Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, 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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 84 of 100
Found at i:14979948 original size:45 final size:46
Alignment explanation
Indices: 14979877--14980016 Score: 169
Period size: 48 Copynumber: 3.0 Consensus size: 46
14979867 TTAATTAAAA
* *
14979877 AAATAAAAATGATTTT-AAGAAAAAGTTAAAAGTATCAATTTTTCTT
1 AAATAAAAAAGATTTTAAAG-AGAAGTTAAAAGTATCAATTTTTCTT
*
14979923 AAATAAAAAAG-TTTTAAAGAGAAGTTGAAAGTAGT-AATTTTTCTT
1 AAATAAAAAAGATTTTAAAGAGAAGTTAAAAGTA-TCAATTTTTCTT
* * *
14979968 AAACAAAAAAATGATTTTAAGGAGAATTTAAAAGTATCAATTTTTCTT
1 AAA-TAAAAAA-GATTTTAAAGAGAAGTTAAAAGTATCAATTTTTCTT
14980016 A
1 A
14980017 GAAAATAAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
45 29 0.36
46 20 0.25
47 2 0.02
48 30 0.37
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (46 bp):
AAATAAAAAAGATTTTAAAGAGAAGTTAAAAGTATCAATTTTTCTT
Found at i:14982514 original size:7 final size:8
Alignment explanation
Indices: 14982494--14982539 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
14982484 AATTTCAAAA
14982494 ATTTTTAT
1 ATTTTTAT
14982502 ATTTTTAT
1 ATTTTTAT
14982510 ATTTTTAT
1 ATTTTTAT
*
14982518 GCTTTTTAT
1 -ATTTTTAT
*
14982527 GTTTTTA-
1 ATTTTTAT
14982534 ATTTTT
1 ATTTTT
14982540 CCTTTTTGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
7 5 0.15
8 22 0.65
9 7 0.21
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (8 bp):
ATTTTTAT
Found at i:14983264 original size:21 final size:22
Alignment explanation
Indices: 14983225--14983281 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
14983215 TCTGGACAAT
14983225 TTCCAAAAATTTTACAAAAAAAGAAC
1 TTCCAAAAA--TTA-AAAAAAA-AAC
14983251 -TCCAAAAATTAAAAAAAAAAC
1 TTCCAAAAATTAAAAAAAAAAC
*
14983272 TTCTAAAAAT
1 TTCCAAAAAT
14983282 CCTATACTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 3 0.10
22 15 0.52
23 3 0.10
25 8 0.28
ACGTcount: A:0.61, C:0.14, G:0.02, T:0.23
Consensus pattern (22 bp):
TTCCAAAAATTAAAAAAAAAAC
Found at i:14983732 original size:23 final size:23
Alignment explanation
Indices: 14983612--14983738 Score: 73
Period size: 23 Copynumber: 5.3 Consensus size: 23
14983602 ATAGATAAAT
* **
14983612 AATAATAATAAAAA-ATAAAAGCA
1 AATAAAAATAAAAATA-AAAATAA
**
14983635 AATAAATAATAAAAATATTAAT-A
1 AATAAA-AATAAAAATAAAAATAA
*
14983658 GATAAAAAATAAAAATAAAAATATA
1 AAT-AAAAATAAAAATAAAAATA-A
* *
14983683 TATTAATAAATAGACAAAT-AATA-AA
1 -AATAA-AAATA-A-AAATAAAAATAA
14983708 AATAAAAATAAAAATAAAAATAAA
1 AATAAAAATAAAAATAAAAAT-AA
14983732 AATAAAA
1 AATAAAA
14983739 GCAAATTGGC
Statistics
Matches: 80, Mismatches: 12, Indels: 23
0.70 0.10 0.20
Matches are distributed among these distances:
21 4 0.05
22 4 0.05
23 26 0.32
24 26 0.32
25 5 0.06
26 7 0.09
27 4 0.05
28 4 0.05
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (23 bp):
AATAAAAATAAAAATAAAAATAA
Found at i:14983737 original size:6 final size:6
Alignment explanation
Indices: 14983634--14983738 Score: 88
Period size: 6 Copynumber: 17.3 Consensus size: 6
14983624 AAATAAAAGC
* * * *
14983634 AAATAA ATAATAA AAATAT TAATAG ATA-AA AAATAA AAATAA AAATATA
1 AAATAA A-AATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATA-A
* * * * *
14983683 TATTAA TAAATAG ACA-AA TAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA -AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
14983731 AAATAA AA
1 AAATAA AA
14983739 GCAAATTGGC
Statistics
Matches: 77, Mismatches: 17, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
5 5 0.06
6 59 0.77
7 13 0.17
ACGTcount: A:0.74, C:0.01, G:0.02, T:0.23
Consensus pattern (6 bp):
AAATAA
Found at i:14984186 original size:79 final size:82
Alignment explanation
Indices: 14984061--14984285 Score: 231
Period size: 79 Copynumber: 2.8 Consensus size: 82
14984051 GAGGCTCAAC
* * * **
14984061 GACTTTGAAAAATAAATGGCTCATCTAATCAGAGGCTTAACGACTTTGAAAAATAAATAAATTCT
1 GACTTTGCAAAATAAAT-GCTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAATAAATTCT
* *
14984126 CTAAGCAGAAGC-ACCAT
65 CAAAACAGAAGCAACCAT
* * * *** *
14984143 GAC-TT-CAAAATAAATGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATTGCTCCTC
1 GACTTTGCAAAATAAATGCTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAATAAATTCTC
* *
14984206 AAAATAGAGGCAACCAT
66 AAAACAGAAGCAACCAT
* * * *
14984223 GACTTTGGAAAATAAATTGCTTCTCTAAACAGAGGCACTACGACTTTGGAAAATAAATAAATT
1 GACTTTGCAAAATAAA-TGCTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAATAAATT
14984286 GCTTCTTAAC
Statistics
Matches: 113, Mismatches: 26, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
79 44 0.39
80 17 0.15
81 4 0.04
82 11 0.10
83 37 0.33
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.25
Consensus pattern (82 bp):
GACTTTGCAAAATAAATGCTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAATAAATTCTC
AAAACAGAAGCAACCAT
Found at i:14984241 original size:42 final size:41
Alignment explanation
Indices: 14984000--14984280 Score: 205
Period size: 41 Copynumber: 6.9 Consensus size: 41
14983990 TAAACAAAGT
* * * * *
14984000 TCCTCTAAACAGAGGCTCTACGACCTT-GAAAATATATGGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATTGC
*** * * * *
14984040 TCC-CTTAATTGGAGGCTCAACGACTTTGAAAAATAAATGGC
1 TCCTC-TAAACAGAGGCACCACGACTTTGGAAAATAAATTGC
* * *** * ***
14984081 TCATCTAATCAGAGGCTTAACGACTTTGAAAAATAAATAAA
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATTGC
* * * * *
14984122 TTCTCTAAGCAGAAGCACCATGAC-TT-CAAAATAAA-TGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATTGC
*
14984160 TCCTCTAAACAGAGGCACCACAACTTT-GAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAA-TAAATTGC
* * *
14984201 TCCTCAAAATAGAGGCAACCATGACTTTGGAAAATAAATTGC
1 TCCTCTAAACAGAGGC-ACCACGACTTTGGAAAATAAATTGC
* *
14984243 TTCTCTAAACAGAGGCACTACGACTTTGGAAAATAAAT
1 TCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAAT
14984281 AAATTGCTTC
Statistics
Matches: 192, Mismatches: 41, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
38 19 0.10
39 15 0.08
40 26 0.14
41 96 0.50
42 31 0.16
43 5 0.03
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.25
Consensus pattern (41 bp):
TCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATTGC
Found at i:14984647 original size:42 final size:42
Alignment explanation
Indices: 14984566--14984670 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 42
14984556 CTAAAGGCTT
* ** *
14984566 TTCAAAGGTTCTCATTTAGTAAACTTGGAATTCATATCC-AAAA
1 TTCAAAGCTTCTCATTT-G-AATTTTGGAATTCACATCCAAAAA
*
14984609 -TCTAAAGCTTTTCATTTGAATTTTGGAGATTCACATCCAAAAA
1 TTC-AAAGCTTCTCATTTGAATTTTGGA-ATTCACATCCAAAAA
14984652 TTCAAAGCTTCTCATTTGA
1 TTCAAAGCTTCTCATTTGA
14984671 GTTCAAAAGC
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
41 7 0.13
42 12 0.23
43 31 0.60
44 2 0.04
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.37
Consensus pattern (42 bp):
TTCAAAGCTTCTCATTTGAATTTTGGAATTCACATCCAAAAA
Found at i:14986085 original size:38 final size:37
Alignment explanation
Indices: 14986050--14986122 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
14986040 CCTCATTTCA
*
14986050 TCTTTT-TTTTTTATTTTTTTTCACCTTTCA-CCATTT
1 TCTTTTCTTTTTT-TTTTTTCTCACCTTTCATCCATTT
*
14986086 TCTTTTCCTTTTTTTTTTTTCTCATCTTTCATCCATT
1 TCTTTT-CTTTTTTTTTTTTCTCACCTTTCATCCATT
14986123 GTTGATATCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 6 0.19
37 15 0.47
38 11 0.34
ACGTcount: A:0.10, C:0.22, G:0.00, T:0.68
Consensus pattern (37 bp):
TCTTTTCTTTTTTTTTTTTCTCACCTTTCATCCATTT
Found at i:14988691 original size:52 final size:52
Alignment explanation
Indices: 14988610--14988766 Score: 201
Period size: 52 Copynumber: 3.0 Consensus size: 52
14988600 TATAACCATA
* * *
14988610 CAAACTTGCCCATTAAGAAT-CCTTCTCCTTTTAAAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTT-TCCTTTTAGAATTCTTCTCCTGCAAGT
*
14988662 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCCTGCAAGT
* * * **
14988714 CAAACTTACCTATTAAGAATCTTCTTT-CTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATC-CCTTTCCTTTTAGAATTCTTCTCCTGCAAGT
14988766 C
1 C
14988767 TTCTTGTCCA
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 87 0.92
53 8 0.08
ACGTcount: A:0.26, C:0.25, G:0.08, T:0.41
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCCTGCAAGT
Found at i:14988807 original size:11 final size:11
Alignment explanation
Indices: 14988791--14988832 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
14988781 GCAATATCTG
*
14988791 ACAAATCTTAA
1 ACAAATCTCAA
*
14988802 ACAAATATCAA
1 ACAAATCTCAA
*
14988813 ACAAATCCCAA
1 ACAAATCTCAA
14988824 ACAAATCTC
1 ACAAATCTC
14988833 TTATGGGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:14997019 original size:162 final size:162
Alignment explanation
Indices: 14996839--14997177 Score: 669
Period size: 162 Copynumber: 2.1 Consensus size: 162
14996829 TTATTCCATA
14996839 AAAATACCTTCAATAATTTCCCTCTAAAAAATTTTGGGATTATTAAAAGCATCTTCTACTGACAA
1 AAAATACCTTCAATAATTTCCCTCTAAAAAATTTTGGGATTATTAAAAGCATCTTCTACTGACAA
14996904 AAGCTTCAATAATTTCTTTTAACTTATCTACATAAATATTGAAGCTGTTAAACGCCTTTTAAAAT
66 AAGCTTCAATAATTTCTTTTAACTTATCTACATAAATATTGAAGCTGTTAAACGCCTTTTAAAAT
14996969 TTGTTAGGATTATTAAAGACATCTTTTACTAC
131 TTGTTAGGATTATTAAAGACATCTTTTACTAC
14997001 AAAATACCTTCAATAATTTCCCTCTAAAAAATTTTGGGATTATTAAAAGCATCTTCTACTGACAA
1 AAAATACCTTCAATAATTTCCCTCTAAAAAATTTTGGGATTATTAAAAGCATCTTCTACTGACAA
*
14997066 AAGCTTCAATAATTTCTTTTAACTTATCTACATAAATATTGAAGCTGTTAAATGCCTTTTAAAAT
66 AAGCTTCAATAATTTCTTTTAACTTATCTACATAAATATTGAAGCTGTTAAACGCCTTTTAAAAT
14997131 TTGTTAGGATTATTAAAGACATCTTTTACTAC
131 TTGTTAGGATTATTAAAGACATCTTTTACTAC
14997163 AAAATACCTTCAATA
1 AAAATACCTTCAATA
14997178 TATAGCTACA
Statistics
Matches: 176, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
162 176 1.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (162 bp):
