Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 44 of 199
Found at i:12796220 original size:28 final size:27
Alignment explanation
Indices: 12796173--12796236 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 27
12796163 ATATTTTTGC
* *
12796173 TATTA-ATTAATTATTATTATTGTTAT
1 TATTATATTTATTATTATTATTGATAT
*
12796199 TATTACTATTTATTATTGTTATTGATAT
1 TATTA-TATTTATTATTATTATTGATAT
12796227 TATTATATTT
1 TATTATATTT
12796237 GGTTATATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.15
27 5 0.15
28 23 0.70
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (27 bp):
TATTATATTTATTATTATTATTGATAT
Found at i:12796601 original size:2 final size:2
Alignment explanation
Indices: 12796594--12796623 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12796584 CCTATTTTTC
12796594 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12796624 CTTTATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12806233 original size:14 final size:15
Alignment explanation
Indices: 12806202--12806238 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
12806192 AGTACTTTCA
12806202 ATTTTTTC-TTACTT
1 ATTTTTTCATTACTT
12806216 -TTTTTTCATTA-TT
1 ATTTTTTCATTACTT
12806229 ATTTTTTCAT
1 ATTTTTTCAT
12806239 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:12807867 original size:16 final size:17
Alignment explanation
Indices: 12807832--12807869 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
12807822 AACTCAATTT
* *
12807832 AAAACAATCTTAAACTC
1 AAAATAATCTTAAACCC
12807849 AAAATAATC-TAAACCC
1 AAAATAATCTTAAACCC
12807865 AAAAT
1 AAAAT
12807870 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:12812966 original size:23 final size:22
Alignment explanation
Indices: 12812940--12813002 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
12812930 TTTAACAGAG
*
12812940 AATCTTCATCGTTTATTGCAGGA
1 AATCTTCAT-GTTTATCGCAGGA
* *
12812963 AATCTCCAGTGTTCATCGCAGGA
1 AATCTTCA-TGTTTATCGCAGGA
12812986 AATCTTCATTGTTTATC
1 AATCTTCA-TGTTTATC
12813003 ACAGAGAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 32 0.97
24 1 0.03
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (22 bp):
AATCTTCATGTTTATCGCAGGA
Found at i:12814404 original size:23 final size:23
Alignment explanation
Indices: 12814378--12814453 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
12814368 AGTCTCTGCG
*
12814378 ATGAACAATGAAGATTCCTTGCA
1 ATGAACAATGAAGATTCTTTGCA
* *
12814401 ATGAACAGTGAAGATTCTTTTCA
1 ATGAACAATGAAGATTCTTTGCA
*
12814424 ATGAACAATGAGGATTCTTTGCA
1 ATGAACAATGAAGATTCTTTGCA
12814447 ATGAACA
1 ATGAACA
12814454 GTAAATATTC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (23 bp):
ATGAACAATGAAGATTCTTTGCA
Found at i:12814412 original size:46 final size:46
Alignment explanation
Indices: 12814354--12814455 Score: 132
Period size: 46 Copynumber: 2.2 Consensus size: 46
12814344 AGAAAAGACG
* *
12814354 AATGAACTGTGAAAAGTCTCTGCGATGAACAATGAAGATTCCTTGC
1 AATGAACAGTGAAAAGTCTCTGCAATGAACAATGAAGATTCCTTGC
* * * * * *
12814400 AATGAACAGTGAAGATTCTTTTCAATGAACAATGAGGATTCTTTGC
1 AATGAACAGTGAAAAGTCTCTGCAATGAACAATGAAGATTCCTTGC
12814446 AATGAACAGT
1 AATGAACAGT
12814456 AAATATTCAC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (46 bp):
AATGAACAGTGAAAAGTCTCTGCAATGAACAATGAAGATTCCTTGC
Found at i:12814463 original size:23 final size:23
Alignment explanation
Indices: 12814354--12814455 Score: 114
Period size: 23 Copynumber: 4.4 Consensus size: 23
12814344 AGAAAAGACG
* * * *
12814354 AATGAACTGTGAAAAGTCTCTGC
1 AATGAACAGTGAAGATTCTTTGC
* * *
12814377 GATGAACAATGAAGATTCCTTGC
1 AATGAACAGTGAAGATTCTTTGC
*
12814400 AATGAACAGTGAAGATTCTTTTC
1 AATGAACAGTGAAGATTCTTTGC
* *
12814423 AATGAACAATGAGGATTCTTTGC
1 AATGAACAGTGAAGATTCTTTGC
12814446 AATGAACAGT
1 AATGAACAGT
12814456 AAATATTCAC
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (23 bp):
AATGAACAGTGAAGATTCTTTGC
Found at i:12824562 original size:15 final size:15
Alignment explanation
Indices: 12824542--12824571 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12824532 AAGTTGGTGC
12824542 ATATATATCAATCGT
1 ATATATATCAATCGT
12824557 ATATATATCAATCGT
1 ATATATATCAATCGT
12824572 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:12826735 original size:42 final size:42
Alignment explanation
Indices: 12826668--12826767 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 42
12826658 GTGCTAAACA
* * ** * *
12826668 AAAACCCATAATGGTTGAACGGAAGCTCGTAGGAGTTGAACG
1 AAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
*
12826710 AAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACG
1 AAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
* *
12826752 AAAACCTATTAGGGTT
1 AAAACCCATAAGGGTT
12826768 GAACAGAACT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (42 bp):
AAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
Found at i:12832304 original size:42 final size:42
Alignment explanation
Indices: 12832237--12832336 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 42
12832227 GTGCCAAACA
* * * ** *
12832237 GAAACCTATAGGGGTTGAACGGAAGCTCGTAGGAGCTGAACG
1 GAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
*
12832279 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
* *
12832321 AAAACCCATTAGGGTT
1 GAAACCCATAAGGGTT
12832337 GAATAAAAAC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.37, C:0.18, G:0.28, T:0.17
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACG
Found at i:12845796 original size:19 final size:19
Alignment explanation
Indices: 12845742--12845796 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
12845732 TAATGTTTGA
*
12845742 AATATATAAATTTAAACAT
