Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 48 of 221
Found at i:13740044 original size:24 final size:24
Alignment explanation
Indices: 13739949--13740060 Score: 89
Period size: 24 Copynumber: 4.6 Consensus size: 24
13739939 ATGTCGAGAT
* *
13739949 GCTCATAAGAGCTAAATAACGGGAA
1 GCTCATGAGAGCT-AATAACAGGAA
* **
13739974 GCTCATGAGAGCCAAATATTAGGAA
1 GCTCATGAGAG-CTAATAACAGGAA
* * * *
13739999 GCTCAAGAGAGCCAATATCAGGAT
1 GCTCATGAGAGCTAATAACAGGAA
* *
13740023 GCTCATGAGAGCTACTAACAGGAC
1 GCTCATGAGAGCTAATAACAGGAA
* *
13740047 GCTCTTGTGAGCTA
1 GCTCATGAGAGCTA
13740061 CGGTGTGTTC
Statistics
Matches: 70, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
24 41 0.59
25 28 0.40
26 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.20
Consensus pattern (24 bp):
GCTCATGAGAGCTAATAACAGGAA
Found at i:13741868 original size:25 final size:25
Alignment explanation
Indices: 13741840--13741910 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 25
13741830 TGATTATCTT
13741840 AATATTAAATTTAATTTAATAGATA-
1 AATATTAAATTTAATTTAATA-ATAG
** *
13741865 AATATTCTA-TTAATTTAATATTAG
1 AATATTAAATTTAATTTAATAATAG
*
13741889 AATGATTAAGTTTAATTATAAT
1 AAT-ATTAAATTTAATT-TAAT
13741911 TAAACTCTCT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
23 2 0.06
24 14 0.39
25 10 0.28
26 6 0.17
27 4 0.11
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.46
Consensus pattern (25 bp):
AATATTAAATTTAATTTAATAATAG
Found at i:13746273 original size:2 final size:2
Alignment explanation
Indices: 13746266--13746299 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13746256 TTTAAATAAA
13746266 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13746300 GGGGGGGGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13748105 original size:29 final size:29
Alignment explanation
Indices: 13748063--13748119 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
13748053 AGCCCGGTGA
* *
13748063 CAAGTGTTATTCGAGTTGTTGGTTCGAAC
1 CAAGTGATATTCGAGTTATTGGTTCGAAC
13748092 CAAGTGATATTCGAGTTATTGGTTCGAA
1 CAAGTGATATTCGAGTTATTGGTTCGAA
13748120 GGCACCATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.12, G:0.26, T:0.37
Consensus pattern (29 bp):
CAAGTGATATTCGAGTTATTGGTTCGAAC
Found at i:13758668 original size:24 final size:25
Alignment explanation
Indices: 13758610--13758670 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
13758600 TCCGGGCTTA
*
13758610 ATAACGGGAAGCTCACGAAGAGCCT
1 ATAACGGGTAGCTCACGAAGAGCCT
**
13758635 ATAATAGGTAGCTC-CGAAGAGCACT
1 ATAACGGGTAGCTCACGAAGAGC-CT
13758660 -TAACGGGTAGC
1 ATAACGGGTAGC
13758671 ACCAAATAGC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 17 0.57
25 13 0.43
ACGTcount: A:0.34, C:0.21, G:0.28, T:0.16
Consensus pattern (25 bp):
ATAACGGGTAGCTCACGAAGAGCCT
Found at i:13768310 original size:16 final size:17
Alignment explanation
Indices: 13768289--13768326 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
13768279 TTCTATATGA
*
13768289 ATTTTACT-TTTATTTT
1 ATTTTACTATATATTTT
13768305 ATTTTACTACTATATTTT
1 ATTTTACTA-TATATTTT
13768323 ATTT
1 ATTT
13768327 AAATAAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTACTATATATTTT
Found at i:13770111 original size:23 final size:22
Alignment explanation
Indices: 13770064--13770109 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
13770054 TGAACTAGAA
13770064 TTCATTGGTATTCAACTTTTTT
1 TTCATTGGTATTCAACTTTTTT
13770086 TTCATTGGTATTCAACTTTTTT
1 TTCATTGGTATTCAACTTTTTT
13770108 TT
1 TT
13770110 TCTGAGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.13, G:0.09, T:0.61
Consensus pattern (22 bp):
TTCATTGGTATTCAACTTTTTT
Found at i:13774202 original size:21 final size:21
Alignment explanation
Indices: 13774176--13774218 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
13774166 TTTCGTTGTT
13774176 TTACGTAAATTCTGATAAAAC
1 TTACGTAAATTCTGATAAAAC
13774197 TTACGTAAATTCTGATAAAAC
1 TTACGTAAATTCTGATAAAAC
13774218 T
1 T
13774219 CCTGCAGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (21 bp):
TTACGTAAATTCTGATAAAAC
Found at i:13786750 original size:22 final size:23
Alignment explanation
Indices: 13786697--13786750 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 23
13786687 TTGTCTAGAA
13786697 GGTTTTGATCTTTCAAGAAAATGTTT
1 GGTTTTGATCTTTCAAGAAAA---TT
*
13786723 GGTTTTGATCTTTCAAGTAAA-T
1 GGTTTTGATCTTTCAAGAAAATT
13786745 GGTTTT
1 GGTTTT
13786751 TCTCTTAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 7 0.26
26 20 0.74
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.48
Consensus pattern (23 bp):
GGTTTTGATCTTTCAAGAAAATT
Found at i:13794228 original size:37 final size:37
Alignment explanation
Indices: 13794173--13794304 Score: 151
Period size: 37 Copynumber: 3.6 Consensus size: 37
13794163 CTTAGTGTCG
* *
13794173 TGGCGTGTTATTGATTGGATTAGCTCTTTTGAGCGAT
1 TGGCGTGTTATTGGTTGGATTAGCTCTTATGAGCGAT
* *
13794210 TGGCGTGTTATTGGTTGGATTATCTCTTATGAGCGTT
1 TGGCGTGTTATTGGTTGGATTAGCTCTTATGAGCGAT
* * ** *
13794247 TGGCATGCTAGCGGGTGGATTAGCAT-TTATGAGCGAT
1 TGGCGTGTTATTGGTTGGATTAGC-TCTTATGAGCGAT
*
13794284 TTGCGTGTT-TTGGTTGGATTA
1 TGGCGTGTTATTGGTTGGATTA
13794305 CTTGTGTACT
Statistics
Matches: 77, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
36 9 0.12
37 67 0.87
38 1 0.01
ACGTcount: A:0.16, C:0.11, G:0.32, T:0.42
Consensus pattern (37 bp):
TGGCGTGTTATTGGTTGGATTAGCTCTTATGAGCGAT
Found at i:13796952 original size:59 final size:61
Alignment explanation
Indices: 13796881--13796997 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 61
13796871 ATCACTGTAA
* *
13796881 TATTAAATTAATATAATATTTA-T-CAAGATAAATA-TAAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTACTACAAGATAAATATTAA-ATTAAATTTAATATTAAATCT
* *
13796940 TATTAAAATAATAGAATGTTTATCTACAAGATAAATATTAAATTTAATTTAATATTAA
1 TATTAAAATAATAGAATATTTA-CTACAAGATAAATATTAAATTAAATTTAATATTAA
13796998 GATAATCACT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
59 19 0.38
61 1 0.02
62 27 0.54
63 3 0.06
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.42
Consensus pattern (61 bp):
TATTAAAATAATAGAATATTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:13798666 original size:14 final size:15
Alignment explanation
Indices: 13798642--13798670 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13798632 CTATACATGC
13798642 AAAATATCAAAGACA
1 AAAATATCAAAGACA
13798657 AAAATA-CAAAGACA
1 AAAATATCAAAGACA
13798671 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAATATCAAAGACA
Found at i:13803448 original size:43 final size:43
Alignment explanation
Indices: 13803387--13803492 Score: 149
Period size: 43 Copynumber: 2.5 Consensus size: 43
13803377 CACCATTTTG
* * *
13803387 TGGACAAACTACCAGTAATTGCAGTCAAGTTGCCAGAAATATA
1 TGGACAAACCACCAGTAATTGCAGTCAAGCTACCAGAAATATA
* * * *
13803430 TGGACAAGCCACCAGTAATTGCATTCAAGCTACCAGGAATATG
1 TGGACAAACCACCAGTAATTGCAGTCAAGCTACCAGAAATATA
13803473 TGGACAAACCACCAGTAATT
1 TGGACAAACCACCAGTAATT
13803493 ACAAATAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (43 bp):
TGGACAAACCACCAGTAATTGCAGTCAAGCTACCAGAAATATA
Found at i:13803553 original size:40 final size:40
Alignment explanation
Indices: 13803467--13803581 Score: 142
Period size: 40 Copynumber: 2.9 Consensus size: 40
13803457 AGCTACCAGG
* * *
13803467 AATA-TGTGGACAAACCACCAGTAATTACAAATAAATTGAT
1 AATATTGTGGACAAGCCACCAGT-ATTGCAAATAAATTGAC
* * *
13803507 AGTATTGTGGACAAGCCACCAGTATTGCATATAAATTGCC
1 AATATTGTGGACAAGCCACCAGTATTGCAAATAAATTGAC
* *
13803547 AATATTGTGGATAAGCCACCAGTATTGCAGATAAA
1 AATATTGTGGACAAGCCACCAGTATTGCAAATAAA
13803582 CTGTCAGTAC
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
40 48 0.74
41 17 0.26
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (40 bp):
AATATTGTGGACAAGCCACCAGTATTGCAAATAAATTGAC
Found at i:13803572 original size:20 final size:20
Alignment explanation
Indices: 13803507--13803573 Score: 53
Period size: 20 Copynumber: 3.4 Consensus size: 20
13803497 ATAAATTGAT
*
13803507 AGTATTGTGGACAAGCCACC
1 AGTATTGTGGATAAGCCACC
*** ****
13803527 AGTATTGCATATAAATTGCC
1 AGTATTGTGGATAAGCCACC
*
13803547 AATATTGTGGATAAGCCACC
1 AGTATTGTGGATAAGCCACC
13803567 AGTATTG
1 AGTATTG
13803574 CAGATAAACT
Statistics
Matches: 30, Mismatches: 17, Indels: 0
0.64 0.36 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (20 bp):
AGTATTGTGGATAAGCCACC
Found at i:13803579 original size:20 final size:20
Alignment explanation
Indices: 13803519--13803580 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 20
13803509 TATTGTGGAC
*
13803519 AAGCCACCAGTATTGCATAT
1 AAGCCACCAGTATTGCAGAT
**** * **
13803539 AAATTGCCAATATTGTGGAT
1 AAGCCACCAGTATTGCAGAT
13803559 AAGCCACCAGTATTGCAGAT
1 AAGCCACCAGTATTGCAGAT
13803579 AA
1 AA
13803581 ACTGTCAGTA
Statistics
Matches: 27, Mismatches: 15, Indels: 0
0.64 0.36 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (20 bp):
AAGCCACCAGTATTGCAGAT
Found at i:13808121 original size:3 final size:3
Alignment explanation
Indices: 13808108--13808166 Score: 57
Period size: 3 Copynumber: 19.0 Consensus size: 3
13808098 ATATTTTTGC
* * *
13808108 TAT TAAT TAT TAT TAT TAT TGT TAT TAT TAC TATT TAT TAT TGT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
13808155 TGA- TAT TAT TAT
1 T-AT TAT TAT TAT
13808167 ATTTGGTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 1 0.02
3 39 0.85
4 6 0.13
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:13808124 original size:22 final size:21
Alignment explanation
Indices: 13808099--13808166 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 21
13808089 TCCTGTTTGA
* *
13808099 TATTTTTGCTATTAATTATTAT
1 TATTATTGTTATT-ATTATTAT
*
13808121 TATTATTGTTATTATTACTATT
1 TATTATTGTTATTATTATTA-T
13808143 TATTATTGTTATTGA-TATTAT
1 TATTATTGTTATT-ATTATTAT
13808164 TAT
1 TAT
13808167 ATTTGGTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 10 0.25
22 29 0.73
23 1 0.03
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.63
Consensus pattern (21 bp):
TATTATTGTTATTATTATTAT
Found at i:13808176 original size:28 final size:28
Alignment explanation
Indices: 13808114--13808170 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
13808104 TTGCTATTAA
*
13808114 TTATTATTATTATTGTTATTATTACTAT
1 TTATTATTATTATTGATATTATTACTAT
*
13808142 TTATTATTGTTATTGATATTATTA-TAT
1 TTATTATTATTATTGATATTATTACTAT
13808169 TT
1 TT
13808171 GGTTATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (28 bp):
TTATTATTATTATTGATATTATTACTAT
Found at i:13808473 original size:4 final size:4
Alignment explanation
Indices: 13808464--13808506 Score: 77
Period size: 4 Copynumber: 10.8 Consensus size: 4
13808454 TATTTTTATT
*
13808464 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAA ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
13808507 ATATACCATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:13808507 original size:12 final size:12
Alignment explanation
Indices: 13808464--13808512 Score: 71
Period size: 12 Copynumber: 4.0 Consensus size: 12
13808454 TATTTTTATT
*
13808464 ATACATACATAC
1 ATACATAAATAC
*
13808476 ATACATACATAC
1 ATACATAAATAC
13808488 ATACATAAATAC
1 ATACATAAATAC
13808500 ATACATAATATAC
1 ATACATAA-ATAC
13808513 CATTGATTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
12 31 0.89
13 4 0.11
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (12 bp):
ATACATAAATAC
Found at i:13820485 original size:48 final size:45
Alignment explanation
Indices: 13820369--13820495 Score: 130
Period size: 45 Copynumber: 2.8 Consensus size: 45
13820359 AGAGCAGATC
* * *
13820369 ATAGCAAACATTATCTCCCTGAAGTTGCAGTGGAGCTGACTAAAG
