
9709394 TTAACAGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.62
Consensus pattern (32 bp):
ACTTATTTGAAAAGAGTTTTTTTAAATTTTTT
Found at i:9709392 original size:33 final size:32
Alignment explanation
Indices: 9709330--9709394 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
9709320 TTTTTTGAAA
***
9709330 ACTTATTTGAAAAGATTTTTTTTTTTTTTTTT
1 ACTTATTTGAAAAGATTTTTTTAAATTTTTTT
*
9709362 ACTTATTTGAAAAAGGTTTTTTTAAATTTTTTT
1 ACTTATTTG-AAAAGATTTTTTTAAATTTTTTT
9709395 TAACAGAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 9 0.32
33 19 0.68
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.63
Consensus pattern (32 bp):
ACTTATTTGAAAAGATTTTTTTAAATTTTTTT
Found at i:9709775 original size:31 final size:31
Alignment explanation
Indices: 9709729--9709811 Score: 121
Period size: 31 Copynumber: 2.7 Consensus size: 31
9709719 TATTATGTTG
* *
9709729 AAAAACTCATTGAAAAATTCATATCCCACTA
1 AAAAATTCATTGAAAAATTCATATCCCACCA
* *
9709760 GAAAATTCATCGAAAAATTCATATCCCACCA
1 AAAAATTCATTGAAAAATTCATATCCCACCA
*
9709791 AAAAATTTATTGAAAAATTCA
1 AAAAATTCATTGAAAAATTCA
9709812 AACATTCAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.27
Consensus pattern (31 bp):
AAAAATTCATTGAAAAATTCATATCCCACCA
Found at i:9717368 original size:2 final size:2
Alignment explanation
Indices: 9717361--9717391 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9717351 CCATCGTTTC
9717361 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9717392 AAGTAAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9718108 original size:60 final size:60
Alignment explanation
Indices: 9718028--9718147 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
9718018 GAAGGAGAAA
9718028 TTTTATTTTTGAATGAGAAGTTATTATCTATAACAGTGAATTAAAATTGAATTCTGTATT
1 TTTTATTTTTGAATGAGAAGTTATTATCTATAACAGTGAATTAAAATTGAATTCTGTATT
*
9718088 TTTTTTTTTTGAATGAGAAGTTATTATCTATAACAGTGAATTAAAATTGAATTCTGTATT
1 TTTTATTTTTGAATGAGAAGTTATTATCTATAACAGTGAATTAAAATTGAATTCTGTATT
9718148 AATTGATAGA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.47
Consensus pattern (60 bp):
TTTTATTTTTGAATGAGAAGTTATTATCTATAACAGTGAATTAAAATTGAATTCTGTATT
Found at i:9727791 original size:27 final size:28
Alignment explanation
Indices: 9727761--9727815 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
9727751 TTCCCCTATT
9727761 TATACTAAC-CTAAACC-TTTTAATTTAA
1 TATACTAACAC-AAACCTTTTTAATTTAA
9727788 TATACTAACACAAACCTTTTTAATTTAA
1 TATACTAACACAAACCTTTTTAATTTAA
9727816 ACAGTTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 14 0.54
28 12 0.46
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (28 bp):
TATACTAACACAAACCTTTTTAATTTAA
Found at i:9728287 original size:28 final size:28
Alignment explanation
Indices: 9728217--9728274 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
9728207 GCTCATCTCA
9728217 TTAAAAAACTACTTAACAATTTTGAGAC
1 TTAAAAAACTACTTAACAATTTTGAGAC
*
9728245 TTAAAAAACTACTTAATAATTTTGAGAC
1 TTAAAAAACTACTTAACAATTTTGAGAC
9728273 TT
1 TT
9728275 GAGTACCTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (28 bp):
TTAAAAAACTACTTAACAATTTTGAGAC