AAAATACCTTCAATAATTTCCCTCTAAAAAATTTTGGGATTATTAAAAGCATCTTCTACTGACAA
AAGCTTCAATAATTTCTTTTAACTTATCTACATAAATATTGAAGCTGTTAAACGCCTTTTAAAAT
TTGTTAGGATTATTAAAGACATCTTTTACTAC
Found at i:14997506 original size:172 final size:173
Alignment explanation
Indices: 14997208--14997536 Score: 421
Period size: 172 Copynumber: 1.9 Consensus size: 173
14997198 CACGGTAATT
* * * * *
14997208 AAAGGCGTATATTCAAGAAAAACATCTTTAATAATTCTTTTAAAATTTTGTAGATAATTAGTGAA
1 AAAGGCGTATATTCAAGAAAAACACCTTTAATAATTCCTTTAAAATTATGTACATAATTACTGAA
* *
14997273 GGCGTTTGCATATAACAAACGCCGTCAATAATTTTTTTAAAAAAAATTTTGAGATTATTAAAGGC
66 GGCGTTTGCATATAACAAACGCCGTCAATAATTTCTCTAAAAAAAATTTTGAGATTATTAAAGGC
*
14997338 ATCTTCTACTGAAAAATGCCTTCAATATACTACTATGGTTATA
131 ATCTTCTACTGAAAAATGCCTTAAATATACTACTATGGTTATA
* * * *
14997381 AAAGGCGTTTATTCAAGAAAAACGCCTTTAATAATTCCTTTAAACTTAT-TACATAATTACTTAA
1 AAAGGCGTATATTCAAGAAAAACACCTTTAATAATTCCTTTAAAATTATGTACATAATTACTGAA
* * ** * * **
14997445 GGTGTTTG-TTAATAATGAACGCCTTTAATAATTTCTCTCTAAAAAATTTT-AGAATTATTAAAG
66 GGCGTTTGCAT-ATAACAAACGCCGTCAATAATTTCTCTAAAAAAAATTTTGAG-ATTATTAAAG
* *
14997508 GCATCTTCTATTGACAAATGCCTTAAATA
129 GCATCTTCTACTGAAAAATGCCTTAAATA
14997537 ATTCTTTTTA
Statistics
Matches: 132, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
171 3 0.02
172 86 0.65
173 43 0.33
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.37
Consensus pattern (173 bp):
AAAGGCGTATATTCAAGAAAAACACCTTTAATAATTCCTTTAAAATTATGTACATAATTACTGAA
GGCGTTTGCATATAACAAACGCCGTCAATAATTTCTCTAAAAAAAATTTTGAGATTATTAAAGGC
ATCTTCTACTGAAAAATGCCTTAAATATACTACTATGGTTATA
Found at i:15002646 original size:304 final size:304
Alignment explanation
Indices: 15002097--15002691 Score: 769
Period size: 304 Copynumber: 2.0 Consensus size: 304
15002087 CCAAAGCCAC
* * * * ** * *
15002097 CTTCAATAATTACCCCAAAATTTTATTGTGTGGAATATTAAAGGTGTTTTGGACAAAAAATGCCT
1 CTTCAATAATCACCCCAAAAATTTATTATGTGGAATATCAAAGGCATTGTGGACAAAAAATACCT
* * * *
15002162 TCAAGAATCCATCGCATCTTTTTTGTATGAATTATTTAAGGCGTTTTAAAAAAATGCCTTCAATA
66 TCAAGAATCCATCGCATCTTTTTTGTATAAATTATTAAAGGCATTTTAAAAAAATACCTTCAATA
* * * * **
15002227 ATACCAAGTAAAAATTAATCGAATGGATTATGAAGGGTGTTTTCCTATGAGTAATGCCTTGAATA
131 ATACCAACTAAAAATTAATCGAATAGATTATGAAAGGCGTTTTCCTATGAGTAACACCTTGAATA
* * * *** * *
15002292 ATCCCTAACAAAATTTTATTGAAGGCATTTCTGGATATAATTGCCTTCAATAATTCGACCATTAA
196 ATCCCTAACAAAATGTTATTAAAGACATTTCTGGATATAACCACCTTCAATAATCCAACCATTAA
15002357 AACTTATCGTATGAAATATTAAAGGCATTTTTTTACCAAAAATG
261 AACTTATCGTATGAAATATTAAAGGCATTTTTTTACCAAAAATG
* ** *
15002401 CTTCAATAATCCCCCCAAAAATTTATTATGTGGAATATCAAAGGCATTGTGGGTAAAAACTACCT
1 CTTCAATAATCACCCCAAAAATTTATTATGTGGAATATCAAAGGCATTGTGGACAAAAAATACCT
* * * * *
15002466 TCAAGAATTCATCTCGTCTTTTTTGTATAAATTATTAAAGGTATTTT-AAAAAATCACCTTTAAT
66 TCAAGAATCCATCGCATCTTTTTTGTATAAATTATTAAAGGCATTTTAAAAAAAT-ACCTTCAAT
* *
15002530 AATACCAACTAAAAATTAATCGAATAGATTATGAAAGGCGTTTTCCTATGGGTTACACCTTGAAT
130 AATACCAACTAAAAATTAATCGAATAGATTATGAAAGGCGTTTTCCTATGAGTAACACCTTGAAT
* * * * *
15002595 AATCCTTAATAAAATGTTATTAAAGACGTTTTTGGATATAACCACCTTCAATAATCCAACTATTA
195 AATCCCTAACAAAATGTTATTAAAGACATTTCTGGATATAACCACCTTCAATAATCCAACCATTA
* * *
15002660 AAATTTATCGTCTGAAATATTATAGGCATTTT
260 AAACTTATCGTATGAAATATTAAAGGCATTTT
15002692 GAGCCAAAAA
Statistics
Matches: 245, Mismatches: 45, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
303 7 0.03
304 238 0.97
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.36
Consensus pattern (304 bp):
CTTCAATAATCACCCCAAAAATTTATTATGTGGAATATCAAAGGCATTGTGGACAAAAAATACCT
TCAAGAATCCATCGCATCTTTTTTGTATAAATTATTAAAGGCATTTTAAAAAAATACCTTCAATA
ATACCAACTAAAAATTAATCGAATAGATTATGAAAGGCGTTTTCCTATGAGTAACACCTTGAATA
ATCCCTAACAAAATGTTATTAAAGACATTTCTGGATATAACCACCTTCAATAATCCAACCATTAA
AACTTATCGTATGAAATATTAAAGGCATTTTTTTACCAAAAATG
Found at i:15004815 original size:19 final size:20
Alignment explanation
Indices: 15004791--15004838 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
15004781 TATTACTAAT
*
15004791 TATATTTTTAAATTT-AAAA
1 TATATTTATAAATTTGAAAA
*
15004810 TATATTTATCAATTTGAAAA
1 TATATTTATAAATTTGAAAA
15004830 T-TATTTATA
1 TATATTTATA
15004839 TACTTAATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
TATATTTATAAATTTGAAAA
Found at i:15005826 original size:17 final size:17
Alignment explanation
Indices: 15005800--15005852 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
15005790 ATATTCTTTT
*
15005800 ATTAAGATAATATAAAA
1 ATTAAAATAATATAAAA
15005817 ATTAAAATAA-ATTAAAAA
1 ATTAAAATAATA-T-AAAA
*
15005835 ATTAAAATTATA-AAAA
1 ATTAAAATAATATAAAA
15005851 AT
1 AT
15005853 AGTAAAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
16 7 0.23
17 10 0.32
18 13 0.42
19 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
ATTAAAATAATATAAAA
Found at i:15007869 original size:13 final size:13
Alignment explanation
Indices: 15007851--15007877 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15007841 TGACTTAGCT
15007851 TCTAATTAATGGA
1 TCTAATTAATGGA
15007864 TCTAATTAATGGA
1 TCTAATTAATGGA
15007877 T
1 T
15007878 ATTAACAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (13 bp):
TCTAATTAATGGA
Found at i:15015183 original size:8 final size:8
Alignment explanation
Indices: 15015172--15015196 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15015162 CTTTCTTCTC
15015172 CATTGTTG
1 CATTGTTG
15015180 CATTGTTG
1 CATTGTTG
15015188 CATTGTTG
1 CATTGTTG
15015196 C
1 C
15015197 CATAATTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.16, G:0.24, T:0.48
Consensus pattern (8 bp):
CATTGTTG
Found at i:15017065 original size:1 final size:1
Alignment explanation
Indices: 15017059--15017084 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
15017049 TTTAAAACAG
15017059 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
15017085 AAATTTTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:15019136 original size:13 final size:14
Alignment explanation
Indices: 15019101--15019148 Score: 62
Period size: 13 Copynumber: 3.4 Consensus size: 14
15019091 AAGGTTTCAA
15019101 GATTTTAGGAGTTTG
1 GATTTTA-GAGTTTG
15019116 GATTTTAGAGTTTG
1 GATTTTAGAGTTTG
*
15019130 G-TTTTAGGGTTTGG
1 GATTTTAGAGTTT-G
15019144 GATTT
1 GATTT
15019149 AAGGTTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 10 0.33
14 10 0.33
15 10 0.33
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (14 bp):
GATTTTAGAGTTTG
Found at i:15019149 original size:14 final size:13
Alignment explanation
Indices: 15019104--15019155 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
15019094 GTTTCAAGAT
15019104 TTTAGGAGTTTGGA
1 TTTAGG-GTTTGGA
* *
15019118 TTTTAGAGTTTGGT
1 -TTTAGGGTTTGGA
15019132 TTTAGGGTTTGGGA
1 TTTAGGGTTT-GGA
*
15019146 TTTAAGGTTT
1 TTTAGGGTTT
15019156 TAAAGTTTGG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 9 0.29
14 17 0.55
15 5 0.16
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (13 bp):
TTTAGGGTTTGGA
Found at i:15019157 original size:22 final size:22
Alignment explanation
Indices: 15019129--15019187 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
15019119 TTTAGAGTTT
15019129 GGTTTTAGGGTTTGGGATTTAA
1 GGTTTTAGGGTTTGGGATTTAA
** * *
15019151 GGTTTTAAAGTTTGGGGTTTTA
1 GGTTTTAGGGTTTGGGATTTAA
15019173 GGATTTTGAGGGTTT
1 GG-TTTT-AGGGTTT
15019188 TAGGGTTTGA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
22 20 0.69
23 4 0.14
24 5 0.17
ACGTcount: A:0.17, C:0.00, G:0.36, T:0.47
Consensus pattern (22 bp):
GGTTTTAGGGTTTGGGATTTAA
Found at i:15019192 original size:8 final size:8
Alignment explanation
Indices: 15019129--15019195 Score: 50
Period size: 8 Copynumber: 8.6 Consensus size: 8
15019119 TTTAGAGTTT
15019129 GGTTTTAG
1 GGTTTTAG
15019137 GG-TTT-G
1 GGTTTTAG
* *
15019143 GGATTTAA
1 GGTTTTAG
*
15019151 GGTTTTAA
1 GGTTTTAG
* *
15019159 AG-TTTGG
1 GGTTTTAG
15019166 GGTTTTAG
1 GGTTTTAG
*
15019174 GATTTTGAG
1 GGTTTT-AG
15019183 GGTTTTAG
1 GGTTTTAG
15019191 GGTTT
1 GGTTT
15019196 GAAAGGTTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
6 3 0.07
7 10 0.22
8 26 0.57
9 7 0.15
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (8 bp):
GGTTTTAG
Found at i:15019196 original size:16 final size:16
Alignment explanation
Indices: 15019160--15019211 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
15019150 AGGTTTTAAA
15019160 GTTTG-GGGTTTTAGG
1 GTTTGAGGGTTTTAGG
*
15019175 ATTTTGAGGGTTTTAGG
1 -GTTTGAGGGTTTTAGG
*
15019192 GTTTGAAAGG-TTTAGG
1 GTTTG-AGGGTTTTAGG
15019208 GTTT
1 GTTT
15019212 AGAAATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 18 0.58
17 13 0.42
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (16 bp):
GTTTGAGGGTTTTAGG
Found at i:15019213 original size:40 final size:40
Alignment explanation
Indices: 15019146--15019226 Score: 94
Period size: 40 Copynumber: 2.0 Consensus size: 40
15019136 GGGTTTGGGA
* * *
15019146 TTTAAGGTTTTAAAGTTTGGGGTTTTAG-GATTTTGAGGGT
1 TTTAAGGTTTGAAAGTTTAGGGTTTTAGAAATTTT-AGGGT
*
15019186 TTTAGGGTTTGAAAGGTTTAGGG-TTTAGAAATTTTAGGGT
1 TTTAAGGTTTGAAA-GTTTAGGGTTTTAGAAATTTTAGGGT
15019226 T
1 T
15019227 GCAAGGGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
40 23 0.66
41 12 0.34
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (40 bp):
TTTAAGGTTTGAAAGTTTAGGGTTTTAGAAATTTTAGGGT
Found at i:15019221 original size:16 final size:16
Alignment explanation
Indices: 15019184--15019226 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
15019174 GATTTTGAGG
15019184 GTTTTAGGGTTTGAAA
1 GTTTTAGGGTTTGAAA
*
15019200 GGTTTAGGGTTTAGAAA
1 GTTTTAGGGTTT-GAAA
15019217 -TTTTAGGGTT
1 GTTTTAGGGTT
15019227 GCAAGGGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (16 bp):
GTTTTAGGGTTTGAAA
Found at i:15019514 original size:16 final size:17
Alignment explanation
Indices: 15019495--15019530 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