1 ATAGCGAACCTTATCTCCCTGAAGTTGCAGTGGAACTGACTAAAG
* * * * *
13820414 ATAGCGAATCTTATTTCGCTGAAGTTGTAGTGGAACTGATTAAAG
1 ATAGCGAACCTTATCTCCCTGAAGTTGCAGTGGAACTGACTAAAG
*
13820459 CTATAAATC-AACCTTATCTCCCTGAAGTTGCAGTGGA
1 --AT--AGCGAACCTTATCTCCCTGAAGTTGCAGTGGA
13820496 GCAGGTTGAA
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
45 37 0.57
47 2 0.03
48 24 0.37
49 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (45 bp):
ATAGCGAACCTTATCTCCCTGAAGTTGCAGTGGAACTGACTAAAG
Found at i:13820565 original size:44 final size:43
Alignment explanation
Indices: 13820517--13820625 Score: 119
Period size: 44 Copynumber: 2.5 Consensus size: 43
13820507 TTACAAGTCT
* *
13820517 TATCTACCTAAAGTTGCAGTGGAACAAACTGAATAAACCAATCG
1 TATCT-CCTAAAGTTGCAGTGGAACAAACTGAAGAAACCAATCC
* * * * *
13820561 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAACCAATCC
1 TATCT-CCTAAAGTTGCAGTGGAACAAACTGAAGAAACCAATCC
*
13820605 TATCTCCTTAAAGTTGTAGTG
1 TATCTCC-TAAAGTTGCAGTG
13820626 AAGTGGATTA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 2 0.04
44 51 0.96
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (43 bp):
TATCTCCTAAAGTTGCAGTGGAACAAACTGAAGAAACCAATCC
Found at i:13831753 original size:14 final size:15
Alignment explanation
Indices: 13831722--13831758 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
13831712 AGTACTTTCA
13831722 ATTTTTTC-TTACTT
1 ATTTTTTCATTACTT
13831736 -TTTTTTCATTA-TT
1 ATTTTTTCATTACTT
13831749 ATTTTTTCAT
1 ATTTTTTCAT
13831759 ATTTTCCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTTTTCATTACTT
Found at i:13833383 original size:16 final size:17
Alignment explanation
Indices: 13833348--13833385 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
13833338 AACTCAATTT
* *
13833348 AAAACAATCTTAAACTC
1 AAAATAATCTTAAACCC
13833365 AAAATAATC-TAAACCC
1 AAAATAATCTTAAACCC
13833381 AAAAT
1 AAAAT
13833386 CATCCTAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAATAATCTTAAACCC
Found at i:13839363 original size:23 final size:23
Alignment explanation
Indices: 13839337--13839412 Score: 98
Period size: 23 Copynumber: 3.3 Consensus size: 23
13839327 ATTCTCTGCG
*
13839337 ATGAACAATGAAGATTCCTTCCA
1 ATGAACAATGAAGATTCTTTCCA
* *
13839360 ATGAACAGTGAAGATTCTTTTCA
1 ATGAACAATGAAGATTCTTTCCA
* * *
13839383 ATGAACAAAGAGGATTCTTTGCA
1 ATGAACAATGAAGATTCTTTCCA
13839406 ATGAACA
1 ATGAACA
13839413 GTAAATATTC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (23 bp):
ATGAACAATGAAGATTCTTTCCA
Found at i:13839387 original size:46 final size:46
Alignment explanation
Indices: 13839313--13839422 Score: 123
Period size: 46 Copynumber: 2.4 Consensus size: 46
13839303 AGAAAAGACG
* * *
13839313 AATGAACTGTGAAAATTCTCTGCGATGAACAATGAAGATTCCTTCC
1 AATGAACAGTGAAAATTCTCTGCAATGAACAAAGAAGATTCCTTCC
* * * * * *
13839359 AATGAACAGTGAAGATTCTTTTCAATGAACAAAGAGGATTCTTTGC
1 AATGAACAGTGAAAATTCTCTGCAATGAACAAAGAAGATTCCTTCC
13839405 AATGAACAGT-AAATATTC
1 AATGAACAGTGAAA-ATTC
13839423 ATTGCAAAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 2 0.04
46 51 0.96
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (46 bp):
AATGAACAGTGAAAATTCTCTGCAATGAACAAAGAAGATTCCTTCC
Found at i:13839422 original size:23 final size:23
Alignment explanation
Indices: 13839313--13839429 Score: 87
Period size: 23 Copynumber: 5.1 Consensus size: 23
13839303 AGAAAAGACG
* *
13839313 AATGAACTGTGAAA-ATTCTCTGC
1 AATGAACAGT-AAAGATTCTTTGC
* * * * *
13839336 GATGAACAATGAAGATTCCTTCC
1 AATGAACAGTAAAGATTCTTTGC
* *
13839359 AATGAACAGTGAAGATTCTTTTC
1 AATGAACAGTAAAGATTCTTTGC
13839382 AATGAACA--AAGAGGATTCTTTGC
1 AATGAACAGTAA-A-GATTCTTTGC
* *
13839405 AATGAACAGTAAATATTCATTGC
1 AATGAACAGTAAAGATTCTTTGC
13839428 AA
1 AA
13839430 AAAAAATTAC
Statistics
Matches: 74, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
21 1 0.01
22 3 0.04
23 67 0.91
24 1 0.01
25 2 0.03
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (23 bp):
AATGAACAGTAAAGATTCTTTGC
Found at i:13849508 original size:15 final size:15
Alignment explanation
Indices: 13849488--13849517 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13849478 AAGTTGGTGC
13849488 ATATATATCAATCGT
1 ATATATATCAATCGT
13849503 ATATATATCAATCGT
1 ATATATATCAATCGT
13849518 GTCCAACTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (15 bp):
ATATATATCAATCGT
Found at i:13851696 original size:42 final size:42
Alignment explanation
Indices: 13851614--13851713 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 42
13851604 GTGCTAAACA
* * ** * *
13851614 AAAACCCATAATGGTTGAACGGAAGCTCGTAGGAGTTGAACG
1 AAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
*
13851656 AAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACG
1 AAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
* * *
13851698 GAAATCCATTAGGGTT
1 AAAACCCATAAGGGTT
13851714 GAACAGAAAC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (42 bp):
AAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
Found at i:13857246 original size:42 final size:42
Alignment explanation
Indices: 13857179--13857278 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 42
13857169 GTGCTAAACA
* * ** *
13857179 GAAACCCATAGGGGTTGAACGGAAGCTCGTAGGAGCTGAACG
1 GAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
*
13857221 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
* *
13857263 AAAACCCATTAGGGTT
1 GAAACCCATAAGGGTT
13857279 GAATAGAAAC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.37, C:0.19, G:0.28, T:0.16
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
Found at i:13870432 original size:28 final size:28
Alignment explanation
Indices: 13870347--13870437 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
13870337 AAAATAATAT
13870347 ATAAATTTAAA-AT-TTAAAATAAATTTG-A
1 ATAAA-TTAAAGATGTTAAAAT--ATTTGAA
* * **
13870375 ATAAATTAACGATGTTGAAAAAAGCTGAA
1 ATAAATTAAAGATGTT-AAAATATTTGAA
13870404 ATAAATTAAAGATGTTAAAATATTTGAA
1 ATAAATTAAAGATGTTAAAATATTTGAA
*
13870432 AGAAAT
1 ATAAAT
13870438 AAAATATCTA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
27 4 0.08
28 24 0.48
29 18 0.36
30 4 0.08
ACGTcount: A:0.55, C:0.02, G:0.11, T:0.32
Consensus pattern (28 bp):
ATAAATTAAAGATGTTAAAATATTTGAA
Found at i:13883996 original size:196 final size:196
Alignment explanation
Indices: 13883770--13884161 Score: 757
Period size: 196 Copynumber: 2.0 Consensus size: 196
13883760 TTAGGTGCTA
13883770 ACCCAAACACCCCAAATCATCCGTAAAGGCGAAGAACGATTATACGTACGGTTTGCATCGATACA
1 ACCCAAACACCCCAAATCATCCGTAAAGGCGAAGAACGATTATACGTACGGTTTGCATCGATACA
*
13883835 GTGTAAAGAATCTAACTAGTTTGGATTTGTAAAATAGTTATAATTCTAACGATTGGTTTGAACTC
66 GTGTAAAGAATCTAACTAGTTTGGATTTGTAAAATAGTTATAATTCCAACGATTGGTTTGAACTC
*
13883900 ATAAGTGGGTGTTTGGGGGCTGGTTTAATGGTAAATTTATTGTATTTATATTTAATTTTGGTTTA
131 ATAAGTGGGTGTTTGGGGGATGGTTTAATGGTAAATTTATTGTATTTATATTTAATTTTGGTTTA
13883965 G
196 G
*
13883966 ACCCAAACACCCCAAATCATCCGTAAAGGCGAAGAACGATTATACGTACGGTTTGTATCGATACA
1 ACCCAAACACCCCAAATCATCCGTAAAGGCGAAGAACGATTATACGTACGGTTTGCATCGATACA
13884031 GTGTAAAGAATCTAACTAGTTTGGATTTGTAAAATAGTTATAATTCCAACGATTGGTTTGAACTC
66 GTGTAAAGAATCTAACTAGTTTGGATTTGTAAAATAGTTATAATTCCAACGATTGGTTTGAACTC
13884096 ATAAGTGGGTGTTTGGGGGATGGTTTAATGGTAAATTTATTGTATTTATATTTAATTTTGGTTTA
131 ATAAGTGGGTGTTTGGGGGATGGTTTAATGGTAAATTTATTGTATTTATATTTAATTTTGGTTTA
13884161 G
196 G
13884162 GTTCGCCTAA
Statistics
Matches: 193, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
196 193 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.35
Consensus pattern (196 bp):
ACCCAAACACCCCAAATCATCCGTAAAGGCGAAGAACGATTATACGTACGGTTTGCATCGATACA
GTGTAAAGAATCTAACTAGTTTGGATTTGTAAAATAGTTATAATTCCAACGATTGGTTTGAACTC
ATAAGTGGGTGTTTGGGGGATGGTTTAATGGTAAATTTATTGTATTTATATTTAATTTTGGTTTA
G
Found at i:13887678 original size:13 final size:13
Alignment explanation
Indices: 13887660--13887731 Score: 65
Period size: 16 Copynumber: 5.0 Consensus size: 13
13887650 CTTTTTCTTA
13887660 TTTATTATTTATT
1 TTTATTATTTATT
13887673 TTTATTATATTTAATT
1 TTTA-T-TATTT-ATT
13887689 ATTTAATTA-TTATT
1 -TTT-ATTATTTATT
13887703 TTTATTATTATATT
1 TTTATTATT-TATT
13887717 TAGTTATTATTTATT
1 T--TTATTATTTATT
13887732 AGGCTTTATT
Statistics
Matches: 50, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
12 4 0.08
13 8 0.16
14 9 0.18
15 11 0.22
16 13 0.26
17 4 0.08
18 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.69
Consensus pattern (13 bp):
TTTATTATTTATT
Found at i:13887680 original size:20 final size:20
Alignment explanation
Indices: 13887651--13887732 Score: 76
Period size: 23 Copynumber: 3.8 Consensus size: 20
13887641 TACCTTTTTC
*
13887651 TTTTTCTTATTTATTATTTA
1 TTTTTATTATTTATTATTTA
13887671 TTTTTATTATATTTAATTATTTAA
1 TTTTTA-T-TATTT-ATTATTT-A
*
13887695 TTATTATT-TTTATTATTATA
1 TTTTTATTATTTATTATT-TA
13887715 TTTAGTTATTATTTATTA
1 TTT--TTATTATTTATTA
13887733 GGCTTTATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
20 14 0.27
21 5 0.10
22 11 0.22
23 15 0.29
24 6 0.12
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.70
Consensus pattern (20 bp):
TTTTTATTATTTATTATTTA
Found at i:13887741 original size:25 final size:24
Alignment explanation
Indices: 13887687--13887752 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 24
13887677 TTATATTTAA
**
13887687 TTATTTAATTATTATTTTTATTAT
1 TTATTTAATTATTATTTTTAGGAT
* *
13887711 TATATTTAGTTATTATTTATTAGGCT
1 T-TATTTAATTATTATTT-TTAGGAT
* *
13887737 TTATTTTATTTTTATT
1 TTATTTAATTATTATT
13887753 CTTATTGTGT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
24 1 0.03
25 27 0.82
26 5 0.15
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.68
Consensus pattern (24 bp):
TTATTTAATTATTATTTTTAGGAT
Found at i:13893250 original size:3 final size:3
Alignment explanation
Indices: 13893242--13893280 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
13893232 ATTCAATCTT
13893242 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13893281 AATAAAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:13894698 original size:147 final size:149
Alignment explanation
Indices: 13894539--13894851 Score: 476
Period size: 148 Copynumber: 2.1 Consensus size: 149
13894529 CACTGGAGAG
* *
13894539 AATCTAAACTTTCTCATTTTAAAAAAAAAAACATTATTTTTCTTAAATATTAAAGCTTTTA-TTT
1 AATCTAAACTTTCTC-CTTT---AAAAAAAACATTATTTTTCTTAAAGATTAAAGCTTTTACTTT
*
13894603 -G-TAGTT-AAAAAAAATCAAAACTTTGTTTTAAAAATTTAAATTTTCCTTTAAAATAACTAAAA
62 AGATAGTTGAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAA
13894665 AA-ATAGATTTTTATTT-TTCAA
127 AATATAGATTTTTATTTCTTCAA
*
13894686 AATCTAAACTTTCTCCTTTAAAAAAAACATTGTTTTTCTTAAAGATTAAAGCTTTTACTTTGAGA
1 AATCTAAACTTTCTCCTTTAAAAAAAACATTATTTTTCTTAAAGATTAAAGCTTTTACTTT-AGA
* *
13894751 TAGTTGAAAAAAAATCAAAACTTTGTTTTAAAATTTTTAACTTTCCTTTAAAATAACTAAAAAAT
65 TAGTTGAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAAAAT
*
13894816 ATATATTTTTATTTCTTCAA
130 ATAGATTTTTATTTCTTCAA
13894836 AATCTAAACTTTCTCC
1 AATCTAAACTTTCTCC
13894852 CTTTTTTTAA
Statistics
Matches: 152, Mismatches: 7, Indels: 11
0.89 0.04 0.06
Matches are distributed among these distances:
143 36 0.24
144 3 0.02
146 4 0.03
147 20 0.13
148 55 0.36
149 13 0.09
150 21 0.14
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.42
Consensus pattern (149 bp):
AATCTAAACTTTCTCCTTTAAAAAAAACATTATTTTTCTTAAAGATTAAAGCTTTTACTTTAGAT
AGTTGAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAAAATA
TAGATTTTTATTTCTTCAA
Found at i:13895866 original size:48 final size:48
Alignment explanation
Indices: 13895804--13895901 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