1 AATATATAAATTTAAAAAT
* * *
12845761 AATTTA-AGAAATAAAAAAT
1 AATATATA-AATTTAAAAAT
12845780 AATATATAAATTTAAAA
1 AATATATAAATTTAAAA
12845797 TTTAAAATAA
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
18 1 0.04
19 25 0.93
20 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
AATATATAAATTTAAAAAT
Found at i:12845833 original size:29 final size:30
Alignment explanation
Indices: 12845785--12845863 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 30
12845775 AAAATAATAT
**
12845785 ATAAATTTAAA-AT-TTAAAATAAATTTG-A
1 ATAAA-TTAAAGATGTTAAAATAAAGCTGAA
* *
12845813 ATAAATTAACGATGTTGAAAT-AAGCTGAA
1 ATAAATTAAAGATGTTAAAATAAAGCTGAA
12845842 ATAAATTAAAGATGTTAAAATA
1 ATAAATTAAAGATGTTAAAATA
12845864 TTTGAAAGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
27 4 0.10
28 11 0.27
29 26 0.63
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.33
Consensus pattern (30 bp):
ATAAATTAAAGATGTTAAAATAAAGCTGAA
Found at i:12847918 original size:88 final size:86
Alignment explanation
Indices: 12847801--12848151 Score: 336
Period size: 88 Copynumber: 4.0 Consensus size: 86
12847791 GCCTGGGAAG
* * **
12847801 TAAGATCTGTAATTCTTTGGTCTATTCCACTGTAATCTCAGGCAGATAAGACCTTACTTTAATCT
1 TAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGA-CTTA-TGCAATCT
*
12847866 ACTCCACTGTAACCTCAGGGAGA
64 ACTCCACTGTAACCTCAGAGAGA
* * *
12847889 TAAGATCTGTAATTCTTCGGTCTATTCCACTTTAATCTCAGGGAGATAAGACCTGATGCGATCTA
1 TAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGA-CTTATGCAATCTA
* *
12847954 CTCTACTGTAACTTCAGAGAGA
65 CTCCACTGTAACCTCAGAGAGA
* ** * * * * *
12847976 TAAGATCAT-TTATT-TT-AATCCACTCCACCGTAA--TCAGGGAAATAGGA-TTACTGGCTTCA
1 TAAGATC-TGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACTTA-T-G---CA
* * * * *
12848035 ATCTGCTTCGCTGTAATCTCAGGGAGA
60 ATCTACTCCACTGTAACCTCAGAGAGA
*
12848062 TAAGATCTGTAATTCTTCGGCCTATTCCACTGTAATCTCAGGGAGATAAGACTTGATGCAATCTA
1 TAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACTT-ATGCAATCTA
* *
12848127 CTCTACTGTAACTTCAGAGAGA
65 CTCCACTGTAACCTCAGAGAGA
12848149 TAA
1 TAA
12848152 AATCCTTTAT
Statistics
Matches: 206, Mismatches: 44, Indels: 27
0.74 0.16 0.10
Matches are distributed among these distances:
81 2 0.01
82 1 0.00
83 13 0.06
85 12 0.06
86 34 0.17
87 63 0.31
88 64 0.31
90 13 0.06
91 3 0.01
92 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (86 bp):
TAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACTTATGCAATCTAC
TCCACTGTAACCTCAGAGAGA
Found at i:12847929 original size:46 final size:46
Alignment explanation
Indices: 12847801--12847939 Score: 178
Period size: 46 Copynumber: 3.1 Consensus size: 46
12847791 GCCTGGGAAG
*
12847801 TAAGATCTGTAATTCTTTGGTCTATTCCACTGTAATCTCAGGCAGA
1 TAAGATCTGTAATTCTTTGGTCTATTCCACTGTAATCTCAGGGAGA
* ** * *
12847847 TAAGACCT-T-A--CTTTAATCTACTCCACTGTAACCTCAGGGAGA
1 TAAGATCTGTAATTCTTTGGTCTATTCCACTGTAATCTCAGGGAGA
* *
12847889 TAAGATCTGTAATTCTTCGGTCTATTCCACTTTAATCTCAGGGAGA
1 TAAGATCTGTAATTCTTTGGTCTATTCCACTGTAATCTCAGGGAGA
12847935 TAAGA
1 TAAGA
12847940 CCTGATGCGA
Statistics
Matches: 76, Mismatches: 13, Indels: 8
0.78 0.13 0.08
Matches are distributed among these distances:
42 34 0.45
43 1 0.01
44 2 0.03
45 1 0.01
46 38 0.50
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.34
Consensus pattern (46 bp):
TAAGATCTGTAATTCTTTGGTCTATTCCACTGTAATCTCAGGGAGA
Found at i:12848168 original size:173 final size:174
Alignment explanation
Indices: 12847861--12848242 Score: 579
Period size: 173 Copynumber: 2.2 Consensus size: 174
12847851 ACCTTACTTT
* * * * *
12847861 AATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGTAATTCTTCGGTCTATTCCACTTTAATC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCGGCCTATTCCACTGTAATC
* *
12847926 TCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTT
66 TCAGGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAAATCATTTATTT
* *
12847991 TAATCCACTCCACCGTAA-TCAGGGAAATAGGATTACTGGCTTC
131 TAATCCACTCCACCGTAACTCAGGAAAATAGGATTACTAGCTTC
*
12848034 AATCTGCTTCGCTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCGGCCTATTCCACTGTAATC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCGGCCTATTCCACTGTAATC
* *
12848099 TCAGGGAGATAAGACTTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAAATCCTTTATTT
66 TCAGGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAAATCATTTATTT
* * *
12848164 TAATCCGCTCCACTGTAATCTCAGGAAAATAGGATTACTAGTTTC
131 TAATCCACTCCACCGTAA-CTCAGGAAAATAGGATTACTAGCTTC
* *
12848209 AATCTGCTCCGTTGTAATCTTAGGGACG-TAAGAT
1 AATCTGCTCCGCTGTAATCTCAGGGA-GATAAGAT
12848243 TTCTCGCTTC
Statistics
Matches: 188, Mismatches: 18, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
173 136 0.72
175 51 0.27
176 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (174 bp):
AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCGGCCTATTCCACTGTAATC
TCAGGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAAATCATTTATTT
TAATCCACTCCACCGTAACTCAGGAAAATAGGATTACTAGCTTC
Found at i:12848278 original size:44 final size:44
Alignment explanation
Indices: 12848165--12848284 Score: 123
Period size: 44 Copynumber: 2.7 Consensus size: 44
12848155 CCTTTATTTT
* * * *
12848165 AATCCGCTCCACTGTAATCTCAGGAAAATAGGATTACTAGTTTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTAGCTTC
** * ** * *
12848209 AATCTGCTCCGTTGTAATCTTAGGGACGTAAGATTTCTCGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTAGCTTC
* *
12848253 AATCTGCTCCACTGTAACCTCAGGGAGATAAG
1 AATCTGCTCCACTGTAATCTCAGGGAAATAAG
12848285 GCTGGTGTTT
Statistics
Matches: 59, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTAGCTTC
Found at i:12850445 original size:10 final size:10
