Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 44 of 190
Found at i:12249314 original size:18 final size:18
Alignment explanation
Indices: 12249299--12249366 Score: 100
Period size: 18 Copynumber: 3.8 Consensus size: 18
12249289 TCAATTCGGT
12249299 TAATTCGGTTAATTCGAG
1 TAATTCGGTTAATTCGAG
* *
12249317 TAACTCAGTTAATTCGAG
1 TAATTCGGTTAATTCGAG
* *
12249335 TAATCCGGTTAATTCGGG
1 TAATTCGGTTAATTCGAG
12249353 TAATTCGGTTAATT
1 TAATTCGGTTAATT
12249367 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (18 bp):
TAATTCGGTTAATTCGAG
Found at i:12249332 original size:36 final size:36
Alignment explanation
Indices: 12249291--12249366 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
12249281 GTAGAGATTC
*
12249291 AATTCG-GTTAATTCGGTTAATTCGAGTAACTCAGTT
1 AATTCGAG-TAATCCGGTTAATTCGAGTAACTCAGTT
* * *
12249327 AATTCGAGTAATCCGGTTAATTCGGGTAATTCGGTT
1 AATTCGAGTAATCCGGTTAATTCGAGTAACTCAGTT
12249363 AATT
1 AATT
12249367 TTTAACCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 34 0.97
37 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (36 bp):
AATTCGAGTAATCCGGTTAATTCGAGTAACTCAGTT
Found at i:12260885 original size:21 final size:22
Alignment explanation
Indices: 12260839--12260886 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
12260829 TGCATTTGAT
* * *
12260839 TCTGATATGTTTTGCATCTATA
1 TCTGATATGTTCTACACCTATA
12260861 TCTGATATGTTCTACACCT-TA
1 TCTGATATGTTCTACACCTATA
12260882 TCTGA
1 TCTGA
12260887 ACTGGTACGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (22 bp):
TCTGATATGTTCTACACCTATA
Found at i:12264152 original size:80 final size:80
Alignment explanation
Indices: 12264019--12264173 Score: 301
Period size: 80 Copynumber: 1.9 Consensus size: 80
12264009 CGCAACGGCG
*
12264019 CATCGTATTCATACTACCCGAATCACGACACGTAGGCATTACAACTATCGTATACTAAAGAGAAA
1 CATCGTATCCATACTACCCGAATCACGACACGTAGGCATTACAACTATCGTATACTAAAGAGAAA
12264084 GAGTAAAGAACGACA
66 GAGTAAAGAACGACA
12264099 CATCGTATCCATACTACCCGAATCACGACACGTAGGCATTACAACTATCGTATACTAAAGAGAAA
1 CATCGTATCCATACTACCCGAATCACGACACGTAGGCATTACAACTATCGTATACTAAAGAGAAA
12264164 GAGTAAAGAA
66 GAGTAAAGAA
12264174 AACGTACCAA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 74 1.00
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (80 bp):
CATCGTATCCATACTACCCGAATCACGACACGTAGGCATTACAACTATCGTATACTAAAGAGAAA
GAGTAAAGAACGACA
Found at i:12266639 original size:17 final size:17
Alignment explanation
Indices: 12266619--12266686 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 17
12266609 AAACGCACCA
12266619 TTTCATTTTCTTTTTAT
1 TTTCATTTTCTTTTTAT
*
12266636 TTTCATTTTAGTTTTTAT
1 TTTCATTTT-CTTTTTAT
12266654 TTT--TCTTTCTTTTT-T
1 TTTCAT-TTTCTTTTTAT
*
12266669 CCCTTCATTTTCTTTTTA
1 --TTTCATTTTCTTTTTA
12266687 CATCCCCTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
15 1 0.02
16 6 0.15
17 14 0.34
18 19 0.46
19 1 0.02
ACGTcount: A:0.10, C:0.15, G:0.01, T:0.74
Consensus pattern (17 bp):
TTTCATTTTCTTTTTAT
Found at i:12266789 original size:8 final size:8
Alignment explanation
Indices: 12266776--12266844 Score: 52
Period size: 8 Copynumber: 8.2 Consensus size: 8
12266766 CTTCTTCTCG
12266776 TTTTATTT
1 TTTTATTT
12266784 TTTTATTT
1 TTTTATTT
12266792 TTTT-TGTT
1 TTTTAT-TT
12266800 TTTT-TGTT
1 TTTTAT-TT
*
12266808 TTTTCTTCT
1 TTTTATT-T
12266817 TCTTTATTT
1 T-TTTATTT
*
12266826 TTCTATTT
1 TTTTATTT
*
12266834 TCTTTCTTT
1 T-TTTATTT
12266843 TT
1 TT
12266845 CTTTCCCCTC
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
7 1 0.02
8 35 0.67
9 11 0.21
10 5 0.10
ACGTcount: A:0.06, C:0.09, G:0.03, T:0.83
Consensus pattern (8 bp):
TTTTATTT
Found at i:12266801 original size:17 final size:17
Alignment explanation
Indices: 12266776--12266811 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
12266766 CTTCTTCTCG
12266776 TTTTATTTTTTTATTTT
1 TTTTATTTTTTTATTTT
* *
12266793 TTTTGTTTTTTTGTTTT
1 TTTTATTTTTTTATTTT
12266810 TT
1 TT
12266812 CTTCTTCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.06, T:0.89
Consensus pattern (17 bp):
TTTTATTTTTTTATTTT
Found at i:12266836 original size:17 final size:16
Alignment explanation
Indices: 12266807--12266847 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
12266797 GTTTTTTTGT
12266807 TTTTTCTTCTTCTTTA
1 TTTTTCTTCTTCTTTA
* *
12266823 TTTTTCTATTTTCTTTC
1 TTTTTCT-TCTTCTTTA
12266840 TTTTTCTT
1 TTTTTCTT
12266848 TCCCCTCCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTCTTCTTCTTTA
Found at i:12267846 original size:23 final size:23
Alignment explanation
Indices: 12267819--12267866 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
12267809 TTTCATTGTG
*
12267819 AAAAAAAATGAATGAAAAAAATTT
1 AAAAAAAAAGAA-GAAAAAAATTT
*
12267843 AAAAAAAAAGAAGAAAAAATTTT
1 AAAAAAAAAGAAGAAAAAAATTT
12267866 A
1 A
12267867 GTCTATCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (23 bp):
AAAAAAAAAGAAGAAAAAAATTT
Found at i:12272083 original size:5 final size:5
Alignment explanation
Indices: 12272066--12272114 Score: 89
Period size: 5 Copynumber: 9.6 Consensus size: 5
12272056 TTTTTATGAT
12272066 TTATA TATATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA
1 TTATA T-TATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA
12272115 AATAGATGAC
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 38 0.88
6 5 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:12272273 original size:19 final size:22
Alignment explanation
Indices: 12272235--12272274 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
12272225 TTGTGAATAA
12272235 AATATTATTATATGATTATTAT
1 AATATTATTATATGATTATTAT
12272257 AATA-TATTAT-T-ATTATTA
1 AATATTATTATATGATTATTA
12272275 ACTAATGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 6 0.33
22 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (22 bp):
AATATTATTATATGATTATTAT
Found at i:12272322 original size:17 final size:18
Alignment explanation
Indices: 12272300--12272338 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
12272290 GGAATAAAAT
*
12272300 AAAAGAATAAA-AGAAAC
1 AAAAGAAGAAATAGAAAC
12272317 AAAAGAAGAAATAGAAAC
1 AAAAGAAGAAATAGAAAC
12272335 AAAA
1 AAAA
12272339 TAGCTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.77, C:0.05, G:0.13, T:0.05
Consensus pattern (18 bp):
AAAAGAAGAAATAGAAAC
Found at i:12273256 original size:21 final size:22
Alignment explanation
Indices: 12273228--12273334 Score: 159
Period size: 21 Copynumber: 5.0 Consensus size: 22
12273218 GCTTTGCCGA
12273228 TCAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
12273250 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
12273271 CTCAGGCACTTTATGTGTCGTA-
1 -TCAGGCACTTTATGTGTCGTAT
**
12273293 TCAGGCACTTCGTGTGTCGT-T
1 TCAGGCACTTTATGTGTCGTAT
12273314 TCAGGCAC-TTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
12273335 ACTGATAAGG
Statistics
Matches: 77, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
20 9 0.12
21 47 0.61
22 2 0.03
23 19 0.25
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (22 bp):
TCAGGCACTTTATGTGTCGTAT
Found at i:12273278 original size:44 final size:42
Alignment explanation
Indices: 12273228--12273334 Score: 162
Period size: 44 Copynumber: 2.5 Consensus size: 42
12273218 GCTTTGCCGA
* *
12273228 TCAGGCACTTTATGTGTCGTATTAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTATCAGGCACTTCATGTGTCGT-T
*
12273271 CTCAGGCACTTTATGTGTCGTATCAGGCACTTCGTGTGTCGTT
1 -TCAGGCACTTTATGTGTCGTATCAGGCACTTCATGTGTCGTT
12273314 TCAGGCAC-TTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
12273335 ACTGATAAGG
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
41 13 0.22
42 8 0.13
43 1 0.02
44 38 0.63
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (42 bp):
TCAGGCACTTTATGTGTCGTATCAGGCACTTCATGTGTCGTT
Found at i:12277736 original size:31 final size:30
Alignment explanation
Indices: 12277701--12277766 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
12277691 AGTTGATGAA
12277701 GAAAAGAGAAATGGTACAGCATGGTACGGTG
1 GAAAA-AGAAATGGTACAGCATGGTACGGTG
***
12277732 GAAAATTTAATGGTACAGCATGGTACGGTG
1 GAAAAAGAAATGGTACAGCATGGTACGGTG
12277762 GAAAA
1 GAAAA
12277767 TTTTAGTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 27 0.84
31 5 0.16
ACGTcount: A:0.39, C:0.09, G:0.32, T:0.20
Consensus pattern (30 bp):
GAAAAAGAAATGGTACAGCATGGTACGGTG
Found at i:12277744 original size:30 final size:30
Alignment explanation
Indices: 12277710--12277769 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
12277700 AGAAAAGAGA
12277710 AATGGTACAGCATGGTACGGTGGAAAATTT
1 AATGGTACAGCATGGTACGGTGGAAAATTT
12277740 AATGGTACAGCATGGTACGGTGGAAAATTT
1 AATGGTACAGCATGGTACGGTGGAAAATTT
12277770 TAGTATTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (30 bp):
AATGGTACAGCATGGTACGGTGGAAAATTT
Found at i:12279442 original size:5 final size:5
Alignment explanation
Indices: 12279427--12279458 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
12279417 TTTTTATGAT
12279427 TTATA -TATA TTATA TTATA TTATA TTATA TTA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTA
12279459 AATAGATGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:12279618 original size:19 final size:22
Alignment explanation
Indices: 12279580--12279622 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
12279570 TGTGAAAAAA
12279580 AATATTATTATATGATTATTAT
1 AATATTATTATATGATTATTAT
*
12279602 AATA-TATTATTATTATTATTA
1 AATATTATTA-TATGATTATTA
12279623 ACTAATGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
AATATTATTATATGATTATTAT
Found at i:12279670 original size:17 final size:18
Alignment explanation
Indices: 12279648--12279683 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
12279638 GGAATAAAAT
*
12279648 AAAAGAATAAA-AGAAAC
1 AAAAGAAGAAATAGAAAC
12279665 AAAAGAAGAAATAGAAAC
1 AAAAGAAGAAATAGAAAC
12279683 A
1 A
12279684 GAATAGCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.75, C:0.06, G:0.14, T:0.06
Consensus pattern (18 bp):
AAAAGAAGAAATAGAAAC
Found at i:12280603 original size:23 final size:22
Alignment explanation
Indices: 12280576--12280661 Score: 124
Period size: 21 Copynumber: 4.0 Consensus size: 22
12280566 ACTTTGCCGA
12280576 TCAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
12280598 CTCAGGCACTTTATGTGTCGTA-
1 -TCAGGCACTTTATGTGTCGTAT
**
12280620 TCAGGCACTTCGTGTGTCGT-T
1 TCAGGCACTTTATGTGTCGTAT
12280641 TCAGGCAC-TTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
12280662 ACTGATCAGG
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
20 9 0.16
21 27 0.47
23 21 0.37
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.38
Consensus pattern (22 bp):
TCAGGCACTTTATGTGTCGTAT