15019485 TAGGGAAAAA
15019495 TTTT-TTATCACTTTAT
1 TTTTATTATCACTTTAT
*
15019511 TTTTATTATCATTTTAT
1 TTTTATTATCACTTTAT
15019528 TTT
1 TTT
15019531 AGATTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTATTATCACTTTAT
Found at i:15021664 original size:22 final size:22
Alignment explanation
Indices: 15021638--15021684 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
15021628 TTTTAAAATG
15021638 TTTTGCCCAAAGGCCTTAAAGA
1 TTTTGCCCAAAGGCCTTAAAGA
* * *
15021660 TTTTGCCCGAAGGTCTTAAGGA
1 TTTTGCCCAAAGGCCTTAAAGA
15021682 TTT
1 TTT
15021685 CAAAATCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (22 bp):
TTTTGCCCAAAGGCCTTAAAGA
Found at i:15021720 original size:106 final size:106
Alignment explanation
Indices: 15021535--15021767 Score: 317
Period size: 106 Copynumber: 2.2 Consensus size: 106
15021525 TTGGAGATTG
* ***
15021535 TGCCCAAAGGTCTTGAAGATTATGCCCGGAAGTCTTAAAAATGTCAAAATCTTTGAATGCTCCTC
1 TGCCCAAAGGTCTTAAAGATTATGCCCGGAAGTCTTAAAAATGTCAAAATCTTTGAACAATCCTC
* *
15021600 ATACATTAGAGGCATTAAAACTTTAAAATTTTAAAATGTTT
66 ATACATTAAAGGCATTAAAACTTTAAAATTTTAAAATATTT
* * ** *
15021641 TGCCCAAAGGCCTTAAAGATTTTGCCC-GAAGGTCTTAAGGATTTCAAAATCTTTGAACAATCCT
1 TGCCCAAAGGTCTTAAAGATTATGCCCGGAA-GTCTTAAAAATGTCAAAATCTTTGAACAATCCT
* *
15021705 CATACATTAAAGGCATTGAAACTTTGAAATTTTAAAATATTT
65 CATACATTAAAGGCATTAAAACTTTAAAATTTTAAAATATTT
15021747 TGCCCGAAA-GTCTTAAAGATT
1 TGCCC-AAAGGTCTTAAAGATT
15021768 GCAAGATCTT
Statistics
Matches: 111, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
105 3 0.03
106 105 0.95
107 3 0.03
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (106 bp):
TGCCCAAAGGTCTTAAAGATTATGCCCGGAAGTCTTAAAAATGTCAAAATCTTTGAACAATCCTC
ATACATTAAAGGCATTAAAACTTTAAAATTTTAAAATATTT
Found at i:15021811 original size:84 final size:84
Alignment explanation
Indices: 15021659--15021936 Score: 315
Period size: 84 Copynumber: 3.3 Consensus size: 84
15021649 GGCCTTAAAG
* * * * *** * **
15021659 ATTTTGCCCGAAGGTCTTAAGGATTTCAAAATCTTTGAACAATCCTCATACATTAAAGGCATTGA
1 ATTTTGCCCGAAAGTCTTAAAGATTGCAAGATCTTTGAATGCTCCTCATACATTAGAGGTGTTGA
15021724 AACTTTGAAATTTTAAAAT
66 AACTTTGAAATTTTAAAAT
* *
15021743 ATTTTGCCCGAAAGTCTTAAAGATTGCAAGATCTTTGAATGCTCCTTATACATTAGAGGTGTTAA
1 ATTTTGCCCGAAAGTCTTAAAGATTGCAAGATCTTTGAATGCTCCTCATACATTAGAGGTGTTGA
15021808 AACTTTGAAATTTTAAAAT
66 AACTTTGAAATTTTAAAAT
* * * * * * *
15021827 GTTTTG-CCTAAAGGTCTTAGACATTTCAAGATCTTTGAATGCTCATCATATATTAGAGGTGTTG
1 ATTTTGCCCGAAA-GTCTTAAAGATTGCAAGATCTTTGAATGCTCCTCATACATTAGAGGTGTTG
**
15021891 AAACTTTGAAAACTTAAAAT
65 AAACTTTGAAATTTTAAAAT
* * * *
15021911 GTTCTGCCCGAAGGTCTTAAGGATTG
1 ATTTTGCCCGAAAGTCTTAAAGATTG
15021937 TGTTCGAAGG
Statistics
Matches: 162, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
83 5 0.03
84 153 0.94
85 4 0.02
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (84 bp):
ATTTTGCCCGAAAGTCTTAAAGATTGCAAGATCTTTGAATGCTCCTCATACATTAGAGGTGTTGA
AACTTTGAAATTTTAAAAT
Found at i:15022034 original size:106 final size:106
Alignment explanation
Indices: 15021837--15022059 Score: 331
Period size: 106 Copynumber: 2.1 Consensus size: 106
15021827 GTTTTGCCTA
*
15021837 AAGGTCTTAGACATTTCAAGATCTTTGAATGCTCATCATATATTAGAGGTGTTGAAACTTTGAAA
1 AAGGTCTTAGACATTTCAAAATCTTTGAATGCTCATCATATATTAGAGGTGTTGAAACTTTGAAA
* * * *
15021902 ACTTAAAATGTTCTGCCCGAAGGTCTTAAGGATTGTG-TTCG
66 ACTTAAAATGTTCTGCCCAAAAGTCTTAAAGATTATGCTT-G
* *
15021943 AAGGTCTTAGAGATTTCAAAATCTTTGAATGCTCCTCATATATTAGAGGTGTTGAAACTTTGAAA
1 AAGGTCTTAGACATTTCAAAATCTTTGAATGCTCATCATATATTAGAGGTGTTGAAACTTTGAAA
* * *
15022008 ATTTAAAATGTTTTGCCTAAAAGTCTTAAAGATTATGCTTG
66 ACTTAAAATGTTCTGCCCAAAAGTCTTAAAGATTATGCTTG
*
15022049 GAGGTCTTAGA
1 AAGGTCTTAGA
15022060 AATATGTTTA
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
106 103 0.98
107 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.36
Consensus pattern (106 bp):
AAGGTCTTAGACATTTCAAAATCTTTGAATGCTCATCATATATTAGAGGTGTTGAAACTTTGAAA
ACTTAAAATGTTCTGCCCAAAAGTCTTAAAGATTATGCTTG
Found at i:15022331 original size:18 final size:18
Alignment explanation
Indices: 15022305--15022345 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
15022295 AAATGATACT
* * *
15022305 AATGGAAATGTCGATGTG
1 AATGCAAATGTCAATGCG
15022323 AATGCAAATGTCAATGCG
1 AATGCAAATGTCAATGCG
15022341 AATGC
1 AATGC
15022346 TTGGAGCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (18 bp):
AATGCAAATGTCAATGCG
Found at i:15022490 original size:26 final size:26
Alignment explanation
Indices: 15022425--15022490 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
15022415 CAAATACCTT
* *
15022425 TTTCTTAGGATGCAAATGCAAATTTC
1 TTTCTTATGATGCAAATGCAAATGTC
* *
15022451 TTTCTTATGGTGCAAATGCAAATGTG
1 TTTCTTATGATGCAAATGCAAATGTC
15022477 TTT-TTCATGATGCA
1 TTTCTT-ATGATGCA
15022491 CATACAAGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 2 0.06
26 32 0.94
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (26 bp):
TTTCTTATGATGCAAATGCAAATGTC
Found at i:15022684 original size:17 final size:16
Alignment explanation
Indices: 15022662--15022701 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
15022652 ACCAATGCAA
15022662 TTTTTTCTTTCTTTTT
1 TTTTTTCTTTCTTTTT
*
15022678 GTTTTTTTTTTCTTTTT
1 -TTTTTTCTTTCTTTTT
15022695 TTTTTTC
1 TTTTTTC
15022702 CAACATTCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.88
Consensus pattern (16 bp):
TTTTTTCTTTCTTTTT
Found at i:15022688 original size:12 final size:11
Alignment explanation
Indices: 15022662--15022699 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
15022652 ACCAATGCAA
15022662 TTTTTTC-TTT
1 TTTTTTCTTTT
* *
15022672 CTTTTTGTTTT
1 TTTTTTCTTTT
15022683 TTTTTTCTTTT
1 TTTTTTCTTTT
15022694 TTTTTT
1 TTTTTT
15022700 TCCAACATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
10 5 0.22
11 18 0.78
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:15023927 original size:13 final size:13
Alignment explanation
Indices: 15023909--15023934 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15023899 CATGTCTTTC
15023909 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
15023922 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
15023935 GGACACATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TCTTTTTTTTTTT
Found at i:15023929 original size:15 final size:15
Alignment explanation
Indices: 15023905--15023934 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
15023895 GGTACATGTC
15023905 TTTCTCTTTTTTTTT
1 TTTCTCTTTTTTTTT
15023920 TTTCT-TTTTTTTTT
1 TTTCTCTTTTTTTTT
15023934 T
1 T
15023935 GGACACATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTCTCTTTTTTTTT
Found at i:15030959 original size:18 final size:18
Alignment explanation
Indices: 15030933--15030972 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
15030923 TTATCATGGG
15030933 TTAAGGAAATAAACTTTC
1 TTAAGGAAATAAACTTTC
*
15030951 TTAATGAAATAAACTTTC
1 TTAAGGAAATAAACTTTC
15030969 TTAA
1 TTAA
15030973 ATACCCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (18 bp):
TTAAGGAAATAAACTTTC
Found at i:15031610 original size:17 final size:17
Alignment explanation
Indices: 15031584--15031616 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15031574 AAAAATTTTT
15031584 TATCACTTTATTTTTAC
1 TATCACTTTATTTTTAC
*
15031601 TATCATTTTATTTTTA
1 TATCACTTTATTTTTA
15031617 AATTTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (17 bp):
TATCACTTTATTTTTAC
Found at i:15031623 original size:13 final size:13
Alignment explanation
Indices: 15031605--15031629 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15031595 TTTTACTATC
15031605 ATTTTATTTTTAA
1 ATTTTATTTTTAA
15031618 ATTTTATTTTTA
1 ATTTTATTTTTA
15031630 GCATTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTTATTTTTAA
Found at i:15031733 original size:3 final size:3
Alignment explanation
Indices: 15031718--15031782 Score: 114
Period size: 3 Copynumber: 21.7 Consensus size: 3
15031708 TTTTGAAATC
15031718 ATT ATT CATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
15031764 ATT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT AT
15031783 AAGGTTTATT
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.03
3 55 0.92
4 3 0.05
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:15031854 original size:10 final size:10
Alignment explanation
Indices: 15031839--15031872 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
15031829 AATTTAAATT
15031839 TTATTTATTA
1 TTATTTATTA
*
15031849 TTATTTATTG
1 TTATTTATTA
*
15031859 TTATTTACTA
1 TTATTTATTA
15031869 TTAT
1 TTAT
15031873 CATTAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (10 bp):
TTATTTATTA
Found at i:15033212 original size:6 final size:6
Alignment explanation
Indices: 15033201--15033229 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
15033191 TAAGTAATAA
15033201 AATTAT AATTAT AATTAT AATTAT AATTA
1 AATTAT AATTAT AATTAT AATTAT AATTA
15033230 AAAATTAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTAT
Found at i:15034410 original size:23 final size:23
Alignment explanation
Indices: 15034384--15034428 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
15034374 AGGCCAAGTT
* *
15034384 AAAGAACATTTAAAATTGAAATC
1 AAAGAACATTAAAAATTCAAATC
**
15034407 AAAGCCCATTAAAAATTCAAAT
1 AAAGAACATTAAAAATTCAAAT
15034429 AACCGATCTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.56, C:0.13, G:0.07, T:0.24
Consensus pattern (23 bp):
AAAGAACATTAAAAATTCAAATC
Found at i:15036281 original size:1 final size:1
Alignment explanation
Indices: 15036275--15036306 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
15036265 TTCTTTGTGG
15036275 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15036307 GGTTTCTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:15036597 original size:18 final size:16
Alignment explanation