Alignment explanation
Indices: 12850430--12850462 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
12850420 TTGGCCTCTC
12850430 CTTTTTATTT
1 CTTTTTATTT
12850440 CTTTTTATTT
1 CTTTTTATTT
*
12850450 CTTCTT-TTT
1 CTTTTTATTT
12850459 CTTT
1 CTTT
12850463 CATTTTTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.29
10 15 0.71
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (10 bp):
CTTTTTATTT
Found at i:12851269 original size:25 final size:25
Alignment explanation
Indices: 12851219--12851284 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
12851209 AAGAAAGTCC
* *
12851219 AAAAGAATGAAAGAATAATTATTCA
1 AAAATAATGAAAGAATAATTACTCA
*
12851244 AAAATAATGAAAGAAT-ATTGGCTCA
1 AAAATAATGAAAGAATAATT-ACTCA
12851269 AAAATGAATGCAAAGA
1 AAAAT-AATG-AAAGA
12851285 TGTATTTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.09
25 23 0.66
26 4 0.11
27 5 0.14
ACGTcount: A:0.58, C:0.06, G:0.15, T:0.21
Consensus pattern (25 bp):
AAAATAATGAAAGAATAATTACTCA
Found at i:12876556 original size:3 final size:3
Alignment explanation
Indices: 12876550--12876593 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
12876540 ATTATTATTA
12876550 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
12876594 ATAATAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:12878004 original size:148 final size:150
Alignment explanation
Indices: 12877832--12878175 Score: 487
Period size: 148 Copynumber: 2.3 Consensus size: 150
12877822 TCTATGAGAG
* * * *
12877832 AATCTAAACTTTCTCATTTTAAAAAAAACACTATTTTTCTTAAATATTAAAGCTTTTATTTTGAA
1 AATCTAAACTTTCTCCTTTAAAAAAAAACACTATTTTTCTTAAAGATTAAAGCTTTTACTTTGAA
* *
12877897 GTAGTT-AAAAAAATCAAAACTTTGTTTTCAAAA-TTTAAATTTTCCTTTAAAATAACTAAAAAA
66 ATAGTTAAAAAAAATCAAAACTTTGTTTT-AAAATTTTAAACTTTCCTTTAAAATAACTAAAAAA
12877960 AATAGATTTTTATTT-TTCAA
130 AATAGATTTTTATTTCTTCAA
* *
12877980 AATCTAAACTTTCTCCTTTAAAAAAAAACATTGTTTTTCTTAAAGATTAAAGCTTTTACTTTGAA
1 AATCTAAACTTTCTCCTTTAAAAAAAAACACTATTTTTCTTAAAGATTAAAGCTTTTACTTTGAA
*
12878045 ATAGTTGAAAAAAAAATCAAAACTTTGTTTTAAAATTTTTAACTTTCCTTTAAAATAACTAAAAA
66 ATAGTT--AAAAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATAACTAAAAA
* *
12878110 ATATATATTTTTATTTCTTCAA
129 AAATAGATTTTTATTTCTTCAA
*
12878132 AATCTAAACTTTCTCCCTTTTTTTAAAAAAAAGCACTATTTTTC
1 AATCTAAACTTTCT-CC----TTTAAAAAAAAACACTATTTTTC
12878176 CCAAAATCAA
Statistics
Matches: 172, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
148 64 0.37
150 4 0.02
151 63 0.37
152 19 0.11
153 2 0.01
157 20 0.12
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (150 bp):
AATCTAAACTTTCTCCTTTAAAAAAAAACACTATTTTTCTTAAAGATTAAAGCTTTTACTTTGAA
ATAGTTAAAAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATAACTAAAAAAA
ATAGATTTTTATTTCTTCAA
Found at i:12889921 original size:18 final size:20
Alignment explanation
Indices: 12889898--12889934 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12889888 AATATTGTTA
12889898 AAAGAG-TT-GTAATTTTTT
1 AAAGAGATTGGTAATTTTTT
12889916 AAAGAGATTGGTAATTTTT
1 AAAGAGATTGGTAATTTTT
12889935 GAAGAGTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (20 bp):
AAAGAGATTGGTAATTTTTT
Found at i:12890489 original size:23 final size:24
Alignment explanation
Indices: 12890433--12890489 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
12890423 AATGGTGGAT
12890433 TAATTAAATACATTAAGGTTAATTAA
1 TAATTAAA-ACATTAA-GTTAATTAA
12890459 -AATTAAAACA-TAA-TTAATTAA
1 TAATTAAAACATTAAGTTAATTAA
12890480 CTAATTAAAA
1 -TAATTAAAA
12890490 ACTTAATCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
21 8 0.28
23 11 0.38
24 3 0.10
25 7 0.24
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (24 bp):
TAATTAAAACATTAAGTTAATTAA
Found at i:12892773 original size:24 final size:24
Alignment explanation
Indices: 12892744--12892789 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
12892734 ATCTAAAATC
** *
12892744 AATCAAAGGTTGATATTAAAATTG
1 AATCAAAGACTGATATAAAAATTG
12892768 AATCAAAGACTGATATAAAAAT
1 AATCAAAGACTGATATAAAAAT
12892790 ATTTACACTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.07, G:0.13, T:0.28
Consensus pattern (24 bp):
AATCAAAGACTGATATAAAAATTG
Found at i:12894935 original size:496 final size:491
Alignment explanation
Indices: 12893980--12895558 Score: 1454
Period size: 496 Copynumber: 3.2 Consensus size: 491
12893970 ATTCGATATT
* * * * *
12893980 ATATAGTGAAATATATCAAAGCTTTGGACCACTGATGTTTAATTTTAATTTTTTTATCAATTAAA
1 ATATAG-GAAATATA--AAA-CTTTGGACCACTGATGTTTAATTTCAAATATTTGATCAATTTAA
* * * * * *
12894045 GAGTATTTTTCGATTATGCATTCCTCTAACTACTAACGTAATTAAATGATTATAACATTGAACCA
62 GAGTATTTATCAATTATGCATTCCTTTAACTACTAACATAATT-GATGATTATAGCATTGAACCA
* * * * * *
12894110 ATTGAATTGGGTTTATATACGAATTTATTAACATTATGGTGT---AGTAATTTGAAGAGTATTGA
126 ATTGAA-TAGATTTATATACGAATGTACTAACATTGTGGTGTACAAGTAATTTGAA-AATATTG-
* * * * *
12894172 CCAATTACACATTTCCCGCACATTTCTCTAATTACTAATGTAATTCAATAGGCTATGACATTAAT
188 ---A-T-CA-A-TT---GTACATTTCTCTAATTACTAACGTAATTGAATGGGTTATGACATTAAT
* * * * * * * *
12894237 TATTCAAC-CATTGATCCAATTCAATGAATCTATGTAAGAAGGTAATGACAATATAATGTATATG
243 TGTAC-ACTCATTAATCTAATTGAATGAATCTATGTATGAAGGTAATGACATTATAATGTATAAG
* * * *
12894301 TATTTTTAAAAGTATTGACCAATTGTATATTCCTTTAATTATTAGCACAAA-CGAATAATCAATG
307 TATTTTTAAAAGTATTGATCAATTGTATATTCCTCTAATTACTAGGA-AAATCGAATAATC-ATG
* * * * * * * * *
12894365 ACATAAATAATATAACTAAAGATCCAACTAAACAAATTGTATAATTAATTGTACAACCATTGATT
370 ACATTAATAATACATCCAATGATCCAATTGAATAAATTGTATAATTAA-TGTACAATCATTGATT
* *
12894430 CAATTGAATTGATCTATGTAAACACAATATTGAGTATACATGTTTGAAATTCAATACC
434 CAATTGAATTGATCTATGTAAACACAACATTGAGTATACATGTTTGAAATTCAATAAC
* * *