13895794 TTGTATAGGT
*
13895804 TTAAGTATTGAATATTGAAAGCACTTATAAGTTCGTTGAGGAACGTTA
1 TTAAGTATTAAATATTGAAAGCACTTATAAGTTCGTTGAGGAACGTTA
13895852 TTAAGTATTAAATATTGAAAGCACTTATAAGTTCGTTGAGGAACGTTA
1 TTAAGTATTAAATATTGAAAGCACTTATAAGTTCGTTGAGGAACGTTA
13895900 TT
1 TT
13895902 TGTGAGAGTG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (48 bp):
TTAAGTATTAAATATTGAAAGCACTTATAAGTTCGTTGAGGAACGTTA
Found at i:13906425 original size:18 final size:17
Alignment explanation
Indices: 13906402--13906459 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
13906392 AATATTGTTA
13906402 AAAGAGTTGTAATTTTTT
1 AAAGAGTTGT-ATTTTTT
13906420 AAAGAGATTGGTATTTTTT
1 AAAGAG-TT-GTATTTTTT
* **
13906439 GAAGAGGGGTCATTTTTT
1 AAAGAGTTGT-ATTTTTT
13906457 AAA
1 AAA
13906460 AAGAGTGGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 2 0.06
18 15 0.45
19 14 0.42
20 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (17 bp):
AAAGAGTTGTATTTTTT
Found at i:13911657 original size:16 final size:17
Alignment explanation
Indices: 13911636--13911667 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
13911626 GGGAAAAATA
13911636 AAAAGTTTTG-GGGAAT
1 AAAAGTTTTGAGGGAAT
13911652 AAAAGTTTTGAGGGAA
1 AAAAGTTTTGAGGGAA
13911668 AATAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (17 bp):
AAAAGTTTTGAGGGAAT
Found at i:13911673 original size:19 final size:18
Alignment explanation
Indices: 13911615--13911673 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 18
13911605 GGGTGAGAAG
*
13911615 TAAAAGTTTAGGGGAAAAA
1 TAAAAGTTTTGGGG-AAAA
13911634 TAAAAAGTTTTGGGG--AA
1 T-AAAAGTTTTGGGGAAAA
13911651 TAAAAGTTTTGAGGGAAAA
1 TAAAAGTTTTG-GGGAAAA
13911670 TAAA
1 TAAA
13911674 TAAGGGGAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
16 10 0.29
17 6 0.17
19 7 0.20
20 12 0.34
ACGTcount: A:0.49, C:0.00, G:0.25, T:0.25
Consensus pattern (18 bp):
TAAAAGTTTTGGGGAAAA
Found at i:13913299 original size:487 final size:488
Alignment explanation
Indices: 13912324--13913482 Score: 1253
Period size: 489 Copynumber: 2.3 Consensus size: 488
13912314 CCAACTAAAC
* * *
13912324 AAATTGTATAATTAATTGTACAACCATTGATTCAATTGAATCAATCTATGTAAACACAATATTGA
1 AAATTGTATAATTAA-TGTACAATCATTGATTCAATTGAATC-ATCCATGTAAACACAACATTGA
* * *
13912389 GTATACATGTTTGAAATTCAATATCATATAGCGAAATATCAAAATTTTGGACTACTGATGTTTAA
64 GTATACATGTTTG-AATT--ATATCATATAG-TAAATAT-AAAATTTTGGACCACTTATGTTTAA
* * * *
13912454 TTTTAAATATTTGATCAATTTAAGATTATTTATCAATTATACATTCCTTTAACTACAAACATAAA
124 TTTCAAATATTTGATTAATTTAAGAGTATTTATCAATTATGCATTCCTTTAACTACAAACATAAA
** * * * ** *
13912519 TGATTCTTATAGCATTGAACCAATTGAATCAGATTTATATAGGAATGTACTAACATTGTGGTGTA
189 TGATGATTATAGCATTAAACCAATTGAATCAGATCTATATACGAACATACTAACAATGTGGTGTA
* * * **
13912584 CAAGTAATTTGAATAACATTGATCAATTTTACATTTCTCTAATACTAACATAACTGAATGGGTTA
254 CAAGTAATGTGAATAACAATGACCAATTTTACATTTCTCTAATACTAACATAACTGAATGACTTA
* * * * * * *
13912649 TTATATTAATTGTACACTCATTAATCTAATTGAATAAATCTATGTACGAAGGTGATGACATTATA
319 TGACATTAATTGTACAATAATTAATCTAATTGAATAAATCTATATACGAAGGTAATAACATTATA
* * * *
13912714 GTGTGTAAGTATGTCTAAAAGTATTTATCAATTGTATATTCCTCTAATTACTAGGAAAATCCAAT
384 GTCTATAAGTATGTCTAAAAGTATTGATCAATTGTATATTCCTCTAATTACTAGGAAAATCCAAC
*
13912779 TAATCATGACATTAACCATACATCCAATGATCCAATTGAAT
449 AAAT-ATGACATTAACCATACATCCAATGATCCAATTGAAT
* * * * * *
13912820 AAATTGTATAATTAATCGTACAATCATTTATTCAATTGAATTATTCCGTGAAAACATAACATTTA
1 AAATTGTATAATTAAT-GTACAATCATTGATTCAATTGAATCA-TCCATGTAAACACAACATTGA
* *
13912885 GTATACATGTTTGAATT-TAACATA-A-TAAAT-TGAAAA-TTTGGACCAGTTATGTTTAATTTC
64 GTATACATGTTTGAATTATATCATATAGTAAATAT-AAAATTTTGGACCACTTATGTTTAATTTC
* * * ** *
13912945 AAATATTTGATTAATTTAAGAGCATTTATCAATTATGCATTCCTTTCACTACTAATTTAATTGAA
128 AAATATTTGATTAATTTAAGAGTATTTATCAATTATGCATTCCTTTAACTACAAACATAAATG-A
* * *
13913010 TGATTATGGCATTAAACCAATTGAAT-TGAGTCTATATTCGAACATACTAACAATGTGGTGTACA
192 TGATTATAGCATTAAACCAATTGAATCAGA-TCTATATACGAACATACTAACAATGTGGTGTACA
* * * * ** **
13913074 AGTAATGTGAA-AAGTAATGACCACTTTTACATTTTTCTAATTTCTAATGTATTTGAATGACTTA
256 AGTAATGTGAATAA-CAATGACCAATTTTACATTTCTCTAA-TACTAACATAACTGAATGACTTA
* * * * * *
13913138 TGACATTACTTGTAGAATAATTCATCTAATTGAATGAATCTATATATGAAGGTAATAACATTGTA
319 TGACATTAATTGTACAATAATTAATCTAATTGAATAAATCTATATACGAAGGTAATAACATTATA
* * * * *
13913203 TTCTATAAGTATTTTTAAAAGTATTGATCAATTGTATATTCCTCTAACTT-CTAGTG-TAATCGA
384 GTCTATAAGTATGTCTAAAAGTATTGATCAATTGTATATTCCTCTAA-TTACTAG-GAAAATCCA
* *** *
13913266 ACAAAT-TGTCATTAATTGTACAAT-CATTGATCCAATTGAAT
447 ACAAATATGACATTAACCATAC-ATCCAATGATCCAATTGAAT
** * * *
13913307 AAATTGTATAATCGAT-TATAATCATTGATCCAATTGAATCGATCCATGTAAACACAACATTGGG
1 AAATTGTATAATTAATGTACAATCATTGATTCAATTGAATC-ATCCATGTAAACACAACATTGAG
* *
13913371 TATACATCTTTAGAACTTAATATCATATAGTGAAATATATCAAATTTTGGACCACCTATGTTTAA
65 TATACATGTTT-GAA-TT-ATATCATATAGT-AAATATA--AAATTTTGGACCACTTATGTTTAA
*
13913436 TTTCAAATATTTGAATAATTTAAGAGTATTTATCAATTATGCATTCC
124 TTTCAAATATTTGATTAATTTAAGAGTATTTATCAATTATGCATTCC
13913483 ACTAACTAGA
Statistics
Matches: 548, Mismatches: 94, Indels: 43
0.80 0.14 0.06
Matches are distributed among these distances:
485 47 0.09
486 4 0.01
487 121 0.22
488 89 0.16
489 132 0.24
490 4 0.01
491 2 0.00
492 11 0.02
493 1 0.00
494 3 0.01
495 69 0.13
496 65 0.12
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.38
Consensus pattern (488 bp):
AAATTGTATAATTAATGTACAATCATTGATTCAATTGAATCATCCATGTAAACACAACATTGAGT
ATACATGTTTGAATTATATCATATAGTAAATATAAAATTTTGGACCACTTATGTTTAATTTCAAA
TATTTGATTAATTTAAGAGTATTTATCAATTATGCATTCCTTTAACTACAAACATAAATGATGAT
TATAGCATTAAACCAATTGAATCAGATCTATATACGAACATACTAACAATGTGGTGTACAAGTAA
TGTGAATAACAATGACCAATTTTACATTTCTCTAATACTAACATAACTGAATGACTTATGACATT
AATTGTACAATAATTAATCTAATTGAATAAATCTATATACGAAGGTAATAACATTATAGTCTATA
AGTATGTCTAAAAGTATTGATCAATTGTATATTCCTCTAATTACTAGGAAAATCCAACAAATATG
ACATTAACCATACATCCAATGATCCAATTGAAT
Found at i:13919318 original size:30 final size:30
Alignment explanation
Indices: 13919282--13919355 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
13919272 TCCACTTGAC
13919282 TTAGATAGCCACAAAGGAGT-TCGCATATCA
1 TTAGATAGCCACAAAGGAGTCT-GCATATCA
*
13919312 TTAGATAGCCACAAAGGCGTCTGCATATCA
1 TTAGATAGCCACAAAGGAGTCTGCATATCA
*
13919342 TTAGATAACCACAA
1 TTAGATAGCCACAA
13919356 GGATGTCCAG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
30 40 0.98
31 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.23
Consensus pattern (30 bp):
TTAGATAGCCACAAAGGAGTCTGCATATCA
Found at i:13919568 original size:61 final size:61
Alignment explanation
Indices: 13919473--13919720 Score: 307
Period size: 61 Copynumber: 4.1 Consensus size: 61
13919463 ATTTTGCCAT
* * * *
13919473 AAAGGCTTCCATATATAATAGATTCTGCCACTAGGGCTCACATAAAACAGAGAACAACCAC
1 AAAGGCTTTCACATATAACAGATTCCGCCACTAGGGCTCACATAAAACAGAGAACAACCAC
** * * * * *
13919534 AAAGGCTTTGGCATATAACAGATTCTGCCTCTAGGGTTTACATAAAACAGAAAACAACCAC
1 AAAGGCTTTCACATATAACAGATTCCGCCACTAGGGCTCACATAAAACAGAGAACAACCAC
* * * * * *
13919595 GAAGGCTTCCTCATATAACAAATTCCACCACTAGGGCTCACATATAACAGAGAACAACCAC
1 AAAGGCTTTCACATATAACAGATTCCGCCACTAGGGCTCACATAAAACAGAGAACAACCAC
* * * *
13919656 AAAGGCTTTCACATATAACAGGTTCCGCCACTAGGACTCACACATAACAGAGAACAACCAC
1 AAAGGCTTTCACATATAACAGATTCCGCCACTAGGGCTCACATAAAACAGAGAACAACCAC
13919717 AAAG
1 AAAG
13919721 TCATCACTTT
Statistics
Matches: 158, Mismatches: 29, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 158 1.00
ACGTcount: A:0.40, C:0.26, G:0.15, T:0.19
Consensus pattern (61 bp):
AAAGGCTTTCACATATAACAGATTCCGCCACTAGGGCTCACATAAAACAGAGAACAACCAC
Found at i:13919672 original size:32 final size:31
Alignment explanation
Indices: 13919510--13919676 Score: 101
Period size: 32 Copynumber: 5.4 Consensus size: 31
13919500 CCACTAGGGC
*
13919510 TCACATAAAACAGAGAACAACCACAAAGGCTT
1 TCACATATAACAGA-AACAACCACAAAGGCTT
** ** ** * * *
13919542 TGGCATATAACAGATTCTGCCTC-TAGGGTT
1 TCACATATAACAGAAACAACCACAAAGGCTT
* *
13919572 T-ACATAAAACAGAAAACAACCACGAAGGCTT
1 TCACATATAACAG-AAACAACCACAAAGGCTT
* * * * * *
13919603 CCTCATATAACA-AATTCCACCACTAGGGC--
1 TCACATATAACAGAA-ACAACCACAAAGGCTT
13919632 TCACATATAACAGAGAACAACCACAAAGGCTT
1 TCACATATAACAGA-AACAACCACAAAGGCTT
13919664 TCACATATAACAG
1 TCACATATAACAG
13919677 GTTCCGCCAC
Statistics
Matches: 95, Mismatches: 32, Indels: 16
0.66 0.22 0.11
Matches are distributed among these distances:
29 19 0.20
30 24 0.25
31 20 0.21
32 32 0.34
ACGTcount: A:0.42, C:0.25, G:0.14, T:0.19
Consensus pattern (31 bp):
TCACATATAACAGAAACAACCACAAAGGCTT
Found at i:13937092 original size:21 final size:23
Alignment explanation
Indices: 13937033--13937092 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 23
13937023 AGTCTAAGAG
13937033 TGCACACAAGTGCCAAGTATAAA
1 TGCACACAAGTGCCAAGTATAAA
* * * * *
13937056 TTCATAAAAGCGCCAA-TA-GAA
1 TGCACACAAGTGCCAAGTATAAA
13937077 TGCACACAAGTGCCAA
1 TGCACACAAGTGCCAA
13937093 ATCTTCCTCT
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
21 14 0.50
22 2 0.07
23 12 0.43
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (23 bp):
TGCACACAAGTGCCAAGTATAAA
Found at i:13940375 original size:39 final size:40
Alignment explanation
Indices: 13940274--13940497 Score: 255
Period size: 39 Copynumber: 5.7 Consensus size: 40
13940264 TTGAATGATG
* *
13940274 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
13940313 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
13940354 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
13940393 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
13940432 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
13940471 AACCGGGCTATGTCCCGAAGGCGTTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
13940498 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
39 75 0.46
40 75 0.46
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:13940511 original size:40 final size:40
Alignment explanation
Indices: 13940275--13940497 Score: 235
Period size: 40 Copynumber: 5.6 Consensus size: 40
13940265 TGAATGATGT
* * * *
13940275 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
13940315 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
* *
13940355 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-A
13940394 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
13940432 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
13940473 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
13940498 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
39 74 0.46
40 78 0.48
41 10 0.06
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:13940528 original size:79 final size:79
Alignment explanation
Indices: 13940327--13940530 Score: 200
Period size: 79 Copynumber: 2.6 Consensus size: 79
13940317 GGACTAAGAT
** * * * * *
13940327 CCGAAGGCATTTGTGCGAGATACTAATTCCGGG-CTAAGCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTCAAATCCCGAAGGCAATTGTGCGAGATACTA
*
13940391 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** * * *
13940405 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTCAAATCCCGAAGGCAATTGTGCGAGATACTA
*
13940469 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* * *
13940485 CCGAAGGCGTTTGAACGAG-TAGCTATATCC-GGTCAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTCAAATCCCGAAGG
13940531 TACGTGGTTT
Statistics
Matches: 105, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
78 33 0.31
79 48 0.46
80 24 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTCAAATCCCGAAGGCAATTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:13945387 original size:27 final size:26