Found at i:12280626 original size:44 final size:41
Alignment explanation
Indices: 12280575--12280661 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 41
12280565 AACTTTGCCG
*
12280575 ATCAGGCACTTTATGTGTCGTATCTCAGGCACTTTATGTGTCGT
1 ATCAGGCACTTCATGTGTCGT-T-TCAGGCAC-TTATGTGTCGT
*
12280619 ATCAGGCACTTCGTGTGTCGTTTCAGGCACTTATGTGTCGT
1 ATCAGGCACTTCATGTGTCGTTTCAGGCACTTATGTGTCGT
12280660 AT
1 AT
12280662 ACTGATCAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
41 13 0.32
42 8 0.20
43 1 0.02
44 19 0.46
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (41 bp):
ATCAGGCACTTCATGTGTCGTTTCAGGCACTTATGTGTCGT
Found at i:12281924 original size:25 final size:25
Alignment explanation
Indices: 12281867--12281932 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
12281857 ATTAATTAGA
12281867 AAGCTCATGAAAGAGCCTTTCATCGAG
1 AAGCTCAT--AAGAGCCTTTCATCGAG
*
12281894 AAGCTC-TAGAGAGCCTTGT-ATCGGG
1 AAGCTCATA-AGAGCCTT-TCATCGAG
*
12281919 ATGCTCATAAGAGC
1 AAGCTCATAAGAGC
12281933 TGTGGTGTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
24 1 0.03
25 23 0.68
26 4 0.12
27 6 0.18
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (25 bp):
AAGCTCATAAGAGCCTTTCATCGAG
Found at i:12289137 original size:25 final size:25
Alignment explanation
Indices: 12289109--12289165 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
12289099 ATTCGAGAAT
*
12289109 GCTCATACGAGCACATA-AATGGGAA
1 GCTCATACGAGC-CATATAACGGGAA
* *
12289134 GCTCTTTCGAGCCATATAACGGGAA
1 GCTCATACGAGCCATATAACGGGAA
12289159 GCTCATA
1 GCTCATA
12289166 AAAGCCGTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (25 bp):
GCTCATACGAGCCATATAACGGGAA
Found at i:12301111 original size:17 final size:18
Alignment explanation
Indices: 12301089--12301124 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
12301079 CCTCAATAAG
*
12301089 CACTTATATAAA-TCAAA
1 CACTTACATAAACTCAAA
12301106 CACTTACATAAACTCAAA
1 CACTTACATAAACTCAAA
12301124 C
1 C
12301125 CTTTCCATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (18 bp):
CACTTACATAAACTCAAA
Found at i:12301411 original size:42 final size:42
Alignment explanation
Indices: 12301315--12301508 Score: 207
Period size: 42 Copynumber: 4.6 Consensus size: 42
12301305 CAATTCCATA
* * *
12301315 TCCCAGATATGGTCTTACATGCTATCAT-ATATCGATGCCAATAG
1 TCCCAGACATGGTCTTACACG-AATC-TCATATCGATGCCAAT-G
* * *
12301359 --CTAG-CTATGGTCTTACACGATTCTCATATCGATGTCAATG
1 TCCCAGAC-ATGGTCTTACACGAATCTCATATCGATGCCAATG
12301399 TCCCAGACATGGTCTTACACGAATCTCATATCGATGCCAATG
1 TCCCAGACATGGTCTTACACGAATCTCATATCGATGCCAATG
* * * * *
12301441 TCCCAGACATGGTCTTACATGAATCACATAACAAAGCCAATG
1 TCCCAGACATGGTCTTACACGAATCTCATATCGATGCCAATG
*
12301483 TCCTAGACATGGTCTTACACGTAATC
1 TCCCAGACATGGTCTTACACG-AATC
12301509 ACATTTCAGT
Statistics
Matches: 128, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
40 2 0.02
41 15 0.12
42 106 0.83
43 5 0.04
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAATCTCATATCGATGCCAATG
Found at i:12303777 original size:24 final size:24
Alignment explanation
Indices: 12303736--12303795 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
12303726 CAAATAAAAA
*
12303736 AATAATAATATAGT-ATAACTTATA-
1 AATAATAATACA-TAATAA-TTATAG
* *
12303760 AGTAATAATACATAATAATTTTAG
1 AATAATAATACATAATAATTATAG
12303784 AATAATAATACA
1 AATAATAATACA
12303796 CAATGATTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 5 0.17
24 25 0.83
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (24 bp):
AATAATAATACATAATAATTATAG
Found at i:12303927 original size:9 final size:9
Alignment explanation
Indices: 12303889--12303930 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
12303879 AACTTAAAAT
12303889 ATAGTACATA
1 ATAGTA-ATA
12303899 A-A-TAATA
1 ATAGTAATA
*
12303906 ATAATAATA
1 ATAGTAATA
12303915 ATAGTAATA
1 ATAGTAATA
12303924 ATAGTAA
1 ATAGTAA
12303931 AAGGTTTAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
7 4 0.14
8 3 0.10
9 21 0.72
10 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (9 bp):
ATAGTAATA
Found at i:12305620 original size:44 final size:44
Alignment explanation
Indices: 12305557--12306284 Score: 165
Period size: 44 Copynumber: 15.5 Consensus size: 44
12305547 GATCTACTCT
*
12305557 ACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 ACTGTAATC-TCAGGGAGATAAGATCCTTTATTTTAATCCGCTCC
* * * * * *
12305601 ACTGTAATCTTAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTC
1 ACTGTAATCTCAGGGAGATAAGA--TC---CTTTATTTTAATCCG--CT-C-C
* *
12305654 TACTGTAA-CTTTA--GAGATAAGATCCTTTATTTTAATTCGCTCC
1 -ACTGTAATC-TCAGGGAGATAAGATCCTTTATTTTAATCCGCTCC
* * * * ** *
12305697 ACTATAATCTCAGGGAGATAGGAT--TACTAGCTTCCATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATCCT-TTA-TTTTAATCCGCTCC
* * ** *
12305741 ACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGTGATCTACTCT
1 ACTGTAATCTCAGGGAGATAAGA--TC---CTT-TAT-T--T-TAATCCGCTCC
**
12305795 ACTGTAA-CTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 ACTGTAATC-TCAGGGAGATAAGATCCTTTATTTTAATCCGCTCC
* * * * * *
12305839 ACTATAATCTCAGGGAGATAGGAT--TACTAGCTTTCATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATCCT-TTA-TTTTAATCCGCTCC
* * * * * *
12305883 GCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTC
1 ACTGTAATCTCAGGGAGATAAGA--TC---CTTTATTTTAATCCG--CT-C-C
* *
12305936 TACTGTAA-CTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCC
1 -ACTGTAATC-TCAGGGAGATAAGATCCTTTATTTTAATCCGCTCC
* * * * * **
12305981 ACTGTAATCTCGGGGAGATAGGAT--TACTAGCTTCAATATGCTCC
1 ACTGTAATCTCAGGGAGATAAGATCCT-TTA-TTTTAATCCGCTCC
* * * * * *
12306025 GCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTC
1 ACTGTAATCTCAGGGAGATAAGA--TC---CTTTATTTTAATCCG--CT-C-C
* *
12306078 TACTGTAA-CTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 -ACTGTAATC-TCAGGGAGATAAGATCCTTTATTTTAATCCGCTCC
* * * * ** *
12306123 ACTGTAATCTTAGGGAGATAGGAT--TACTAGCTTCCATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATCCT-TTA-TTTTAATCCGCTCC
* * * * * *
12306167 GCTGTAATCTCAGGGAGATAAGATTTCTGGTTTCAATCTGATGCGATCTACTC
1 ACTGTAATCTCAGGGAGATAAGA--TC--CTTT-ATTTTAATCCG--CT-C-C
* *
12306220 TACTGTAA-CTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 -ACTGTAATC-TCAGGGAGATAAGATCCTTTATTTTAATCCGCTCC
12306265 ACTGTAATCTCAGGGAGATA
1 ACTGTAATCTCAGGGAGATA
12306285 GGATTACTAG
Statistics
Matches: 488, Mismatches: 117, Indels: 158
0.64 0.15 0.21
Matches are distributed among these distances:
42 12 0.02
43 10 0.02
44 230 0.47
45 11 0.02
46 9 0.02
47 17 0.03
48 2 0.00
49 53 0.11
50 9 0.02
51 13 0.03
52 21 0.04
53 10 0.02
54 91 0.19
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (44 bp):
ACTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCC
Found at i:12305628 original size:98 final size:98
Alignment explanation
Indices: 12305498--12306303 Score: 411
Period size: 98 Copynumber: 8.4 Consensus size: 98
12305488 GCATCCATCT
* *
12305498 GCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATTTGATGCGATCTACTCTACTGTA
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
12305563 ACTTCAGAGAGATAAGATCCTTTATTTTAATCC
66 ACTTCAGAGAGATAAGATCCTTTATTTTAATCC
*
12305596 GCTCCACTGTAATCTTAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
* *
12305661 ACTT--TAGAGATAAGATCCTTTATTTTAATTC
66 ACTTCAGAGAGATAAGATCCTTTATTTTAATCC
* * * * *
12305692 GCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCCATC---T--G--CT-C-C-ACTGTA
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
* * * *
12305747 A-TCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGTGATCT
66 ACT-TCAGAGAGATAAGA--TC---CTT-TAT-T--T-TAATCC
* * ** * * * * * *
12305790 ACTCTACTGTAA-CTTCAAAGAGATAAGA--TC---CTTTATTTTAATCCG--CT-C-C-ACTAT
1 GCTCCACTGTAATC-TCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGT
* * * * * *
12305844 AA-TCTCAGGGAGATAGGAT--TACTAGCTTTCATCT
65 AACT-TCAGAGAGATAAGATCCT-TTA-TTTTAATCC
*
12305878 GCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
*
12305943 ACTTCAGAGAGATAAGATCTTTTATTTTAATCC
66 ACTTCAGAGAGATAAGATCCTTTATTTTAATCC
* * * * *
12305976 GCTCCACTGTAATCTCGGGGAGATAGGATTACTAGCTTCAA--T-AT--G--CT-C-C-GCTGTA
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
* * * * * *
12306031 A-TCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGC
66 ACT-TCAGAGAGATAAGA--TC---CTTTATTTTAATCC
* * * * * * *
12306069 GATCTACTCTACTGTAA-CTTTAGAGAGATAAGA--TC---CTTTATTTTAATCCG--CT-C-C-
1 G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCT
* * * * ** *
12306123 ACTGTAATCTT-AGGGAGATAGGAT--TACTAGCTTCCATCT
60 ACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTTAATCC
* *
12306162 GCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGTTTCAATCTGATGCGATCTACTCTACTGTA
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
*
12306227 ACTTTAGAGAGATAAGATCCTTTATTTTAATCC
66 ACTTCAGAGAGATAAGATCCTTTATTTTAATCC
* * *
12306260 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCT
12306304 ACTCCGCTGT
Statistics
Matches: 536, Mismatches: 102, Indels: 140
0.69 0.13 0.18
Matches are distributed among these distances:
85 1 0.00
86 8 0.01
87 2 0.00
88 73 0.14
89 7 0.01
90 10 0.02
91 9 0.02
92 1 0.00
93 45 0.08
94 2 0.00
95 10 0.02
96 73 0.14
97 9 0.02
98 277 0.52
99 6 0.01
100 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (98 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
ACTTCAGAGAGATAAGATCCTTTATTTTAATCC
Found at i:12305831 original size:238 final size:238
Alignment explanation
Indices: 12305401--12305863 Score: 800
Period size: 238 Copynumber: 1.9 Consensus size: 238
12305391 AGATAAGACT
* *
12305401 TGATACGATCTGCTCTACTGTAACTTCAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAA
1 TGATACGATCTACTCTACTGTAACTTCAGAGATAAGATCCTTTATTTTAATCCACTCCACTATAA
*
12305466 TCTCAGGGAGATAGGATTACTAGCATCCATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCT
66 TCTCAGGGAGATAGGATTACTAGCATCCATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCT
* *
12305531 GGCTTCAATTTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
131 GGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCC
* *
12305596 GCTCCACTGTAATCTTAGGGAGATAAGATTTCTGGCTTCAATC
196 GCTCCACTATAATCTCAGGGAGATAAGATTTCTGGCTTCAATC
* * * *
12305639 TGATGCGATCTACTCTACTGTAACTTTAGAGATAAGATCCTTTATTTTAATTCGCTCCACTATAA
1 TGATACGATCTACTCTACTGTAACTTCAGAGATAAGATCCTTTATTTTAATCCACTCCACTATAA
*
12305704 TCTCAGGGAGATAGGATTACTAGCTTCCATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCT
66 TCTCAGGGAGATAGGATTACTAGCATCCATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCT
*
12305769 GGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCC
131 GGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCC
*
12305834 GCTCCACTATAATCTCAGGGAGATAGGATT
196 GCTCCACTATAATCTCAGGGAGATAAGATT
12305864 ACTAGCTTTC
Statistics
Matches: 211, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
238 211 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (238 bp):
TGATACGATCTACTCTACTGTAACTTCAGAGATAAGATCCTTTATTTTAATCCACTCCACTATAA
TCTCAGGGAGATAGGATTACTAGCATCCATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCT
GGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCC
GCTCCACTATAATCTCAGGGAGATAAGATTTCTGGCTTCAATC
Found at i:12305877 original size:142 final size:142
Alignment explanation
Indices: 12305596--12306332 Score: 1248
Period size: 142 Copynumber: 5.2 Consensus size: 142
12305586 ATTTTAATCC
* *
12305596 GCTCCACTGTAATCTTAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
1 GCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
* * *
12305661 ACTT--TAGAGATAAGATCCTTTATTTTAATTCGCTCCACTATAATCTCAGGGAGATAGGATTAC
66 ACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTAC
*
12305724 TAGCTTCCATCT
131 TAGCTTTCATCT
* *
12305736 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGTGATCTACTCTACTGTA
1 GCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
* *
12305801 ACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAATCTCAGGGAGATAGGATTAC
66 ACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTAC
12305866 TAGCTTTCATCT
131 TAGCTTTCATCT
12305878 GCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
1 GCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
* *
12305943 ACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAATCTCGGGGAGATAGGATTAC
66 ACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTAC
*
12306008 TAGC-TTCAATAT
131 TAGCTTTC-ATCT
12306020 GCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
1 GCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
* *
12306085 ACTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTTAGGGAGATAGGATTAC
66 ACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTAC
*
12306150 TAGCTTCCATCT
131 TAGCTTTCATCT
*
12306162 GCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGTTTCAATCTGATGCGATCTACTCTACTGTA
1 GCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
*
12306227 ACTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTAC
66 ACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTAC
12306292 TAGC-TTCAATCT
131 TAGCTTTC-ATCT
* *
12306304 ACTCCGCTGTAATCTCAGGGAGACAAGAT
1 GCTCCGCTGTAATCTCAGGGAGATAAGAT
12306333 CTGTAATTTC
Statistics
Matches: 569, Mismatches: 23, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
140 67 0.12
141 5 0.01
142 495 0.87
143 2 0.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (142 bp):
GCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
ACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTAC
TAGCTTTCATCT
Found at i:12307620 original size:14 final size:14
Alignment explanation
Indices: 12307612--12307647 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
12307602 ATTTTTACTC
*
12307612 TTTCATTTTTCATT
1 TTTCATCTTTCATT
12307626 TTTCAT-TTTCATT
1 TTTCATCTTTCATT
12307639 TTTCATCTT
1 TTTCATCTT
12307648 CTCCTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTCATCTTTCATT
Found at i:12307634 original size:6 final size:7
Alignment explanation
Indices: 12307612--12307644 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
12307602 ATTTTTACTC
12307612 TTTCATT
1 TTTCATT
12307619 TTTCATT
1 TTTCATT
12307626 TTTCA-T
1 TTTCATT
12307632 TTTCATT
1 TTTCATT
12307639 TTTCAT
1 TTTCAT
12307645 CTTCTCCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTCATT
Found at i:12308019 original size:21 final size:22
Alignment explanation
Indices: 12307989--12308036 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
12307979 CCTTTGCGGG
12307989 TTTTCGCTTTGGCCTCTTTT-CT
1 TTTTCGCTTTGGCCT-TTTTCCT
**
12308011 TTTTC-CTTTTTCCTTTTTCCT
1 TTTTCGCTTTGGCCTTTTTCCT
12308032 TTTTC
1 TTTTC
12308037 TTCTCTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 14 0.61
22 5 0.22
ACGTcount: A:0.00, C:0.27, G:0.06, T:0.67
Consensus pattern (22 bp):
TTTTCGCTTTGGCCTTTTTCCT
Found at i:12308046 original size:27 final size:26
Alignment explanation
Indices: 12308017--12308100 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
12308007 TTCTTTTTCC
*
12308017 TTTTTCCTTTTTCCTTTTTCTTCTCT
1 TTTTTTCTTTTTCCTTTTTCTTCTCT
* * *
12308043 CTTTTTTCATTTTCATTTTGACCTT-TCT
1 -TTTTTTCTTTTTCCTTTT--TCTTCTCT
*
12308071 TTTTTTATTTTT-CTTTTTCTTCTCT
1 TTTTTTCTTTTTCCTTTTTCTTCTCT
12308096 TTTTT
1 TTTTT
12308101 GTTTTTGATT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
24 3 0.07
25 8 0.17
26 4 0.09
27 25 0.54
28 3 0.07
29 3 0.07
ACGTcount: A:0.05, C:0.20, G:0.01, T:0.74
Consensus pattern (26 bp):
TTTTTTCTTTTTCCTTTTTCTTCTCT
Found at i:12308055 original size:7 final size:7
Alignment explanation
Indices: 12308005--12308036 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
12307995 CTTTGGCCTC
12308005 TTTT-CT
1 TTTTCCT
12308011 TTTTCCT
1 TTTTCCT
12308018 TTTTCCT
1 TTTTCCT
12308025 TTTTCCT
1 TTTTCCT
12308032 TTTTC
1 TTTTC
12308037 TTCTCTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.16
7 21 0.84
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTCCT
Found at i:12308061 original size:26 final size:27
Alignment explanation
Indices: 12308017--12308100 Score: 73
Period size: 26 Copynumber: 3.1 Consensus size: 27
12308007 TTCTTTTTCC
* *
12308017 TTTTTCCTTTTTCCTTTTTCTTCTCTCT
1 TTTTTCATTTTT-CATTTTCTTCTCTCT
*** *
12308045 TTTTTCA-TTTTCATTTTGACCTTTCT
1 TTTTTCATTTTTCATTTTCTTCTCTCT
* *
12308071 TTTTTTATTTTTCTTTTTCTTCTCT-T
1 TTTTTCATTTTTCATTTTCTTCTCTCT
12308097 TTTT
1 TTTT
12308101 GTTTTTGATT
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
26 21 0.49
27 16 0.37
28 6 0.14
ACGTcount: A:0.05, C:0.20, G:0.01, T:0.74
Consensus pattern (27 bp):
TTTTTCATTTTTCATTTTCTTCTCTCT
Found at i:12308112 original size:25 final size:23
Alignment explanation
Indices: 12308067--12308113 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
12308057 ATTTTGACCT
*
12308067 TTCTTTTTTTATTTTTCTTTTTC
1 TTCTTTTTTTATTTTTATTTTTC
*
12308090 TTCTCTTTTTTGTTTTTGATTTTT
1 TTCT-TTTTTTATTTTT-ATTTTT
12308114 TTTTTGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 11 0.55
25 5 0.25
ACGTcount: A:0.04, C:0.11, G:0.04, T:0.81
Consensus pattern (23 bp):
TTCTTTTTTTATTTTTATTTTTC
Found at i:12312546 original size:24 final size:24
Alignment explanation
Indices: 12312505--12312573 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
12312495 AAATAATAAT
*
12312505 AATAATAATATAGT-ATAACTTTTA-
1 AATAATAATACA-TAATAA-TTTTAG
*
12312529 AGTAATAATACATAATAATTTTAG
1 AATAATAATACATAATAATTTTAG
* *
12312553 AATAATAATACACAATGATTT
1 AATAATAATACATAATAATTT
12312574 CGAAAACATG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
23 6 0.16
24 32 0.84
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.38
Consensus pattern (24 bp):
AATAATAATACATAATAATTTTAG
Found at i:12312676 original size:3 final size:3
Alignment explanation
Indices: 12312668--12312740 Score: 137
Period size: 3 Copynumber: 24.3 Consensus size: 3
12312658 ATAGTACATA
*
12312668 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12312716 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
12312741 GTAAAAGGTT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:12317836 original size:2 final size:2
Alignment explanation
Indices: 12317829--12317856 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12317819 TTTCATGGAT
12317829 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
12317857 GCTTGATGTG
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:12326149 original size:24 final size:24
Alignment explanation
Indices: 12326122--12326171 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
12326112 TGTTGTAGGT
12326122 CATGTGCACCACACGGTCGTATGC
1 CATGTGCACCACACGGTCGTATGC
12326146 CATGTGCACCACACGGTCGTATGC
1 CATGTGCACCACACGGTCGTATGC
12326170 CA
1 CA
12326172 AGCCGTGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.34, G:0.24, T:0.20
Consensus pattern (24 bp):
CATGTGCACCACACGGTCGTATGC
Found at i:12326230 original size:22 final size:22
Alignment explanation
Indices: 12326202--12326244 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
12326192 GGACTCACCG
12326202 TTTTCCCCTAGAGACCACACGA
1 TTTTCCCCTAGAGACCACACGA
12326224 TTTTCCCCTAGAGACCACACG
1 TTTTCCCCTAGAGACCACACG
12326245 GGTCAGAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.26, C:0.37, G:0.14, T:0.23
Consensus pattern (22 bp):
TTTTCCCCTAGAGACCACACGA
Found at i:12326381 original size:30 final size:29
Alignment explanation
Indices: 12326325--12326382 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
12326315 GACACGAGTA
*
12326325 TGTGTCAGGCCATGTGAGATACACGGGCG
1 TGTGTCAGGCCATGTGAGACACACGGGCG
*
12326354 TGTGTCAGGCCATGTGGAGCCACACGGGC
1 TGTGTCAGGCCATGT-GAGACACACGGGC
12326383 TAGCTATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.19, C:0.24, G:0.38, T:0.19
Consensus pattern (29 bp):
TGTGTCAGGCCATGTGAGACACACGGGCG
Found at i:12328223 original size:14 final size:15
Alignment explanation
Indices: 12328199--12328228 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
12328189 ATAAATAGAT
12328199 AAATAGATAATAATA
1 AAATAGATAATAATA
12328214 AAATAG-TAATAATA
1 AAATAGATAATAATA
12328228 A
1 A
12328229 TGAAGGCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (15 bp):
AAATAGATAATAATA
Found at i:12328277 original size:13 final size:15
Alignment explanation
Indices: 12328259--12328290 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
12328249 ATAATCGATG
12328259 AAATT-AAATA-AAA
1 AAATTAAAATATAAA
12328272 AAATTAAAATATAAA
1 AAATTAAAATATAAA
12328287 AAAT
1 AAAT
12328291 GAAGGAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.29
14 5 0.29
15 7 0.41
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AAATTAAAATATAAA
Found at i:12328308 original size:4 final size:4
Alignment explanation
Indices: 12328299--12328447 Score: 63
Period size: 4 Copynumber: 36.5 Consensus size: 4
12328289 ATGAAGGAAT
* * * * * *
12328299 AATA AATA AATG AATA CAAGA ATTAA AATA AA-A AATG AAT- AATA TATG
1 AATA AATA AATA AATA -AATA AAT-A AATA AATA AATA AATA AATA AATA
* * * * **
12328347 AATA AATA AGTA AATG AACA AATA AATG AATAA AATA AA-A GGAAT- AAGG
1 AATA AATA AATA AATA AATA AATA AATA AAT-A AATA AATA --AATA AATA
* * * *
12328396 AATA AATA AACA AGTA AATA AGTA AATA AATA AATAA AAGA AATAA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AAT-A AATA AAT-A AATA