12894488 ATATAGCGAAATATCAAAATTTTGGACTACTGATGTTTAATTTTAAATATTTGATCAATTTAAGA
1 ATATAG-GAAATAT-AAAACTTTGGACCACTGATGTTTAATTTCAAATATTTGATCAATTTAAGA
* * * * **
12894553 TTATTTATCAATTATACATTCCTTTAACTACAAACATAAATGATTCTTATAGCATTGAACCAATT
64 GTATTTATCAATTATGCATTCCTTTAACTACTAACATAATTGATGATTATAGCATTGAACCAATT
*
12894618 GAATCAGATTTATATACGAATGTACTAACATTGTGGTGTACAAGTAATTTGAATAACATTGATCA
129 GAAT-AGATTTATATACGAATGTACTAACATTGTGGTGTACAAGTAATTTGAA-AATATTGATCA
* * * *
12894683 ATTGTACATTTCTCTAA-TACTAACATAACTGAATGGGTTATTATATTAATTGTACACTCATTAA
192 ATTGTACATTTCTCTAATTACTAACGTAATTGAATGGGTTATGACATTAATTGTACACTCATTAA
* * * * * *
12894747 TCTAATTGAATAAATCTATGTATGAAGGTGATGACATTATAGTGTGTAAGTATGTCTAAAAGTAT
257 TCTAATTGAATGAATCTATGTATGAAGGTAATGACATTATAATGTATAAGTATTTTTAAAAGTAT
* * * **
12894812 TTATCAATTGTACATTCCTCTAATTACTAGGAAAATCCAATTAATCATGACATTAACCATACATC
322 TGATCAATTGTATATTCCTCTAATTACTAGGAAAATCGAA-TAATCATGACATTAATAATACATC
*
12894877 CAATGATCCAATTGAATAAATTGTATAATTAATCGTACAATCATTTATTCAATTGAATT-ATTCT
386 CAATGATCCAATTGAATAAATTGTATAATTAAT-GTACAATCATTGATTCAATTGAATTGA-TCT
* * *
12894941 GTGTAAACATAACATTTAGTATACATGTTTG-AATT---TAAC
449 ATGTAAACACAACATTGAGTATACATGTTTGAAATTCAATAAC
* * * * *
12894980 ATA-A-TAAAT-TGAAACTTTGGACCAGTTATGTTTAATTTCAAATATTTGATTAATTTAAGAGT
1 ATATAGGAAATATAAAACTTTGGACCACTGATGTTTAATTTCAAATATTTGATCAATTTAAGAGT
* ** * *
12895042 ATTTATCAATTATGCATTCCTTTCACTACTAATTTAATTGAATGATTATGGCATTAAACCAATTG
66 ATTTATCAATTATGCATTCCTTTAACTACTAACATAATTG-ATGATTATAGCATTGAACCAATTG
* * * * * * * * *
12895107 AATTGAGTCTATATTCGAACGTACTAACAATGTGGTGTACAAGTAATGTGAAAAGTAATGACCAC
130 AATAGA-TTTATATACGAATGTACTAACATTGTGGTGTACAAGTAATTTGAAAA-TATTGATCAA
* * * * ** * * * * *
12895172 TTTTACATTTTTCTAATTTCTAACGTATTTGAATGACTTATGACATTACTTGTAGAATAATTCAT
193 TTGTACATTTCTCTAATTACTAACGTAATTGAATGGGTTATGACATTAATTGTACACTCATTAAT
* * * * *
12895237 CTAATTGAATGAATCTATATATGAAGGTAATAACATTGTATTCTATAAGTATTTTTAAAAGTATT
258 CTAATTGAATGAATCTATGTATGAAGGTAATGACATTATAATGTATAAGTATTTTTAAAAGTATT
* * ** * **
12895302 GATCAATTGTATATTCCTCTAACTT-CTAGTG-TAATCGAACAAATTGTGTCATTAATTGTACAA
323 GATCAATTGTATATTCCTCTAA-TTACTAG-GAAAATCGAA-TAATCATGACATTAATAATAC-A
* * * ** * * * *
12895365 T-CATTGATCCAATTGAATCAGTTGTATAATCGAT-TATAATCATTGATCCAATTGAATCGATCC
384 TCCAATGATCCAATTGAATAAATTGTATAATTAATGTACAATCATTGATTCAATTGAATTGATCT
* * * *
12895428 ATGTAAACACAACATTGGGTATACATCTTT-AGAACTCAATATC
449 ATGTAAACACAACATTGAGTATACATGTTTGA-AATTCAATAAC
*
12895471 ATATAGTGAAATATATCAAATTTTGGACCACCT-ATGTTTAATTTCAAATATTTGAAT-AATTTA
1 ATATAG-GAAATATA--AAACTTTGGACCA-CTGATGTTTAATTTCAAATATTTG-ATCAATTTA
*
12895534 AAAGTATTTATCAATTATGCATTCC
61 AGAGTATTTATCAATTATGCATTCC
12895559 ACTAACTAGA
Statistics
Matches: 878, Mismatches: 162, Indels: 73
0.79 0.15 0.07
Matches are distributed among these distances:
487 129 0.15
488 88 0.10
489 166 0.19
490 5 0.01
491 7 0.01
492 7 0.01
494 4 0.00
495 12 0.01
496 210 0.24
497 81 0.09
498 3 0.00
500 2 0.00
501 1 0.00
502 2 0.00
503 1 0.00
504 2 0.00
505 52 0.06
506 73 0.08
507 3 0.00
508 29 0.03
509 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.38
Consensus pattern (491 bp):
ATATAGGAAATATAAAACTTTGGACCACTGATGTTTAATTTCAAATATTTGATCAATTTAAGAGT
ATTTATCAATTATGCATTCCTTTAACTACTAACATAATTGATGATTATAGCATTGAACCAATTGA
ATAGATTTATATACGAATGTACTAACATTGTGGTGTACAAGTAATTTGAAAATATTGATCAATTG
TACATTTCTCTAATTACTAACGTAATTGAATGGGTTATGACATTAATTGTACACTCATTAATCTA
ATTGAATGAATCTATGTATGAAGGTAATGACATTATAATGTATAAGTATTTTTAAAAGTATTGAT
CAATTGTATATTCCTCTAATTACTAGGAAAATCGAATAATCATGACATTAATAATACATCCAATG
ATCCAATTGAATAAATTGTATAATTAATGTACAATCATTGATTCAATTGAATTGATCTATGTAAA
CACAACATTGAGTATACATGTTTGAAATTCAATAAC
Found at i:12901411 original size:30 final size:29
Alignment explanation
Indices: 12901377--12901458 Score: 119
Period size: 30 Copynumber: 2.7 Consensus size: 29
12901367 TCCACTTGAC
12901377 TTAGATAGCCACAGAGGAGTCCGCATATCA
1 TTAGATAGCCACA-AGGAGTCCGCATATCA
*
12901407 TTAGATAGCCACAAAGGCGTCCGCATATCA
1 TTAGATAGCCAC-AAGGAGTCCGCATATCA
*
12901437 TTAGATAACCACAAGGATGTCC
1 TTAGATAGCCACAAGGA-GTCC
12901459 AGATTCATAC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
29 4 0.09
30 42 0.89
31 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (29 bp):
TTAGATAGCCACAAGGAGTCCGCATATCA
Found at i:12901663 original size:61 final size:61
Alignment explanation
Indices: 12901568--12901815 Score: 327
Period size: 61 Copynumber: 4.1 Consensus size: 61
12901558 ATTTTGCCAT
* * *
12901568 AAAGGCTTCCATATATAACAGATTCTGCCACTAGGGCTCACATA-AAGCAGAGAACAACCAC
1 AAAGGCTTTCACATATAACAGATTCCGCCACTAGGGCTCACATATAA-CAGAGAACAACCAC
** * * * * * * *
12901629 AAAGGCTTTGGCATATAACAGATTCTGCCTCTAGGGTTTACATAAAATAGAAAACAACCAC
1 AAAGGCTTTCACATATAACAGATTCCGCCACTAGGGCTCACATATAACAGAGAACAACCAC
* * *
12901690 GAAGGCTTCCACATATAACAAATTCCGCCACTAGGGCTCACATATAACAGAGAACAACCAC
1 AAAGGCTTTCACATATAACAGATTCCGCCACTAGGGCTCACATATAACAGAGAACAACCAC
* *
12901751 AAAGGCTTTCACATATAACAGGTTCCGCCACTAGGGCTCACACATAACAGAGAACAACCAC
1 AAAGGCTTTCACATATAACAGATTCCGCCACTAGGGCTCACATATAACAGAGAACAACCAC
12901812 AAAG
1 AAAG
12901816 TCATCACTTT
Statistics
Matches: 160, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
61 158 0.99
62 2 0.01
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.19
Consensus pattern (61 bp):
AAAGGCTTTCACATATAACAGATTCCGCCACTAGGGCTCACATATAACAGAGAACAACCAC
Found at i:12901732 original size:29 final size:29
Alignment explanation
Indices: 12901699--12901799 Score: 87
Period size: 29 Copynumber: 3.4 Consensus size: 29
12901689 CGAAGGCTTC
12901699 CACATATAACAAATTCCGCCACTAGGGCT
1 CACATATAACAAATTCCGCCACTAGGGCT
* ** * *
12901728 CACATATAACAGAGA-ACAACCACAAAGGCTTT