Indices: 15036572--15036617 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
15036562 AATGTAAACC
15036572 AAAAACAAAAAAGTGAA
1 AAAAACAAAAAAG-GAA
15036589 AAAAGAC-AAAAAGGAA
1 AAAA-ACAAAAAAGGAA
15036605 AAAAACAACAAAA
1 AAAAACAA-AAAA
15036618 ATTAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.08
16 8 0.31
17 14 0.54
18 2 0.08
ACGTcount: A:0.78, C:0.09, G:0.11, T:0.02
Consensus pattern (16 bp):
AAAAACAAAAAAGGAA
Found at i:15037370 original size:2 final size:2
Alignment explanation
Indices: 15037354--15037426 Score: 59
Period size: 2 Copynumber: 39.0 Consensus size: 2
15037344 TATTTTATTA
* * *
15037354 AT AT A- AT AC AT AT AT AT A- AT -T AA AT AT AT A- AT A- AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
15037391 AT AT AT ACT -T CT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15037427 TACAGGATAG
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
1 6 0.10
2 51 0.88
3 1 0.02
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:15038092 original size:16 final size:18
Alignment explanation
Indices: 15038071--15038104 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
15038061 TTAAGATATA
15038071 TATTAA-ATAATA-ACAT
1 TATTAATATAATACACAT
15038087 TATTAATATAATACACAT
1 TATTAATATAATACACAT
15038105 ATACAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 6 0.38
18 4 0.25
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
TATTAATATAATACACAT
Found at i:15038505 original size:3 final size:3
Alignment explanation
Indices: 15038497--15038548 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
15038487 CCATTTTGTT
* *
15038497 TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTT TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15038544 TTA TT
1 TTA TT
15038549 TTCTTTTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:15039651 original size:16 final size:16
Alignment explanation
Indices: 15039630--15039681 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
15039620 AAAAAAAATT
15039630 TTTTTTTAATTTTTAA
1 TTTTTTTAATTTTTAA
*
15039646 TTTTTTTATATATTT-A
1 TTTTTTTA-ATTTTTAA
* *
15039662 TTTTATT-ATTTTGAA
1 TTTTTTTAATTTTTAA
15039677 TTTTT
1 TTTTT
15039682 ATCAATAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
14 4 0.14
15 5 0.17
16 15 0.52
17 5 0.17
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTTTTTAATTTTTAA
Found at i:15041211 original size:23 final size:21
Alignment explanation
Indices: 15041177--15041223 Score: 51
Period size: 23 Copynumber: 2.1 Consensus size: 21
15041167 TATTGAAATT
15041177 AAAAATATAAAACATACAAAACA
1 AAAAATATAAAACATA-AAAA-A
*
15041200 AAAAAGTA-AAAATATAAAAAA
1 AAAAA-TATAAAACATAAAAAA
15041221 AAA
1 AAA
15041224 GTGACACATC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 4 0.18
22 4 0.18
23 12 0.55
24 2 0.09
ACGTcount: A:0.79, C:0.06, G:0.02, T:0.13
Consensus pattern (21 bp):
AAAAATATAAAACATAAAAAA
Found at i:15041218 original size:21 final size:21
Alignment explanation
Indices: 15041184--15041223 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15041174 ATTAAAAATA
15041184 TAAAACATACAAAACAAAAAAG
1 TAAAACATACAAAA-AAAAAAG
*
15041206 TAAAA-ATATAAAAAAAAA
1 TAAAACATACAAAAAAAAA
15041224 GTGACACATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 7 0.41
22 5 0.29
ACGTcount: A:0.78, C:0.07, G:0.03, T:0.12
Consensus pattern (21 bp):
TAAAACATACAAAAAAAAAAG
Found at i:15041373 original size:16 final size:18
Alignment explanation
Indices: 15041352--15041385 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
15041342 TTAAGATATA
15041352 TATTAA-ATAATA-ACAT
1 TATTAATATAATACACAT
15041368 TATTAATATAATACACAT
1 TATTAATATAATACACAT
15041386 ATACAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 6 0.38
18 4 0.25
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
TATTAATATAATACACAT
Found at i:15041766 original size:35 final size:34
Alignment explanation
Indices: 15041701--15041768 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 34
15041691 ATTAACCTAT
* * *
15041701 GAAATAATAATTTATTAATATAATATATATATGA
1 GAAATAATAATTAAATAATATAATAAATATATGA
15041735 GAAATATATAATTAAATAA-ATAATAAAATATATG
1 GAAATA-ATAATTAAATAATATAAT-AAATATATG
15041769 CAAACACCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 11 0.38
35 18 0.62
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (34 bp):
GAAATAATAATTAAATAATATAATAAATATATGA
Found at i:15041791 original size:3 final size:3
Alignment explanation
Indices: 15041783--15041829 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
15041773 CACCATTTTG
15041783 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15041830 GTTGTTGTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:15041834 original size:3 final size:3
Alignment explanation
Indices: 15041828--15041859 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
15041818 ATTATTATTA
15041828 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
15041860 ATTACTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:15049425 original size:22 final size:24
Alignment explanation
Indices: 15049389--15049433 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
15049379 AAAAAAATTA
*
15049389 AAAAGCTTAGAATTAAATTTGAAC
1 AAAAGCTTAGAATTAAACTTGAAC
15049413 AAAA-CTTA-AATTAAACTTGAA
1 AAAAGCTTAGAATTAAACTTGAA
15049434 TGAAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 12 0.60
23 4 0.20
24 4 0.20
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.29
Consensus pattern (24 bp):
AAAAGCTTAGAATTAAACTTGAAC
Found at i:15053342 original size:17 final size:19
Alignment explanation
Indices: 15053309--15053345 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
15053299 TTTTTCTATT
15053309 TCTTTTGTTTCATTTTTAA
1 TCTTTTGTTTCATTTTTAA
15053328 TCTTTT-TTT-ATTTTTAA
1 TCTTTTGTTTCATTTTTAA
15053345 T
1 T
15053346 GGCAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 3 0.17
19 6 0.33
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.73
Consensus pattern (19 bp):
TCTTTTGTTTCATTTTTAA
Found at i:15055121 original size:17 final size:18
Alignment explanation
Indices: 15055085--15055121 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15055075 ATTTTCATAG
15055085 AAACATAGTGTTTGATAT
1 AAACATAGTGTTTGATAT
*
15055103 AAACATTGTGTTT-ATAT
1 AAACATAGTGTTTGATAT
15055120 AA
1 AA
15055122 GAAAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (18 bp):
AAACATAGTGTTTGATAT
Found at i:15055671 original size:2 final size:2
Alignment explanation
Indices: 15055642--15055696 Score: 76
Period size: 2 Copynumber: 28.0 Consensus size: 2
15055632 ATTCTGAATT
* * *
15055642 TA TA TA -A TA AA TA TA AA TA TA AA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15055683 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
15055697 GAAAATGGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:15056333 original size:18 final size:18
Alignment explanation
Indices: 15056289--15056335 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
15056279 AATATAAAAT
*
15056289 ATATTTT-ATTTTATTAA
1 ATATTTTAATTTAATTAA
*
15056306 AT-TATATAATTTAATTAA
1 ATAT-TTTAATTTAATTAA
15056324 ATATTTTAATTT
1 ATATTTTAATTT
15056336 TTTTATCCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 1 0.04
17 4 0.17
18 18 0.75
19 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTTAATTTAATTAA
Found at i:15057315 original size:35 final size:35
Alignment explanation
Indices: 15057276--15057351 Score: 134
Period size: 35 Copynumber: 2.2 Consensus size: 35
15057266 TGATAGAAGT
15057276 AAACCTAAAAATTTACTTAGATAAAAGCAAAAATA
1 AAACCTAAAAATTTACTTAGATAAAAGCAAAAATA
*
15057311 AAACCTAAAAATTTAGTTAGATAAAAGCAAAAATA
1 AAACCTAAAAATTTACTTAGATAAAAGCAAAAATA
*
15057346 ATACCT
1 AAACCT
15057352 CTTCAGTCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.58, C:0.12, G:0.07, T:0.24
Consensus pattern (35 bp):
AAACCTAAAAATTTACTTAGATAAAAGCAAAAATA
Found at i:15060024 original size:2 final size:2
Alignment explanation
Indices: 15060017--15060044 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15060007 AGTGAGGTAT
15060017 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15060045 CACACCCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15061047 original size:29 final size:30
Alignment explanation
Indices: 15060987--15061050 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 30
15060977 TTAAGGCCAA
*
15060987 TAGATTACACTTTTGATAAAAACTGAGTTC
1 TAGATTACACTTTTGATAAAAACTAAGTTC
*
15061017 TAGATTACACTTTTGCT-AAAACTAAGTTC
1 TAGATTACACTTTTGATAAAAACTAAGTTC
15061046 TAGAT
1 TAGAT
15061051 CAGGGTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 16 0.50
30 16 0.50
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (30 bp):
TAGATTACACTTTTGATAAAAACTAAGTTC
Found at i:15063249 original size:19 final size:19
Alignment explanation
Indices: 15063221--15063271 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
15063211 ATTTCTCGTG
*
15063221 AAACTCTAAACTACCCACC
1 AAACCCTAAACTACCCACC
* * **
15063240 AAACCTTAAACCACCCATG
1 AAACCCTAAACTACCCACC
15063259 AAACCCTAAACTA
1 AAACCCTAAACTA
15063272 AACCCTAAAC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.45, C:0.37, G:0.02, T:0.16
Consensus pattern (19 bp):
AAACCCTAAACTACCCACC
Found at i:15063269 original size:7 final size:7
Alignment explanation
Indices: 15063259--15063334 Score: 65
Period size: 7 Copynumber: 11.7 Consensus size: 7
15063249 ACCACCCATG
15063259 AAACCCT
1 AAACCCT
15063266 AAA--CT
1 AAACCCT
15063271 AAACCCT
1 AAACCCT
15063278 AAA-CC-
1 AAACCCT
*
15063283 AAACGCT
1 AAACCCT
15063290 AAACCCT
1 AAACCCT
15063297 AAA-CC-
1 AAACCCT
*
15063302 AAACCCC
1 AAACCCT
*
15063309 AAACCGT
1 AAACCCT
*
15063316 AAACCCC
1 AAACCCT
*
15063323 AAACCGT
1 AAACCCT
15063330 AAACC
1 AAACC
15063335 TTAATCCCAA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
5 11 0.20
6 7 0.13
7 37 0.67