12328446 AA
1 AA
12328448 AAAGGGCTTA
Statistics
Matches: 104, Mismatches: 30, Indels: 22
0.67 0.19 0.14
Matches are distributed among these distances:
3 9 0.09
4 77 0.74
5 18 0.17
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:12331464 original size:27 final size:27
Alignment explanation
Indices: 12331408--12331482 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
12331398 TCTCATCCCT
*
12331408 ATTTTATCCC-TGCTAAAA-TTTTGACA
1 ATTTTACCCCTTG-TAAAATTTTTGACA
*
12331434 ATTTTACCCCTTGTAAAATTTTTGACG
1 ATTTTACCCCTTGTAAAATTTTTGACA
*
12331461 ATTTTACCCCTGGTAAAATTTT
1 ATTTTACCCCTTGTAAAATTTT
12331483 GAGAAAATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 14 0.32
27 30 0.68
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (27 bp):
ATTTTACCCCTTGTAAAATTTTTGACA
Found at i:12343902 original size:17 final size:16
Alignment explanation
Indices: 12343860--12343897 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
12343850 AATTTCTTTT
12343860 AAAAAAAAGAACAAAG
1 AAAAAAAAGAACAAAG
12343876 AAAAAGAAAGAA-AAAG
1 AAAAA-AAAGAACAAAG
12343892 AAAAAA
1 AAAAAA
12343898 CAAAGGTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 14 0.67
17 6 0.29
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAACAAAG
Found at i:12344841 original size:27 final size:27
Alignment explanation
Indices: 12344779--12344841 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
12344769 TTAGTTTTTG
* *
12344779 TTATATATATATATACATACATATCTT
1 TTATATATACATATACATACATATATT
* * * **
12344806 TGATTTATACATGTACATATTTATATT
1 TTATATATACATATACATACATATATT
12344833 TTATATATA
1 TTATATATA
12344842 TTTCTATAAT
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (27 bp):
TTATATATACATATACATACATATATT
Found at i:12344854 original size:19 final size:19
Alignment explanation
Indices: 12344819--12344868 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
12344809 TTTATACATG
* *
12344819 TACATATTTATATTTTATA
1 TACATATCTATAATTTATA
* *
12344838 TATATTTCTATAATTTATA
1 TACATATCTATAATTTATA
12344857 TACATATCTATA
1 TACATATCTATA
12344869 TATATCTATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (19 bp):
TACATATCTATAATTTATA
Found at i:12346994 original size:24 final size:25
Alignment explanation
Indices: 12346946--12346994 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
12346936 CGTCTCTTTT
* * *
12346946 TTGCATTCATCTGCATTACATTTCA
1 TTGCATTCATATGCATTAAACTTCA
12346971 TTGCA-TCATATGCATTAAACTTCA
1 TTGCATTCATATGCATTAAACTTCA
12346995 CAAGAAGACC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (25 bp):
TTGCATTCATATGCATTAAACTTCA
Found at i:12350087 original size:5 final size:5
Alignment explanation
Indices: 12350074--12350133 Score: 77
Period size: 5 Copynumber: 11.8 Consensus size: 5
12350064 AAAACAAACA
* *
12350074 AAAAA AAAAG AAAAG AAAAAAG AAAAG AAAAG AAAAG AAAAG AAGA- AAAAG
1 AAAAG AAAAG AAAAG --AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
12350125 AAAAG AAAA
1 AAAAG AAAA
12350134 AGGAGAGGCC
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
4 3 0.06
5 41 0.84
7 5 0.10
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:12350094 original size:27 final size:27
Alignment explanation
Indices: 12350062--12350134 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 27
12350052 AAGAATGTTC
12350062 AAAAAACAAACA-AAAAAAAAAGAAAAG
1 AAAAAACAAA-AGAAAAAAAAAGAAAAG
* *
12350089 AAAAAAGAAAAGAAAAGAAAAGAAAAG
1 AAAAAACAAAAGAAAAAAAAAGAAAAG
*
12350116 AAGAAAAAGAAAAGAAAAA
1 -A-AAAAACAAAAGAAAAA
12350135 GGAGAGGCCA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
26 1 0.03
27 23 0.57
28 1 0.03
29 15 0.38
ACGTcount: A:0.84, C:0.03, G:0.14, T:0.00
Consensus pattern (27 bp):
AAAAAACAAAAGAAAAAAAAAGAAAAG
Found at i:12351462 original size:137 final size:137
Alignment explanation
Indices: 12351321--12351580 Score: 358
Period size: 137 Copynumber: 1.9 Consensus size: 137
12351311 AAATAACAAG
* * * * *
12351321 TCTTATCTCCCTGAAGTTGTAGTGGAGCAAACTGAACATAGCGAATCTTATTTCCCTAAAGTTGC
1 TCTTATCTCCCTGAAATTGCAGTGGAGCAAACTGAACATAGCAAATCTTATCTCCATAAAGTTGC
* * * * * *
12351386 AATGGAACAGATTGAAGCTGTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCA
66 AATAGAACAGACTGAAGCTATAAATCACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCA
12351451 CATCAAA
131 CATCAAA
* * * * *
12351458 TCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCTATGAATTTGC
1 TCTTATCTCCCTGAAATTGCAGTGGAGCAAACTGAACATAGCAAATCTTATCTCCATAAAGTTGC
* *
12351523 AGTAGAACAGACTGAAGCTATAAATCACAAACCTTATCTCTCTGAAGTTGTAGTAGAG
66 AATAGAACAGACTGAAGCTATAAATCACAAACCTTATCTCTCTGAAGTTGCAGTAGAG
12351581 CAGGCTGAAA
Statistics
Matches: 105, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
137 105 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (137 bp):
TCTTATCTCCCTGAAATTGCAGTGGAGCAAACTGAACATAGCAAATCTTATCTCCATAAAGTTGC
AATAGAACAGACTGAAGCTATAAATCACAAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCA
CATCAAA
Found at i:12351510 original size:45 final size:45
Alignment explanation
Indices: 12351454--12351665 Score: 176
Period size: 44 Copynumber: 4.6 Consensus size: 45
12351444 TAGATCACAT
*
12351454 CAAATCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAGATAG
1 CAAATCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAGATAA
** * * *
12351499 CAAATCTTATCTCTATGAATTTGCAGTAGAACAGACTGAAGCTATAAATCA
1 CAAATCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAG--AT--A--A
* * * * * *
12351550 CAAACCTTATCTCTCTGAAGTTGTAGTAGAGCAGGCTGAA-ATAA
1 CAAATCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAGATAA
* * * * **
12351594 CAAACCTTATCCCCCTGAAGTTGCAGTGGGGCAGGTTGAAGAT-A
1 CAAATCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAGATAA
* *
12351638 TAAGTCTTATCTCCCTGAAATTGCAGTG
1 CAAATCTTATCTCCCTGAAATTGCAGTG
12351666 AAGCGGATTA
Statistics
Matches: 137, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
44 59 0.43
45 38 0.28
46 1 0.01
47 2 0.01
48 2 0.01
49 1 0.01
51 34 0.25
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (45 bp):
CAAATCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAGATAA
Found at i:12353508 original size:19 final size:19
Alignment explanation
Indices: 12353473--12353522 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
12353463 TTTATACATG
* *
12353473 TACATATTTATATTTTATA
1 TACATATCTATAATTTATA
* *
12353492 TATATTTCTATAATTTATA
1 TACATATCTATAATTTATA
12353511 TACATATCTATA
1 TACATATCTATA
12353523 TATATCTATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (19 bp):
TACATATCTATAATTTATA
Found at i:12354282 original size:72 final size:72
Alignment explanation
Indices: 12354165--12354304 Score: 246
Period size: 72 Copynumber: 1.9 Consensus size: 72
12354155 ATTAGGTGAA
*
12354165 ATATAATTCTTTTTCTTGATTAACGTGAAATATGGCCTTTTCCCGAAAATTTTCAACATTTCAAT
1 ATATAATTCTTTTTCTTGATTAACATGAAATATGGCCTTTTCCCGAAAATTTTCAACATTTCAAT
12354230 AAACGTG
66 AAACGTG
*
12354237 ATATAATTTTTTTTCTTGATTAACATGAAATAT-GCCATTTTCCCGAAAATTTTCAACATTTCAA
1 ATATAATTCTTTTTCTTGATTAACATGAAATATGGCC-TTTTCCCGAAAATTTTCAACATTTCAA
12354301 TAAA
65 TAAA
12354305 TGATCGTATT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
71 3 0.05
72 62 0.95
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (72 bp):
ATATAATTCTTTTTCTTGATTAACATGAAATATGGCCTTTTCCCGAAAATTTTCAACATTTCAAT
AAACGTG
Found at i:12363767 original size:20 final size:20
Alignment explanation
Indices: 12363742--12363780 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
12363732 AGACAGAGCA
*
12363742 GAACATAACAGAGTAGAACT
1 GAACATAAAAGAGTAGAACT
12363762 GAACATAAAAGAGTAGAAC
1 GAACATAAAAGAGTAGAAC
12363781 AGAGCATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.13, G:0.21, T:0.13
Consensus pattern (20 bp):
GAACATAAAAGAGTAGAACT
Found at i:12371342 original size:32 final size:31
Alignment explanation
Indices: 12371306--12371405 Score: 105
Period size: 30 Copynumber: 3.2 Consensus size: 31
12371296 AATATAATAA
12371306 AATATTATCTAGATAAATATTAAATGTAATTT
1 AATATTATCTAGATAAATATTAAAT-TAATTT
* * * **
12371338 AATA-TCTC-ATATTAATATTAAATTAATAA
1 AATATTATCTAGATAAATATTAAATTAATTT
* *
12371367 AATACTATCTAGATAAATTTTAAATTAAATTT
1 AATATTATCTAGATAAATATTAAATT-AATTT
12371399 AATATTA
1 AATATTA
12371406 AATTCATTAA
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
29 8 0.15
30 16 0.30
31 16 0.30
32 13 0.25
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (31 bp):
AATATTATCTAGATAAATATTAAATTAATTT
Found at i:12373189 original size:5 final size:5
Alignment explanation
Indices: 12373181--12373211 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
12373171 ATATTTCGTG
12373181 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
12373212 AAAATTACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:12374018 original size:24 final size:27
Alignment explanation
Indices: 12373986--12374077 Score: 72
Period size: 24 Copynumber: 3.6 Consensus size: 27
12373976 TGGGGTTGTT
*
12373986 GAAATAGAAGAGAAAGAGA-G-GAGAAA
1 GAAA-AGAAGAGAAAGAAAGGAGAGAAA
* *
12374012 G-AAAGAAAAAAAAGAAAGGAGAGAAA
1 GAAAAGAAGAGAAAGAAAGGAGAGAAA
*
12374038 GAAAAGAAGAAGAAA-AAAGG-GACGGAA
1 GAAAAGAAG-AGAAAGAAAGGAGA-GAAA
12374065 -AAAA-AAGAGAAAG
1 GAAAAGAAGAGAAAG
12374078 CTTTTCGAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
24 16 0.30
25 6 0.11
26 14 0.26
27 14 0.26
28 4 0.07
ACGTcount: A:0.67, C:0.01, G:0.30, T:0.01
Consensus pattern (27 bp):
GAAAAGAAGAGAAAGAAAGGAGAGAAA
Found at i:12374254 original size:7 final size:7
Alignment explanation
Indices: 12374242--12374273 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
12374232 AGAAGAAAGG
12374242 AAAGAAA
1 AAAGAAA
12374249 AAAGAAA
1 AAAGAAA
12374256 AAAGAAA
1 AAAGAAA
12374263 AAGAGAAA
1 AA-AGAAA
12374271 AAA
1 AAA
12374274 ATTTAAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:12374622 original size:8 final size:7
Alignment explanation
Indices: 12374610--12374649 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
12374600 AGGAAGGGAA
12374610 AAAAAAG
1 AAAAAAG
12374617 AAAAAAG
1 AAAAAAG
*
12374624 AAAAGAGG
1 AAAA-AAG
12374632 AAAAAAGG
1 AAAAAA-G
12374640 AAAAAAG
1 AAAAAAG
12374647 AAA
1 AAA
12374650 GAAAAAACCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 16 0.55
8 13 0.45
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:12374650 original size:22 final size:23
Alignment explanation
Indices: 12374591--12374651 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
12374581 GCCTAGCCAG
*
12374591 AAAA-AAAAAAGGAAG-GGAAAA
1 AAAAGAAAAAAGAAAGAGGAAAA
12374612 AAAAGAAAAAAGAAAAGAGG-AAA
1 AAAAGAAAAAAG-AAAGAGGAAAA
*
12374635 AAAGGAAAAAAGAAAGA