1 CACATATAACA-A-ATTCCGCCACTAGGGC--T
**
12901760 CACATATAACAGGTTCCGCCACTAGGGCT
1 CACATATAACAAATTCCGCCACTAGGGCT
*
12901789 CACACATAACA
1 CACATATAACA
12901800 GAGAACAACC
Statistics
Matches: 54, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
29 22 0.41
30 10 0.19
31 10 0.19
32 12 0.22
ACGTcount: A:0.39, C:0.30, G:0.14, T:0.18
Consensus pattern (29 bp):
CACATATAACAAATTCCGCCACTAGGGCT
Found at i:12901767 original size:32 final size:30
Alignment explanation
Indices: 12901724--12901815 Score: 96
Period size: 32 Copynumber: 3.0 Consensus size: 30
12901714 CCGCCACTAG
12901724 GGCTCACATATAACAGAGAACAACCACAAA
1 GGCTCACATATAACAGAGAACAACCACAAA
** ** * *
12901754 GGCTTTCACATATAACAG-GTTCCGCCACTAG
1 GGC--TCACATATAACAGAGAACAACCACAAA
*
12901785 GGCTCACACATAACAGAGAACAACCACAAA
1 GGCTCACATATAACAGAGAACAACCACAAA
12901815 G
1 G
12901816 TCATCACTTT
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 12 0.26
30 11 0.24
31 10 0.22
32 13 0.28
ACGTcount: A:0.41, C:0.28, G:0.16, T:0.14
Consensus pattern (30 bp):
GGCTCACATATAACAGAGAACAACCACAAA
Found at i:12907691 original size:44 final size:43
Alignment explanation
Indices: 12907590--12907707 Score: 109
Period size: 44 Copynumber: 2.7 Consensus size: 43
12907580 AACGTCATCA
* **
12907590 TCCCAGACGTGGTCTTATATGTAATCACATATCGATGCCATTG
1 TCCCAGACGTGGTCTTATACGTAATCACATATCGATGCCAACG
* *
12907633 TCTCATACAG-GGTCTTATACGTAAATCACA-AGTC-ACTGCCAACG
1 TCCCAGAC-GTGGTCTTATACGT-AATCACATA-TCGA-TGCCAACG
*
12907677 TCCCAGACGTGGTCTTACACGATAA-CACATA
1 TCCCAGACGTGGTCTTATACG-TAATCACATA
12907708 ATAGAATTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
43 24 0.40
44 35 0.58
45 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (43 bp):
TCCCAGACGTGGTCTTATACGTAATCACATATCGATGCCAACG
Found at i:12919192 original size:21 final size:23
Alignment explanation
Indices: 12919134--12919193 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 23
12919124 AATCCAAGAG
12919134 TGCACACAAGTGCCAAGTATAAA
1 TGCACACAAGTGCCAAGTATAAA
* * ** *
12919157 TGCATAAAAACGCCAA-TA-GAA
1 TGCACACAAGTGCCAAGTATAAA
12919178 TGCACACAAGTGCCAA
1 TGCACACAAGTGCCAA
12919194 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:0.45, C:0.23, G:0.17, T:0.15
Consensus pattern (23 bp):
TGCACACAAGTGCCAAGTATAAA
Found at i:12924459 original size:17 final size:16
Alignment explanation
Indices: 12924437--12924482 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
12924427 AAAATATATG
12924437 TTTATATTATTTTTAAT
1 TTTATA-TATTTTTAAT
**
12924454 TTTATAT-TTAATAAT
1 TTTATATATTTTTAAT
12924469 TTTATATATTTTTA
1 TTTATATATTTTTA
12924483 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:12924481 original size:25 final size:25
Alignment explanation
Indices: 12924453--12924501 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
12924443 TTATTTTTAA
12924453 TTTTATAT-TTAATAATTTTATATAT
1 TTTTATATATTAA-AATTTTATATAT
*
12924478 TTTTATTTATTAAAATTTTATATA
1 TTTTATATATTAAAATTTTATATA
12924502 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:12929500 original size:43 final size:43
Alignment explanation
Indices: 12929452--12929843 Score: 421
Period size: 43 Copynumber: 9.2 Consensus size: 43
12929442 TTATAGAAAA
* *
12929452 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTCTCCAC
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTCTAC
* *
12929495 AAACGCCGCTATAGAGCAGGGTCTTTAGCGGCGTTTTTTCTAC
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTCTAC
* * *
12929538 AAACGCCGCTATAGATCAGGGTCTTTAACGTCGCTTTTTTTAC
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTCTAC
*
12929581 AAACGCTGCTATAGATCAGGGTCTTTAGCGGCGCTTTTT-TAC
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTCTAC
* *
12929623 AAATGCCGCTATAGATCAGGGTCTTTAGCAGCGCTTCTTT-TAC
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTT-TTTCTAC
* * ** * *
12929666 AAACACCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTTTAA
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTCTAC
* ** * * *
12929709 AAACGCCGTTATAGATCAGGACCTTTAGTGGCACTTTTTCCAC
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTCTAC
* ** ** * * *
12929752 AAACGCCACTATATCTCAGGACCTTTAGTGGCACTTTTTCCAC
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTCTAC
* ** ** * *
12929795 AAACGCCACTATATCTCAGGACCTTTAGCGGCG-TTTTTTTAT
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTCTAC
12929837 AAACGCC
1 AAACGCC
12929844 AATAATTTTA
Statistics
Matches: 308, Mismatches: 39, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
42 52 0.17
43 256 0.83
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTCTAC
Found at i:12929681 original size:128 final size:128
Alignment explanation
Indices: 12929450--12929764 Score: 416
Period size: 128 Copynumber: 2.4 Consensus size: 128
12929440 GTTTATAGAA
*
12929450 AAAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTCTCCACAAACGCCGCTATAGAGCAGG
1 AAAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTT-TTCACAAACGCCGCTATAGAGCAGG
* * * * ** *
12929515 GTCTTTAGCGGCGTTTTTTCTACAAACGCCGCTATAGATCAGGGTCTTTAACGTCGCTTTTTTT
65 GTCTTTAGCAGCGTTCTTTCTACAAACACCGCTATAGATCAAGACCTTTAACGGCGCTTTTTTT
* * * * *
12929579 ACAAACGCTGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTACAAATGCCGCTATAGATCAGGG
1 AAAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTCACAAACGCCGCTATAGAGCAGGG
*
12929644 TCTTTAGCAGCGCTTCTTT-TACAAACACCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTTT
66 TCTTTAGCAGCG-TTCTTTCTACAAACACCGCTATAGATCAAGACCTTTAACGGCGCTTTTTTT
* ** * * *
12929707 AAAAACGCCGTTATAGATCAGGACCTTTAGTGGCACTTTTTCCACAAACGCCACTATA