ACGTcount: A:0.47, C:0.39, G:0.04, T:0.09
Consensus pattern (7 bp):
AAACCCT
Found at i:15063281 original size:19 final size:19
Alignment explanation
Indices: 15063269--15063334 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
15063259 AAACCCTAAA
*
15063269 CTAAACCCTAAACCAAACG
1 CTAAACCCTAAACCAAACC
15063288 CTAAACCCTAAACCAAACC
1 CTAAACCCTAAACCAAACC
* *
15063307 CCAAACCGTAAACCCCAAACC
1 CTAAACCCTAAA--CCAAACC
*
15063328 GTAAACC
1 CTAAACC
15063335 TTAATCCCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
19 28 0.70
21 12 0.30
ACGTcount: A:0.45, C:0.41, G:0.05, T:0.09
Consensus pattern (19 bp):
CTAAACCCTAAACCAAACC
Found at i:15063307 original size:12 final size:12
Alignment explanation
Indices: 15063259--15063294 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
15063249 ACCACCCATG
*
15063259 AAACCCTAAACT
1 AAACCCTAAACC
15063271 AAACCCTAAACC
1 AAACCCTAAACC
*
15063283 AAACGCTAAACC
1 AAACCCTAAACC
15063295 CTAAACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.50, C:0.36, G:0.03, T:0.11
Consensus pattern (12 bp):
AAACCCTAAACC
Found at i:15071954 original size:31 final size:31
Alignment explanation
Indices: 15071919--15071981 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 31
15071909 ATTTGACCCA
15071919 TAAACTTT-ATAATT-TTAGTCACATTGGTACC
1 TAAACTTTCA-AATTGTTA-TCACATTGGTACC
*
15071950 TAAACTTTCAAATTGTTATCACGTTGGTACC
1 TAAACTTTCAAATTGTTATCACATTGGTACC
15071981 T
1 T
15071982 TTGACAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 25 0.86
32 4 0.14
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.41
Consensus pattern (31 bp):
TAAACTTTCAAATTGTTATCACATTGGTACC
Found at i:15072200 original size:9 final size:9
Alignment explanation
Indices: 15072168--15072569 Score: 107
Period size: 9 Copynumber: 41.8 Consensus size: 9
15072158 TTAAAACTTA
*
15072168 TAAAAAAAT
1 TAAAAAATT
*
15072177 TCAAAAATT
1 TAAAAAATT
15072186 TAAAAAATGT
1 TAAAAAAT-T
*
15072196 TAAAAATATC
1 TAAAAA-ATT
*
15072206 TAAACAAAGT
1 TAAA-AAATT
*
15072216 AAAAAAATTT
1 TAAAAAA-TT
*
15072226 TAAGAAATTT
1 TAA-AAAATT
*
15072236 TAAAAATTT
1 TAAAAAATT
**
15072245 TCTTAAAATT
1 T-AAAAAATT
15072255 CTAAAATAAAATTT
1 -T--AA-AAAA-TT
*
15072269 TAAATAATT
1 TAAAAAATT
15072278 T-AAAAATT
1 TAAAAAATT
*
15072286 GAATAAAATT
1 TAA-AAAATT
15072296 TAAAAAATT
1 TAAAAAATT
*
15072305 TAGATAAAAATA
1 T--A-AAAAATT
*
15072317 TAAAAAATGC
1 TAAAAAAT-T
15072327 T-AAAAATT
1 TAAAAAATT
* **
15072335 AAAAAAAAG
1 TAAAAAATT
15072344 TAAAAAATTT
1 TAAAAAA-TT
*
15072354 TAAAAATTAT
1 TAAAAAAT-T
15072364 TAAAAAATT
1 TAAAAAATT
* *
15072373 CAAAATATGT
1 TAAAAAAT-T
* *
15072383 AAAAAAATA
1 TAAAAAATT
* *
15072392 TGAAAATTT
1 TAAAAAATT
*
15072401 TGAAAAATT
1 TAAAAAATT
*
15072410 CTAACAAATT
1 -TAAAAAATT
**
15072420 T-TCAAATT
1 TAAAAAATT
15072428 TACAAAAATT
1 TA-AAAAATT
*
15072438 ATGAAATAATAT
1 -T-AAAAAAT-T
* **
15072450 CAAAATTTTT
1 TAAAA-AATT
* *
15072460 TAGAAAATA
1 TAAAAAATT
*
15072469 AAAAAAATCT
1 TAAAAAAT-T
*
15072479 GAAAAAAATT
1 -TAAAAAATT
15072489 TAAAAAATT
1 TAAAAAATT
*
15072498 CTAAAAACTCT
1 -TAAAAAAT-T
15072509 T---AAATT
1 TAAAAAATT
**
15072515 TAAAAAAAAAC
1 T--AAAAAATT
15072526 TAAAAAA-T
1 TAAAAAATT
*
15072534 TAAAAAAAT
1 TAAAAAATT
15072543 TAAAAGAATT
1 TAAAA-AATT
15072553 CTAAAAAATT
1 -TAAAAAATT
15072563 TAAAAAA
1 TAAAAAA
15072570 ATTCAAAAAG
Statistics
Matches: 288, Mismatches: 66, Indels: 78
0.67 0.15 0.18
Matches are distributed among these distances:
6 2 0.01
7 3 0.01
8 20 0.07
9 114 0.40
10 97 0.34
11 36 0.12
12 9 0.03
13 5 0.02
14 2 0.01
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.31
Consensus pattern (9 bp):
TAAAAAATT
Found at i:15072314 original size:21 final size:20
Alignment explanation
Indices: 15072269--15072340 Score: 64
Period size: 21 Copynumber: 3.8 Consensus size: 20
15072259 AATAAAATTT
15072269 TAAATAATTT-AAAAATTGAA
1 TAAA-AATTTAAAAAATTGAA
*
15072289 T-AAAATTTAAAAAATTTAGA
1 TAAAAATTTAAAAAATTGA-A
* *
15072309 TAAAAATATAAAAAA-TG-C
1 TAAAAATTTAAAAAATTGAA
15072327 TAAAAA-TTAAAAAA
1 TAAAAATTTAAAAAA
15072341 AAGTAAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
17 7 0.16
18 11 0.25
19 10 0.23
20 4 0.09
21 12 0.27
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (20 bp):
TAAAAATTTAAAAAATTGAA
Found at i:15072503 original size:20 final size:20
Alignment explanation
Indices: 15072469--15072583 Score: 70
Period size: 20 Copynumber: 6.0 Consensus size: 20
15072459 TTAGAAAATA
*
15072469 AAAAAAATCTGAAAAAAATTT
1 AAAAAATTCT-AAAAAAATTT
*
15072490 AAAAAATTCT-AAAAACTCTT
1 AAAAAATTCTAAAAAAAT-TT
**
15072510 ---AAATT-TAAAAAAAAACT
1 AAAAAATTCT-AAAAAAATTT
15072527 AAAAAA-T-TAAAAAAA-TT
1 AAAAAATTCTAAAAAAATTT
15072544 AAAAGAATTCT-AAAAAATTT
1 AAAA-AATTCTAAAAAAATTT
15072564 AAAAAAATTC-AAAAAGAATT
1 -AAAAAATTCTAAAAA-AATT
15072584 AAGGAATCTT
Statistics
Matches: 75, Mismatches: 6, Indels: 26
0.70 0.06 0.24
Matches are distributed among these distances:
16 1 0.01
17 11 0.15
18 14 0.19
19 15 0.20
20 17 0.23
21 17 0.23
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (20 bp):
AAAAAATTCTAAAAAAATTT
Found at i:15072540 original size:10 final size:9
Alignment explanation
Indices: 15072518--15072585 Score: 66
Period size: 9 Copynumber: 7.2 Consensus size: 9
15072508 TTAAATTTAA
*
15072518 AAAAAAACT
1 AAAAAAATT
15072527 -AAAAAATT
1 AAAAAAATT
15072535 AAAAAAATT
1 AAAAAAATT
*
15072544 AAAAGAATTCT
1 AAAA-AAAT-T
*
15072555 AAAAAATTT
1 AAAAAAATT
15072564 AAAAAAATT
1 AAAAAAATT
15072573 CAAAAAGAATT
1 -AAAAA-AATT
15072584 AA
1 AA
15072586 GGAATCTTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
8 7 0.14
9 21 0.41
10 14 0.27
11 9 0.18
ACGTcount: A:0.71, C:0.04, G:0.03, T:0.22
Consensus pattern (9 bp):
AAAAAAATT
Found at i:15072545 original size:28 final size:29
Alignment explanation
Indices: 15072514--15072578 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 29
15072504 ACTCTTAAAT
15072514 TTAAAAAAAAACTAAAAAA-TTAAAAAAA
1 TTAAAAAAAAACTAAAAAATTTAAAAAAA
* **
15072542 TTAAAAGAATTCTAAAAAATTTAAAAAAA
1 TTAAAAAAAAACTAAAAAATTTAAAAAAA
*
15072571 TTCAAAAA
1 TTAAAAAA
15072579 GAATTAAGGA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.23
Consensus pattern (29 bp):
TTAAAAAAAAACTAAAAAATTTAAAAAAA
Found at i:15072557 original size:11 final size:11
Alignment explanation
Indices: 15072543--15072583 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
15072533 TTAAAAAAAT
15072543 TAAAAGAATTC
1 TAAAAGAATTC
15072554 TAAAA-AATT-
1 TAAAAGAATTC
*
15072563 TAAAAAAATTC
1 TAAAAGAATTC
*
15072574 AAAAAGAATT
1 TAAAAGAATT
15072584 AAGGAATCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 5 0.19
10 8 0.31
11 13 0.50
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (11 bp):
TAAAAGAATTC
Found at i:15072585 original size:20 final size:19
Alignment explanation
Indices: 15072518--15072585 Score: 77
Period size: 20 Copynumber: 3.6 Consensus size: 19
15072508 TTAAATTTAA
*
15072518 AAAAAAACT-AAAAAATT-
1 AAAAAAATTAAAAAAATTC
*
15072535 AAAAAAATTAAAAGAATTC
1 AAAAAAATTAAAAAAATTC
*
15072554 TAAAAAATTTAAAAAAATTC
1 -AAAAAAATTAAAAAAATTC
15072574 AAAAAGAATTAA
1 AAAAA-AATTAA
15072586 GGAATCTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
17 8 0.19
18 7 0.17
19 5 0.12
20 22 0.52
ACGTcount: A:0.71, C:0.04, G:0.03, T:0.22
Consensus pattern (19 bp):
AAAAAAATTAAAAAAATTC
Found at i:15072608 original size:38 final size:38
Alignment explanation
Indices: 15072527--15072601 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
15072517 AAAAAAAACT
15072527 AAAAAATTAAAAAAATTAAAAGAATTCTAAAAAATTTA
1 AAAAAATTAAAAAAATTAAAAGAATTCTAAAAAATTTA
* *
15072565 AAAAAATTCAAAAAGAATT-AAGGAA-TCTTAAAAATTT
1 AAAAAATT-AAAAA-AATTAAAAGAATTCTAAAAAATTT
15072602 TTAAAAACCT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 19 0.58
39 10 0.30
40 4 0.12
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (38 bp):
AAAAAATTAAAAAAATTAAAAGAATTCTAAAAAATTTA
Found at i:15072711 original size:13 final size:13
Alignment explanation
Indices: 15072693--15072738 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
15072683 GAAATTTGGT
15072693 TAAAATTAAAAAA
1 TAAAATTAAAAAA
*
15072706 TAAAATTAAAAAC
1 TAAAATTAAAAAA
15072719 T--AA--AAAAAA
1 TAAAATTAAAAAA
15072728 TAAAATTAAAA
1 TAAAATTAAAA
15072739 TTTTTTTGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
9 6 0.22
11 4 0.15
13 17 0.63
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (13 bp):
TAAAATTAAAAAA
Found at i:15073037 original size:17 final size:17
Alignment explanation
Indices: 15073021--15073053 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
15073011 TTAAACTTTA
15073021 AGAAAATTTAA-TTTTT
1 AGAAAATTTAACTTTTT
*
15073037 ATAAAATTTAACTTTTT
1 AGAAAATTTAACTTTTT
15073054 TGAATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (17 bp):
AGAAAATTTAACTTTTT
Found at i:15073124 original size:28 final size:29
Alignment explanation
Indices: 15073093--15073150 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
15073083 AAAAATTTTC
15073093 AAAT-TATCGAAATTTTT-ATATTTTATAA
1 AAATATATC-AAATTTTTAATATTTTATAA
* * *
15073121 AAATATTTCATATTTTTAATTTTTTATAA
1 AAATATATCAAATTTTTAATATTTTATAA
15073150 A
1 A
15073151 TTTTATCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (29 bp):
AAATATATCAAATTTTTAATATTTTATAA
Found at i:15073331 original size:32 final size:31
Alignment explanation
Indices: 15073295--15073354 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 31
15073285 TATAAATTTT
*
15073295 AAAAAATTTAAAATTTTTTTCAATATTTTTAA
1 AAAAAATTTAAAATTATTTTCAAT-TTTTTAA
* * *
15073327 AAAAATTTTAGAATTATTTTGAATTTTT
1 AAAAAATTTAAAATTATTTTCAATTTTT
15073355 GTGAGTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 4 0.17
32 20 0.83
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (31 bp):
AAAAAATTTAAAATTATTTTCAATTTTTTAA