Found at i:9734084 original size:60 final size:60
Alignment explanation
Indices: 9734004--9734123 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
9733994 GAAGGAGAAA
9734004 TTTTATTTTTGAATGAGAAGTTATTATCTATAACAGTGAATTAAAATTGAATTCTGTATT
1 TTTTATTTTTGAATGAGAAGTTATTATCTATAACAGTGAATTAAAATTGAATTCTGTATT
*
9734064 TTTTTTTTTTGAATGAGAAGTTATTATCTATAACAGTGAATTAAAATTGAATTCTGTATT
1 TTTTATTTTTGAATGAGAAGTTATTATCTATAACAGTGAATTAAAATTGAATTCTGTATT
9734124 AATTGATAGA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.47
Consensus pattern (60 bp):
TTTTATTTTTGAATGAGAAGTTATTATCTATAACAGTGAATTAAAATTGAATTCTGTATT
Found at i:9735411 original size:9 final size:9
Alignment explanation
Indices: 9735399--9735429 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9735389 AATATTTTGA
*
9735399 ATGATCTAT
1 ATGATATAT
9735408 ATGATATAT
1 ATGATATAT
9735417 ATGATATAT
1 ATGATATAT
9735426 ATGA
1 ATGA
9735430 AAATGCTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (9 bp):
ATGATATAT
Found at i:9743805 original size:27 final size:27
Alignment explanation
Indices: 9743774--9743827 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
9743764 TTTCCCCTAT
**
9743774 TATACTAACTTAAACCTTTTAATTTAA
1 TATACTAACACAAACCTTTTAATTTAA
9743801 TATACTAACACAAACCTTTTAATTTAA
1 TATACTAACACAAACCTTTTAATTTAA
9743828 ACAGTTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.41
Consensus pattern (27 bp):
TATACTAACACAAACCTTTTAATTTAA
Found at i:9744299 original size:28 final size:28
Alignment explanation
Indices: 9744229--9744286 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
9744219 GCTCATCTCA
9744229 TTAAAAAACTACTTAACAATTTTGAGAC
1 TTAAAAAACTACTTAACAATTTTGAGAC
*
9744257 TTAAAAAACTACTTAATAATTTTGAGAC
1 TTAAAAAACTACTTAACAATTTTGAGAC
9744285 TT
1 TT
9744287 GAGTACCTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (28 bp):
TTAAAAAACTACTTAACAATTTTGAGAC
Found at i:9748524 original size:2 final size:2
Alignment explanation
Indices: 9748517--9748548 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9748507 GGATAAAAGA
9748517 AT AT AT AT AT 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 AT
9748549 TTCTCTTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9749422 original size:26 final size:26
Alignment explanation
Indices: 9749383--9749449 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
9749373 TTTAATTATG
*
9749383 ATTTATTTAT-TAT-TT-ATAAATAT
1 ATTTATTTATATATATTCATAAATAC
* *
9749406 ATTTATTTATATATATTCGTGAATAC
1 ATTTATTTATATATATTCATAAATAC
*
9749432 ATTTGTTTATATATATTC
1 ATTTATTTATATATATTC
9749450 GTGAACATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 10 0.27
24 3 0.08
25 2 0.05
26 22 0.59
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.57
Consensus pattern (26 bp):
ATTTATTTATATATATTCATAAATAC
Found at i:9749450 original size:26 final size:26
Alignment explanation
Indices: 9749401--9749454 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
9749391 ATTATTTATA
*
9749401 AATATATTTATTTATATATATTCGTG
1 AATACATTTATTTATATATATTCGTG
*
9749427 AATACATTTGTTTATATATATTCGTG
1 AATACATTTATTTATATATATTCGTG