1 AAAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTT-CACAAACGCCGCTATA
12929765 TCTCAGGACC
Statistics
Matches: 160, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
128 105 0.66
129 55 0.34
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (128 bp):
AAAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTCACAAACGCCGCTATAGAGCAGGG
TCTTTAGCAGCGTTCTTTCTACAAACACCGCTATAGATCAAGACCTTTAACGGCGCTTTTTTT
Found at i:12930278 original size:87 final size:87
Alignment explanation
Indices: 12930132--12930291 Score: 223
Period size: 87 Copynumber: 1.8 Consensus size: 87
12930122 TTCTCATCTG
* *
12930132 CTCTGCTTCCCTCGCTGCTGCATCAGATTTAAGTTGTGCCTGGAGTTCTTCATATTTTCTTTGAA
1 CTCTGCTTCCCTCGCTACAGCATCAGATTTAAGTTGTGCCTGGAGTTCTTCATATTTTCTTTGAA
*
12930197 CCTTAACTTCTTTCGCTGCTGC
66 CCTCAACTTCTTTCGCTGCTGC
* * * * * *
12930219 CTCTGCTTCCCTCGCTACAGCCTCTGCTTTAAGTTGTAG-TTGGAGTTGTTCATATTTTCTTTGG
1 CTCTGCTTCCCTCGCTACAGCATCAGATTTAAGTTGT-GCCTGGAGTTCTTCATATTTTCTTTGA
12930283 ACCTCAACT
65 ACCTCAACT
12930292 GTGGTCGCTT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
87 62 0.98
88 1 0.02
ACGTcount: A:0.14, C:0.27, G:0.17, T:0.41
Consensus pattern (87 bp):
CTCTGCTTCCCTCGCTACAGCATCAGATTTAAGTTGTGCCTGGAGTTCTTCATATTTTCTTTGAA
CCTCAACTTCTTTCGCTGCTGC
Found at i:12932643 original size:41 final size:44
Alignment explanation
Indices: 12932595--12933456 Score: 379
Period size: 44 Copynumber: 19.5 Consensus size: 44
12932585 TGATATATAT
12932595 TTATGTATTAGGTACGTTATGTAT-A-A-TATTTAAGTTGTGTA
1 TTATGTATTAGGTACGTTATGTATAATATTATTTAAGTTGTGTA
*
12932636 TTATGTATTATGTACGTTATGTATAATATTATTTAAGTTGTGTA
1 TTATGTATTAGGTACGTTATGTATAATATTATTTAAGTTGTGTA
* * * * *
12932680 TAATGTA--AGTTATG-TAAG-A-AATGTATTATGTAAGTTGTGTA
1 TTATGTATTAGGTACGTTATGTATAA--TATTATTTAAGTTGTGTA
* *** * * **
12932721 TAATGTTAGTTATCAAAGTTATGTATTATGTAAGTTATTTAAGTTACGTAA
1 TTATG-TA-TTAGGTACGTTATGTA-TA-AT-A-TTATTTAAGTTGTGT-A
* * * * * *
12932772 GTTGTGTATAATGTTA-GTTATGTACT-ATGTAAGTT-A--TGTGTA
1 -TTATGTATTA-GGTACGTTATGTA-TAATATTATTTAAGTTGTGTA
* * * *
12932814 TTATGTATTATGTATGTTATGTATAATCTTAATTAAGTTGTGTA
1 TTATGTATTAGGTACGTTATGTATAATATTATTTAAGTTGTGTA
* * *
12932858 TTATGTATTATGTATGTTATGTATAATATTAATTAAGTTGTGTA
1 TTATGTATTAGGTACGTTATGTATAATATTATTTAAGTTGTGTA
* *
12932902 TTATCTATTATGTACGTTATGTATAATATTATTTAAGTTGTGTA
1 TTATGTATTAGGTACGTTATGTATAATATTATTTAAGTTGTGTA
* * * * * *
12932946 TAATGTA--AGTTATG-TAAG-A-AATGTAGTATGTAAGTTGTGTA
1 TTATGTATTAGGTACGTTATGTATAA--TATTATTTAAGTTGTGTA
* *** * * ***
12932987 TAATGTTAGTTATCAAAGTTATGTATTATGTACGTTATTTAAGTTACATAA
1 TTATG-TA-TTAGGTACGTTATGTA-TA-ATA--TTATTTAAGTTGTGT-A
* * * * * *
12933038 GTTGTGTA-TA-ATA--TTA-GT-TATGTACTCTGTAAGTTATGTGTA
1 -TTATGTATTAGGTACGTTATGTATA-ATATTATTTAAG-T-TGTGTA
* * * *
12933080 TTATGTATTATGTATGTTATGTATAATCTTAATTAAGTTGTGTA
1 TTATGTATTAGGTACGTTATGTATAATATTATTTAAGTTGTGTA
* *
12933124 TTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTA
1 TTATGTATTAGGTACGTTATGTATAATATTATTTAAGTTGTGTA
*
12933168 TTATGTATTATGTACGTTATGTATAATATTATTTAAGTTGTGTA
1 TTATGTATTAGGTACGTTATGTATAATATTATTTAAGTTGTGTA
* * * * * *
12933212 TAATGTA--AGTTATG-TAAG-A-AATGTATTGTGTAAGTTGTGTA
1 TTATGTATTAGGTACGTTATGTATAA--TATTATTTAAGTTGTGTA
* *** * * **
12933253 TAATGCTAGTTATCAAAGTTATGTATTATGTATGTTATTTAAGTTACGTAA
1 TTATG-TA-TTAGGTACGTTATGTA-TA---ATATTATTTAAGTTGTGT-A
* * * * * *
12933304 GTTGTGTATAATGTTA-GTTATGTACT-ATGTAAGTT-A--TGTGTA
1 -TTATGTATTA-GGTACGTTATGTA-TAATATTATTTAAGTTGTGTA
* * * * *
12933346 TTATGTATTATGTATGTTATGTATAATCTTAATTAAGTTGTGAA
1 TTATGTATTAGGTACGTTATGTATAATATTATTTAAGTTGTGTA
* *
12933390 TTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTA
1 TTATGTATTAGGTACGTTATGTATAATATTATTTAAGTTGTGTA
* *
12933434 TTATGTATTATGTAAGTTATGTA
1 TTATGTATTAGGTACGTTATGTA
12933457 AGAAATGTTA
Statistics
Matches: 633, Mismatches: 120, Indels: 133
0.71 0.14 0.15
Matches are distributed among these distances:
39 6 0.01
40 9 0.01
41 152 0.24
42 27 0.04
43 17 0.03
44 281 0.44
45 17 0.03
46 31 0.05
47 5 0.01
48 5 0.01
49 6 0.01
50 56 0.09
51 11 0.02
52 10 0.02
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.48
Consensus pattern (44 bp):
TTATGTATTAGGTACGTTATGTATAATATTATTTAAGTTGTGTA
Found at i:12932696 original size:9 final size:9
Alignment explanation
Indices: 12932682--12932836 Score: 75
Period size: 9 Copynumber: 18.6 Consensus size: 9
12932672 GTTGTGTATA
12932682 ATGTAAGTT
1 ATGTAAGTT
**
12932691 ATGTAAGAA
1 ATGTAAGTT
12932700 ATGT-A-TT
1 ATGTAAGTT
12932707 ATGTAAGTT
1 ATGTAAGTT
* *
12932716 GTGT-A-TA
1 ATGTAAGTT
*
12932723 ATGTTAGTT
1 ATGTAAGTT
**
12932732 ATCAAAGTT
1 ATGTAAGTT
12932741 ATGT-A-TT
1 ATGTAAGTT
12932748 ATGTAAGTT
1 ATGTAAGTT
*
12932757 ATTTAAGTT
1 ATGTAAGTT
*
12932766 ACGTAAGTT
1 ATGTAAGTT
* *
12932775 GTGT-A-TA
1 ATGTAAGTT
*
12932782 ATGTTAGTT
1 ATGTAAGTT
*
12932791 ATGT-A-CT
1 ATGTAAGTT
12932798 ATGTAAGTT
1 ATGTAAGTT
*
12932807 ATGTGTA-TT
1 ATGT-AAGTT
12932816 ATGT-A-TT
1 ATGTAAGTT
*
12932823 ATGTATGTT
1 ATGTAAGTT
12932832 ATGTA
1 ATGTA
12932837 TAATCTTAAT
Statistics
Matches: 108, Mismatches: 25, Indels: 26
0.68 0.16 0.16
Matches are distributed among these distances:
7 30 0.28
8 10 0.09
9 67 0.62
10 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:12932697 original size:25 final size:25
Alignment explanation
Indices: 12932664--12932795 Score: 74
Period size: 25 Copynumber: 5.3 Consensus size: 25
12932654 ATGTATAATA
* *
12932664 TTATTTAAGTTGTGTATAATGTAAG
1 TTATGTAAGTTGTGTATTATGTAAG
***
12932689 TTATGTAAGAAATGTATTATGTAAG
1 TTATGTAAGTTGTGTATTATGTAAG
* * **
12932714 TTGTGTATA-ATGT-TAGTTATCAAAG
1 TTATGTA-AGTTGTGTA-TTATGTAAG
* *