Alignment explanation
Indices: 13945347--13945404 Score: 89
Period size: 27 Copynumber: 2.2 Consensus size: 26
13945337 GCCAGATTAG
* *
13945347 GCCAATGCCGTTGGTGGCACCAATGGT
1 GCCAATGCCATTGGCGGCACCAAT-GT
13945374 GCCAATGCCATTGGCGGCACCAATGT
1 GCCAATGCCATTGGCGGCACCAATGT
13945400 GCCAA
1 GCCAA
13945405 AGGACTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.22, C:0.29, G:0.29, T:0.19
Consensus pattern (26 bp):
GCCAATGCCATTGGCGGCACCAATGT
Found at i:13945928 original size:19 final size:19
Alignment explanation
Indices: 13945904--13945964 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 19
13945894 TCTAATTAAG
*
13945904 TAATAACTCTGTTTTAATT
1 TAATAACTCTATTTTAATT
* * *
13945923 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
* *
13945941 TAATAACTATATTTTAAAT
1 TAATAACTCTATTTTAATT
13945960 TAATA
1 TAATA
13945965 GAAATACCAG
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
18 14 0.44
19 18 0.56
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.48
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:13946491 original size:27 final size:26
Alignment explanation
Indices: 13946455--13946512 Score: 98
Period size: 27 Copynumber: 2.2 Consensus size: 26
13946445 TTTTAGTCCT
*
13946455 TTGGCACATTGGTGTCGCCAATGGCA
1 TTGGCACATTGGTGCCGCCAATGGCA
13946481 TTGGCACCATTGGTGCCGCCAATGGCA
1 TTGGCA-CATTGGTGCCGCCAATGGCA
13946508 TTGGC
1 TTGGC
13946513 CTGATCAGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.17, C:0.26, G:0.31, T:0.26
Consensus pattern (26 bp):
TTGGCACATTGGTGCCGCCAATGGCA
Found at i:13946628 original size:27 final size:28
Alignment explanation
Indices: 13946561--13946630 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
13946551 TTTTTTTGAG
* *
13946561 TATATTTTGGTAAATAAAAAAAATTTAT
1 TATATTTTGGTAAATAAAAAAAAGTGAT
* * *
13946589 AATACTTTAGTAAAT-AAAAAAAGTGAT
1 TATATTTTGGTAAATAAAAAAAAGTGAT
13946616 TATATTTTGGTAAAT
1 TATATTTTGGTAAAT
13946631 TTTTATTTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
27 22 0.65
28 12 0.35
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.40
Consensus pattern (28 bp):
TATATTTTGGTAAATAAAAAAAAGTGAT
Found at i:13947254 original size:17 final size:16
Alignment explanation
Indices: 13947232--13947277 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
13947222 AAAATATATG
13947232 TTTATATTATTTTTAAT
1 TTTATA-TATTTTTAAT
**
13947249 TTTATAT-TTAATAAT
1 TTTATATATTTTTAAT
13947264 TTTATATATTTTTA
1 TTTATATATTTTTA
13947278 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 13 0.54
16 5 0.21
17 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATATATTTTTAAT
Found at i:13947276 original size:25 final size:25
Alignment explanation
Indices: 13947248--13947296 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
13947238 TTATTTTTAA
13947248 TTTTATAT-TTAATAATTTTATATAT
1 TTTTATATATTAA-AATTTTATATAT
*
13947273 TTTTATTTATTAAAATTTTATATA
1 TTTTATATATTAAAATTTTATATA
13947297 CAATCATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTTATATATTAAAATTTTATATAT
Found at i:13952237 original size:43 final size:43
Alignment explanation
Indices: 13952176--13952567 Score: 394
Period size: 43 Copynumber: 9.2 Consensus size: 43
13952166 GTCAACGTCG
* * * **
13952176 CAAACGCCGTTATAGAGCAGGGTCTTTAGCGGCGCTTTCTCCA
1 CAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTTA
* *
13952219 CAAACGCCGCTATAGAGCAGGGTCTTTAGCGGCGCTTTTTCTA
1 CAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTTA
*
13952262 CAAACGCCGCTATAGATCAGGGTCTTTAGCGTCGCTTTTTTTA
1 CAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTTA
* * *
13952305 CAAACACCGCTATAGATCAAGGTCTTTAGCGACGC-TTTTTTA
1 CAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTTA
* ** * *
13952347 CAAATGCCGCTATAGATCAGGGTCTTTAGTAGTGCTTCTTTTA
1 CAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTTA
* **
13952390 CAAACGACGCTATAGATCAGGACCTTTAGCGGCGCTTTTTTTA
1 CAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTTA
* * * * ** * *
13952433 AAAATGTCGCTATAGATCAAGACCTTTAGAGGCGCATTTTTTA
1 CAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTTA
* * ** * **
13952476 AAAACGCCGCTATAGATTAGGACCTTTAGTGGCGCTTTTTCCA
1 CAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTTA
* ** ** *
13952519 CAAACGCCACTATATCTCAGGACCTTTAGC-G-GCATTTTTTA
1 CAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTTA
*
13952560 TAAACGCC
1 CAAACGCC
13952568 AATAATTTTA
Statistics
Matches: 299, Mismatches: 49, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
41 14 0.05
42 36 0.12
43 249 0.83
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (43 bp):
CAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTTA
Found at i:13955355 original size:21 final size:21
Alignment explanation
Indices: 13955297--13955359 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
13955287 TTATGTATAA
*
13955297 TATTTAAGTTGTGTATTATGTAT
1 TATTTAAGTTGTGTA-TA-ATAT
* * *
13955320 TATGTACGTTATGTATAATAT
1 TATTTAAGTTGTGTATAATAT
*
13955341 TTTTTAAGTTGTGTATAAT
1 TATTTAAGTTGTGTATAAT
13955360 GTAAGTTATG
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
21 18 0.56
22 2 0.06
23 12 0.38
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.54
Consensus pattern (21 bp):
TATTTAAGTTGTGTATAATAT
Found at i:13955362 original size:44 final size:44
Alignment explanation
Indices: 13955271--13955371 Score: 136
Period size: 41 Copynumber: 2.3 Consensus size: 44
13955261 TGATATATAT
*
13955271 TTATGTATTAGGTACGTTATGTAT-A-A-TATTTAAGTTGTGTA
1 TTATGTATTATGTACGTTATGTATAATATTATTTAAGTTGTGTA
*
13955312 TTATGTATTATGTACGTTATGTATAATATTTTTTAAGTTGTGTA
1 TTATGTATTATGTACGTTATGTATAATATTATTTAAGTTGTGTA
*
13955356 TAATGTAAGTTATGTA
1 TTATGT-A-TTATGTA
13955372 AGAAATGTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
41 23 0.44
42 1 0.02
43 1 0.02
44 19 0.37
45 1 0.02
46 7 0.13
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.50
Consensus pattern (44 bp):
TTATGTATTATGTACGTTATGTATAATATTATTTAAGTTGTGTA
Found at i:13955418 original size:32 final size:32
Alignment explanation
Indices: 13955376--13955444 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
13955366 TATGTAAGAA
*
13955376 ATGTATTATGTAAG-T-TGTGTATAATGTTAGTT
1 ATGTACTATGTAAGTTATGTGTATAATG-TA-TT
*
13955408 ATGTACTATGTAAGTTATGTGTATTATGTATT
1 ATGTACTATGTAAGTTATGTGTATAATGTATT
13955440 ATGTA
1 ATGTA
13955445 TGTTATGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 20 0.61
33 3 0.09
34 10 0.30
ACGTcount: A:0.29, C:0.01, G:0.20, T:0.49
Consensus pattern (32 bp):
ATGTACTATGTAAGTTATGTGTATAATGTATT
Found at i:13955427 original size:25 final size:25
Alignment explanation
Indices: 13955406--13955540 Score: 87
Period size: 25 Copynumber: 5.9 Consensus size: 25
13955396 ATAATGTTAG
13955406 TTATGTACTATGTAAGTTATGTGTA
1 TTATGTACTATGTAAGTTATGTGTA
* * *
13955431 TTATGTATTATGTATGTTATGTATA
1 TTATGTACTATGTAAGTTATGTGTA
* *
13955456 ATCT-TA--AT-TAAG-T-TGTGTA
1 TTATGTACTATGTAAGTTATGTGTA
* * *
13955475 TTATGTATTATGTACGTTATGTATA
1 TTATGTACTATGTAAGTTATGTGTA
*
13955500 ATAT-TA--AT-TAAG-T-TGTGTA
1 TTATGTACTATGTAAGTTATGTGTA
* *
13955519 TTATGTATTATGTACGTTATGT
1 TTATGTACTATGTAAGTTATGT
13955541 ATAATATTAT
Statistics
Matches: 82, Mismatches: 16, Indels: 24
0.67 0.13 0.20
Matches are distributed among these distances:
19 15 0.18
20 6 0.07
21 6 0.07
22 8 0.10
23 6 0.07
24 6 0.07
25 35 0.43
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (25 bp):
TTATGTACTATGTAAGTTATGTGTA
Found at i:13955479 original size:44 final size:44
Alignment explanation
Indices: 13955425--13956065 Score: 481
Period size: 44 Copynumber: 14.7 Consensus size: 44
13955415 ATGTAAGTTA
*
13955425 TGTGTATTATGTATTATGTATGTTATGTATAATCTTAATTAAGT
1 TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
*
13955469 TGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGT
1 TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
* *
13955513 TGTGTATTATGTATTATGTACGTTATGTATAATATTATTTAAGT
1 TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
* * ** * *
13955557 TGTGTATAATGTAAGTTATGTAAGAAATG--TAGTA-T--GTAAGT
1 TGTGTATTATGT-A-TTATGTATGTTATGTATAATATTAATTAAGT
* * ** * * *
13955598 TGTCTATAATGTTAGTTATCAAAGTTATGTATTATGTACGTTATTTAAGT
1 TGTGTATTATG-TA-TTATGTATGTTATGTA-TA-ATA--TTAATTAAGT
*** * * *
13955648 TACATAAGTTGTGTATAATGT-TAGTTATGTACT-AT-GTAAGTT-A--
1 TGTGT-A-TTATGTATTATGTAT-GTTATGTA-TAATATTAA-TTAAGT
* *
13955691 TGTGTATTATGTATTATGTATGTTATGTATCATCTTAATTAAGT
1 TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
* *
13955735 TGTGTATTATGTATTATGAACGTTATGTATAATATTAATTAAGT
1 TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
*
13955779 TGTGTATTATGTATTATGTATGTTATGTATAATATTATTTAAGT
1 TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
* * ** *
13955823 TGTGTATAATGTAAGTTATGTAAGAAATGTAT--TA-T--GTAAGT
1 TGTGTATTATGT-A-TTATGTATGTTATGTATAATATTAATTAAGT
* ** *
13955864 TGTGTATAATGTTAGTTTATGTA--TTATG--T-ACGTTATTTAAGT
1 TGTGTATTATG-TA--TTATGTATGTTATGTATAATATTAATTAAGT
** * *
13955906 TACGTAAGTTGTGTATAATGT-TAGTTATGTACT-AT-TTAAGTT-A--
1 TGTGT-A-TTATGTATTATGTAT-GTTATGTA-TAATATTAA-TTAAGT
*
13955949 TGTGTATTATGTATTATGTATGTTATGTATAATCTTAATTAAGT
1 TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
* *
13955993 TGTGAATTATGTATTATGTACGTTATGTATAATATTAATTAAGT
1 TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
*
13956037 TGTGTATTATGTATTATGTAAGTTATGTA
1 TGTGTATTATGTATTATGTATGTTATGTA
13956066 AGAAATGTTA
Statistics
Matches: 484, Mismatches: 68, Indels: 90
0.75 0.11 0.14
Matches are distributed among these distances:
38 1 0.00
40 6 0.01
41 95 0.20
42 30 0.06
43 15 0.03
44 267 0.55
45 12 0.02
46 31 0.06
48 2 0.00
50 19 0.04
51 3 0.01
52 3 0.01
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.49
Consensus pattern (44 bp):
TGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGT
Found at i:13955640 original size:16 final size:15
Alignment explanation
Indices: 13955620--13955711 Score: 51
Period size: 16 Copynumber: 5.7 Consensus size: 15
13955610 TAGTTATCAA
13955620 AGTTATGTATTATGT
1 AGTTATGTATTATGT
* **
13955635 ACGTTATTTAAGTTACAT
1 A-GTTATGT-A-TTATGT
* *
13955653 AAGTTGTGTATAATGTT
1 -AGTTATGTATTATG-T
*
13955670 AGTTATGTACTATGT
1 AGTTATGTATTATGT
13955685 AAGTTATGTGTATTATGT
1 -AGTTA--TGTATTATGT
13955703 A-TTATGTAT
1 AGTTATGTAT
13955712 GTTATGTATC
Statistics
Matches: 57, Mismatches: 12, Indels: 17
0.66 0.14 0.20
Matches are distributed among these distances:
14 5 0.09
15 2 0.04
16 27 0.47
17 4 0.07
18 18 0.32
19 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.18, T:0.49
Consensus pattern (15 bp):
AGTTATGTATTATGT
Found at i:13955741 original size:21 final size:21
Alignment explanation
Indices: 13955716--13955832 Score: 85
Period size: 21 Copynumber: 5.4 Consensus size: 21
13955706 ATGTATGTTA
* *
13955716 TGTATCATCTTAATTAAGTTG
1 TGTATAATATTAATTAAGTTG
* * *
13955737 TGTATTATGTATT-ATGAACGTTA
1 TGTA-TA-ATATTAATTAA-GTTG
13955760 TGTATAATATTAATTAAGTTG
1 TGTATAATATTAATTAAGTTG
* * *
13955781 TGTATTATGTATT-ATGTATGTTA
1 TGTA-TA-ATATTAAT-TAAGTTG
*
13955804 TGTATAATATTATTTAAGTTG
1 TGTATAATATTAATTAAGTTG
13955825 TGTATAAT
1 TGTATAAT
13955833 GTAAGTTATG
Statistics
Matches: 73, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
21 32 0.44
22 18 0.25
23 23 0.32
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.50
Consensus pattern (21 bp):
TGTATAATATTAATTAAGTTG
Found at i:13955837 original size:266 final size:258
Alignment explanation
Indices: 13955386--13956065 Score: 1207