9749453 AA
1 AA
9749455 CATGTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (26 bp):
AATACATTTATTTATATATATTCGTG
Found at i:9749466 original size:26 final size:26
Alignment explanation
Indices: 9749406--9749470 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
9749396 TTATAAATAT
*
9749406 ATTTATTTATATATATTCGTGAATAC
1 ATTTATTTATATATATTCGTGAACAC
* *
9749432 ATTTGTTTATATATATTCGTGAACAT
1 ATTTATTTATATATATTCGTGAACAC
*
9749458 GTTTATTTA-ATAT
1 ATTTATTTATATAT
9749471 TTACGAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 4 0.12
26 30 0.88
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.52
Consensus pattern (26 bp):
ATTTATTTATATATATTCGTGAACAC
Found at i:9753439 original size:584 final size:577
Alignment explanation
Indices: 9752337--9754604 Score: 3704
Period size: 580 Copynumber: 4.0 Consensus size: 577
9752327 TATGTGTGTG
9752337 TGTGAACATATTCATTTAACATTTAGGAACGAGTTCATTTAACTTAATCTAGTCGAACATAAACC
1 TGTGAACATATTCATTTAACATTTAGGAACGAGTTCATTTAACTTAATCTAGTCGAACATAAACC
* *
9752402 GAACATGAACATCCAACCATTTAAACGAACCCTCGAATGAATAAAATAATTTTCTTATCGAGCAC
66 GAACATGAACATCCTACCATTTAAACGAACACTCGAATGAATAAAATAATTTTCTTATCGAGCAC
9752467 AAATCAAGCTCAAACAACTCTAAAAGTAAACAAACAAACCATAAATATATATTCGTTCATTTATG
131 AAATCAAGCTCAAACAACTCTAAAAGTAAACAAACAAACCATAAATATATATTCGTTCATTTATG
*
9752532 GTCAATATGTTTAACCCCTATAACGGTTATCATGAAACTATTGGCTCAATGTTTCAATCTGTCTA
196 GTCAATATGTTTAACCCCTATAACGGTTATCATGAAACCATTGGCTCAATGTTTCAATCTGTCTA
* *
9752597 TTTTCCCCTTGTGGACATTTTTACCATTGTTCATGTCATTTAGCTCTATCTGCTGTCCTAATCTA
261 TTTTCCCCTTGTGGACATTCTTACCATTGTTCATGTCGTTTAGCTCTATCTGCTGTCCTAATCTA
*
9752662 TTTGGCCTCAACAAACTTCTAGACCCTTTCATACAACT-ATACAGCTATTCTGGTTTATTTTTCA
326 TTTGGCCTCAACAAACTTCTAGACCCTTTCATACAACTGATACAGCTATTCTGGTTTGTTTTTCA
*
9752726 TTAACTAATATCTCAAATGATCGTGTCTTACCCTTAAGGTGAAGTCCTAAATGGCCTATTTAGTA
391 TTAACTAATATCTCAAATGA-C-TGTCTTACCCTTAAGGTGAAGTCCTAAATGGCCCATTTAGTA
*
9752791 TTCAAATCCTTGATTTCAAGAGTGGCGGTGTTGAACCTCTTTAAATGATGTCGCAAAA-TTTCTT
454 TTCAAATCCTTGATTTCAAGAGTGGCGGTGTTGAACCTCTTTAAATGATGTC-TAAAAGTTTCTT
9752855 TAGGCTTTTGCTTCATGGCTAACAAACATGTAGATATATTTGTGAACATATATATATATATATAT
518 TAGGCTTTTGCTTCATGGCTAACAAACATGTAGA-ATATTTGTGAAC--A-ATA-ATA-ATATAT
9752920 T
577 T
*
9752921 TGTAAACATATTCATTTAACATTTAGGAACGAGTTCATTTAACTTAATCTAGTCGAACATAAACC
1 TGTGAACATATTCATTTAACATTTAGGAACGAGTTCATTTAACTTAATCTAGTCGAACATAAACC
*
9752986 GAACATGAACATCTTACCATTTAAACGAACACTCGAATGAATAAAATAATTTTCTTATCGAGCAC
66 GAACATGAACATCCTACCATTTAAACGAACACTCGAATGAATAAAATAATTTTCTTATCGAGCAC
9753051 AAATCAAGCTCAAACAACTCTAAAAGTAAACAAACAAACCATAAATATATATTCGTTCATTTATG
131 AAATCAAGCTCAAACAACTCTAAAAGTAAACAAACAAACCATAAATATATATTCGTTCATTTATG
*
9753116 GTCAATATGTTTAACCCCTATAACGGTTATCATGAAACCATTGGCTCAATGTTTCAATTTGTCTA
196 GTCAATATGTTTAACCCCTATAACGGTTATCATGAAACCATTGGCTCAATGTTTCAATCTGTCTA
9753181 TTTTCCCCTTGTGGACATTCTTACCATTGTTCATGTCGTTTAGCTCTATCTGCTGTCCTAATCTA
261 TTTTCCCCTTGTGGACATTCTTACCATTGTTCATGTCGTTTAGCTCTATCTGCTGTCCTAATCTA
*
9753246 TTTGGCCTCAACAAACTTTTAGACCCTTTCATACAACTGATACAGCTATTCTGGTTTGTTTTTCA