12932739 TTATGT-A-TTATGTAAGTTATTTAAG
1 TTATGTAAGTTGTGT-A-TTATGTAAG
* * *
12932764 TTACGTAAGTTGTGTATAATGTTAG
1 TTATGTAAGTTGTGTATTATGTAAG
12932789 TTATGTA
1 TTATGTA
12932796 CTATGTAAGT
Statistics
Matches: 80, Mismatches: 21, Indels: 12
0.71 0.19 0.11
Matches are distributed among these distances:
23 3 0.04
24 3 0.04
25 66 0.82
26 3 0.04
27 5 0.06
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.46
Consensus pattern (25 bp):
TTATGTAAGTTGTGTATTATGTAAG
Found at i:12932810 original size:25 final size:25
Alignment explanation
Indices: 12932789--12932923 Score: 78
Period size: 25 Copynumber: 5.9 Consensus size: 25
12932779 ATAATGTTAG
12932789 TTATGTACTATGTAAGTTATGTGTA
1 TTATGTACTATGTAAGTTATGTGTA
* * *
12932814 TTATGTATTATGTATGTTATGTATA
1 TTATGTACTATGTAAGTTATGTGTA
* *
12932839 ATCT-TA--AT-TAAG-T-TGTGTA
1 TTATGTACTATGTAAGTTATGTGTA
* * *
12932858 TTATGTATTATGTATGTTATGTATA
1 TTATGTACTATGTAAGTTATGTGTA
*
12932883 ATAT-TA--AT-TAAG-T-TGTGTA
1 TTATGTACTATGTAAGTTATGTGTA
* * *
12932902 TTATCTATTATGTACGTTATGT
1 TTATGTACTATGTAAGTTATGT
12932924 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:0.16, T:0.52
Consensus pattern (25 bp):
TTATGTACTATGTAAGTTATGTGTA
Found at i:12932835 original size:34 final size:32
Alignment explanation
Indices: 12932727--12932836 Score: 89
Period size: 34 Copynumber: 3.3 Consensus size: 32
12932717 TGTATAATGT
** * *
12932727 TAGTTATCAAAGTTATGTATTATGTAAGTTATT
1 TAGTTATGTAAGTTGTGTATTATGT-AGTTATG
* *
12932760 TAAGTTACGTAAGTTGTGTATAATGTTAGTTATG
1 T-AGTTATGTAAGTTGTGTATTATG-TAGTTATG
*
12932794 TA-CTATGTAAGTTATGTGTATTATGTA-TTATG
1 TAGTTATGTAAG-T-TGTGTATTATGTAGTTATG
12932826 TATGTTATGTA
1 TA-GTTATGTA
12932837 TAATCTTAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
32 14 0.23
33 5 0.08
34 41 0.67
35 1 0.02
ACGTcount: A:0.30, C:0.03, G:0.19, T:0.48
Consensus pattern (32 bp):
TAGTTATGTAAGTTGTGTATTATGTAGTTATG
Found at i:12933030 original size:25 final size:25
Alignment explanation
Indices: 12932951--12933032 Score: 62
Period size: 25 Copynumber: 3.3 Consensus size: 25
12932941 GTGTATAATG
* *
12932951 TAAGTTATGTAAGAAATG-TAG-TATG
1 TAAGTTATGT-A-TAATGTTAGTTATC
*
12932976 TAAGTTGTGTATAATGTTAGTTATC
1 TAAGTTATGTATAATGTTAGTTATC
* * *
12933001 AAAGTTATGTATTATG-TACGTTATT
1 TAAGTTATGTATAATGTTA-GTTATC
12933026 TAAGTTA
1 TAAGTTA
12933033 CATAAGTTGT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
23 4 0.09
24 6 0.13
25 36 0.78
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.44
Consensus pattern (25 bp):
TAAGTTATGTATAATGTTAGTTATC
Found at i:12933098 original size:266 final size:266
Alignment explanation
Indices: 12932595--12933456 Score: 1586
Period size: 266 Copynumber: 3.3 Consensus size: 266
12932585 TGATATATAT
*
12932595 TTATGTATTAGGTACGTTATGTATAATA-T--TTAAGTTGTGTATTATGTATTATGTACGTTATG
1 TTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
12932657 TATAATATTATTTAAGTTGTGTATAATGTAAGTTATGTAAGAAATGTATTATGTAAGTTGTGTAT
66 TATAATATTATTTAAGTTGTGTATAATGTAAGTTATGTAAGAAATGTATTATGTAAGTTGTGTAT
12932722 AATGTTAGTTATCAAAGTTATGTATTATGTAAGTTATTTAAGTTACGTAAGTTGTGTATAATGTT
131 AATGTTAGTTATCAAAGTTATGTATTATGTAAGTTATTTAAGTTACGTAAGTTGTGTATAATGTT
12932787 AGTTATGTACTATGTAAGTTATGTGTATTATGTATTATGTATGTTATGTATAATCTTAATTAAGT
196 AGTTATGTACTATGTAAGTTATGTGTATTATGTATTATGTATGTTATGTATAATCTTAATTAAGT
12932852 TGTGTA
261 TGTGTA
* *
12932858 TTATGTATTATGTATGTTATGTATAATATTAATTAAGTTGTGTATTATCTATTATGTACGTTATG
1 TTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
*
12932923 TATAATATTATTTAAGTTGTGTATAATGTAAGTTATGTAAGAAATGTAGTATGTAAGTTGTGTAT
66 TATAATATTATTTAAGTTGTGTATAATGTAAGTTATGTAAGAAATGTATTATGTAAGTTGTGTAT
* * *
12932988 AATGTTAGTTATCAAAGTTATGTATTATGTACGTTATTTAAGTTACATAAGTTGTGTATAATATT
131 AATGTTAGTTATCAAAGTTATGTATTATGTAAGTTATTTAAGTTACGTAAGTTGTGTATAATGTT
*
12933053 AGTTATGTACTCTGTAAGTTATGTGTATTATGTATTATGTATGTTATGTATAATCTTAATTAAGT
196 AGTTATGTACTATGTAAGTTATGTGTATTATGTATTATGTATGTTATGTATAATCTTAATTAAGT
12933118 TGTGTA
261 TGTGTA
12933124 TTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
1 TTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
*
12933189 TATAATATTATTTAAGTTGTGTATAATGTAAGTTATGTAAGAAATGTATTGTGTAAGTTGTGTAT
66 TATAATATTATTTAAGTTGTGTATAATGTAAGTTATGTAAGAAATGTATTATGTAAGTTGTGTAT
* *
12933254 AATGCTAGTTATCAAAGTTATGTATTATGTATGTTATTTAAGTTACGTAAGTTGTGTATAATGTT
131 AATGTTAGTTATCAAAGTTATGTATTATGTAAGTTATTTAAGTTACGTAAGTTGTGTATAATGTT
12933319 AGTTATGTACTATGTAAGTTATGTGTATTATGTATTATGTATGTTATGTATAATCTTAATTAAGT
196 AGTTATGTACTATGTAAGTTATGTGTATTATGTATTATGTATGTTATGTATAATCTTAATTAAGT
*
12933384 TGTGAA
261 TGTGTA
*
12933390 TTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTATTATGTATTATGTAAGTTATG
1 TTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
12933455 TA
66 TA
12933457 AGAAATGTTA
Statistics
Matches: 577, Mismatches: 19, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
263 26 0.05
264 1 0.00
266 550 0.95
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.48
Consensus pattern (266 bp):
TTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
TATAATATTATTTAAGTTGTGTATAATGTAAGTTATGTAAGAAATGTATTATGTAAGTTGTGTAT
AATGTTAGTTATCAAAGTTATGTATTATGTAAGTTATTTAAGTTACGTAAGTTGTGTATAATGTT
AGTTATGTACTATGTAAGTTATGTGTATTATGTATTATGTATGTTATGTATAATCTTAATTAAGT
TGTGTA
Found at i:12933228 original size:9 final size:9
Alignment explanation
Indices: 12933214--12933368 Score: 50
Period size: 9 Copynumber: 18.6 Consensus size: 9
12933204 GTTGTGTATA
12933214 ATGTAAGTT
1 ATGTAAGTT
**
12933223 ATGTAAGAA
1 ATGTAAGTT
12933232 ATGT-A-TT
1 ATGTAAGTT
*
12933239 GTGTAAGTT
1 ATGTAAGTT
* *
12933248 GTGT-A-TA
1 ATGTAAGTT