Found at i:15073368 original size:17 final size:19
Alignment explanation
Indices: 15073343--15073421 Score: 78
Period size: 19 Copynumber: 4.4 Consensus size: 19
15073333 TTTAGAATTA
*
15073343 TTTTGAATTTTTGTG-AG-
1 TTTTAAATTTTTGTGAAGT
*
15073360 TTTTAAATTTTTTTGAAGT
1 TTTTAAATTTTTGTGAAGT
* *
15073379 TTTTAAATTTTT-AGAAAT
1 TTTTAAATTTTTGTGAAGT
15073397 TTTTAAAATTTTTG-GAA-T
1 TTTT-AAATTTTTGTGAAGT
15073415 TTTTAAA
1 TTTTAAA
15073422 AATTTTAGAA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
17 16 0.30
18 15 0.28
19 23 0.43
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.58
Consensus pattern (19 bp):
TTTTAAATTTTTGTGAAGT
Found at i:15073372 original size:9 final size:9
Alignment explanation
Indices: 15073360--15073602 Score: 69
Period size: 10 Copynumber: 25.0 Consensus size: 9
15073350 TTTTTGTGAG
15073360 TTTTAAATTT
1 TTTTAAA-TT
* *
15073370 TTTTGAAGT
1 TTTTAAATT
15073379 TTTTAAATT
1 TTTTAAATT
*
15073388 TTTAGAAATT
1 TTT-TAAATT
*
15073398 TTTAAAATT
1 TTTTAAATT
**
15073407 TTTGGAATT
1 TTTTAAATT
*
15073416 TTTAAAAATT
1 TTT-TAAATT
** **
15073426 TTAGAAAAAG
1 TT-TTAAATT
*
15073436 GTTTAGAATTT
1 TTTTA-AA-TT
15073447 TTTTAAA--
1 TTTTAAATT
* *
15073454 ATTTAAGTT
1 TTTTAAATT
*
15073463 TTTGAGAATT
1 TTTTA-AATT
*
15073473 TTTTAATTTT
1 TTTTAA-ATT
*
15073483 TTTTACAGTT
1 TTTTA-AATT
*
15073493 TTTATATATT
1 TTT-TAAATT
15073503 TTTTAGAATT
1 TTTTA-AATT
*
15073513 GTTTAAATAT
1 TTTTAAAT-T
*
15073523 TTTTAGAA-A
1 TTTTA-AATT
15073532 TTTTAAATTT
1 TTTTAAA-TT
15073542 GTTTTATAATT
1 -TTTTA-AATT
*
15073553 TTTAAAAGTT
1 TTTTAAA-TT
* *
15073563 TTATAGATT
1 TTTTAAATT
15073572 TTTTAGAATT
1 TTTTA-AATT
15073582 TTTTAAAATGT
1 TTTT-AAAT-T
15073593 TTTCTAAATT
1 TTT-TAAATT
15073603 GTTCTTGTAA
Statistics
Matches: 170, Mismatches: 40, Indels: 46
0.66 0.16 0.18
Matches are distributed among these distances:
7 5 0.03
8 2 0.01
9 49 0.29
10 86 0.51
11 25 0.15
12 3 0.02
ACGTcount: A:0.34, C:0.01, G:0.09, T:0.57
Consensus pattern (9 bp):
TTTTAAATT
Found at i:15073372 original size:19 final size:19
Alignment explanation
Indices: 15073343--15073421 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 19
15073333 TTTAGAATTA
* *
15073343 TTTTGAATTTTTGTG-AG-
1 TTTTAAATTTTTTTGAAGT
15073360 TTTTAAATTTTTTTGAAGT
1 TTTTAAATTTTTTTGAAGT
* *
15073379 TTTTAAA-TTTTTAGAAAT
1 TTTTAAATTTTTTTGAAGT
* *
15073397 TTTTAAAATTTTTGGAA-T
1 TTTTAAATTTTTTTGAAGT
15073415 TTTTAAA
1 TTTTAAA
15073422 AATTTTAGAA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
17 13 0.24
18 26 0.48
19 15 0.28
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.58
Consensus pattern (19 bp):
TTTTAAATTTTTTTGAAGT
Found at i:15073423 original size:19 final size:19
Alignment explanation
Indices: 15073360--15073432 Score: 87
Period size: 18 Copynumber: 3.9 Consensus size: 19
15073350 TTTTTGTGAG
* * *
15073360 TTTTAAATTTTTTTGAAGT
1 TTTTAAAATTTTTAGAAAT
15073379 TTTT-AAATTTTTAGAAAT
1 TTTTAAAATTTTTAGAAAT
*
15073397 TTTTAAAATTTTT-GGAAT
1 TTTTAAAATTTTTAGAAAT
*
15073415 TTTTAAAAATTTTAGAAA
1 TTTTAAAATTTTTAGAAA
15073433 AAGGTTTAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
18 31 0.67
19 15 0.33
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (19 bp):
TTTTAAAATTTTTAGAAAT
Found at i:15073425 original size:10 final size:9
Alignment explanation
Indices: 15073378--15073428 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 9
15073368 TTTTTTGAAG
15073378 TTTTT-AAA
1 TTTTTAAAA
15073386 TTTTTAGAAA
1 TTTTTA-AAA
15073396 TTTTTAAAA
1 TTTTTAAAA
**
15073405 TTTTTGGAA
1 TTTTTAAAA
15073414 TTTTTAAAA
1 TTTTTAAAA
*
15073423 ATTTTA
1 TTTTTA
15073429 GAAAAAGGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
8 5 0.14
9 22 0.61
10 9 0.25
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:15073517 original size:21 final size:19
Alignment explanation
Indices: 15073461--15073586 Score: 78
Period size: 20 Copynumber: 6.4 Consensus size: 19
15073451 AAAATTTAAG
* *
15073461 TTTTTGAGAATTTTTTAATT
1 TTTTTTAGAA-TTTTTAATA
* *
15073481 TTTTTTACAGTTTTTATATA
1 TTTTTTAGAATTTTTA-ATA
15073501 TTTTTTAGAATTGTTTAA-A
1 TTTTTTAGAATT-TTTAATA
*
15073520 TATTTTTAGAAATTTTAA-A
1 T-TTTTTAGAATTTTTAATA
* *
15073539 TTTGTTTTATAATTTTTAAAA
1 -TT-TTTTAGAATTTTTAATA
* *
15073560 GTTTTATAGATTTTTTAGA-A
1 -TTTTTTAGAATTTTTA-ATA
15073580 TTTTTTA
1 TTTTTTA
15073587 AAATGTTTTC
Statistics
Matches: 85, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
19 21 0.25
20 56 0.66
21 8 0.09
ACGTcount: A:0.30, C:0.01, G:0.08, T:0.61
Consensus pattern (19 bp):
TTTTTTAGAATTTTTAATA
Found at i:15073545 original size:29 final size:29
Alignment explanation
Indices: 15073503--15073590 Score: 78
Period size: 29 Copynumber: 3.0 Consensus size: 29
15073493 TTTATATATT
15073503 TTTTAGAA-TTGTTTAAATATTTTTAGAAA
1 TTTTAGAATTTGTTTAAATATTTTTA-AAA
*
15073532 TTTTA-AATTTGTTT-TATAATTTTTAAAA
1 TTTTAGAATTTGTTTAAAT-ATTTTTAAAA
*
15073560 GTTTTATAGATTT-TTTAGAAT-TTTTTAAAA
1 -TTTTAGA-ATTTGTTTA-AATATTTTTAAAA
15073590 T
1 T
15073591 GTTTTCTAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
28 7 0.14
29 24 0.48
30 13 0.26
31 4 0.08
32 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (29 bp):
TTTTAGAATTTGTTTAAATATTTTTAAAA
Found at i:15073585 original size:10 final size:10
Alignment explanation
Indices: 15073332--15073586 Score: 62
Period size: 10 Copynumber: 26.5 Consensus size: 10
15073322 TTTAAAAAAA
15073332 TTTTAGAATT
1 TTTTAGAATT
15073342 ATTTT-GAATT
1 -TTTTAGAATT
*
15073352 TTTGT-G-A-G
1 TTT-TAGAATT
15073360 TTTTA-AATT
1 TTTTAGAATT
* *
15073369 TTTTTGAAGT
1 TTTTAGAATT
15073379 TTTTA-AA-T
1 TTTTAGAATT
*
15073387 TTTTAGAAAT
1 TTTTAGAATT
*
15073397 TTTTA-AAAT
1 TTTTAGAATT
*
15073406 TTTTGGAATT
1 TTTTAGAATT
* *
15073416 TTTAAAAATT
1 TTTTAGAATT
** * **
15073426 TTAGAAAAAG
1 TTTTAGAATT
*
15073436 GTTTAGAATTT
1 TTTTAGAA-TT
15073447 TTTTA-AA--
1 TTTTAGAATT
* *
15073454 ATTTA-AGTT
1 TTTTAGAATT
*
15073463 TTTGAGAATT
1 TTTTAGAATT
*
15073473 TTTTA-ATTTT
1 TTTTAGA-ATT
* *
15073483 TTTTACAGTT
1 TTTTAGAATT
*
15073493 TTTATA-TATT
1 TTT-TAGAATT
15073503 TTTTAGAATT
1 TTTTAGAATT
*
15073513 GTTTA-AATAT
1 TTTTAGAAT-T
*
15073523 TTTTAGAA-A
1 TTTTAGAATT
15073532 TTTTA-AATTT
1 TTTTAGAA-TT
*
15073542 GTTTTATAA-T
1 -TTTTAGAATT
*
15073552 TTTTAAAAGTT
1 TTTTAGAA-TT
*
15073563 TTATAG-ATT
1 TTTTAGAATT
15073572 TTTTAGAATT
1 TTTTAGAATT
15073582 TTTTA
1 TTTTA
15073587 AAATGTTTTC
Statistics
Matches: 179, Mismatches: 40, Indels: 51
0.66 0.15 0.19
Matches are distributed among these distances:
7 6 0.03
8 12 0.07
9 48 0.27
10 88 0.49
11 23 0.13
12 2 0.01
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (10 bp):
TTTTAGAATT
Found at i:15076800 original size:2 final size:2
Alignment explanation
Indices: 15076793--15076821 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15076783 GGACTATACC
15076793 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15076822 TTCCTCGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15091742 original size:1 final size:1
Alignment explanation
Indices: 15091736--15091987 Score: 54
Period size: 1 Copynumber: 252.0 Consensus size: 1
15091726 TCAAATTCAC
* * * * ** ** ** ** *
15091736 AAAAAAAAAAAAAAAACAAACAAACAAACAAAATCAAAAGCAAAAGCAAAAAATCAAAAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * * ** * * * * *
15091801 AAAAAATGAAAAAGAGAAAAAATGAAAAAACAAAAAAACAAAAAAAAAAGAAAAAAAAAGACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * ** ** *** * * * ** **
15091866 AAAGACAAAAAACCAAAAAACCAAAAAACCGAAAGATAAAAAAACAAAAAAAAAAAGCAAAAAGC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * * * * * ** *
15091931 AAAACCAAAAAACAAAAATAAAAGAAAAACAAAAACAAAAAACCAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
15091988 GAGAGGGGGA
Statistics
Matches: 170, Mismatches: 81, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 170 1.00
ACGTcount: A:0.80, C:0.12, G:0.06, T:0.02
Consensus pattern (1 bp):
A
Found at i:15091821 original size:34 final size:34
Alignment explanation
Indices: 15091737--15091987 Score: 128
Period size: 33 Copynumber: 7.2 Consensus size: 34
15091727 CAAATTCACA
* *
15091737 AAAAAAAAA-AAAAAACAAACAAACAAACAAAATCA
1 AAAAAAAAAGAAAAAATAAAAAAACAAA-AAAA-CA
**
15091772 AAAGCAAAAGCAAAAAATCAAAAAAACAAAAAAA-A
1 AAAAAAAAAG-AAAAAAT-AAAAAAACAAAAAAACA
** * *
15091807 TGAAAAAGAGAAAAAATGAAAAAACAAAAAAACA
1 AAAAAAAAAGAAAAAATAAAAAAACAAAAAAACA
*
15091841 AAAAAAAAAG--AAAA-AAAAAGACAAAAAAGACA
1 AAAAAAAAAGAAAAAATAAAAAAACAAAAAA-ACA
* *
15091873 AAAAACCAAAA-AACCAAAA-AACCGAAAGATAAAAAAACA
1 AAAAA--AAAAGAA--AAAATAA---AAAAACAAAAAAACA
* ** *
15091912 AAAAAAAAA-AGCAAAA-AGCAAAACCAAAAAACA
1 AAAAAAAAAGA-AAAAATAAAAAAACAAAAAAACA
* *
15091945 AAAATAAAAGAAAAACA-AAAACAAA-AAACCAAACA
1 AAAAAAAAAGAAAAA-ATAAAA-AAACAAA-AAAACA
15091980 AAAAAAAA
1 AAAAAAAA
15091988 GAGAGGGGGA
Statistics
Matches: 168, Mismatches: 29, Indels: 38
0.71 0.12 0.16
Matches are distributed among these distances:
31 12 0.07
32 12 0.07
33 36 0.21
34 25 0.15
35 28 0.17
36 5 0.03
37 21 0.12
38 10 0.06
39 8 0.05
40 11 0.07
ACGTcount: A:0.80, C:0.12, G:0.06, T:0.02
Consensus pattern (34 bp):
AAAAAAAAAGAAAAAATAAAAAAACAAAAAAACA
Found at i:15091960 original size:17 final size:16
Alignment explanation
Indices: 15091734--15091989 Score: 92
Period size: 16 Copynumber: 15.8 Consensus size: 16
15091724 AGTCAAATTC
15091734 ACAAAAAAAAA-AAAA
1 ACAAAAAAAAAGAAAA
* * *
15091749 A-AACAAACAA-ACAA
1 ACAAAAAAAAAGAAAA
*
15091763 ACAAAATCAAAAGCAAAA
1 ACAAAA-AAAAAG-AAAA
* *
15091781 GCAAAAAATCAA-AAAA
1 ACAAAAAA-AAAGAAAA
*
15091797 ACAAAAAAAATGAAAA
1 ACAAAAAAAAAGAAAA
* * *
15091813 AGAGAAAAAATGAAAAA
1 ACAAAAAAAAAG-AAAA
15091830 ACAAAAAAACAA-AAAA
1 ACAAAAAAA-AAGAAAA
*
15091846 A-AAAGAAAAAA-AAAG
1 ACAAA-AAAAAAGAAAA
15091861 ACAAAAAAGACAA-AAAA
1 ACAAAAAA-A-AAGAAAA
* *