326 TTTGGCCTCAACAAACTTCTAGACCCTTTCATACAACTGATACAGCTATTCTGGTTTGTTTTTCA
*
9753311 TTAACTAATATCTCAAATGA-TGTCTTACCCTTAAGGTGAAGTCCTAAATGGCCTATTTAGTATT
391 TTAACTAATATCTCAAATGACTGTCTTACCCTTAAGGTGAAGTCCTAAATGGCCCATTTAGTATT
* *
9753375 CAAATCCTTGGATTTCAAAAAGGTGGCGGTG-TGAACCT-TTTAAATGATGTCATAAAATTTTCT
456 CAAATCCTT-GATTTC-AAGA-GTGGCGGTGTTGAACCTCTTTAAATGATGTC-TAAAAGTTTCT
9753438 TTAGGC-TTTGCCTTCATGGGCTAACAAACATGTAGAATATTTTGGTGAACAATAATAATATATT
517 TTAGGCTTTTG-CTTCAT-GGCTAACAAACATGTAGAATA-TTT-GTGAACAATAATAATATATT
*
9753502 TGTGAACATATTCATTTAACATTTAGGAATGAG-TCATTTAACTTAATCTAGTCGAACATAAACC
1 TGTGAACATATTCATTTAACATTTAGGAACGAGTTCATTTAACTTAATCTAGTCGAACATAAACC
*
9753566 GAACATGAACATCCTACCATTTAAACGAACACTCGAATGAATAAAATAATTTTCTTATTGAGCAC
66 GAACATGAACATCCTACCATTTAAACGAACACTCGAATGAATAAAATAATTTTCTTATCGAGCAC
9753631 AAATCAAGCTCAAACAACTCTAAAAGTAAACAAACAAACCATAAATATATATTCGTTCATTTATG
131 AAATCAAGCTCAAACAACTCTAAAAGTAAACAAACAAACCATAAATATATATTCGTTCATTTATG
*
9753696 GTCAATATGTTTAACCCCTATAACGATTATCATGAAACCATTGGCTCAATGTTTCAATCTGTCTA
196 GTCAATATGTTTAACCCCTATAACGGTTATCATGAAACCATTGGCTCAATGTTTCAATCTGTCTA
*
9753761 TTTTCCCCTTGTGGACGTTCTTACCATTGTTCATGTCGTTTAGCTCTATCTGCTGTCCTAATCTA
261 TTTTCCCCTTGTGGACATTCTTACCATTGTTCATGTCGTTTAGCTCTATCTGCTGTCCTAATCTA
9753826 TTTGGCCTCAACAAACTTCTAGACCCTTTCATACAACTGATACAGCTATTCTGGTTTGTTTTTCA
326 TTTGGCCTCAACAAACTTCTAGACCCTTTCATACAACTGATACAGCTATTCTGGTTTGTTTTTCA
9753891 TTAACTAATATCTCAAATGATCGTGTCTTACCCTTAAGGTGAAGTCCTAAATGGCCCATTTAGTA
391 TTAACTAATATCTCAAATGA-C-TGTCTTACCCTTAAGGTGAAGTCCTAAATGGCCCATTTAGTA
* ***
9753956 TTCAAATCCTTGATTTCAAGAGTGGCGGTGTTGAACCTCTTTGAATGATGTCGCTAAGTTTCTTT
454 TTCAAATCCTTGATTTCAAGAGTGGCGGTGTTGAACCTCTTTAAATGATGTCTAAAAGTTTCTTT
9754021 AGGCTTTTGCTTCATGGCTAACAAACA--T-G--TA-----G---------AA-ATATT
519 AGGCTTTTGCTTCATGGCTAACAAACATGTAGAATATTTGTGAACAATAATAATATATT
* *
9754060 TGTGAACATATTCATTTAACATTTAGGAATGAGTTCATTTAACTTAATCTAATCGAACATAAACC
1 TGTGAACATATTCATTTAACATTTAGGAACGAGTTCATTTAACTTAATCTAGTCGAACATAAACC
* * *
9754125 GAACATGAACATCCTACCATTTAAACGAACACTCGAATGAATAGAATAATTTTCTTATCAAGAAC
66 GAACATGAACATCCTACCATTTAAACGAACACTCGAATGAATAAAATAATTTTCTTATCGAGCAC
*
9754190 AAATCAAGCTCAAACAACTCTAAAAGTAAACAAACTAACCATAAATATATATTCGTTCATTTATG
131 AAATCAAGCTCAAACAACTCTAAAAGTAAACAAACAAACCATAAATATATATTCGTTCATTTATG
*
9754255 GTCAATATGTTTAACCCCTATAACGGTTATCATGAAACCATTGGCTCAATGTTTCAATTTGTCTA
196 GTCAATATGTTTAACCCCTATAACGGTTATCATGAAACCATTGGCTCAATGTTTCAATCTGTCTA
* * *
9754320 TTTTCCCCTTGTGGACGTTCTTACCATTGTTCATGTCGTTTAGCTCTATCTGTTGTCTTAATCTA
261 TTTTCCCCTTGTGGACATTCTTACCATTGTTCATGTCGTTTAGCTCTATCTGCTGTCCTAATCTA
* * * * * * *
9754385 TTTTGCCTCATCAAACTTCTAGATCCTTTCATACAATTAATACAGCTATTTTGATTTGTTTTTCA
326 TTTGGCCTCAACAAACTTCTAGACCCTTTCATACAACTGATACAGCTATTCTGGTTTGTTTTTCA
* *
9754450 TTAACTAATATCTCAAATGA------T-CCCTTAAGATAAAGTCCTAAATGGCCCATTTAGTATT
391 TTAACTAATATCTCAAATGACTGTCTTACCCTTAAGGTGAAGTCCTAAATGGCCCATTTAGTATT
* * * **
9754508 TAAATCCTTGATTTCAAGAGTGGCGGTATTAAACCTCTTTAAATGATGTCGCAAAGTTTCTTTAG
456 CAAATCCTTGATTTCAAGAGTGGCGGTGTTGAACCTCTTTAAATGATGTCTAAAAGTTTCTTTAG
9754573 GCTTTTGCTTCATGGCTAACAAACATGTAGAA