Period size: 266 Copynumber: 2.6 Consensus size: 258
13955376 ATGTATTATG
13955386 TAAGTTGTGTATAATGTTAGTTATGTACTATGTAAGTTATGTGTATTATGTATTATGTATGTTAT
1 TAAGTTGTGTATAATGTTAGTTATGTACTATGTAAGTTATGTGTATTATGTATTATGTATGTTAT
13955451 GTATAATCTTAATTAAGTTGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGT
66 GTATAATCTTAATTAAGTTGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGT
*
13955516 GTATTATGTATTATGTACGTTATGTATAATATTATTTAAGTTGTGTATAATGTAAGTTATGTAAG
131 GTATTATGTATTATGTAAGTTATGTATAATATTATTTAAGTTGTGTATAATGTAAGTTATGTAAG
13955581 AAATGTAGTATGTAAGTTGTCTATAATGTTAGTTATCAAAGTTATGTATTATGTACGTTATTTAA
196 AAATGTAGTATGTAAGTTGTCTATAATGTTAG---T-----TTATGTATTATGTACGTTATTTAA
13955646 GTTACA
253 GTTACA
13955652 TAAGTTGTGTATAATGTTAGTTATGTACTATGTAAGTTATGTGTATTATGTATTATGTATGTTAT
1 TAAGTTGTGTATAATGTTAGTTATGTACTATGTAAGTTATGTGTATTATGTATTATGTATGTTAT
* *
13955717 GTATCATCTTAATTAAGTTGTGTATTATGTATTATGAACGTTATGTATAATATTAATTAAGTTGT
66 GTATAATCTTAATTAAGTTGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGT
*
13955782 GTATTATGTATTATGTATGTTATGTATAATATTATTTAAGTTGTGTATAATGTAAGTTATGTAAG
131 GTATTATGTATTATGTAAGTTATGTATAATATTATTTAAGTTGTGTATAATGTAAGTTATGTAAG
* * *
13955847 AAATGTATTATGTAAGTTGTGTATAATGTTAGTTTATGTATTATGTACGTTATTTAAGTTACG
196 AAATGTAGTATGTAAGTTGTCTATAATGTTAGTTTATGTATTATGTACGTTATTTAAGTTACA
*
13955910 TAAGTTGTGTATAATGTTAGTTATGTACTATTTAAGTTATGTGTATTATGTATTATGTATGTTAT
1 TAAGTTGTGTATAATGTTAGTTATGTACTATGTAAGTTATGTGTATTATGTATTATGTATGTTAT
*
13955975 GTATAATCTTAATTAAGTTGTGAATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGT
66 GTATAATCTTAATTAAGTTGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGT
13956040 GTATTATGTATTATGTAAGTTATGTA
131 GTATTATGTATTATGTAAGTTATGTA
13956066 AGAAATGTTA
Statistics
Matches: 403, Mismatches: 11, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
258 180 0.45
263 1 0.00
266 222 0.55
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.49
Consensus pattern (258 bp):
TAAGTTGTGTATAATGTTAGTTATGTACTATGTAAGTTATGTGTATTATGTATTATGTATGTTAT
GTATAATCTTAATTAAGTTGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGT
GTATTATGTATTATGTAAGTTATGTATAATATTATTTAAGTTGTGTATAATGTAAGTTATGTAAG
AAATGTAGTATGTAAGTTGTCTATAATGTTAGTTTATGTATTATGTACGTTATTTAAGTTACA
Found at i:13955845 original size:9 final size:9
Alignment explanation
Indices: 13955831--13955977 Score: 50
Period size: 9 Copynumber: 17.6 Consensus size: 9
13955821 GTTGTGTATA
13955831 ATGTAAGTT
1 ATGTAAGTT
**
13955840 ATGTAAGAA
1 ATGTAAGTT
13955849 ATGT-A-TT
1 ATGTAAGTT
13955856 ATGTAAGTT
1 ATGTAAGTT
* *
13955865 GTGT-A-TA
1 ATGTAAGTT
*
13955872 ATGTTAGTTT
1 ATGTAAG-TT
13955882 ATGT-A-TT
1 ATGTAAGTT
*
13955889 ATGTACGTT
1 ATGTAAGTT
*
13955898 ATTTAAGTT
1 ATGTAAGTT
*
13955907 ACGTAAGTT
1 ATGTAAGTT
* *
13955916 GTGT-A-TA
1 ATGTAAGTT
*
13955923 ATGTTAGTT
1 ATGTAAGTT
*
13955932 ATGT-A-CT
1 ATGTAAGTT
*
13955939 ATTTAAGTT
1 ATGTAAGTT
*
13955948 ATGTGTA-TT
1 ATGT-AAGTT
13955957 ATGT-A-TT
1 ATGTAAGTT
*
13955964 ATGTATGTT
1 ATGTAAGTT
13955973 ATGTA
1 ATGTA
13955978 TAATCTTAAT
Statistics
Matches: 100, Mismatches: 24, Indels: 28
0.66 0.16 0.18
Matches are distributed among these distances:
7 29 0.29
8 8 0.08
9 57 0.57
10 6 0.06
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:13955846 original size:25 final size:23
Alignment explanation
Indices: 13955559--13956065 Score: 122
Period size: 25 Copynumber: 21.9 Consensus size: 23
13955549 ATTTAAGTTG
* *
13955559 TGTATAATGTAAGTTATGTAAGAAA
1 TGTATTATGTAAGTTATGT-A-TAA
* * *
13955584 TGTAGTATGTAAGTTGTCTATAA
1 TGTATTATGTAAGTTATGTATAA
** *
13955607 TGTTAGTTATCAAAGTTATGTATTA
1 TG-TA-TTATGTAAGTTATGTATAA
* *
13955632 TGTACGTTATTTAAGTTA--CATAA
1 TGTA--TTATGTAAGTTATGTATAA
* *
13955655 -GT-TGTGTATAATGTTA-GT-T-A
1 TGTAT-TATGTAA-GTTATGTATAA
* *
13955675 TGTACTATGTAAGTTATGTGTATTA
1 TGTATTATGTAAGTTA--TGTATAA
* *
13955700 TGTATTATGTATGTTATGTATCA
1 TGTATTATGTAAGTTATGTATAA
* * * *
13955723 TCT-TAAT-TAAGTTGTGTATTA
1 TGTATTATGTAAGTTATGTATAA
13955744 TGTATTATG-AACGTTATGTATAA
1 TGTATTATGTAA-GTTATGTATAA
* *
13955767 --TATTAAT-TAAGTTGTGTATTA
1 TGTATT-ATGTAAGTTATGTATAA
*
13955788 TGTATTATGTATGTTATGTATAA
1 TGTATTATGTAAGTTATGTATAA
* *
13955811 --TATTATTTAAGTTGTGTATAA
1 TGTATTATGTAAGTTATGTATAA
13955832 TGTAAGTTATGT-A---A-G-A-AA
1 TGT-A-TTATGTAAGTTATGTATAA
*
13955850 TGTATTATGTAAGTTGTGTATAA
1 TGTATTATGTAAGTTATGTATAA
*
13955873 TGTTAGTTTATGT-A-TTATGTACGTTA
1 TG-TA--TTATGTAAGTTATGTA--TAA
* * *
13955899 TTTAAGTTACGTAAGTTGTGTATAA
1 TGT-A-TTATGTAAGTTATGTATAA
* * *
13955924 TGTTAGTTATGTACTATTTAAGT-TATG
1 TG-TA-TTATGTA--AGTTATGTATA-A
*
13955951 TGTATTATGT-A-TTATGTATGTTA
1 TGTATTATGTAAGTTATGTA--TAA
* * *
13955974 TGTATAATCTTAAT-TAAGTTGTGAATTA
1 TG--T-A--TT-ATGTAAGTTATGTATAA
*
13956002 TGTATTATGTACGTTATGTATAA
1 TGTATTATGTAAGTTATGTATAA
* *
13956025 --TATTAAT-TAAGTTGTGTATTA
1 TGTATT-ATGTAAGTTATGTATAA
13956046 TGTATTATGTAAGTTATGTA
1 TGTATTATGTAAGTTATGTA
13956066 AGAAATGTTA
Statistics
Matches: 352, Mismatches: 70, Indels: 122
0.65 0.13 0.22
Matches are distributed among these distances:
16 6 0.02
17 2 0.01
18 5 0.01
19 2 0.01
20 11 0.03
21 77 0.22
22 24 0.07
23 74 0.21
24 17 0.05
25 87 0.25
26 18 0.05
27 13 0.04
28 8 0.02
29 3 0.01
30 5 0.01
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.48
Consensus pattern (23 bp):
TGTATTATGTAAGTTATGTATAA
Found at i:13955869 original size:16 final size:16
Alignment explanation
Indices: 13955838--13955969 Score: 88
Period size: 16 Copynumber: 8.1 Consensus size: 16
13955828 ATAATGTAAG
**
13955838 TTATGTAAGAAATGTA
1 TTATGTAAGTTATGTA
*
13955854 TTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTA
* *
13955870 TAATGTTAGTTTATGTA
1 TTATGTAAG-TTATGTA
* *
13955887 TTATGTACGTTATTTAA
1 TTATGTAAGTTATGT-A
* *
13955904 GTTACGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
* *
13955921 TAATGTTAGTTATGTA
1 TTATGTAAGTTATGTA
* *
13955937 CTATTTAAGTTATGTGTA
1 TTATGTAAGTTA--TGTA
13955955 TTATGT-A-TTATGTA
1 TTATGTAAGTTATGTA
13955969 T
1 T
13955970 GTTATGTATA
Statistics
Matches: 87, Mismatches: 24, Indels: 12
0.71 0.20 0.10
Matches are distributed among these distances:
14 5 0.06
16 48 0.55
17 15 0.17
18 19 0.22
ACGTcount: A:0.30, C:0.02, G:0.19, T:0.49
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:13956264 original size:39 final size:38
Alignment explanation
Indices: 13956221--13956330 Score: 104
Period size: 39 Copynumber: 2.9 Consensus size: 38
13956211 ATATAAAAAT
13956221 TTTAAAT-ATATATA-TATAAATTTTAAGTAATGTAATACA
1 TTTAAATAATATA-AGTATAAATTTT-AGTAA-GTAATACA
* * *
13956260 TTTAAGTAATGTAAGTTATAAATTTTAGTAAGTAATATA
1 TTTAAATAATATAAG-TATAAATTTTAGTAAGTAATACA
* *
13956299 TTTAAGTAATGTAA-TAT--ATTTTAGTAAGTAAT
1 TTTAAATAATATAAGTATAAATTTTAGTAAGTAAT
13956331 GTAAGTAATG
Statistics
Matches: 65, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
35 15 0.23
37 3 0.05
39 28 0.43
40 9 0.14
41 10 0.15
ACGTcount: A:0.45, C:0.01, G:0.10, T:0.45
Consensus pattern (38 bp):
TTTAAATAATATAAGTATAAATTTTAGTAAGTAATACA
Found at i:13956265 original size:18 final size:18
Alignment explanation
Indices: 13956242--13956330 Score: 101
Period size: 18 Copynumber: 4.8 Consensus size: 18
13956232 ATATATAAAT
*
13956242 TTTAAGTAATGTAATACA
1 TTTAAGTAATGTAATATA
13956260 TTTAAGTAATGTAAGTTATAAA
1 TTTAAGTAATGTAA--TAT--A
*
13956282 TTTTAGTAA-GTAATATA
1 TTTAAGTAATGTAATATA
13956299 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
*
13956317 TTTTAGTAA-GTAAT
1 TTTAAGTAATGTAAT
13956331 GTAAGTAATG
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
17 14 0.23
18 30 0.48
19 3 0.05
20 2 0.03
21 4 0.06
22 9 0.15
ACGTcount: A:0.43, C:0.01, G:0.12, T:0.44
Consensus pattern (18 bp):
TTTAAGTAATGTAATATA
Found at i:13956292 original size:17 final size:17
Alignment explanation
Indices: 13956270--13956330 Score: 86
Period size: 17 Copynumber: 3.5 Consensus size: 17
13956260 TTTAAGTAAT
* *
13956270 GTAAGTTATAAATTTTA
1 GTAAGTAATATATTTTA
*
13956287 GTAAGTAATATATTTAA
1 GTAAGTAATATATTTTA
13956304 GTAATGTAATATATTTTA
1 GTAA-GTAATATATTTTA
13956322 GTAAGTAAT
1 GTAAGTAAT
13956331 GTAAGTAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
17 23 0.59
18 16 0.41
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (17 bp):
GTAAGTAATATATTTTA
Found at i:13956327 original size:35 final size:35
Alignment explanation
Indices: 13956240--13956471 Score: 140
Period size: 40 Copynumber: 6.1 Consensus size: 35
13956230 ATATATATAA
*
13956240 ATTTTAAGTAATGTAATACATTTAAGTAATGTAAGTTAT
1 ATTTT-AGTAA-GTAATATATTTAAGTAATGTAA--TAT
13956279 AAATTTTAGTAAGTAATATATTTAAGTAATGTAATAT
1 --ATTTTAGTAAGTAATATATTTAAGTAATGTAATAT
* ** * * *
13956316 ATTTTAGTAAGTAATGTAAGTAATGTATTATATACTTAA
1 ATTTTAGTAAGTAATATATTTAA-GTA--ATGTA-ATAT
* * * * *
13956355 ACTTTAGTAAGTCATGTATTTAAGTAATATATTTAAGTAA
1 ATTTTAGTAAGTAATATATTTAAG---TA-ATGTAA-TAT
* *
13956395 ATTTTAGTAAGTAATGTATTTAAGTTATGTAATAT
1 ATTTTAGTAAGTAATATATTTAAGTAATGTAATAT
* *
13956430 ATTTTGGTAAGTAAGGTAAGTAATGTAAGTAATGTAATAT
1 ATTTTAGTAAGTAA--T-A-T-ATTTAAGTAATGTAATAT
13956470 AT
1 AT
13956472 AGCGGAAAAT
Statistics
Matches: 156, Mismatches: 22, Indels: 27
0.76 0.11 0.13
Matches are distributed among these distances:
35 35 0.22
36 8 0.05
37 5 0.03
38 5 0.03
39 43 0.28
40 53 0.34
41 7 0.04
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (35 bp):
ATTTTAGTAAGTAATATATTTAAGTAATGTAATAT
Found at i:13956424 original size:13 final size:13
Alignment explanation
Indices: 13956362--13956425 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
13956352 TAAACTTTAG
*
13956362 TAAGTCATGTATT
1 TAAGTAATGTATT
*
13956375 TAAGTAATATATT
1 TAAGTAATGTATT
13956388 TAAGTAAAT-T-TT
1 TAAGT-AATGTATT
13956400 AGTAAGTAATGTATT
1 --TAAGTAATGTATT
*
13956415 TAAGTTATGTA
1 TAAGTAATGTA
13956426 ATATATTTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
12 2 0.05
13 30 0.70
14 9 0.21
15 2 0.05
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.45
Consensus pattern (13 bp):
TAAGTAATGTATT
Found at i:13957987 original size:21 final size:22
Alignment explanation
Indices: 13957963--13958016 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
13957953 AACAGCGGTG
13957963 GCGGTGAGATTAAG-TACTGTA
1 GCGGTGAGATTAAGATACTGTA
*
13957984 GCGGTGAGATT-GGATACTGTA
1 GCGGTGAGATTAAGATACTGTA
*
13958005 GCAGTGAGATTA
1 GCGGTGAGATTA
13958017 GAAACAGCGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.28, C:0.09, G:0.35, T:0.28
Consensus pattern (22 bp):
GCGGTGAGATTAAGATACTGTA
Found at i:13958154 original size:19 final size:18
Alignment explanation
Indices: 13958130--13958176 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
13958120 CGAAGTTTTT
*
13958130 AAAATTATTTAACAATTA
1 AAAATTATTAAACAATTA
* *
13958148 CAAAATTAATAAAGAATTA
1 -AAAATTATTAAACAATTA
13958167 AAAATTATTA
1 AAAATTATTA
13958177 CAATTATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAATTATTAAACAATTA
Found at i:13958225 original size:30 final size:30
Alignment explanation
Indices: 13958185--13958241 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
13958175 TACAATTATA
* *
13958185 TTTATTTGTATTGCTCTTACAAAAATACCT
1 TTTATGTGTATTGCGCTTACAAAAATACCT
13958215 TTTATGTGTATTGCGCTTACAAAAATA
1 TTTATGTGTATTGCGCTTACAAAAATA
13958242 TTGAATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.44
Consensus pattern (30 bp):
TTTATGTGTATTGCGCTTACAAAAATACCT
Found at i:13961257 original size:6 final size:6
Alignment explanation
Indices: 13961246--13961271 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
13961236 TTTGCAACTA