15091878 CCAAAAAACCAA-AAAA
1 ACAAAAAA-AAAGAAAA
* *
15091894 CCGAAAGATAAAAA-AACA
1 AC-AAA-A-AAAAAGAAAA
15091912 A-AAAAAAAAAGCAAAA
1 ACAAAAAAAAAG-AAAA
**
15091928 AGC--AAAACCA-AAAA
1 A-CAAAAAAAAAGAAAA
15091942 ACAAAAATAAAAGAAAA
1 ACAAAAA-AAAAGAAAA
15091959 ACAAAAACAAAA-AACCAA
1 ACAAAAA-AAAAGAA--AA
15091977 ACAAAAAAAAAGA
1 ACAAAAAAAAAGA
15091990 GAGGGGGAGG
Statistics
Matches: 183, Mismatches: 32, Indels: 49
0.69 0.12 0.19
Matches are distributed among these distances:
13 1 0.01
14 21 0.11
15 21 0.11
16 65 0.36
17 46 0.25
18 27 0.15
19 2 0.01
ACGTcount: A:0.80, C:0.12, G:0.06, T:0.02
Consensus pattern (16 bp):
ACAAAAAAAAAGAAAA
Found at i:15093157 original size:19 final size:21
Alignment explanation
Indices: 15093130--15093182 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
15093120 TAGATATTTA
*
15093130 TATTTTTTGC-TC-GCATGGC
1 TATTCTTTGCATCTGCATGGC
15093149 TATTCTTTGCATCTGCATGGC
1 TATTCTTTGCATCTGCATGGC
*
15093170 TGTTCCTTTGCAT
1 TATT-CTTTGCAT
15093183 ATATTTTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 9 0.31
20 2 0.07
21 10 0.34
22 8 0.28
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.47
Consensus pattern (21 bp):
TATTCTTTGCATCTGCATGGC
Found at i:15093206 original size:36 final size:37
Alignment explanation
Indices: 15093156--15093273 Score: 130
Period size: 41 Copynumber: 3.0 Consensus size: 37
15093146 GGCTATTCTT
* * *
15093156 TGCATCTGCATGGCTGTTCCTT-TGCATATATTTTTC
1 TGCATTTGCTTGGCTGTTCCTTCTGCATATATTGTTC
15093192 TGCATTTGCTTGGCTGTTCCTTGTTTCTGCATATATTGTTC
1 TGCATTTGCTTGGCTGTTCC----TTCTGCATATATTGTTC
15093233 TGCATTTGCTTGGCTGTTCCTTGTTTCTGCATATATTGTTC
1 TGCATTTGCTTGGCTGTTCC----TTCTGCATATATTGTTC
15093274 CTTGTTTCTA
Statistics
Matches: 74, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
36 18 0.24
40 2 0.03
41 54 0.73
ACGTcount: A:0.11, C:0.20, G:0.19, T:0.50
Consensus pattern (37 bp):
TGCATTTGCTTGGCTGTTCCTTCTGCATATATTGTTC
Found at i:15093223 original size:41 final size:41
Alignment explanation
Indices: 15093178--15093273 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
15093168 GCTGTTCCTT
*
15093178 TGCATATATTTTTCTGCATTTGCTTGGCTGTTCCTTGTTTC
1 TGCATATATTGTTCTGCATTTGCTTGGCTGTTCCTTGTTTC
15093219 TGCATATATTGTTCTGCATTTGCTTGGCTGTTCCTTGTTTC
1 TGCATATATTGTTCTGCATTTGCTTGGCTGTTCCTTGTTTC
15093260 TGCATATATTGTTC
1 TGCATATATTGTTC
15093274 CTTGTTTCTA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.11, C:0.19, G:0.18, T:0.52
Consensus pattern (41 bp):
TGCATATATTGTTCTGCATTTGCTTGGCTGTTCCTTGTTTC
Found at i:15093275 original size:22 final size:22
Alignment explanation
Indices: 15093247--15093291 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
15093237 TTTGCTTGGC
*
15093247 TGTTCCTTGTTTCTGCATATAT
1 TGTTCCTTGTTTCTACATATAT
15093269 TGTTCCTTGTTTCTACATATAT
1 TGTTCCTTGTTTCTACATATAT
15093291 T
1 T
15093292 ATATTCTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.16, C:0.18, G:0.11, T:0.56
Consensus pattern (22 bp):
TGTTCCTTGTTTCTACATATAT
Found at i:15093312 original size:106 final size:104
Alignment explanation
Indices: 15093180--15093375 Score: 293
Period size: 106 Copynumber: 1.9 Consensus size: 104
15093170 TGTTCCTTTG
* * * * *
15093180 CATATATTTTTCTGCATTTGCTTGGCTGTTCCTTGTTTCTGCATATATTGTTCTGCATTTGCTTG
1 CATATATTTTTCTGCATTTGCATGGCTGTTCCTTGGTTCTGCATAAATTGTTCTGCATCTGCATG
* *
15093245 GCTGTTCCTTGTTTCTGCATATATTGTTCCTTGTTTCTA
66 GCTGTTCCTGGTTTCTGAATATATTGTTCCTTGTTTCTA
*
15093284 CATATATTATATTCTGCATTTGCATGGCTGTTCCTTGGTTCTGCATAAATTTTTCTGCATCTGCA
1 CATATATT-T-TTCTGCATTTGCATGGCTGTTCCTTGGTTCTGCATAAATTGTTCTGCATCTGCA
*
15093349 TGGCTTTTCCTGGTTTCTGAATATATT
64 TGGCTGTTCCTGGTTTCTGAATATATT
15093376 TTTCTGCATA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
104 8 0.10
105 1 0.01
106 72 0.89
ACGTcount: A:0.15, C:0.19, G:0.16, T:0.50
Consensus pattern (104 bp):
CATATATTTTTCTGCATTTGCATGGCTGTTCCTTGGTTCTGCATAAATTGTTCTGCATCTGCATG
GCTGTTCCTGGTTTCTGAATATATTGTTCCTTGTTTCTA
Found at i:15093317 original size:65 final size:63
Alignment explanation
Indices: 15093206--15093330 Score: 196
Period size: 65 Copynumber: 2.0 Consensus size: 63
15093196 TTTGCTTGGC
* * * *
15093206 TGTTCCTTGTTTCTGCATATATTGTTCTGCATTTGCTTGGCTGTTCCTTGTTTCTGCATATAT
1 TGTTCCTTGTTTCTACATATATTATTCTGCATTTGCATGGCTGTTCCTTGGTTCTGCATATAT
15093269 TGTTCCTTGTTTCTACATATATTATATTCTGCATTTGCATGGCTGTTCCTTGGTTCTGCATA
1 TGTTCCTTGTTTCTACATATA-T-TATTCTGCATTTGCATGGCTGTTCCTTGGTTCTGCATA
15093331 AATTTTTCTG
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
63 20 0.36
64 1 0.02
65 35 0.62
ACGTcount: A:0.14, C:0.19, G:0.17, T:0.50
Consensus pattern (63 bp):
TGTTCCTTGTTTCTACATATATTATTCTGCATTTGCATGGCTGTTCCTTGGTTCTGCATATAT
Found at i:15093349 original size:41 final size:41
Alignment explanation
Indices: 15093269--15093384 Score: 144
Period size: 41 Copynumber: 2.8 Consensus size: 41
15093259 CTGCATATAT
* * *
15093269 TGTTCCTTGTTTCTACATATATTATATTCTGCATTTGCATGGC
1 TGTTCCTTGGTTCTGCATATATT-T-TTCTGCATCTGCATGGC
*
15093312 TGTTCCTTGGTTCTGCATAAATTTTTCTGCATCTGCATGGC
1 TGTTCCTTGGTTCTGCATATATTTTTCTGCATCTGCATGGC
* *
15093353 TTTTCC-TGGTTTCTGAATATATTTTTCTGCAT
1 TGTTCCTTGG-TTCTGCATATATTTTTCTGCAT
15093385 ATATTTCCCT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
40 3 0.05
41 41 0.63
42 1 0.02
43 20 0.31
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.49
Consensus pattern (41 bp):
TGTTCCTTGGTTCTGCATATATTTTTCTGCATCTGCATGGC
Found at i:15097266 original size:64 final size:62
Alignment explanation
Indices: 15097053--15097272 Score: 235
Period size: 64 Copynumber: 3.5 Consensus size: 62
15097043 CTAAAGGGGC
* * * * *
15097053 CTTCAATAATCCATACAAAATTTTTTTTGAAGGGATTATTGAAGATGTTTTTGGTTAAAAATGT
1 CTTCAATAATCCATACAAAAATTTTTTTGAA-GGATTATTGAAGA-ATTTATGGCTAAAAACGT
* * * * * * *
15097117 CTTCAATAATCCCT-CATGAAAGTTTATTGAAATGATTATTGAAGAAGTTTGTGGCCAAAAACGT
1 CTTCAATAATCCATACA-AAAATTTTTTTG-AAGGATTATTGAAGAA-TTTATGGCTAAAAACGT
* * *
15097181 TTTTAATAATCCATACAAAAATTTTTTTGAGAGGATTATTGAAGACATATATGGCTAAAAACGT
1 CTTCAATAATCCATACAAAAATTTTTTTGA-AGGATTATTGAAGA-ATTTATGGCTAAAAACGT
15097245 CTTCAATAATCCATACAAAAATTTTTTT
1 CTTCAATAATCCATACAAAAATTTTTTT
15097273 AAGCAGATTA
Statistics
Matches: 127, Mismatches: 23, Indels: 12
0.78 0.14 0.07
Matches are distributed among these distances:
63 3 0.02
64 119 0.94
65 5 0.04
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (62 bp):
CTTCAATAATCCATACAAAAATTTTTTTGAAGGATTATTGAAGAATTTATGGCTAAAAACGT
Found at i:15101140 original size:16 final size:17
Alignment explanation
Indices: 15101096--15101141 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
15101086 AAACAATTAA
*
15101096 ATTAATTACATTTATTT
1 ATTATTTACATTTATTT
15101113 AGTTATTT--ATTTATTT
1 A-TTATTTACATTTATTT
15101129 -TTATTTACATTTA
1 ATTATTTACATTTA
15101142 ATCACTCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
14 6 0.24
16 13 0.52
17 1 0.04
18 5 0.20
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (17 bp):
ATTATTTACATTTATTT
Found at i:15108104 original size:17 final size:15
Alignment explanation
Indices: 15108075--15108114 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 15
15108065 ATTAATTGTG
15108075 TATTTTTTGTTTTTT
1 TATTTTTTGTTTTTT
15108090 TATCTTTTTGATTTTTT
1 TAT-TTTTTG-TTTTTT
15108107 TATTTTTT
1 TATTTTTT
15108115 AAAAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.13
16 11 0.48
17 9 0.39
ACGTcount: A:0.10, C:0.03, G:0.05, T:0.82
Consensus pattern (15 bp):
TATTTTTTGTTTTTT
Found at i:15108510 original size:80 final size:79
Alignment explanation
Indices: 15108413--15108572 Score: 214
Period size: 80 Copynumber: 2.0 Consensus size: 79
15108403 CTTTCTTTTT
* * * * *
15108413 AAATAATATTTATCTATTAATTGTGATAATTTATTTTTTCATTTTTCA-TTTTTTTATCTTTTAA
1 AAATAATATTTATCTATTAATTATGATAATTGATTGTGTC--TTTTAAGTTTTTTTATCTTTTAA
15108477 TTTTCTTCAACTTTAA
64 TTTTCTTCAACTTTAA
* *
15108493 AAATAATATTTATCTATTAATTATGATAATTGATTGTGTCTTTTAAGTTTTTTTGTCTTTTAGTT
1 AAATAATATTTATCTATTAATTATGATAATTGATTGTGTCTTTTAAGTTTTTTTATCTTTTAATT
* *
15108558 TTTTTCAATTTTAA
66 TTCTTCAACTTTAA
15108572 A
1 A
15108573 GGTAGTATTT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
78 5 0.07
79 29 0.41
80 36 0.51
ACGTcount: A:0.29, C:0.07, G:0.06, T:0.59
Consensus pattern (79 bp):
AAATAATATTTATCTATTAATTATGATAATTGATTGTGTCTTTTAAGTTTTTTTATCTTTTAATT
TTCTTCAACTTTAA
Found at i:15108559 original size:16 final size:17
Alignment explanation
Indices: 15108529--15108562 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
15108519 TAATTGATTG
15108529 TGTCTTTTAAGTTTTTT
1 TGTCTTTTAAGTTTTTT
15108546 TGTCTTTT-AGTTTTTT
1 TGTCTTTTAAGTTTTTT
15108562 T
1 T
15108563 CAATTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.09, C:0.06, G:0.12, T:0.74
Consensus pattern (17 bp):
TGTCTTTTAAGTTTTTT
Found at i:15110052 original size:14 final size:15
Alignment explanation
Indices: 15110034--15110070 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
15110024 TTAATTAATT
*
15110034 TTTATTATTTTGCTG
1 TTTATTATTTTACTG
15110049 -TTATTA-TTTACTG
1 TTTATTATTTTACTG
15110062 TTTATTATT
1 TTTATTATT
15110071 ATTATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
13 6 0.32
14 12 0.63
15 1 0.05
ACGTcount: A:0.19, C:0.05, G:0.08, T:0.68
Consensus pattern (15 bp):
TTTATTATTTTACTG
Found at i:15110256 original size:12 final size:12
Alignment explanation
Indices: 15110225--15110267 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
15110215 ATATCAATTA
*
15110225 TTATTATTATTTCA
1 TTATTATT-TTT-T
15110239 TTATTATTTTTT
1 TTATTATTTTTT
15110251 TTATTATTTTTT
1 TTATTATTTTTT
*
15110263 ATATT
1 TTATT
15110268 GTTTAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 16 0.59
13 3 0.11
14 8 0.30
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (12 bp):
TTATTATTTTTT
Found at i:15110444 original size:23 final size:22