1 AAAAGAAAAAAGAAAGA
12374652 AAAAACCCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 4 0.11
22 12 0.34
23 17 0.49
24 2 0.06
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (23 bp):
AAAAGAAAAAAGAAAGAGGAAAA
Found at i:12375087 original size:18 final size:18
Alignment explanation
Indices: 12375052--12375107 Score: 80
Period size: 17 Copynumber: 3.2 Consensus size: 18
12375042 GTAATTTACC
12375052 AAAATTTTCGTG-TTTCA
1 AAAATTTTCGTGTTTTCA
12375069 AAAATTTTCGTGTTTTCAA
1 AAAATTTTCGTGTTTTC-A
*
12375088 AAAATTCTCGTGTTTT-A
1 AAAATTTTCGTGTTTTCA
12375105 AAA
1 AAA
12375108 TAAAATTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.44
18 4 0.11
19 16 0.44
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (18 bp):
AAAATTTTCGTGTTTTCA
Found at i:12375092 original size:19 final size:19
Alignment explanation
Indices: 12375052--12375107 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
12375042 GTAATTTACC
12375052 AAAATTTTCGTG-TTTC-A
1 AAAATTTTCGTGTTTTCAA
12375069 AAAATTTTCGTGTTTTCAA
1 AAAATTTTCGTGTTTTCAA
*
12375088 AAAATTCTCGTGTTTT-AA
1 AAAATTTTCGTGTTTTCAA
12375106 AA
1 AA
12375108 TAAAATTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
17 12 0.33
18 8 0.22
19 16 0.44
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (19 bp):
AAAATTTTCGTGTTTTCAA
Found at i:12381272 original size:11 final size:11
Alignment explanation
Indices: 12381256--12381297 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
12381246 TATTATGCCT
12381256 AAAAACAAAAA
1 AAAAACAAAAA
12381267 AAAAAC--AAA
1 AAAAACAAAAA
12381276 AAAAACAAAAA
1 AAAAACAAAAA
12381287 AATAAA-AAAAA
1 AA-AAACAAAAA
12381298 GACAAAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 9 0.32
11 16 0.57
12 3 0.11
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.02
Consensus pattern (11 bp):
AAAAACAAAAA
Found at i:12381276 original size:9 final size:10
Alignment explanation
Indices: 12381263--12381304 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 10
12381253 CCTAAAAACA
*
12381263 AAAAAAAAAC
1 AAAAAAAGAC
12381273 AAAAAAA-AC
1 AAAAAAAGAC
*
12381282 AAAAAAATA-
1 AAAAAAAGAC
12381291 AAAAAAAGAC
1 AAAAAAAGAC
12381301 AAAA
1 AAAA
12381305 TCAAGATGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 17 0.59
10 12 0.41
ACGTcount: A:0.88, C:0.07, G:0.02, T:0.02
Consensus pattern (10 bp):
AAAAAAAGAC
Found at i:12381304 original size:11 final size:10
Alignment explanation
Indices: 12381256--12381304 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
12381246 TATTATGCCT
12381256 AAAAACAAAA
1 AAAAACAAAA
12381266 AAAAA-ACAAA
1 AAAAACA-AAA
12381276 AAAAACAAAA
1 AAAAACAAAA
*
12381286 AAATA-AAAA
1 AAAAACAAAA
*
12381295 AAAGACAAAA
1 AAAAACAAAA
12381305 TCAAGATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 9 0.26
10 24 0.71
11 1 0.03
ACGTcount: A:0.88, C:0.08, G:0.02, T:0.02
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:12381304 original size:17 final size:17
Alignment explanation
Indices: 12381256--12381297 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
12381246 TATTATGCCT
12381256 AAAAACAAA-AAAAAAAC
1 AAAAA-AAACAAAAAAAC
*
12381273 AAAAAAAACAAAAAAAT
1 AAAAAAAACAAAAAAAC
12381290 AAAAAAAA
1 AAAAAAAA
12381298 GACAAAATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 3 0.13
17 20 0.87
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.02
Consensus pattern (17 bp):
AAAAAAAACAAAAAAAC
Found at i:12382284 original size:78 final size:77
Alignment explanation
Indices: 12382179--12383480 Score: 1403
Period size: 75 Copynumber: 17.0 Consensus size: 77
12382169 TGTTTTATTT
* * *
12382179 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACACCGAGGTATTTTTTAATTTCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTA-TTTTCAATTTCT
12382244 GTTTTTCAAAAAA
65 GTTTTTCAAAAAA
* * * * *
12382257 ATTAACTCATATTGCGAGAGATAAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTTAATTTTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTA-TTTTCAATTTCT
12382322 GTTTTTCAAAAAA
65 GTTTTTCAAAAAA
* * *
12382335 ATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTTAATTTCTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
12382400 TTTTTCAAAAAA
66 TTTTTCAAAAAA
* * * *
12382412 ATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCGGGCCACATGCCGAGGTATATTTTAATTTCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT-TTTCAATTTCT
*
12382477 TTTTTTC--AAAA
65 GTTTTTCAAAAAA
* * *
12382488 ATCAACTCATATTGGGAGAGGTGAGTTGAGCCTTGGGTCGCACGCCGAGGTATTTTCAATTTCTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
12382553 TTTTTCAAAAAA
66 TTTTTCAAAAAA
** *
12382565 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATTCCGAGGTATCTTTTAATTTCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT-TTTCAATTTCT
12382630 GTTTTTC--AAAA
65 GTTTTTCAAAAAA
* * *
12382641 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCCGCACGCCGAGGTATTTTCAATTTCTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
12382706 TTTTTC--AAAA
66 TTTTTCAAAAAA
* * * * ** *
12382716 ATCAATTCATAATGAGAGAGGTGAGTTGAGCCTTGGGTTGCACGCCGAGGTATTTTCAAGTTCTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
12382781 TTTTTCAAAAAAA
66 TTTTTC-AAAAAA
* * * *
12382794 ATCAACTCATATTGTGAGAGGTGAGTTGAGCCACGGGCCGCACGCCGAGGTATTTTCAATTTCTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
12382859 TTTTTCAAAAAAAAA
66 TTTTTC---AAAAAA
* * * * *
12382874 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCACGGGCCGCACGCTGAGGTATTTTCAATTTTTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
12382939 TTTTTC--AAAA
66 TTTTTCAAAAAA
* * * * * * * *
12382949 ATCAACGCATAATGCGAGATGTGAGTTAAG-CTTGGGGCTGCACGCCGATGTATTTTCAATTTCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-ACACGCCGAGGTATTTTCAATTTCT
12383013 GTTTTTCAAAAAAAA
65 GTTTTTC--AAAAAA
* * *
12383028 ATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATCTTT-AATTTCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT-TTTCAATTTCT
12383092 GTTTTTC--AAAA
65 GTTTTTCAAAAAA
* * * * * * * ** * *
12383103 ATCAACTTATAATGCGATAGGTGATTTGAGCCTTGGGCCGCATACCGAGGTTTTTTCAATTTTTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
****
12383168 TTTTT-TTTTAA
66 TTTTTCAAAAAA
* * * * *
12383179 ATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGAGTCACATGCCGAGGTATCTTGAATTTCTG
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
* *
12383244 -TTTTC-CAAAT
66 TTTTTCAAAAAA
* * * *
12383254 ATCAACTCATAATACGAGAGGTGAGTTGAGCCTTGGGCCA-ACTGCCGAGGTACTTTT-AATTTC
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAC-GCCGAGGTA-TTTTCAATTTC
*
12383317 TG--TTTC--AAGA
64 TGTTTTTCAAAAAA
* * * * * *
12383327 ATCAACTCATAATGCAAGAGGTGAGTTGAGCCTCGGGTCGCACGCTG-GATTATTTTTCAATTTA
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAG-GTA-TTTTCAATTTC
12383391 TG-TTTT-AAAAAA
64 TGTTTTTCAAAAAA
** * * * * * * * * *
12383403 ATCAACTCATGGCT-CGAGAGGTGAATTGAGCTTCGGGTCGCGCGTCAAGCTATTTTCGATCTCT
1 ATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCT
*
12383467 ATTTTTCAAAAAA
65 GTTTTTCAAAAAA
12383480 A
1 A
12383481 AAAGGTTTTT
Statistics
Matches: 1048, Mismatches: 144, Indels: 65
0.83 0.11 0.05
Matches are distributed among these distances:
72 1 0.00
73 46 0.04
74 22 0.02
75 285 0.27
76 204 0.19
77 133 0.13
78 220 0.21
79 54 0.05
80 83 0.08
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (77 bp):
ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTTCTG
TTTTTCAAAAAA
Found at i:12382549 original size:153 final size:152
Alignment explanation
Indices: 12382179--12383480 Score: 1483
Period size: 153 Copynumber: 8.5 Consensus size: 152
12382169 TGTTTTATTT
* * * *
12382179 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACACCGAGGTATTTTTTAATTTCT
1 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCGCACGCCGAGGTA-TTTTCAATTTCT
* * * *
12382244 GTTTTTCAAAAAAATTAACTCATATTGCGAGAGATAAGTTGAGCCTCGGGTCACACGCCGAGGTA
65 GTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTA
*
12382309 TTTTTTAATTTTTGTTTTTCAAAAAA
130 -TTTTTAATTTCTGTTTTTC--AAAA
* * * * * *
12382335 ATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTTAATTTCTG
1 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCGCACGCCGAGGTATTTTCAATTTCTG
* *
12382400 TTTTTCAAAAAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCGGGCCACATGCCGAGGTAT
66 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTAT
*
12382465 ATTTTAATTTCTTTTTTTCAAAA
131 -TTTTAATTTCTGTTTTTCAAAA
* * * *
12382488 ATCAACTCATATTGGGAGAGGTGAGTTGAGCCTTGGGTCGCACGCCGAGGTATTTTCAATTTCTG
1 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCGCACGCCGAGGTATTTTCAATTTCTG
*
12382553 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATTCCGAGGTAT
66 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTAT
12382618 CTTTTAATTTCTGTTTTTCAAAA
131 -TTTTAATTTCTGTTTTTCAAAA
* *
12382641 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCCGCACGCCGAGGTATTTTCAATTTCTG
1 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCGCACGCCGAGGTATTTTCAATTTCTG
* * * * ** *
12382706 TTTTTC--AAAAATCAATTCATAATGAGAGAGGTGAGTTGAGCCTTGGGTTGCACGCCGAGGTAT
66 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTAT
* *
12382769 TTTCAAGTTCTGTTTTTCAAAAAAA
131 TTTTAATTTCTGTTTTTC---AAAA
* * *
12382794 ATCAACTCATATTGTGAGAGGTGAGTTGAGCCACGGGCCGCACGCCGAGGTATTTTCAATTTCTG
1 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCGCACGCCGAGGTATTTTCAATTTCTG
* * * * *
12382859 TTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCACGGGCCGCACGCTGAGG
66 TTTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGG
* *
12382924 TATTTTCAATTTTTGTTTTTCAAAA
128 TATTTTTAATTTCTGTTTTTCAAAA
* * * * * * *
12382949 ATCAACGCATAATGCGAGATGTGAGTTAAGCTTGGGGCTGCACGCCGATGTATTTTCAATTTCTG
1 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCGCACGCCGAGGTATTTTCAATTTCTG
* *
12383014 TTTTTCAAAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGT
66 TTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGT
*
12383079 ATCTTTAATTTCTGTTTTTCAAAA
129 ATTTTTAATTTCTGTTTTTCAAAA
* * * * ** * *
12383103 ATCAACTTATAATGCGATAGGTGATTTGAGCCTTGGGCCGCATACCGAGGTTTTTTCAATTTTTG
1 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCGCACGCCGAGGTATTTTCAATTTCTG
**** * *
12383168 TTTTT-TTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGAGTCACATGCCGAGGTAT
66 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTAT
* * * *
12383232 CTTGAATTTCTGTTTTCCAAAT
131 TTTTAATTTCTGTTTTTCAAAA
* * *
12383254 ATCAACTCATAATACGAGAGGTGAGTTGAGCCTTGGGCC-AACTGCCGAGGTACTTTT-AATTTC
1 ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCGCAC-GCCGAGGTA-TTTTCAATTTC
* * * * * * *