13961246 AAGGGG AAGGGG AAGGGG AAGGGG AA
1 AAGGGG AAGGGG AAGGGG AAGGGG AA
13961272 AGGAGAGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:13962382 original size:337 final size:336
Alignment explanation
Indices: 13961535--13962530 Score: 972
Period size: 338 Copynumber: 2.9 Consensus size: 336
13961525 ATCCAAAGGA
* *
13961535 AGCCAATATTTTAAGTCA-TTTTGCAGCGTTTCGTGCAAAAACGCCACTATAAATTAAGAGAAAC
1 AGCCAATATTTTAAGTCACTTTTGCGGCGTTTCGTGCAAAAACGCCACTA-AAATTAAAAGAAAC
* * * * *
13961599 GGCGCCGTTGGATTAATTTAGAGAAAATTCTAAGTTAAAAAAC-TAGTACAGAAATGGCGTCGTT
65 GGCGCCGTTGAATTAATATAGAGAAAATGCTAAGTTAAAAAACGT-GTACAGAAACGACGTCGTT
* * *** * * * * *
13961663 TAGACAAAATTTTAAGACAATTTTGCGGCAAATCCTGGACAAACACCGCTATTGCTTGTACATTT
129 TAGCCAAAATTTTAAGACACTTTTGCGGCGTTTCTTGAACAAACGCCACTATAGCTTGTACATTT
* * * * *
13961728 ACGGCGTTTTCTAAAAAGCGCCACTAAAATTTAAAGTTCTAATCCGAAAAGGCATCGTTTTATTA
194 ACAGCGTTTTCTAAAAAGCCCCACTAAAAATTAAAGTTCTAATCCGAAAAGACACCGTTTTATTA
* *
13961793 AGCTTTAATGCACATTTCTGGCATTTTCTGCTAAAACGCCAGTAAAAATTAATTTGCTTAAGCTA
259 AGATTTAATGCACATTTCTGGCATTTTCTGCTAAAACGCCACTAAAAATTAATTTGCTTAAGCTA
13961858 AACGAAGACGTTT
324 AACGAAGACGTTT
* * * * * * *
13961871 AGGCAATATTTTATGTCACTTTTTGTGGCGTTTTGTGTAAAAACGCGACAAGAAATTAAAAGAAA
1 AGCCAATATTTTAAGTCAC-TTTTGCGGCGTTTCGTGCAAAAACGCCACTA-AAATTAAAAGAAA
** * * *
13961936 CGGCGCTATTGAATTAATATAGAGAAAATGCTAAG-TATAAAAGCGTGTACAGAGACGACGTTGT
64 CGGCGCCGTTGAATTAATATAGAGAAAATGCTAAGTTA-AAAAACGTGTACAGAAACGACGTCGT
* ** *
13962000 TTA-CCAAAAATTTTAAGACACTTTTGCGGCGTTTATTGAACAAACGTTACTATAGCTTGTATAT
128 TTAGCC-AAAATTTTAAGACACTTTTGCGGCGTTTCTTGAACAAACGCCACTATAGCTTGTACAT
* * *
13962064 TTGCAGCG-TTTCTAAAGAATCCCCAC-AAAGAATTAAGGTTCTAATCC-AAAACGACACCGTTT
192 TTACAGCGTTTTCTAAA-AAGCCCCACTAAA-AATTAAAGTTCTAATCCGAAAA-GACACCGTTT
* * *
13962126 TGTTAAGATTTAATGCACATTTCTGGCGTTTTCCT-TTAAAACGCCACTAAAAATTAATTTGCTT
254 TATTAAGATTTAATGCACATTTCTGGCATTTT-CTGCTAAAACGCCACTAAAAATTAATTTGCTT
* * *** *
13962190 AAGTTAGACGTCTATGTTT
318 AAGCTAAACGAAGACGTTT
* * * *
13962209 AGCCAATATTTCAAGTCACTTTTGCGGCGTTTCCTG-AAGAAACGCCACTAAAAGTTAACATAAA
1 AGCCAATATTTTAAGTCACTTTTGCGGCGTTTCGTGCAA-AAACGCCACTAAAA-TTAAAAGAAA
* * *
13962273 CGGCGCCGTTTAATTAATATAGAGAAAATGCTAAGTTAAAAATCGTGGACAGAAACGACGTCGTT
64 CGGCGCCGTTGAATTAATATAGAGAAAATGCTAAGTTAAAAAACGTGTACAGAAACGACGTCGTT
* * * * * * **
13962338 CAGCCAAAATTTTAAGTCACTTTTGTGGCGTTTCTTGTACAAACGCC-GTAATTGCTTCAACA-T
129 TAGCCAAAATTTTAAGACACTTTTGCGGCGTTTCTTGAACAAACGCCACT-ATAGCTTGTACATT
* ** *** *** * *
13962401 TAGCTGCGTTTTAAAAAAAAAAGCCACTAATTGTTAAAGTTCTAATCAGAAACTG-CACCGTTTT
193 TA-CAGCGTTTT-CTAAAAAGCCCCACTAAAAATTAAAGTTCTAATCCGAAA-AGACACCGTTTT
* * * * * ** * *
13962465 ATTAAGCTTCAATGCACAGTTCTGGCTTTTTTTTTTAAAAACGCCACTAAAAATTATTTTACTTA
255 ATTAAGATTTAATGCACATTTCTGGCATTTTCTGCT-AAAACGCCACTAAAAATTAATTTGCTTA
13962530 A
319 A
13962531 ACCAAACGTG
Statistics
Matches: 535, Mismatches: 103, Indels: 41
0.79 0.15 0.06
Matches are distributed among these distances:
336 24 0.04
337 154 0.29
338 318 0.59
339 39 0.07
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (336 bp):
AGCCAATATTTTAAGTCACTTTTGCGGCGTTTCGTGCAAAAACGCCACTAAAATTAAAAGAAACG
GCGCCGTTGAATTAATATAGAGAAAATGCTAAGTTAAAAAACGTGTACAGAAACGACGTCGTTTA
GCCAAAATTTTAAGACACTTTTGCGGCGTTTCTTGAACAAACGCCACTATAGCTTGTACATTTAC
AGCGTTTTCTAAAAAGCCCCACTAAAAATTAAAGTTCTAATCCGAAAAGACACCGTTTTATTAAG
ATTTAATGCACATTTCTGGCATTTTCTGCTAAAACGCCACTAAAAATTAATTTGCTTAAGCTAAA
CGAAGACGTTT
Found at i:13962915 original size:14 final size:14
Alignment explanation
Indices: 13962898--13962935 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
13962888 AACTTTTAAC
*
13962898 CCTTAAATCCTAAA
1 CCTTAAATCCCAAA
13962912 CCTTAAATCCCAAA
1 CCTTAAATCCCAAA
*
13962926 CCCTAAATCC
1 CCTTAAATCC
13962936 ATACAAGTGT
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:0.39, C:0.37, G:0.00, T:0.24
Consensus pattern (14 bp):
CCTTAAATCCCAAA
Found at i:13963920 original size:41 final size:41
Alignment explanation
Indices: 13963872--13963987 Score: 135
Period size: 41 Copynumber: 2.8 Consensus size: 41
13963862 GGCGCTTTGT
* * ** *
13963872 CAAAAACGCCGCTAAAAACCCGAGCATTAGTGGTGCTTATC
1 CAAAAACGCCGCTAAAAACCCGAGCATTAGCGGCGCAAAAC
*
13963913 CATAAACGCCGCT-AAAACCACGAGCATTAGCGGCGCAAAAC
1 CAAAAACGCCGCTAAAAACC-CGAGCATTAGCGGCGCAAAAC
* * *
13963954 TAAAAACGCCGCTAAAACCCCGAACATTAGCGGC
1 CAAAAACGCCGCTAAAAACCCGAGCATTAGCGGC
13963988 AATATTCTGA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
40 6 0.10
41 52 0.83
42 5 0.08
ACGTcount: A:0.37, C:0.30, G:0.19, T:0.14
Consensus pattern (41 bp):
CAAAAACGCCGCTAAAAACCCGAGCATTAGCGGCGCAAAAC
Found at i:13964163 original size:89 final size:88
Alignment explanation
Indices: 13964011--13964242 Score: 349
Period size: 89 Copynumber: 2.6 Consensus size: 88
13964001 CGCCACTAAA
* **
13964011 GCCCCCAAAAGGTCAACAAACGACGTTGTTGGGTTTGGTTTTTTTGCAGCGTTTTCCTCAAAAAC
1 GCCCCCAAAAGGTCAACAAACGACGTCGTTGGGTTT-GTTTTTTTGTGGCGTTTTCCTCAAAAAC
*
13964076 GCCACTAATGTTTTCTTTAGTGGC
65 GACACTAATGTTTTCTTTAGTGGC
13964100 GCCCCCAAAAGGTCAACAAACGACGTCGTTGGGTTTGATTTTTTTGTGGCGTTTTCC-CAAAAAA
1 GCCCCCAAAAGGTCAACAAACGACGTCGTTGGGTTTG-TTTTTTTGTGGCGTTTTCCTC-AAAAA
* *
13964164 TGACGCTAATGTTTTCTTTAGTGGC
64 CGACACTAATGTTTTCTTTAGTGGC
* * *
13964189 GCCCCCAAAAGGTCGACAAACGACATCGTTGGGTTTGGTTTTTTGTGGCGTTTT
1 GCCCCCAAAAGGTCAACAAACGACGTCGTTGGGTTTGTTTTTTTGTGGCGTTTT
13964243 TGGAACGCCG
Statistics
Matches: 132, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
88 18 0.14
89 114 0.86
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (88 bp):
GCCCCCAAAAGGTCAACAAACGACGTCGTTGGGTTTGTTTTTTTGTGGCGTTTTCCTCAAAAACG
ACACTAATGTTTTCTTTAGTGGC
Found at i:13966074 original size:23 final size:23
Alignment explanation
Indices: 13966030--13966074 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
13966020 TTATACTAAT
* **
13966030 ATAATTTAATTAGATATTTATTA
1 ATAATTTAATTAGAAAAATATTA
*
13966053 ATAATTTAATTATAAAAATATT
1 ATAATTTAATTAGAAAAATATT
13966075 GATATAAAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
ATAATTTAATTAGAAAAATATTA
Found at i:13967032 original size:20 final size:20
Alignment explanation
Indices: 13966989--13967032 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
13966979 AATGTTTATT
*
13966989 TTTTTACTGCTTTCTTGTTT
1 TTTTTACTGCTTTCTTGTTA
* * *
13967009 TTTTTATTGTTTTGTTGTTA
1 TTTTTACTGCTTTCTTGTTA
13967029 TTTT
1 TTTT
13967033 CTTCTTCTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.07, C:0.07, G:0.11, T:0.75
Consensus pattern (20 bp):
TTTTTACTGCTTTCTTGTTA
Found at i:13969772 original size:17 final size:17
Alignment explanation
Indices: 13969744--13969783 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
13969734 AGGATAGTGA
*
13969744 GGAAGATGAGAAATAAAT
1 GGAAGATGAGAAA-AAAG
13969762 GGAAG-TGAGAAAAAAG
1 GGAAGATGAGAAAAAAG
13969778 GGAAGA
1 GGAAGA
13969784 AACTCTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 8 0.40
17 7 0.35
18 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.35, T:0.10
Consensus pattern (17 bp):
GGAAGATGAGAAAAAAG
Found at i:13971096 original size:11 final size:11
Alignment explanation
Indices: 13971082--13971118 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
13971072 ATTTAAGAGA
13971082 AAATAAAAAAT
1 AAATAAAAAAT
13971093 AAATAAAAAAT
1 AAATAAAAAAT
13971104 --AT-AAAAAT
1 AAATAAAAAAT
13971112 AAATAAA
1 AAATAAA
13971119 TAGACGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 6 0.26
9 2 0.09
10 2 0.09
11 13 0.57
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:13971109 original size:19 final size:18
Alignment explanation
Indices: 13971081--13971118 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
13971071 AATTTAAGAG
13971081 AAAATAAAAAATAAATAA
1 AAAATAAAAAATAAATAA
13971099 AAAATATAAAAATAAATAA
1 AAAATA-AAAAATAAATAA
13971118 A
1 A
13971119 TAGACGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAATAAAAAATAAATAA
Found at i:13971721 original size:41 final size:41
Alignment explanation
Indices: 13971662--13971762 Score: 139
Period size: 41 Copynumber: 2.5 Consensus size: 41
13971652 CGAACCCAAT
* * *
13971662 ATGAAACGCCTAAACTTGTGGGATTGATTAAGGTCCTTGTA
1 ATGAAACGCCTAAGCTTGTGAGATTGATTAAGGTCATTGTA
** * *
13971703 ATGAAACATCTAAGCTTGTGAGATTGATTAGGGTTATTGTA
1 ATGAAACGCCTAAGCTTGTGAGATTGATTAAGGTCATTGTA
13971744 ATGAAACGCCTAAGCTTGT
1 ATGAAACGCCTAAGCTTGT
13971763 TAACGTTCTC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.33
Consensus pattern (41 bp):
ATGAAACGCCTAAGCTTGTGAGATTGATTAAGGTCATTGTA
Found at i:13972340 original size:26 final size:26
Alignment explanation
Indices: 13972293--13972342 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
13972283 GGGATGAGCC
*
13972293 TCGCGCCGCAACCAAGATCTTCACGT
1 TCGCGCCGCAACCAAGACCTTCACGT
* **
13972319 TCGCGCCGCAGCCCCGACCTTCAC
1 TCGCGCCGCAACCAAGACCTTCAC
13972343 CTGCACAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.18, C:0.46, G:0.20, T:0.16
Consensus pattern (26 bp):
TCGCGCCGCAACCAAGACCTTCACGT
Found at i:13973564 original size:3 final size:3
Alignment explanation
Indices: 13973551--13973586 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
13973541 AAATATCTAC
13973551 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13973587 ATATAAGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:13973762 original size:21 final size:24
Alignment explanation
Indices: 13973738--13973798 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
13973728 TTATGTACCT
13973738 TTTA-TTCTTT-ATTT-TTTATTA
1 TTTAGTTCTTTCATTTGTTTATTA
13973759 TTTAGTTCTTTCATTTGTTTATTAA
1 TTTAGTTCTTTCATTTGTTTATT-A
13973784 TTT-GTGT-TTTCATTT
1 TTTAGT-TCTTTCATTT
13973799 ATATTATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.11
22 6 0.17
23 4 0.11
24 16 0.46
25 5 0.14
ACGTcount: A:0.16, C:0.07, G:0.07, T:0.70
Consensus pattern (24 bp):
TTTAGTTCTTTCATTTGTTTATTA
Found at i:13973921 original size:15 final size:15
Alignment explanation
Indices: 13973901--13973935 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
13973891 TTTCTATGCC
13973901 ATTGTTATATTTATT
1 ATTGTTATATTTATT
*
13973916 ATTGTTGTATTTATT
1 ATTGTTATATTTATT
13973931 ATTGT
1 ATTGT
13973936 GGCATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (15 bp):
ATTGTTATATTTATT
Found at i:13985937 original size:44 final size:43
Alignment explanation
Indices: 13985886--13986869 Score: 395
Period size: 44 Copynumber: 22.7 Consensus size: 43
13985876 GATCGCATCT
*
13985886 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGTAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAACA
* **
13985930 AGTCTTATC-CTCCTGAAATTGCAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AACA
* * * * **
13985975 AATCTTATCTCTCTGAAGTTGCGGTGGAGCAGATTAA-AGCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAC-A
* * * * * *
13986018 TAATCCTATCTCCCT-AAGGTTGCAGTGGAGCGGATTAA-AACCTT
1 -AGTCTTATCTCCCTGAA-GTTGCAGTGGAGCAGACTAAGAAAC-A
* * ** * * * *
13986062 AGATCTTATCT--CTGAAGTTACAG-AGAATAGA-TCA-CATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAACA
* *
13986101 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAACA
* * *
13986145 AGTCTTATC-CTCCTGAAGTTGCAGT-AAGGCAGGCTAA-ATATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAGA-A--ACA
* * * **
13986190 AATCTGATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAGAGCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAC-A
* * * * * * *
13986233 TAATCCTAT-TCCCCTGAGGTTGCAGTGGAGCGGATTAA-AACCTT
1 -AGTCTTATCT-CCCTGAAGTTGCAGTGGAGCAGACTAAGAAAC-A