Alignment explanation
Indices: 15110418--15110463 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 22
15110408 CATTTAAACA
15110418 ATTTATCATTTCTTTTTT-ATTTT
1 ATTTATC-TTT-TTTTTTAATTTT
15110441 ATTTATCTTTTTTTTTAATTTT
1 ATTTATCTTTTTTTTTAATTTT
15110463 A
1 A
15110464 ATTTTTTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.27
22 9 0.41
23 7 0.32
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.74
Consensus pattern (22 bp):
ATTTATCTTTTTTTTTAATTTT
Found at i:15110463 original size:18 final size:18
Alignment explanation
Indices: 15110428--15110461 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15110418 ATTTATCATT
*
15110428 TCTTTTTTATTTTATTTA
1 TCTTTTTTATTTAATTTA
15110446 TCTTTTTT-TTTAATTT
1 TCTTTTTTATTTAATTT
15110462 TAATTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (18 bp):
TCTTTTTTATTTAATTTA
Found at i:15110467 original size:23 final size:24
Alignment explanation
Indices: 15110417--15110467 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
15110407 TCATTTAAAC
15110417 AATTTATCATTTCTTTTTTATTTT
1 AATTTATCATTTCTTTTTTATTTT
15110441 -ATTTATC-TTT-TTTTTTAATTTT
1 AATTTATCATTTCTTTTTT-ATTTT
15110463 AATTT
1 AATTT
15110468 TTTTAGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 6 0.24
22 8 0.32
23 11 0.44
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.73
Consensus pattern (24 bp):
AATTTATCATTTCTTTTTTATTTT
Found at i:15110662 original size:17 final size:19
Alignment explanation
Indices: 15110625--15110662 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
15110615 TTGTTTTTTT
15110625 ATTATTTATTGTTACTAATA
1 ATTATTTATTGTTA-TAATA
15110645 ATTATTTATT-TT-TAATA
1 ATTATTTATTGTTATAATA
15110662 A
1 A
15110663 AAATATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
19 2 0.11
20 10 0.56
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (19 bp):
ATTATTTATTGTTATAATA
Found at i:15111234 original size:16 final size:16
Alignment explanation
Indices: 15111213--15111243 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15111203 TTCTCGGGGG
15111213 TTTTTTTTGTTTGTGA
1 TTTTTTTTGTTTGTGA
*
15111229 TTTTTTTTTTTTGTG
1 TTTTTTTTGTTTGTG
15111244 TTTGCTACTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.00, G:0.16, T:0.81
Consensus pattern (16 bp):
TTTTTTTTGTTTGTGA
Found at i:15111969 original size:81 final size:81
Alignment explanation
Indices: 15111842--15112283 Score: 410
Period size: 81 Copynumber: 5.5 Consensus size: 81
15111832 TGAAAATTTA
* * * * * * *
15111842 AAAAGGCTCTTCTGACCAAAGGCAACGAAAGTTTAAATGTTTAAAGGCTTCTTTGACCAGAGACA
1 AAAAGGCTCCTCTAAACAAAGGCAACGAAACTTTAAAT-TTAAAAGGCTTCTTTAACCAGAGGCA
*
15111907 ACGAAACTTTAAAT-TT
65 ACAAAACTTTAAATGTT
* * * * *
15111923 AAAAGGCTCCTCTAAACAGAGGCAATGAAACTTTAAATGTTAAAAGGCTTTTTTAACTAGAGGTA
1 AAAAGGCTCCTCTAAACAAAGGCAACGAAACTTTAAAT-TTAAAAGGCTTCTTTAACCAGAGGCA
*
15111988 ACAAAACTTTAAAT-TC
65 ACAAAACTTTAAATGTT
* * * * * * * * *
15112004 AAAAGGCTCATTTAACCAGAGGTAACGAAACATTAAATTTAGAAGGC-TCTTCTAACTAGAGGTA
1 AAAAGGCTCCTCTAAACAAAGGCAACGAAACTTTAAATTTAAAAGGCTTCTT-TAACCAGAGGCA
**
15112068 ATGAAACTTTAAATGTT
65 ACAAAACTTTAAATGTT
* * * * ** * * *
15112085 AAAAGACTCCTCTAAACAGAGGTAACGAAACTTTAAATTTAGAAGGCACCTCTAACCATAGACAA
1 AAAAGGCTCCTCTAAACAAAGGCAACGAAACTTTAAATTTAAAAGGCTTCTTTAACCAGAGGCAA
*
15112150 TAAAACTTTAAATGTT
66 CAAAACTTTAAATGTT
* * *
15112166 AAAAGGCTCCTCT-AACTAAAGGCAACAAAACTTTAAATTCAAAA-GTTTCTTCTAACCAGAGGC
1 AAAAGGCTCCTCTAAAC-AAAGGCAACGAAACTTTAAATTTAAAAGGCTTCTT-TAACCAGAGGC
*
15112229 AACAAAACTTCAAATGTT
64 AACAAAACTTTAAATGTT
* * * *
15112247 AAAATGCTCCTCTAACCAAAAG-AATGAAACTTTAAAT
1 AAAAGGCTCCTCTAAACAAAGGCAACGAAACTTTAAAT
15112284 GACTTTTCTA
Statistics
Matches: 299, Mismatches: 56, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
79 3 0.01
80 51 0.17
81 241 0.81
82 4 0.01
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.26
Consensus pattern (81 bp):
AAAAGGCTCCTCTAAACAAAGGCAACGAAACTTTAAATTTAAAAGGCTTCTTTAACCAGAGGCAA
CAAAACTTTAAATGTT
Found at i:15112040 original size:121 final size:119
Alignment explanation
Indices: 15111884--15112283 Score: 378
Period size: 121 Copynumber: 3.3 Consensus size: 119
15111874 TTAAATGTTT
*
15111884 AAAGGCTTCTTTGACCAGAGACAACGAAACTTTAAATTTAAAAGGCTCCTCTAAAC-AGAGGCAA
1 AAAGGC-TCTTTAACCAGAGACAACGAAACTTTAAATTTAAAAGGCTCCTCT-AACTAGAGGCAA
15111948 TGAAACTTTAAATGTTAAAAGGCTTTTTTAACTAGAGGTAACAAAACTTTAAATTCA
64 TGAAACTTTAAATGTTAAAAGGCTTTTTTAAC-AGAGGTAACAAAACTTTAAATTCA
** * * * *
15112005 AAAGGCTCATTTAACCAGAGGTAACGAAACATTAAATTTAGAAGGCTCTTCTAACTAGAGGTAAT
1 AAAGGCTC-TTTAACCAGAGACAACGAAACTTTAAATTTAAAAGGCTCCTCTAACTAGAGGCAAT
* * * * * *
15112070 GAAACTTTAAATGTTAAAAGACTCCTCTAAACAGAGGTAACGAAACTTTAAATTTA
65 GAAACTTTAAATGTTAAAAGGCT-TTTTTAACAGAGGTAACAAAACTTTAAATTCA
* * * * ** *
15112126 GAAGGCACCTCTAACCATAGACAATAAAACTTTAAATGTTAAAAGGCTCCTCTAACTAAAGGCAA
1 AAAGGC-TCTTTAACCAGAGACAACGAAACTTTAAAT-TTAAAAGGCTCCTCTAACTAGAGGCAA
** * * * *
15112191 CAAAACTTTAAAT-TCAAAA-G-TTTCTTCTAACCAGAGGCAACAAAACTTCAAATGTTA
64 TGAAACTTTAAATGTTAAAAGGCTTT-TT-TAA-CAGAGGTAACAAAACTTTAAAT-TCA
* * * * *
15112248 AAATGCTCCTCTAACCA-AAAGAATGAAACTTTAAAT
1 AAAGGCT-CTTTAACCAGAGACAACGAAACTTTAAAT
15112284 GACTTTTCTA
Statistics
Matches: 227, Mismatches: 42, Indels: 20
0.79 0.15 0.07
Matches are distributed among these distances:
118 1 0.00
119 2 0.01
120 7 0.03
121 161 0.71
122 56 0.25
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.27
Consensus pattern (119 bp):
AAAGGCTCTTTAACCAGAGACAACGAAACTTTAAATTTAAAAGGCTCCTCTAACTAGAGGCAATG
AAACTTTAAATGTTAAAAGGCTTTTTTAACAGAGGTAACAAAACTTTAAATTCA
Found at i:15112284 original size:40 final size:40
Alignment explanation
Indices: 15111835--15112283 Score: 378
Period size: 40 Copynumber: 11.1 Consensus size: 40
15111825 CAACTTTTGA
* * * * *
15111835 AAATTTAAAAAGGCTCTTCTGACCAAAGGCAACGAAAGTTT
1 AAATTT-AAAAGGCTCCTCTAACCAGAGGTAACGAAACTTT
* * * * **
15111876 AAATGTTTAAAGGCTTCTTTGACCAGAGACAACGAAACTTT
1 AAAT-TTAAAAGGCTCCTCTAACCAGAGGTAACGAAACTTT
* * *
15111917 AAATTTAAAAGGCTCCTCTAAACAGAGGCAATGAAACTTT
1 AAATTTAAAAGGCTCCTCTAACCAGAGGTAACGAAACTTT
** * * *
15111957 AAATGTTAAAAGGCTTTTTTAACTAGAGGTAACAAAACTTT
1 AAAT-TTAAAAGGCTCCTCTAACCAGAGGTAACGAAACTTT
* * * *
15111998 AAATTCAAAAGGCTCATTTAACCAGAGGTAACGAAACATT
1 AAATTTAAAAGGCTCCTCTAACCAGAGGTAACGAAACTTT
* * * *
15112038 AAATTTAGAAGGCTCTTCTAACTAGAGGTAATGAAACTTT
1 AAATTTAAAAGGCTCCTCTAACCAGAGGTAACGAAACTTT
* *
15112078 AAATGTTAAAAGACTCCTCTAAACAGAGGTAACGAAACTTT
1 AAAT-TTAAAAGGCTCCTCTAACCAGAGGTAACGAAACTTT
* * * ** **
15112119 AAATTTAGAAGGCACCTCTAACCATAGACAATAAAACTTT
1 AAATTTAAAAGGCTCCTCTAACCAGAGGTAACGAAACTTT
* * * *
15112159 AAATGTTAAAAGGCTCCTCTAACTAAAGGCAACAAAACTTT
1 AAAT-TTAAAAGGCTCCTCTAACCAGAGGTAACGAAACTTT
* ** * * * *
15112200 AAATTCAAAAGTTTCTTCTAACCAGAGGCAACAAAACTTC
1 AAATTTAAAAGGCTCCTCTAACCAGAGGTAACGAAACTTT
* * * *
15112240 AAATGTTAAAATGCTCCTCTAACCAAAAG-AATGAAACTTT
1 AAAT-TTAAAAGGCTCCTCTAACCAGAGGTAACGAAACTTT
15112280 AAAT
1 AAAT
15112284 GACTTTTCTA
Statistics
Matches: 330, Mismatches: 73, Indels: 11
0.80 0.18 0.03
Matches are distributed among these distances:
40 176 0.53
41 152 0.46
42 2 0.01
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.27
Consensus pattern (40 bp):
AAATTTAAAAGGCTCCTCTAACCAGAGGTAACGAAACTTT
Found at i:15112481 original size:40 final size:40
Alignment explanation
Indices: 15112407--15112567 Score: 129
Period size: 40 Copynumber: 4.2 Consensus size: 40
15112397 GCTATGAAAC
* * * *
15112407 TTTAAATGGCTCTTTTGACCAAAGCTAA-GTAAACTTTAAA
1 TTTAAAAGGCTCCTATGACCAAAGGTAATG-AAACTTTAAA
* * *
15112447 TTTAAAAGGCTCCTATGACTAGAGTTAATGAAACTTTAAA
1 TTTAAAAGGCTCCTATGACCAAAGGTAATGAAACTTTAAA
* ** *
15112487 TTTAAAATGCTTTTTTGACCAAAGGTAATGAAACTTTAAA
1 TTTAAAAGGCTCCTATGACCAAAGGTAATGAAACTTTAAA
* * *
15112527 --T----GGCTCATTTGACCAAAGGCAATGAAACTTTAAA
1 TTTAAAAGGCTCCTATGACCAAAGGTAATGAAACTTTAAA
*
15112561 TTAAAAA
1 TTTAAAA
15112568 AATTTAAGAG
Statistics
Matches: 96, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
34 29 0.30
38 1 0.01
40 65 0.68
41 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (40 bp):
TTTAAAAGGCTCCTATGACCAAAGGTAATGAAACTTTAAA
Found at i:15124540 original size:14 final size:13
Alignment explanation
Indices: 15124521--15124573 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 13
15124511 TTATGATTAT
15124521 TTTTATTATTTTG
1 TTTTATTATTTTG
15124534 TTGTTATTATTTACTG
1 TT-TTATTATTT--TG
*
15124550 -TTTATTATTTTT
1 TTTTATTATTTTG
15124562 TTTTATTATTTT
1 TTTTATTATTTT
15124574 CAAAAAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
12 1 0.03
13 13 0.37
14 18 0.51
15 1 0.03
16 2 0.06
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.75
Consensus pattern (13 bp):
TTTTATTATTTTG
Found at i:15127537 original size:15 final size:15
Alignment explanation
Indices: 15127517--15127550 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
15127507 ATGGTTTTGA
* *
15127517 TAAAAATATTAAAAT
1 TAAAAATAGTAAAAG
15127532 TAAAAATAGTAAAAG
1 TAAAAATAGTAAAAG
15127547 TAAA
1 TAAA
15127551 TAAATTCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
TAAAAATAGTAAAAG
Found at i:15127731 original size:12 final size:12
Alignment explanation
Indices: 15127714--15127738 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15127704 TGAAAAGTTT
15127714 ATTATTATTATG
1 ATTATTATTATG
15127726 ATTATTATTATG
1 ATTATTATTATG
15127738 A
1 A
15127739 AGTCATGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (12 bp):
ATTATTATTATG
Found at i:15130038 original size:3 final size:3
Alignment explanation
Indices: 15130025--15130056 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
15130015 GTTTATGAAG
*
15130025 ATT AAT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
15130057 GATAAAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Done.