12383317 TG--TTTC--AAGAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTCGGGTCGCACGCTG-GAT
64 TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAG-G
* **
12383377 TATTTTTCAATTTATGTTTTAAAAAA
128 TATTTTT-AATTTCTGTTTTTCAAAA
** * * * * * * * * *
12383403 ATCAACTCATGGCT-CGAGAGGTGAATTGAGCTTCGGGTCGCGCGTCAAGCTATTTTCGATCTCT
1 ATCAACTCAT-AATGCGAGAGGTGAGTTGAGCCTCGGGCCGCACGCCGAGGTATTTTCAATTTCT
*
12383467 ATTTTTCAAAAAAA
65 GTTTTTCAAAAAAA
12383481 AAAGGTTTTT
Statistics
Matches: 989, Mismatches: 136, Indels: 45
0.85 0.12 0.04
Matches are distributed among these distances:
147 1 0.00
148 50 0.05
149 59 0.06
150 19 0.02
151 172 0.17
152 4 0.00
153 289 0.29
154 130 0.13
155 152 0.15
156 48 0.05
158 65 0.07
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (152 bp):
ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCGCACGCCGAGGTATTTTCAATTTCTG
TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTAT
TTTTAATTTCTGTTTTTCAAAA
Found at i:12384409 original size:13 final size:12
Alignment explanation
Indices: 12384374--12384416 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
12384364 AAGAGAGGAG
12384374 AAAGAAAGAAA-A
1 AAAG-AAGAAAGA
*
12384386 AAAGAAAAAAGA
1 AAAGAAGAAAGA
12384398 AAAGAGAGAAAGA
1 AAAGA-AGAAAGA
12384411 AAAGAA
1 AAAGAA
12384417 AAAAAAGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 5 0.19
12 11 0.41
13 11 0.41
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAGAAGAAAGA
Found at i:12384421 original size:8 final size:8
Alignment explanation
Indices: 12384372--12384421 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
12384362 GAAAGAGAGG
*
12384372 AGAAAGAA
1 AGAAAAAA
12384380 AGAAAAAA
1 AGAAAAAA
12384388 AG-AAAAA
1 AGAAAAAA
*
12384395 AGAAAAGAG
1 AGAAAA-AA
12384404 AGAAAGAAA
1 AGAAA-AAA
12384413 AGAAAAAA
1 AGAAAAAA
12384421 A
1 A
12384422 AGGGATGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
7 7 0.19
8 16 0.44
9 12 0.33
10 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (8 bp):
AGAAAAAA
Found at i:12384451 original size:20 final size:19
Alignment explanation
Indices: 12384385--12384451 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
12384375 AAGAAAGAAA
* *
12384385 AAAAGAAAAAAGAAAAGAG
1 AAAAGAAAAAAAAAAAAAG
*
12384404 AGAAAGAAAAGAAAAAAAAG
1 A-AAAGAAAAAAAAAAAAAG
** *
12384424 GGATGAAAAACAAAAAAAAG
1 AAAAGAAAAA-AAAAAAAAG
12384444 AAAAGAAA
1 AAAAGAAA
12384452 GCTTTTCGGA
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
19 7 0.19
20 29 0.81
ACGTcount: A:0.78, C:0.01, G:0.19, T:0.01
Consensus pattern (19 bp):
AAAAGAAAAAAAAAAAAAG
Found at i:12384616 original size:6 final size:6
Alignment explanation
Indices: 12384590--12384656 Score: 50
Period size: 6 Copynumber: 11.3 Consensus size: 6
12384580 TTTTCAAAAG
* * * * *
12384590 AAGAAA AA-AGA AAGAAG AAGAAA AAGAAG AAG-AA ATGAAA TA-AAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
12384635 AAGAAAA AAGAAA AAGAGAA AA
1 AAG-AAA AAGAAA AAGA-AA AA
12384657 AAATTAAAAC
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
5 11 0.24
6 25 0.54
7 10 0.22
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (6 bp):
AAGAAA
Found at i:12384617 original size:12 final size:12
Alignment explanation
Indices: 12384585--12384624 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
12384575 TAGGGTTTTC
*
12384585 AAAAGAAGAAAAA
1 AAAAGAAG-AAGA
12384598 AGAAAGAAGAAGA
1 A-AAAGAAGAAGA
12384611 AAAAGAAGAAGA
1 AAAAGAAGAAGA
12384623 AA
1 AA
12384625 TGAAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 13 0.52
13 5 0.20
14 7 0.28
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AAAAGAAGAAGA
Found at i:12384620 original size:26 final size:24
Alignment explanation
Indices: 12384585--12384659 Score: 71
Period size: 26 Copynumber: 3.0 Consensus size: 24
12384575 TAGGGTTTTC
12384585 AAAAGAAGAAAAAAGAAAGAAGAAGA
1 AAAAGAAGAAAAAAGAAAGAA-AA-A
* *
12384611 AAAAGAAGAAGAAATGAAATAAAAA
1 AAAAGAAGAA-AAAAGAAAGAAAAA
*
12384636 AGAAAAAAGAAAAAGAGAAA-AAAA
1 A-AAAGAAGAAAAA-AGAAAGAAAA
12384660 TTAAAACAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
25 9 0.21
26 24 0.57
27 9 0.21
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.03
Consensus pattern (24 bp):
AAAAGAAGAAAAAAGAAAGAAAAA
Found at i:12384654 original size:15 final size:15
Alignment explanation
Indices: 12384585--12384658 Score: 64
Period size: 15 Copynumber: 4.9 Consensus size: 15
12384575 TAGGGTTTTC
12384585 AAAAGAAGAAAAAAGA
1 AAAAG-AGAAAAAAGA
12384601 AAGAAGA-AGAAAAAGA
1 AA-AAGAGA-AAAAAGA
* * *
12384617 AGAAGA-AATGAAATA
1 AAAAGAGAA-AAAAGA
12384632 AAAA-AGAAAAAAGA
1 AAAAGAGAAAAAAGA
12384646 AAAAGAGAAAAAA
1 AAAAGAGAAAAAA
12384659 ATTAAAACAG
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
14 10 0.21
15 23 0.49
16 11 0.23
17 3 0.06
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (15 bp):
AAAAGAGAAAAAAGA
Found at i:12384803 original size:17 final size:17
Alignment explanation
Indices: 12384772--12384805 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12384762 TCAAGCCTAA
* *
12384772 AAAGAAAAGAGAAGAAG
1 AAAGAAAAAAAAAGAAG
12384789 AAAGAAAAAAAAAGAAG
1 AAAGAAAAAAAAAGAAG
12384806 CAGGTGAGGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAAAAGAAG
Found at i:12385022 original size:11 final size:11
Alignment explanation
Indices: 12384991--12385050 Score: 70
Period size: 11 Copynumber: 5.5 Consensus size: 11
12384981 AGGGAAGGGG
*
12384991 AAAAAAAGAAA
1 AAAAAAAGAGA
12385002 AAAGAAAAGAGA
1 AAA-AAAAGAGA
*
12385014 AAAAAAAGAGG
1 AAAAAAAGAGA
12385025 AAAAAAAG-GA
1 AAAAAAAGAGA
12385035 AAAAAGAA-AGA
1 AAAAA-AAGAGA
12385046 AAAAA
1 AAAAA
12385051 CCCGGTCGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
10 6 0.14
11 27 0.63
12 10 0.23
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAGA
Found at i:12385463 original size:17 final size:18
Alignment explanation
Indices: 12385425--12385463 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
12385415 GTAATTTACC
12385425 AAAATTTTCGTGTTTTCAA
1 AAAATTTTCGTGTTTT-AA
12385444 AAAATTCTT-GTGTTTTAA
1 AAAATT-TTCGTGTTTTAA
12385462 AA
1 AA
12385464 TAAAATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 13 0.68
20 2 0.11
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (18 bp):
AAAATTTTCGTGTTTTAA
Found at i:12386129 original size:43 final size:43
Alignment explanation
Indices: 12386068--12386334 Score: 345
Period size: 43 Copynumber: 6.2 Consensus size: 43
12386058 CCAAAAAAAG
*
12386068 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
*
12386111 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* * *
12386154 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCTACAAAT
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * *
12386197 GCCGCTAAAGACCACGACTTTTAACGGCGCTTTTCCCTCAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
** **
12386240 GCCGCTAAAGACCAAGACCTTTAGCAACGCTTTTATCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * * * ** *
12386283 ACCACTATAGACCATGACCTTTAGCGGCGCTTCTAGCAAAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
12386326 GCCGCTAAA
1 GCCGCTAAA
12386335 AACATAAACT
Statistics
Matches: 191, Mismatches: 33, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 191 1.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (43 bp):
GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:12386730 original size:17 final size:17
Alignment explanation
Indices: 12386708--12386740 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
12386698 ATACAAAATA
12386708 AAAACTTAATGCTACAG
1 AAAACTTAATGCTACAG
12386725 AAAACTTAATGCTACA
1 AAAACTTAATGCTACA
12386741 AAATAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.18, G:0.09, T:0.24
Consensus pattern (17 bp):
AAAACTTAATGCTACAG
Found at i:12391122 original size:81 final size:83
Alignment explanation
Indices: 12390953--12391126 Score: 203
Period size: 81 Copynumber: 2.1 Consensus size: 83
12390943 CCCTAACTAC
* * * *
12390953 TAACCCCTAAACCTTATTTAATATATAAATTAAAAAATACTAACTAATCTAAACCTTAAATCCTA
1 TAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAACTAATCTAAACCCTAAACCCTA
* * *
12391018 ACCCGAATACCTAACCCC
66 ACCCGAACACCAAACCCA
* *
12391036 TAACCCCTAAACATTATTT-A-ATATAAATTAAAACACACTAATTAATCTAAACCCTAAACCCTA
1 TAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAACTAATCTAAACCCTAAACCCTA
* * *
12391099 A-CCTAACATCAAATCCA
66 ACCCGAACACCAAACCCA
12391116 TGAA-CCCTAAA
1 T-AACCCCTAAA
12391127 TCCCTAACTC
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
80 18 0.23
81 41 0.53
82 1 0.01
83 18 0.23
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.26
Consensus pattern (83 bp):
TAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAACTAATCTAAACCCTAAACCCTA
ACCCGAACACCAAACCCA
Found at i:12391147 original size:14 final size:14
Alignment explanation
Indices: 12391125--12391162 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
12391115 ATGAACCCTA
12391125 AATCCCTAACTCTT
1 AATCCCTAACTCTT
*
12391139 AATCTCTAACTCTT
1 AATCCCTAACTCTT
12391153 AATCCCTAAC
1 AATCCCTAAC
12391163 CCCTAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (14 bp):
AATCCCTAACTCTT
Found at i:12391181 original size:28 final size:29
Alignment explanation
Indices: 12391118--12391196 Score: 72
Period size: 28 Copynumber: 2.8 Consensus size: 29
12391108 CAAATCCATG
* * * *
12391118 AACCCTAAATCCCTAA-CTCTTAATCTCT
1 AACCCTTAATCCCTAACCCCTAAATCACT
*
12391146 AACTCTTAATCCCTAACCCCTAAATCAC-
1 AACCCTTAATCCCTAACCCCTAAATCACT
* **
12391174 AACCCTTAAACCAGAACCCCTAA
1 AACCCTTAATCCCTAACCCCTAA
12391197 TCCATAGTCC
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 33 0.80
29 8 0.20
ACGTcount: A:0.37, C:0.38, G:0.01, T:0.24
Consensus pattern (29 bp):
AACCCTTAATCCCTAACCCCTAAATCACT
Found at i:12391288 original size:14 final size:14
Alignment explanation
Indices: 12391269--12391306 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
12391259 ATCCTAAATT
12391269 AACCATATATCCTA
1 AACCATATATCCTA
*
12391283 AACCATATACCCTA
1 AACCATATATCCTA
*
12391297 AATCATATAT
1 AACCATATAT
12391307 ATTAAACCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (14 bp):
AACCATATATCCTA
Found at i:12391691 original size:41 final size:41
Alignment explanation
Indices: 12391634--12391711 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
12391624 AAATGTTTTT
12391634 GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCAAGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCAAGAGCATTA
*
12391675 GCGGCGCTT-TATCAAAAACGCCGCTAAAGCCCAGAGC
1 GCGGCGCTTCT-TCAAAAACGCCGCTAAAGCCAAGAGC
12391712 TCTCATGTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 1 0.03