* * * * *
13986277 AGATCTTATCTCTCTGAAGTTGCAG-GGAGCAGA-T-CGCATCC
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAACA
** *
13986318 AGTCTTATCTCTTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAACA
* **
13986362 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGTAGACTAAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AACA
* * * * * * **
13986407 AATCTGATCTCCCTGAAATTACAGTAGAGCAGATTAA-AGCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAC-A
* * * *
13986450 TAATCCTATCTCCCTG-AGATTGCAGTGGAGCAGATTAA-AATCA
1 -AGTCTTATCTCCCTGAAG-TTGCAGTGGAGCAGACTAAGAAACA
* * * * * * *
13986493 CAGATTTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-TGTATCT
1 -AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAACA
*
13986535 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAACA
**
13986579 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCGA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AAC-A
* * *
13986625 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-AAACA
* * * *
13986669 A-TTTTATCTCCCTGAAGTTACAGTGGAGC-GAATTAA-AACCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ACTAAGAAACA
* * * * * ***
13986710 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-TCA-CATTG
1 -AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAACA
* * * *
13986753 GGTCTTATCTCCCTGAAGTTGCAGTAGAGTATACTCAAGAAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAA-CA
* * *
13986798 AGTCTTATC-CCCTTGAAATTGCAGTGGAACAGACTAAATAAACA
1 AGTCTTATCTCCC-TGAAGTTGCAGTGGAGCAGACT-AAGAAACA
* * * *
13986842 AATCCTGTCTCCCT-AAGTTGTAGTGGAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
13986870 TAGATTAGAG
Statistics
Matches: 723, Mismatches: 146, Indels: 143
0.71 0.14 0.14
Matches are distributed among these distances:
38 8 0.01
39 3 0.00
40 55 0.08
41 59 0.08
42 28 0.04
43 61 0.08
44 334 0.46
45 162 0.22
46 13 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (43 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAACA
Found at i:13986409 original size:217 final size:217
Alignment explanation
Indices: 13985800--13986876 Score: 1461
Period size: 217 Copynumber: 5.0 Consensus size: 217
13985790 TCGGTGGCCA
* * *
13985800 ATAATCCTATCTCCCTGAGGTTGCAGTAGAACAGATTAAAACCTTAGATCTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTGAGGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGT
* * *
13985865 TACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGTAAACA
66 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* * * *
13985930 AGTCTTATCCTCCTGAAATTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCTCTGAAGTT
131 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTGATCTCCCTGAAGTT
*
13985995 GCGGTGGAGCAGATTAAAGCCG
196 GCAGTGGAGCAGATTAAAGCCG
*
13986017 ATAATCCTATCTCCCTAAGGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTA--TCTCTGAAGT
1 ATAATCCTATCTCCCTGAGGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGT
* ** * *
13986080 TACAGAGAATAGATCACATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCA
66 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* * *
13986145 AGTCTTATCCTCCTGAAGTTGCAGTAAGGCAGGCTAAATATGGCAAATCTGATCTCCCTGAAGTT
131 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTGATCTCCCTGAAGTT
*
13986210 GCAGTGGAGCAGATTAGAGCCG
196 GCAGTGGAGCAGATTAAAGCCG
13986232 ATAATCCTAT-TCCCCTGAGGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAG
1 ATAATCCTATCT-CCCTGAGGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAG
* * **
13986296 TTGCAGGGAGCAGATCGCATCCAGTCTTATCTCTTTGAAGTTGCAGTGGAGCAGACTAAGTAAGC
65 TTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC
* *
13986361 AAGTCTTATCCTCCTGAAGTTGCAGTGAGGTAGACTAAAGATGGCAAATCTGATCTCCCTGAAAT
130 AAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTGATCTCCCTGAAGT
* *
13986426 TACAGTAGAGCAGATTAAAGCCG
195 TGCAGTGGAGCAGATTAAAGCCG
* * * ** *
13986449 ATAATCCTATCTCCCTGAGATTGCAGTGGAGCAGATTAAAATCACAGATTTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTGAGGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGT
* * *
13986514 TGCAGAGAGCAGATTGTATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATCA
66 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* * *
13986579 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCGAATCTTATCTCCCTGAAGTT
131 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTGATCTCCCTGAAGTT
*
13986644 GCAGTGGAGCAGATTAAAGCCA
196 GCAGTGGAGCAGATTAAAGCCG
** * * * **
13986666 ATAATTTTATCTCCCTGAAGTTACAGTGGAGCGAATTAAAACCACAGATCTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTGAGGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGT
* * * * * * *
13986731 TGCAGTAGAGTAGATCACAT-TGGGTCTTATCTCCCTGAAGTTGCAGTAGAGTATACTCAAGAAA
66 TGCAG-AGAGCAGATCGCATCT-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAA
* * * **
13986795 GCAAGTCTTATCC-CCTTGAAATTGCAGTG-GAACAGACTAAATA-AACAAATCCTG-TCTCCCT
128 GCAAGTCTTATCCTCC-TGAAGTTGCAGTGAG-GCAGACTAAAGATGGCAAAT-CTGATCTCCCT
* *
13986856 -AAGTTGTAGTGGAGTAGATTA
190 GAAGTTGCAGTGGAGCAGATTA
13986877 GAGTGATGGA
Statistics
Matches: 763, Mismatches: 87, Indels: 20
0.88 0.10 0.02
Matches are distributed among these distances:
214 1 0.00
215 197 0.26
217 469 0.61
218 56 0.07
219 40 0.05
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (217 bp):
ATAATCCTATCTCCCTGAGGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGT
TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTGATCTCCCTGAAGTT
GCAGTGGAGCAGATTAAAGCCG
Found at i:13986557 original size:84 final size:86
Alignment explanation
Indices: 13986451--13986687 Score: 252
Period size: 84 Copynumber: 2.7 Consensus size: 86
13986441 TAAAGCCGAT
*
13986451 AATCCTATCTCCCTG-AGATTGCAGTGGAGCAGATTAAAATCACAGATTTTATCTCTCTGAAGTT
1 AATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTAAAATCA-AGATTTTATCTCTCTGAAGTT
* * *
13986515 GCAGAGA-GCAGATTG-TAT-CT
64 GCAGAGAGGCAGACTGAGATGCG
* * *
13986535 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATCAAG-TCTTATC-CTCCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCAAGATTTTATCTCT-CTGAAGT
*
13986598 TGCAGTGAGGCAGACTGAAGATGGCG
63 TGCAGAGAGGCAGACTG-AGAT-GCG
** * *
13986624 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATTTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAA-GATTTTATCTCTCTGAAGTT
13986688 ACAGTGGAGC
Statistics
Matches: 126, Mismatches: 15, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
83 2 0.02
84 51 0.40
85 11 0.09
86 5 0.04
87 6 0.05
89 50 0.40
90 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (86 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAAGATTTTATCTCTCTGAAGTTGC
AGAGAGGCAGACTGAGATGCG
Found at i:13986923 original size:434 final size:434
Alignment explanation
Indices: 13985796--13986855 Score: 1278
Period size: 432 Copynumber: 2.4 Consensus size: 434
13985786 CAGATCGGTG
* * * * **
13985796 GCCAATAATCCTA-TCTCCCTGAGGTTGCAGTAGAAC-AGATTAAAACCTTAGATCTTATCTCTC
1 GCCAATAATCCTATTC-CCCTGAAGTTACAGTGGAGCGA-ATTAAAACCACAGATCTTATCTCTC
* * * * *
13985859 TGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAG
64 TGAAGTTGCAGAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAG
* * ** * *
13985924 TAAA-CAAGTCTTATCCTCCTGAAATTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCTC
129 -AAAGCAAGTCTTATCCTCCTGAAATTGCAGTGAGACAGACTAAAGATAACAAATCTGATCTCCC
* * * * * * * * *
13985988 TGAAGTTGCGGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCT-AAGGTTGCAGTGGAGCGGA
193 TGAAATTACAGTAGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAA-ATTACAATGCAGCAGA
* ** * *
13986052 TTAAAACCTTAGATCTTA--TCTCTGAAGTTACAGAGAATAGATCACATCTAGTCTTATCTCCCT
257 TTAAAATCACAGATTTTATCTCTCTGAAGTTACAGAGAACAGATCACATCTAGTCTTATCTCCCT
*
13986115 AAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTAAGGCAGGCT
322 AAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTAAGGCAGACT
* *
13986180 AAATATGGCAAATCTGATCTCCCTGAAGTTGCAGTGGAGCAGATTAGA
387 AAAGATGGCAAATCTGATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
* * * * **
13986228 GCCGATAATCCTATTCCCCTGAGGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTG
1 GCCAATAATCCTATTCCCCTGAAGTTACAGTGGAGCGAATTAAAACCACAGATCTTATCTCTCTG
* * ** * *
13986293 AAGTTGCAGGGAGCAGATCGCATCCAGTCTTATCTCTTTGAAGTTGCAGTGGAGCAGACTAAGTA
66 AAGTTGCAGAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGAA
* ** **
13986358 AGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGTAGACTAAAGATGGCAAATCTGATCTCCCTGA
131 AGCAAGTCTTATCCTCCTGAAATTGCAGTGAGACAGACTAAAGATAACAAATCTGATCTCCCTGA
* * * *
13986423 AATTACAGTAGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAGATTGCAGTGGAGCAGATTAA
196 AATTACAGTAGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAATTACAATGCAGCAGATTAA
* * *** *
13986488 AATCACAGATTTTATCTCTCTGAAGTTGCAGAGAGCAGATTGTATCTAGTCTTATCTCCCTGAAG
261 AATCACAGATTTTATCTCTCTGAAGTTACAGAGAACAGATCACATCTAGTCTTATCTCCCTAAAG
* * *
13986553 TTGCAGTGGAGCAGACTAAGTAATCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAG
326 TTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTAAGGCAGACTAAAG
* *
13986618 ATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
391 ATGGCAAATCTGATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
**
13986662 GCCAATAATTTTA-TCTCCCTGAAGTTACAGTGGAGCGAATTAAAACCACAGATCTTATCTCTCT
1 GCCAATAATCCTATTC-CCCTGAAGTTACAGTGGAGCGAATTAAAACCACAGATCTTATCTCTCT
* *** * *
13986726 GAAGTTGCAGTAGAGTAGATCACATTGGGTCTTATCTCCCTGAAGTTGCAGTAGAGTATACTCAA
65 GAAGTTGCAG-AGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACT-AA
*
13986791 GAAAGCAAGTCTTATCC-CCTTGAAATTGCAGTG-GAACAGACTAAATA-AACAAATCCTG-TCT
128 GAAAGCAAGTCTTATCCTCC-TGAAATTGCAGTGAG-ACAGACTAAAGATAACAAAT-CTGATCT
13986852 CCCT
190 CCCT
13986856 AAGTTGTAGT
Statistics
Matches: 548, Mismatches: 68, Indels: 21
0.86 0.11 0.03
Matches are distributed among these distances:
431 2 0.00
432 238 0.43
433 5 0.01
434 206 0.38
435 55 0.10
436 42 0.08
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (434 bp):
GCCAATAATCCTATTCCCCTGAAGTTACAGTGGAGCGAATTAAAACCACAGATCTTATCTCTCTG
AAGTTGCAGAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGAA
AGCAAGTCTTATCCTCCTGAAATTGCAGTGAGACAGACTAAAGATAACAAATCTGATCTCCCTGA
AATTACAGTAGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAATTACAATGCAGCAGATTAA
AATCACAGATTTTATCTCTCTGAAGTTACAGAGAACAGATCACATCTAGTCTTATCTCCCTAAAG
TTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTAAGGCAGACTAAAG
ATGGCAAATCTGATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
Found at i:13988514 original size:3 final size:3
Alignment explanation
Indices: 13988501--13988542 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
13988491 AAATATCTAC
13988501 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13988543 ATATAAGTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:13988720 original size:21 final size:24
Alignment explanation
Indices: 13988696--13988756 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
13988686 TTATGTACCT
13988696 TTTA-TTCTTT-ATTT-TTTATTA
1 TTTAGTTCTTTCATTTGTTTATTA
13988717 TTTAGTTCTTTCATTTGTTTATTAA
1 TTTAGTTCTTTCATTTGTTTATT-A
13988742 TTT-GTGT-TTTCATTT
1 TTTAGT-TCTTTCATTT
13988757 ATATTAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.11
22 6 0.17
23 4 0.11
24 16 0.46
25 5 0.14
ACGTcount: A:0.16, C:0.07, G:0.07, T:0.70
Consensus pattern (24 bp):
TTTAGTTCTTTCATTTGTTTATTA
Found at i:13988876 original size:15 final size:15
Alignment explanation
Indices: 13988856--13988890 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