521 GCTTTTGCTTCATGGCTAACAAACATGTAGAA
9754605 ATGCAGACCA
Statistics
Matches: 1611, Mismatches: 52, Indels: 71
0.93 0.03 0.04
Matches are distributed among these distances:
550 120 0.07
551 1 0.00
552 1 0.00
553 1 0.00
558 38 0.02
559 361 0.22
568 1 0.00
575 2 0.00
577 1 0.00
578 1 0.00
580 391 0.24
581 67 0.04
582 78 0.05
583 82 0.05
584 385 0.24
585 75 0.05
586 6 0.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (577 bp):
TGTGAACATATTCATTTAACATTTAGGAACGAGTTCATTTAACTTAATCTAGTCGAACATAAACC
GAACATGAACATCCTACCATTTAAACGAACACTCGAATGAATAAAATAATTTTCTTATCGAGCAC
AAATCAAGCTCAAACAACTCTAAAAGTAAACAAACAAACCATAAATATATATTCGTTCATTTATG
GTCAATATGTTTAACCCCTATAACGGTTATCATGAAACCATTGGCTCAATGTTTCAATCTGTCTA
TTTTCCCCTTGTGGACATTCTTACCATTGTTCATGTCGTTTAGCTCTATCTGCTGTCCTAATCTA
TTTGGCCTCAACAAACTTCTAGACCCTTTCATACAACTGATACAGCTATTCTGGTTTGTTTTTCA
TTAACTAATATCTCAAATGACTGTCTTACCCTTAAGGTGAAGTCCTAAATGGCCCATTTAGTATT
CAAATCCTTGATTTCAAGAGTGGCGGTGTTGAACCTCTTTAAATGATGTCTAAAAGTTTCTTTAG
GCTTTTGCTTCATGGCTAACAAACATGTAGAATATTTGTGAACAATAATAATATATT
Found at i:9758158 original size:2 final size:2
Alignment explanation
Indices: 9758153--9758195 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
9758143 TTTTTACTTC
* *
9758153 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TC TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9758195 T
1 T
9758196 TTGCTTTAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9758307 original size:13 final size:13
Alignment explanation
Indices: 9758291--9758332 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
9758281 GAAATTTATG
*
9758291 AAATTTTTATTAA
1 AAATTTTTAATAA
9758304 AAATTGTTTAATAA
1 AAATT-TTTAATAA
*
9758318 AAAATTTTAATAA
1 AAATTTTTAATAA
9758331 AA
1 AA
9758333 TATTCAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (13 bp):
AAATTTTTAATAA
Found at i:9758477 original size:13 final size:12
Alignment explanation
Indices: 9758442--9758485 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
9758432 TATGTAATAG
*
9758442 TAAAAATTTTAT
1 TAAAAATTTTAC
*
9758454 TAAAATTTTTAC
1 TAAAAATTTTAC
9758466 TAAAAATGTTTATC
1 TAAAAAT-TTTA-C
9758480 TAAAAA
1 TAAAAA
9758486 ATATCAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 16 0.59
13 4 0.15
14 7 0.26
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (12 bp):
TAAAAATTTTAC
Found at i:9759814 original size:29 final size:29
Alignment explanation
Indices: 9759773--9759828 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
9759763 TCATAATCAT
*
9759773 TTTTAATTTTTAATATATATCTAAATATA
1 TTTTAATTTTTAATATATATCCAAATATA
* *
9759802 TTTTATTTTTTAATTTATATCCAAATA
1 TTTTAATTTTTAATATATATCCAAATA
9759829 ACCCTTTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (29 bp):
TTTTAATTTTTAATATATATCCAAATATA
Found at i:9762378 original size:2 final size:2
Alignment explanation
Indices: 9762371--9762404 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9762361 CAACCGCTGC
9762371 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9762405 TTGCTGCAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Done.