41 34 0.97
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (41 bp):
GCGGCGCTTCTTCAAAAACGCCGCTAAAGCCAAGAGCATTA
Found at i:12391737 original size:22 final size:22
Alignment explanation
Indices: 12391709--12391853 Score: 209
Period size: 22 Copynumber: 6.6 Consensus size: 22
12391699 TAAAGCCCAG
*
12391709 AGCTCTCATGTTTCACGTACTA
1 AGCTCTCATGTTTAACGTACTA
12391731 AGCTCTCATGTTTAACGTACTA
1 AGCTCTCATGTTTAACGTACTA
*
12391753 AGCTCTCATGTTTAACGAACTA
1 AGCTCTCATGTTTAACGTACTA
* * **
12391775 AACCCTCATGGCTAACGTACTA
1 AGCTCTCATGTTTAACGTACTA
**
12391797 AGCTCTCATGGCTAACGTACTA
1 AGCTCTCATGTTTAACGTACTA
*
12391819 AGCTCTCATGTTTCACGTACTA
1 AGCTCTCATGTTTAACGTACTA
12391841 AGCTCTCATGTTT
1 AGCTCTCATGTTT
12391854 GAACAATAAA
Statistics
Matches: 111, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 111 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
AGCTCTCATGTTTAACGTACTA
Found at i:12399819 original size:19 final size:18
Alignment explanation
Indices: 12399773--12399820 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
12399763 TACTCCTCAC
*
12399773 TATTATATTATTGTATTA
1 TATTATATTTTTGTATTA
*
12399791 TACTATTATTTTTGTATTA
1 TATTA-TATTTTTGTATTA
12399810 TTATTATATTT
1 -TATTATATTT
12399821 CAATTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 4 0.16
19 17 0.68
20 4 0.16
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (18 bp):
TATTATATTTTTGTATTA
Found at i:12399829 original size:19 final size:18
Alignment explanation
Indices: 12399807--12399888 Score: 66
Period size: 18 Copynumber: 4.6 Consensus size: 18
12399797 TATTTTTGTA
12399807 TTATTATTATATTTCAATT
1 TTATTATTATATTT-AATT
12399826 TTATTAATT-TATTTAAGTT
1 TTATT-ATTATATTTAA-TT
* *
12399845 TTAATA-TAT-TTTAATC
1 TTATTATTATATTTAATT
12399861 TTATTATTAT-TATT-ATT
1 TTATTATTATAT-TTAATT
12399878 ATTATTATTAT
1 -TTATTATTAT
12399889 TGTTATTATT
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
16 6 0.11
17 12 0.23
18 16 0.30
19 16 0.30
20 3 0.06
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (18 bp):
TTATTATTATATTTAATT
Found at i:12399931 original size:3 final size:3
Alignment explanation
Indices: 12399861--12399914 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
12399851 TATTTTAATC
* * *
12399861 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTG TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12399909 TTA TTA
1 TTA TTA
12399915 GTTTTTTTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:12405247 original size:20 final size:20
Alignment explanation
Indices: 12405224--12405265 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
12405214 TTTTTAAAAA
* *
12405224 TTAAAAATCATTAAAAGTAT
1 TTAAAAATCATAAAAAATAT
*
12405244 TTAAAAATTATAAAAAATAT
1 TTAAAAATCATAAAAAATAT
12405264 TT
1 TT
12405266 TTAAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
TTAAAAATCATAAAAAATAT
Found at i:12408404 original size:16 final size:17
Alignment explanation
Indices: 12408383--12408415 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
12408373 TAAATCTATA
12408383 TACATA-TATATTTTTG
1 TACATATTATATTTTTG
12408399 TACATATTTATATTTTT
1 TACATA-TTATATTTTT
12408416 TTTTCAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (17 bp):
TACATATTATATTTTTG
Found at i:12408449 original size:19 final size:19
Alignment explanation
Indices: 12408387--12408449 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 19
12408377 TCTATATACA
*
12408387 TATATATTTTTGTACATATT
1 TATATATTTTTCT-CATATT
* * **
12408407 TATATTTTTTTTTCA-AAC
1 TATATATTTTTCTCATATT
12408425 TA-ATATTTTTCTCATATT
1 TATATATTTTTCTCATATT
12408443 TATATAT
1 TATATAT
12408450 ATACACATAT
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
17 10 0.30
18 6 0.18
19 6 0.18
20 11 0.33
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (19 bp):
TATATATTTTTCTCATATT
Found at i:12408733 original size:15 final size:15
Alignment explanation
Indices: 12408713--12408751 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
12408703 ATCGTTAAAA
12408713 TTATTATCATTGTAT
1 TTATTATCATTGTAT
12408728 TTATTA-CTATTGTAT
1 TTATTATC-ATTGTAT
*
12408743 TTGTTATCA
1 TTATTATCA
12408752 CGATATTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.59
Consensus pattern (15 bp):
TTATTATCATTGTAT
Found at i:12412498 original size:24 final size:24
Alignment explanation
Indices: 12412471--12412516 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
12412461 AGAAGAGTCC
* *
12412471 CAAAAGGAAATGTAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
12412495 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
12412517 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.15, G:0.26, T:0.13
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:12420847 original size:44 final size:42
Alignment explanation
Indices: 12420795--12421043 Score: 172
Period size: 44 Copynumber: 5.8 Consensus size: 42
12420785 GATCGCATCT
12420795 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAGCTTAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGC-AGCTTA-TAAGCA
* *
12420839 AGTCTTATC-CTCCTGAAGTTGCAAT-GAGGCAGAC-TAAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAG-CTTATA-A--GCA
* *
12420884 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AAGCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGCTTATAAG-C-A
* * * * * *
12420927 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCA
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGCTTATAAGCA
* * * *
12420970 CAGATCTTATCTCTCTGAAGTTGCA---GAG-AGCATATCACATCT
1 -AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGCTTAT-A-AGCA
*
12421012 AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
12421044 GCTAAGTAAG
Statistics
Matches: 168, Mismatches: 17, Indels: 40
0.75 0.08 0.18
Matches are distributed among these distances:
40 24 0.14
41 7 0.04
42 5 0.03
43 15 0.09
44 82 0.49
45 32 0.19
46 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (42 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGCTTATAAGCA
Found at i:12420899 original size:45 final size:45
Alignment explanation
Indices: 12420797--12420995 Score: 189
Period size: 44 Copynumber: 4.5 Consensus size: 45
12420787 TCGCATCTAG
* * *
12420797 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAGCTT--AG-TAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGC-AGATTAAAGAT-CGCAAA
* * *
12420841 TCTTATC-CTCCTGAAGTTGCAAT-GAGGCAGACTAAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAGATCGCAAA
*
12420886 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CCG-ATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATCGCA-AA
* * * *
12420930 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA-ATCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATCGCAAA
*
12420974 TCTTATCTCTCTGAAGTTGCAG
1 TCTTATCTCCCTGAAGTTGCAG
12420996 AGAGCATATC
Statistics
Matches: 129, Mismatches: 16, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
43 7 0.05
44 81 0.63
45 37 0.29
46 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATCGCAAA
Found at i:12420943 original size:89 final size:87
Alignment explanation
Indices: 12420797--12420995 Score: 217
Period size: 89 Copynumber: 2.3 Consensus size: 87
12420787 TCGCATCTAG
* * *
12420797 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAGCTTAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTAG-AAGCAAATCCTATCCTCCTGAAGTTGCA
**
12420862 AT-GAGGCAGACTAAAGATGGCAAA
65 ATGGA-GCAGACTAAA-ATCACAAA
12420886 TCTTATCTCCCTGAAGTTGCAGTGGAGC-AGATTA-AAGCCGATAATCCTAT-CTCCCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTAGAAG-C-A-AATCCTATCCT-CCTGAAGTT
* * * *
12420948 GCAGTGGAGCGGATTAAAATCACAGA
62 GCAATGGAGCAGACTAAAATCACAAA
*
12420974 TCTTATCTCTCTGAAGTTGCAG
1 TCTTATCTCCCTGAAGTTGCAG
12420996 AGAGCATATC
Statistics
Matches: 95, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
86 3 0.03
87 1 0.01
88 34 0.36
89 55 0.58
90 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (87 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATTAGAAGCAAATCCTATCCTCCTGAAGTTGCAA
TGGAGCAGACTAAAATCACAAA
Found at i:12421237 original size:44 final size:44
Alignment explanation
Indices: 12421187--12421419 Score: 160
Period size: 44 Copynumber: 5.4 Consensus size: 44
12421177 GTTTTATCCT
* * *
12421187 CCTGAAGTTGCAGTAGAGCAGATTAAAGCCGGCAATCCTATCTC
1 CCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCTTATCTC
* * * **
12421231 CCTGAAGCTGCAGTGGAGCGGGTTAAAATC-ACAGATCTTATCTC
1 CCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACA-ATCTTATCTC
* * * *
12421275 TCTGAAGTTGTAG-AGAGCAGATT---G-C-ATCTAGTCTTATCTC
1 CCTGAAGTTGCAGTGGAGCAGATTAAAGCCGA-C-AATCTTATCTC
* * * * *
12421315 CTTGAAGTTGCAATGGAGCAGACTAAGTAGGC-A-AATCTTATCTT
1 CCTGAAGTTGCAGTGGAGCAGATTAA--AGCCGACAATCTTATCTC
* * * *
12421359 TCTGAAGTTACAGTGGAGCAGATTAAAGCCGATAATCCTATCTC
1 CCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCTTATCTC
*
12421403 CCTGAAGTCGCAGTGGA
1 CCTGAAGTTGCAGTGGA
12421420 ATAGACTAAG
Statistics
Matches: 142, Mismatches: 35, Indels: 24
0.71 0.17 0.12
Matches are distributed among these distances:
39 2 0.01
40 19 0.13
41 9 0.06
42 3 0.02
43 10 0.07
44 96 0.68
46 1 0.01
47 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (44 bp):
CCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCTTATCTC
Found at i:12430859 original size:16 final size:17
Alignment explanation
Indices: 12430838--12430870 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
12430828 GTTAGTTTTG
12430838 TTTTTA-TTTTTGATAA
1 TTTTTACTTTTTGATAA
12430854 TTTTTACGTTTTTGATA
1 TTTTTAC-TTTTTGATA
12430871 TCATTGCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.03, G:0.09, T:0.67
Consensus pattern (17 bp):
TTTTTACTTTTTGATAA
Found at i:12431695 original size:58 final size:61
Alignment explanation
Indices: 12431622--12431747 Score: 143
Period size: 60 Copynumber: 2.1 Consensus size: 61
12431612 ATTTACATGG
* ** * * *
12431622 ATATGTAGTTCGAATGTAAGATTTAATTTC-ATGAGTTG-ATTTAA-AGTTATGAATTATAT
1 ATATATAGTTCGAATGTAAGATACAAGTTCTATGAGTTGAACTTAATA-TTATGAAATATAT
* *
12431681 ATATATAGTT-GAATGTATGATACAAGTTCTTTGAGTTGAACTTAATATTATGAAATATAT
1 ATATATAGTTCGAATGTAAGATACAAGTTCTATGAGTTGAACTTAATATTATGAAATATAT
12431741 ATATATA
1 ATATATA
12431748 TATATATACA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
58 15 0.27
59 16 0.29
60 24 0.43
61 1 0.02
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.43
Consensus pattern (61 bp):
ATATATAGTTCGAATGTAAGATACAAGTTCTATGAGTTGAACTTAATATTATGAAATATAT
Found at i:12432088 original size:41 final size:41