13988846 TTTCTATGCC
13988856 ATTGTTATATTTATT
1 ATTGTTATATTTATT
*
13988871 ATTGTTGTATTTATT
1 ATTGTTATATTTATT
13988886 ATTGT
1 ATTGT
13988891 GGCATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (15 bp):
ATTGTTATATTTATT
Found at i:13993406 original size:4 final size:4
Alignment explanation
Indices: 13993397--13993427 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
13993387 ATCTATCCTT
13993397 TTTA TTTA TTTA TTTA TTTA TTTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
13993428 ACTAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:13993667 original size:18 final size:18
Alignment explanation
Indices: 13993644--13993693 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
13993634 TTCTTTAAAT
13993644 AAAAGCAAAAAAAA-AGTAA
1 AAAAGCAAAAAAAACA--AA
*
13993663 AAAGCGCAAAAAAAACAAA
1 AAA-AGCAAAAAAAACAAA
13993682 AAAAGCAAAAAA
1 AAAAGCAAAAAA
13993694 GCGCAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 8 0.30
19 8 0.30
20 10 0.37
21 1 0.04
ACGTcount: A:0.78, C:0.10, G:0.10, T:0.02
Consensus pattern (18 bp):
AAAAGCAAAAAAAACAAA
Found at i:13993682 original size:8 final size:9
Alignment explanation
Indices: 13993652--13993705 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
13993642 ATAAAAGCAA
*
13993652 AAAAAAAGT
1 AAAAAAAGC
**
13993661 AAAAAGCGC
1 AAAAAAAGC
*
13993670 AAAAAAAAC
1 AAAAAAAGC
13993679 AAAAAAAGC
1 AAAAAAAGC
*
13993688 AAAAAAGCGC
1 AAAAAA-AGC
13993698 AAAAAAAG
1 AAAAAAAG
13993706 AGAGAGAGTA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
9 27 0.77
10 8 0.23
ACGTcount: A:0.74, C:0.11, G:0.13, T:0.02
Consensus pattern (9 bp):
AAAAAAAGC
Found at i:13993682 original size:27 final size:28
Alignment explanation
Indices: 13993652--13993757 Score: 126
Period size: 27 Copynumber: 3.8 Consensus size: 28
13993642 ATAAAAGCAA
* *
13993652 AAAAAAAG-TAAAAAGCGCAAAAAAAAC
1 AAAAAAAGCAAAAAAGCGCAAAAAAAAG
13993679 AAAAAAAGCAAAAAAGCGC-AAAAAAAG
1 AAAAAAAGCAAAAAAGCGCAAAAAAAAG
* * * *
13993706 AGAGAGAGTAAAAAAGCGCAAAAAAAAG
1 AAAAAAAGCAAAAAAGCGCAAAAAAAAG
*
13993734 AGCAAAAAGCAAAAAAGCGCAAAA
1 A-AAAAAAGCAAAAAAGCGCAAAA
13993758 GCGCAAAAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
27 30 0.45
28 18 0.27
29 18 0.27
ACGTcount: A:0.70, C:0.11, G:0.17, T:0.02
Consensus pattern (28 bp):
AAAAAAAGCAAAAAAGCGCAAAAAAAAG
Found at i:13993749 original size:17 final size:18
Alignment explanation
Indices: 13993727--13993767 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
13993717 AAAAGCGCAA
13993727 AAAAAAGAGCAAAA-AGC
1 AAAAAAGAGCAAAAGAGC
* *
13993744 AAAAAAGCGCAAAAGCGC
1 AAAAAAGAGCAAAAGAGC
13993762 AAAAAA
1 AAAAAA
13993768 AAAAGTTGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.68, C:0.15, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAAAGAGCAAAAGAGC
Found at i:13996831 original size:32 final size:31
Alignment explanation
Indices: 13996786--13996881 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
13996776 CTTAGATAAT
13996786 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
13996817 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
13996849 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
13996880 TT
1 TT
13996882 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:13998040 original size:39 final size:39
Alignment explanation
Indices: 13997997--13998100 Score: 118
Period size: 39 Copynumber: 2.7 Consensus size: 39
13997987 ATAAATATGT
* *
13997997 TTTGAGTATTGTGATATATGCTTAAATGTTATGTGATTA
1 TTTGAGTATTGTGATATATGCTTAAATGTTAGGCGATTA
* **
13998036 TTTGAGTATTGTGATATATACTTGTATGTTAGGCGATTA
1 TTTGAGTATTGTGATATATGCTTAAATGTTAGGCGATTA
* * * **
13998075 TATGTGTAATACGATATATGCTTAAA
1 TTTGAGTATTGTGATATATGCTTAAA
13998101 AGTGAATATG
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (39 bp):
TTTGAGTATTGTGATATATGCTTAAATGTTAGGCGATTA
Found at i:14004877 original size:3 final size:3
Alignment explanation
Indices: 14004871--14004905 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
14004861 AAAAAAACTG
* *
14004871 ATA ATA ATA GTA ATA GTA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
14004906 TTAGACATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:14009482 original size:29 final size:29
Alignment explanation
Indices: 14009449--14009504 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
14009439 GGTCGAAAAA
14009449 AATGAATCTCTTGAACAATCAGAGTTAAG
1 AATGAATCTCTTGAACAATCAGAGTTAAG
14009478 AATGAATCTCTTGAACAATCAGAGTTA
1 AATGAATCTCTTGAACAATCAGAGTTA
14009505 TGATAAGTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (29 bp):
AATGAATCTCTTGAACAATCAGAGTTAAG
Found at i:14013124 original size:12 final size:12
Alignment explanation
Indices: 14013107--14013147 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
14013097 TGAGGGTAGG
14013107 ATCTGATTATGT
1 ATCTGATTATGT
*
14013119 ATCTGAATATGT
1 ATCTGATTATGT
* *
14013131 ATTTGATTATGC
1 ATCTGATTATGT
14013143 ATCTG
1 ATCTG
14013148 CATCTGATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (12 bp):
ATCTGATTATGT
Found at i:14013869 original size:17 final size:18
Alignment explanation
Indices: 14013811--14013871 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 18
14013801 ACCCTCTTAC
* *
14013811 TATATTATATAATGCTATA
1 TATATTATATAGT-ATATA
14013830 TCATATTATATAGTATATAA
1 T-ATATTATATAGTATAT-A
*
14013850 TATATTA-ATAGTTTATA
1 TATATTATATAGTATATA
14013867 TATAT
1 TATAT
14013872 ACATAAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.16
18 8 0.22
19 10 0.27
20 13 0.35
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (18 bp):
TATATTATATAGTATATA
Found at i:14016744 original size:17 final size:17
Alignment explanation
Indices: 14016722--14016756 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14016712 TCCTTATGTA
14016722 TATTTGTTTCAT-TTATT
1 TATTTGTTT-ATATTATT
14016739 TATTTGTTTATATTATT
1 TATTTGTTTATATTATT
14016756 T
1 T
14016757 CTATGCCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.20, C:0.03, G:0.06, T:0.71
Consensus pattern (17 bp):
TATTTGTTTATATTATT
Found at i:14016788 original size:15 final size:15
Alignment explanation
Indices: 14016768--14016797 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14016758 TATGCCGTTA
14016768 TTGTATTTATTATTG
1 TTGTATTTATTATTG
*
14016783 TTGTATTTGTTATTG
1 TTGTATTTATTATTG
14016798 CAACATCTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (15 bp):
TTGTATTTATTATTG
Found at i:14020655 original size:26 final size:26
Alignment explanation
Indices: 14020626--14020713 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 26
14020616 ATATTATTTT
14020626 TATTAAATTATATTTAATAATAATTA
1 TATTAAATTATATTTAATAATAATTA
* * * *
14020652 TATTAAAATATGATTAAATTATTTATTA
1 TATTAAATTAT-ATTTAA-TAATAATTA
* **
14020680 TTATTAAATTATTTTTAATAATAATCC
1 -TATTAAATTATATTTAATAATAATTA
14020707 TATTAAA
1 TATTAAA
14020714 ATTTAATAAC
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
26 17 0.35
27 10 0.21
28 11 0.23
29 10 0.21
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (26 bp):
TATTAAATTATATTTAATAATAATTA
Found at i:14020691 original size:55 final size:58
Alignment explanation
Indices: 14020585--14020715 Score: 187
Period size: 55 Copynumber: 2.3 Consensus size: 58
14020575 TTAATATAAA
* *
14020585 AATAATTATATTAAACATATTATTAAATTATATATTATTTTTATTAAATTATATTTAAT
1 AATAATTATATTAAA-ATATGATTAAATTATATATTATTATTATTAAATTATATTTAAT
*
14020644 AATAATTATATTAAAATATGATTAAA-T-TAT-TTATTATTATTAAATTATTTTTAAT
1 AATAATTATATTAAAATATGATTAAATTATATATTATTATTATTAAATTATATTTAAT
**
14020699 AATAATCCTATTAAAAT
1 AATAATTATATTAAAAT
14020716 TTAATAACAA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
55 38 0.57
56 3 0.04
57 1 0.01
58 10 0.15
59 15 0.22
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (58 bp):
AATAATTATATTAAAATATGATTAAATTATATATTATTATTATTAAATTATATTTAAT
Found at i:14022932 original size:30 final size:30
Alignment explanation
Indices: 14022898--14022960 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
14022888 ACTTATTTTA
14022898 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
14022928 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
14022958 TTG
1 TTG
14022961 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:14023078 original size:18 final size:18
Alignment explanation
Indices: 14023043--14023080 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
14023033 GAAATATTTA
*
14023043 TTTTGATGTTTTTAATAT
1 TTTTGATGTTTATAATAT
14023061 TTTTGATGTATTAT-ATAT
1 TTTTGATGT-TTATAATAT
14023079 TT
1 TT
14023081 AAAAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.66
Consensus pattern (18 bp):
TTTTGATGTTTATAATAT
Found at i:14024868 original size:18 final size:18
Alignment explanation
Indices: 14024836--14024886 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
14024826 ATACCCATTT
*
14024836 CTCTCCATC-TTTCTTTC
1 CTCTCTATCTTTTCTTTC
14024853 CTCTCTATCTTTTCTTTC
1 CTCTCTATCTTTTCTTTC
*
14024871 CTCTCTTATCTCTTCT
1 CTCTC-TATCTTTTCT
14024887 GTGCCCTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.27
18 13 0.43
19 9 0.30
ACGTcount: A:0.06, C:0.37, G:0.00, T:0.57
Consensus pattern (18 bp):
CTCTCTATCTTTTCTTTC
Found at i:14033083 original size:51 final size:51
Alignment explanation
Indices: 14032999--14033169 Score: 297
Period size: 51 Copynumber: 3.4 Consensus size: 51
14032989 ACATGGATCA
14032999 CACTTATCACTTGTCACTTGTCACTGATAAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTGTCACTTGTCACTGATAAGATAAGTGTAGCTAAAGCTAC
* *
14033050 CACTTATCACTTGTCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTGTCACTTGTCACTGATAAGATAAGTGTAGCTAAAGCTAC
* * *
14033101 CACTTATCACTTGTCGCTTGTCACTGATTAGATAAGTGTAGCTAAATCTAC
1 CACTTATCACTTGTCACTTGTCACTGATAAGATAAGTGTAGCTAAAGCTAC
14033152 CACTTATCACTTGTCACT
1 CACTTATCACTTGTCACT
14033170 GATCAGAAGT
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 113 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.34
Consensus pattern (51 bp):
CACTTATCACTTGTCACTTGTCACTGATAAGATAAGTGTAGCTAAAGCTAC
Found at i:14038330 original size:17 final size:17
Alignment explanation
Indices: 14038308--14038351 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
14038298 TGCCTATATG
14038308 GGCCCACACGCCAGTAT
1 GGCCCACACGCCAGTAT
14038325 GGCCCACACGCCAGTAT
1 GGCCCACACGCCAGTAT
14038342 GGCCCACACG
1 GGCCCACACG
14038352 GCCCAAATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.23, C:0.43, G:0.25, T:0.09
Consensus pattern (17 bp):
GGCCCACACGCCAGTAT
Found at i:14042183 original size:3 final size:3
Alignment explanation
Indices: 14042175--14042230 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
14042165 AGAGTATGAA
14042175 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14042223 AAT AAT AA
1 AAT AAT AA
14042231 GTAGTAGTAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14045923 original size:61 final size:62
Alignment explanation
Indices: 14045853--14045971 Score: 168
Period size: 62 Copynumber: 1.9 Consensus size: 62
14045843 AGAGCTTTTT
* * * *
14045853 CTTTGTGCAAAGAATCTTACTGTTG-TTTTTTTGTCTTTGTCTTGCAGGGAATTTCTTATTC
1 CTTTGTGCAAAGAATCTCACTGTTGATTCTTCTGTCCTTGTCTTGCAGGGAATTTCTTATTC
* * *
14045914 CTTTGTGCAAAGAATGTCATTGTTGATTCTTCTGTCCTTGTCTTGTAGGGAATTTCTT
1 CTTTGTGCAAAGAATCTCACTGTTGATTCTTCTGTCCTTGTCTTGCAGGGAATTTCTT
14045972 CATCTTTTGA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
61 22 0.44
62 28 0.56
ACGTcount: A:0.17, C:0.15, G:0.19, T:0.49
Consensus pattern (62 bp):
CTTTGTGCAAAGAATCTCACTGTTGATTCTTCTGTCCTTGTCTTGCAGGGAATTTCTTATTC
Done.