Alignment explanation
Indices: 12431981--12432093 Score: 124
Period size: 41 Copynumber: 2.8 Consensus size: 41
12431971 ATTTGAGATT
* *
12431981 TTCAGGCTTAATGCCTAGCAGGC-TTGATGTCGGTGAATTAA
1 TTCAGGCTTTATGCCTAGCAGGCTTTG-TGCCGGTGAATTAA
* *
12432022 TTCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGT-A
1 TTCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTG-AAT-TAA
* *
12432064 -TCAGGCTTTGTGCCTAGCAGGCTTTATGCC
1 TTCAGGCTTTATGCCTAGCAGGCTTTGTGCC
12432094 AGTGCTTTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 53 0.87
42 7 0.11
43 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (41 bp):
TTCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTAA
Found at i:12432475 original size:2 final size:2
Alignment explanation
Indices: 12432462--12432491 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
12432452 ATAAGTATTA
*
12432462 AT AT AA 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
12432492 GAATTTCTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:12438898 original size:14 final size:14
Alignment explanation
Indices: 12438879--12438907 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
12438869 CAATGTCATA
12438879 TCCCAGATATGGTC
1 TCCCAGATATGGTC
12438893 TCCCAGATATGGTC
1 TCCCAGATATGGTC
12438907 T
1 T
12438908 TACATGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.31
Consensus pattern (14 bp):
TCCCAGATATGGTC
Found at i:12438983 original size:50 final size:50
Alignment explanation
Indices: 12438893--12439161 Score: 358
Period size: 50 Copynumber: 5.4 Consensus size: 50
12438883 AGATATGGTC
* ** * * * * * *
12438893 TCCCAGATATGGTCTTACATGGGAAATTTCATATCAGTGCCCATGCCATA
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* * ***
12438943 TCCTAGAAATGGTCTTATGGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
12438993 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* **
12439043 TCCCAGACATTGTCTTACATGGGACCTCTCATCTCGGTGCCAACATCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* *
12439093 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGTCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
*
12439143 TCCTAGACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
12439162 CTAGCTCACA
Statistics
Matches: 192, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 192 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
Found at i:12439195 original size:48 final size:48
Alignment explanation
Indices: 12438965--12439207 Score: 202
Period size: 50 Copynumber: 4.9 Consensus size: 48
12438955 TCTTATGGGG
* * * * *
12438965 GACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACAT
1 GACCTCACATATCGATGTCAACGCCATGTCCTAGACATGGTCTTACAT
* * * * * *
12439013 GGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATTGTCTTACAT
1 --GACCTCACATATCGATGTCAACGCCATGTCCTAGACATGGTCTTACAT
* * * * ** *
12439063 GGGACCTCTCATCTCGGTGCCAACATCATGTCCCAGACATGGTCTTACAT
1 --GACCTCACATATCGATGTCAACGCCATGTCCTAGACATGGTCTTACAT
* *
12439113 GGGACCTCTCATCTCGATGTCAACGCCATGTCCTAGACATGGTCTTACACT
1 --GACCTCACATATCGATGTCAACGCCATGTCCTAGACATGGTCTTACA-T
* *
12439164 -AGCTCACATATCGATGT-AGATGCCATGTCCTAGACATGGTCTTA
1 GACCTCACATATCGATGTCA-ACGCCATGTCCTAGACATGGTCTTA
12439208 TACGAGATCG
Statistics
Matches: 178, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
47 1 0.01
48 38 0.21
50 138 0.78
51 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (48 bp):
GACCTCACATATCGATGTCAACGCCATGTCCTAGACATGGTCTTACAT
Found at i:12446701 original size:4 final size:4
Alignment explanation
Indices: 12446692--12446731 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
12446682 ACTCTAAAAA
12446692 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
12446732 TTGTGTGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:12447430 original size:326 final size:326
Alignment explanation
Indices: 12446832--12447490 Score: 1057
Period size: 326 Copynumber: 2.0 Consensus size: 326
12446822 ATATTTTCAC
** *
12446832 ATTCAAACTTATATAAATCATGCCTAAAACATTTACTTATCAAACTGATCAACAACATTCATAAT
1 ATTCAAACACATATAAATCATGCCTAAAACATTTACTTATCAAACTGATCAACAACATTCACAAT
* *
12446897 ACTATATAAAGGTTAACTAATAAACTTCGTTCATTTCATTTCAATTTTAGTACCAAATTAACACA
66 ACTATATAAAGGTTAACTAATAAACTTCGTTCATTTCATTTCAATTTTAGAACCAAACTAACACA
* *
12446962 AAAGTATATTAATTTAACTTACTATAACCATCAATTCATCTTAAGTTCAAACATGCATTTTCTCT
131 AAAGTATATCAATTTAACTTACTATAACCATCAATTCATCTTAAGTTCAAACATGCATTTTCTCA
** *
12447027 ACACTTAAACAATTAATTCATACGGCCAAATACACACCAACCTTTAAAAGCTAAATCTCATGGCT
196 ACACTTAAACAACCAATTCATACGGCCAAATACACACCAACCTTTAAAAGCCAAATCTCATGGCT
* * * * * * *
12447092 AATATTATAACTCAAAACATGCTAAGATGACACTAGCCTATACATGCCATTTATCATAAATATAC
261 AATATCATAACTCAAAACATACCAAGATGACACTAGCCTATACATCCCATATACCATAAACATAC
12447157 A
326 A
* *
12447158 ATTCAAACACATATAAATCATGCCTAAAACATTTACTTATTAAATTGATCAACAACATTCACAAT
1 ATTCAAACACATATAAATCATGCCTAAAACATTTACTTATCAAACTGATCAACAACATTCACAAT
* * *
12447223 ACTATATAAATGTTAACTAATAAACTTCGTTCATTTCATTTCAATTTTAGAACCAAACTAACTCT
66 ACTATATAAAGGTTAACTAATAAACTTCGTTCATTTCATTTCAATTTTAGAACCAAACTAACACA
12447288 AAAGTATATCAATTTAACTTACTATAACCATCAATTCATCTTAAGTTCAAACATGCATTTTCTCA
131 AAAGTATATCAATTTAACTTACTATAACCATCAATTCATCTTAAGTTCAAACATGCATTTTCTCA
* * * * * *
12447353 ACACTTAAATAGCCAATTCATATGGCTAAATACACACTAGCCTTTAAAAGCCAAATCTCATGGCT
196 ACACTTAAACAACCAATTCATACGGCCAAATACACACCAACCTTTAAAAGCCAAATCTCATGGCT
*
12447418 AATATCATAACTCAAAACATACCATGATGACACTAGCCTATACATCCCATATACCATAAACATAC
261 AATATCATAACTCAAAACATACCAAGATGACACTAGCCTATACATCCCATATACCATAAACATAC
12447483 A
326 A
12447484 ATTCAAA
1 ATTCAAA
12447491 AGTACCAACT
Statistics
Matches: 304, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
326 304 1.00
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.32
Consensus pattern (326 bp):
ATTCAAACACATATAAATCATGCCTAAAACATTTACTTATCAAACTGATCAACAACATTCACAAT
ACTATATAAAGGTTAACTAATAAACTTCGTTCATTTCATTTCAATTTTAGAACCAAACTAACACA
AAAGTATATCAATTTAACTTACTATAACCATCAATTCATCTTAAGTTCAAACATGCATTTTCTCA
ACACTTAAACAACCAATTCATACGGCCAAATACACACCAACCTTTAAAAGCCAAATCTCATGGCT
AATATCATAACTCAAAACATACCAAGATGACACTAGCCTATACATCCCATATACCATAAACATAC
A
Found at i:12448322 original size:31 final size:31
Alignment explanation
Indices: 12448280--12448388 Score: 164
Period size: 31 Copynumber: 3.5 Consensus size: 31
12448270 TGCTCAAATT
* *
12448280 AATTCGACAATGTATATCTTTATACAAATCA
1 AATTCGGCAATGTATATCTATATACAAATCA
* *
12448311 AATTCGGCAATGAATATCCATATACAAATCA
1 AATTCGGCAATGTATATCTATATACAAATCA
*
12448342 AATTCGGCAATATATATCTATATACAAATCA
1 AATTCGGCAATGTATATCTATATACAAATCA
*
12448373 AATTGGGCAATGTATA
1 AATTCGGCAATGTATA
12448389 AAACATATAC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (31 bp):
AATTCGGCAATGTATATCTATATACAAATCA
Found at i:12468690 original size:25 final size:25
Alignment explanation
Indices: 12468661--12468783 Score: 126
Period size: 25 Copynumber: 5.0 Consensus size: 25
12468651 GAAGCTTTTT
*
12468661 CGAGCCATATAACGGGAAGCTCATG
1 CGAGCCATATAACGGGAAGCTCATA
* *
12468686 TGAGCCATATAACGGGAAGCTCTTA
1 CGAGCCATATAACGGGAAGCTCATA
* ** *
12468711 CGAGCCAAATATTGGGAATCTCATA
1 CGAGCCATATAACGGGAAGCTCATA
* *
12468736 CGAGCCATA-AACGGAAAGCACAATA
1 CGAGCCATATAACGGGAAGCTC-ATA
12468761 -GAGCCAT-TAATCGGGAAGCTCAT
1 CGAGCCATATAA-CGGGAAGCTCAT
12468784 GAGAGTCAAA
Statistics
Matches: 78, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
24 18 0.23
25 60 0.77
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (25 bp):
CGAGCCATATAACGGGAAGCTCATA
Found at i:12468728 original size:50 final size:49
Alignment explanation
Indices: 12468644--12468754 Score: 123
Period size: 50 Copynumber: 2.2 Consensus size: 49
12468634 TATAAGCATG
* * * * **
12468644 TAAACAGGAAGCTTTTTCGAGCCATATAACGGGAAGCTCATGTGAGCCA
1 TAAACGGGAAGCTCTTACGAGCCAAATAACGGGAAGCTCATACGAGCCA
** *
12468693 TATAACGGGAAGCTCTTACGAGCCAAATATTGGGAATCTCATACGAGCCA
1 TA-AACGGGAAGCTCTTACGAGCCAAATAACGGGAAGCTCATACGAGCCA
*
12468743 TAAACGGAAAGC
1 TAAACGGGAAGC
12468755 ACAATAGAGC
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
49 11 0.22
50 40 0.78
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (49 bp):
TAAACGGGAAGCTCTTACGAGCCAAATAACGGGAAGCTCATACGAGCCA
Found at i:12473201 original size:21 final size:20
Alignment explanation
Indices: 12473175--12473219 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
12473165 ATTATCCACC
12473175 TAATTACATACAAAAAAATTA
1 TAATTACA-ACAAAAAAATTA
* *
12473196 TAATTATAATAAAAAAATTA
1 TAATTACAACAAAAAAATTA
12473216 -AATT
1 TAATT
12473220 TAATGTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 11 0.50
21 7 0.32
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
TAATTACAACAAAAAAATTA
Found at i:12473223 original size:18 final size:20
Alignment explanation
Indices: 12473186--12473223 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
12473176 AATTACATAC
12473186 AAAAAAATTATAATTATAAT
1 AAAAAAATTATAATTATAAT
12473206 AAAAAAATTA-AATT-TAAT
1 AAAAAAATTATAATTATAAT
12473224 GTTATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAAAATTATAATTATAAT
Found at i:12473442 original size:19 final size:19
Alignment explanation
Indices: 12473414--12473468 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
12473404 AAACGAGAAA
12473414 GTTT-AGAGAATTGAGAGG
1 GTTTGAGAGAATTGAGAGG
12473432 GTTTGAGAGAATTTGAGA-G
1 GTTTGAGAGAA-TTGAGAGG
** *
12473451 AATTGAGAGAGTTGAGAG
1 GTTTGAGAGAATTGAGAG
12473469 AAAGATGTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 10 0.32
19 15 0.48
20 6 0.19
ACGTcount: A:0.35, C:0.00, G:0.38, T:0.27
Consensus pattern (19 bp):
GTTTGAGAGAATTGAGAGG
Found at i:12473458 original size:9 final size:9
Alignment explanation
Indices: 12473418--12473470 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
12473408 GAGAAAGTTT
12473418 AGAGAATTG
1 AGAGAATTG
**
12473427 AGAGGGTTTG
1 AGA-GAATTG
12473437 AGAGAATTTG
1 AGAGAA-TTG
12473447 AGAGAATTG
1 AGAGAATTG
*
12473456 AGAGAGTTG
1 AGAGAATTG
12473465 AGAGAA
1 AGAGAA
12473471 AGATGTGAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 20 0.56
10 16 0.44
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.23
Consensus pattern (9 bp):
AGAGAATTG
Found at i:12483768 original size:27 final size:27
Alignment explanation
Indices: 12483738--12483791 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
12483728 TAAAATATAA
12483738 GTTCTTTAATGGAGAATTTATTTTTCT
1 GTTCTTTAATGGAGAATTTATTTTTCT
*
12483765 GTTCTTTAATGGGGAATTTATTTTTCT
1 GTTCTTTAATGGAGAATTTATTTTTCT
12483792 TACAATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.20, C:0.07, G:0.17, T:0.56
Consensus pattern (27 bp):
GTTCTTTAATGGAGAATTTATTTTTCT
Done.