12933255 ATGCT-AGTT
1 ATG-TAAGTT
**
12933264 ATCAAAGTT
1 ATGTAAGTT
12933273 ATGT-A-TT
1 ATGTAAGTT
*
12933280 ATGTATGTT
1 ATGTAAGTT
*
12933289 ATTTAAGTT
1 ATGTAAGTT
*
12933298 ACGTAAGTT
1 ATGTAAGTT
* *
12933307 GTGT-A-TA
1 ATGTAAGTT
*
12933314 ATGTTAGTT
1 ATGTAAGTT
*
12933323 ATGT-A-CT
1 ATGTAAGTT
12933330 ATGTAAGTT
1 ATGTAAGTT
*
12933339 ATGTGTA-TT
1 ATGT-AAGTT
12933348 ATGT-A-TT
1 ATGTAAGTT
*
12933355 ATGTATGTT
1 ATGTAAGTT
12933364 ATGTA
1 ATGTA
12933369 TAATCTTAAT
Statistics
Matches: 106, Mismatches: 26, Indels: 28
0.66 0.16 0.17
Matches are distributed among these distances:
7 28 0.26
8 10 0.09
9 67 0.63
10 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.46
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:12933289 original size:16 final size:16
Alignment explanation
Indices: 12933270--12933369 Score: 54
Period size: 16 Copynumber: 6.6 Consensus size: 16
12933260 AGTTATCAAA
12933270 GTTATGTATTATGTAT
1 GTTATGTATTATGTAT
* * *
12933286 GTTATTTAAGTTACGTAA
1 GTTATGT-A-TTATGTAT
* *
12933304 GTTGTGTATAATGT-T
1 GTTATGTATTATGTAT
* *
12933319 AGTTATGTACTATGTAA
1 -GTTATGTATTATGTAT
12933336 GTTATG-----TGTA-
1 GTTATGTATTATGTAT
12933346 -TTATGTATTATGTAT
1 GTTATGTATTATGTAT
12933361 GTTATGTAT
1 GTTATGTAT
12933370 AATCTTAATT
Statistics
Matches: 61, Mismatches: 12, Indels: 22
0.64 0.13 0.23
Matches are distributed among these distances:
9 5 0.08
11 4 0.07
14 4 0.07
16 35 0.57
17 2 0.03
18 11 0.18
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (16 bp):
GTTATGTATTATGTAT
Found at i:12933296 original size:25 final size:25
Alignment explanation
Indices: 12933242--12933367 Score: 75
Period size: 25 Copynumber: 5.0 Consensus size: 25
12933232 ATGTATTGTG
* * *
12933242 TAAGTTGTGTATAATGCTAGTTAT-C
1 TAAGTTATGTATTATG-TAGTTATGT
*
12933267 AAAGTTATGTATTATGTATGTTAT-T
1 TAAGTTATGTATTATGTA-GTTATGT
* * *
12933292 TAAGTTACGTAAGTTGTGTA-TAATGT
1 TAAGTTATGT-A-TTATGTAGTTATGT
*
12933318 T-AGTTATGTACTATGTAAGTTATGT
1 TAAGTTATGTATTATGT-AGTTATGT
12933343 GT-A-TTATGTATTATGTATGTTATGT
1 -TAAGTTATGTATTATGTA-GTTATGT
12933368 ATAATCTTAA
Statistics
Matches: 80, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
23 4 0.05
24 5 0.06
25 60 0.75
26 5 0.06
27 6 0.08
ACGTcount: A:0.29, C:0.03, G:0.20, T:0.48
Consensus pattern (25 bp):
TAAGTTATGTATTATGTAGTTATGT
Found at i:12933658 original size:18 final size:18
Alignment explanation
Indices: 12933635--12933723 Score: 101
Period size: 18 Copynumber: 4.8 Consensus size: 18
12933625 ATATATAAAT
*
12933635 TTTAAGTAATGTAATACA
1 TTTAAGTAATGTAATATA
12933653 TTTAAGTAATGTAAGTTATAAA
1 TTTAAGTAATGTAA--TAT--A
*
12933675 TTTTAGTAA-GTAATATA
1 TTTAAGTAATGTAATATA
12933692 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
*
12933710 TTTTAGTAA-GTAAT
1 TTTAAGTAATGTAAT
12933724 GTAATATATA
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:12933685 original size:17 final size:17
Alignment explanation
Indices: 12933663--12933723 Score: 86
Period size: 17 Copynumber: 3.5 Consensus size: 17
12933653 TTTAAGTAAT
* *
12933663 GTAAGTTATAAATTTTA
1 GTAAGTAATATATTTTA
*
12933680 GTAAGTAATATATTTAA
1 GTAAGTAATATATTTTA
12933697 GTAATGTAATATATTTTA
1 GTAA-GTAATATATTTTA
12933715 GTAAGTAAT
1 GTAAGTAAT
12933724 GTAATATATA
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:12933695 original size:39 final size:37
Alignment explanation
Indices: 12933627--12933723 Score: 135
Period size: 39 Copynumber: 2.6 Consensus size: 37
12933617 TTAAATATAT
12933627 ATATAAATTTTAAGTAATGTAATACATTTAAGTAATGTA
1 ATATAAATTTT-AGTAA-GTAATACATTTAAGTAATGTA
*
12933666 AGTTATAAATTTTAGTAAGTAATATATTTAAGTAATGTA
1 A--TATAAATTTTAGTAAGTAATACATTTAAGTAATGTA
12933705 ATAT--ATTTTAGTAAGTAAT
1 ATATAAATTTTAGTAAGTAAT
12933724 GTAATATATA
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
35 15 0.27
37 3 0.05
39 22 0.40
40 5 0.09
41 10 0.18
ACGTcount: A:0.44, C:0.01, G:0.11, T:0.43
Consensus pattern (37 bp):
ATATAAATTTTAGTAAGTAATACATTTAAGTAATGTA
Found at i:12933748 original size:105 final size:106
Alignment explanation
Indices: 12933620--12933832 Score: 281
Period size: 105 Copynumber: 2.0 Consensus size: 106
12933610 AAAAATTTTA
* *
12933620 AATATATATATAAATTTTAAGTAATGTAATACATTTAAGTAATGTAAGTT-A-TAAATTTTAGTA
1 AATATATATATAAACTTTAAGTAA-GTAATACATTTAAGTAATAT-AGTTAAGTAAATTTTAGTA
*
12933683 AGTAATATATTTAAGTAATGTAATATATTTTAGTAAGTAATGT
64 AGTAATATATTTAAGTAATGTAATATATTTCAGTAAGTAATGT
* ** *
12933726 AATATATACT-TAAACTTT-AGTAAGTCATGTATTTAAGTAATATATTTAAGTAAATTTTAGTAA
1 AATATATA-TATAAACTTTAAGTAAGTAATACATTTAAGTAATATAGTTAAGTAAATTTTAGTAA
* * *
12933789 GTAATGTATTTAAGTTATGTAATATATTTCGGTAAGTAATGT
65 GTAATATATTTAAGTAATGTAATATATTTCAGTAAGTAATGT
12933831 AA
1 AA
12933833 GTAATGTAAT
Statistics
Matches: 94, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
103 3 0.03
104 17 0.18
105 58 0.62
106 15 0.16
107 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.43
Consensus pattern (106 bp):
AATATATATATAAACTTTAAGTAAGTAATACATTTAAGTAATATAGTTAAGTAAATTTTAGTAAG
TAATATATTTAAGTAATGTAATATATTTCAGTAAGTAATGT
Found at i:12933808 original size:13 final size:13
Alignment explanation
Indices: 12933746--12933809 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
12933736 TAAACTTTAG
*
12933746 TAAGTCATGTATT
1 TAAGTAATGTATT
*
12933759 TAAGTAATATATT
1 TAAGTAATGTATT
12933772 TAAGTAAAT-T-TT
1 TAAGT-AATGTATT
12933784 AGTAAGTAATGTATT
1 --TAAGTAATGTATT
*
12933799 TAAGTTATGTA
1 TAAGTAATGTA
12933810 ATATATTTCG
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:12933861 original size:105 final size:104
Alignment explanation
Indices: 12933671--12933871 Score: 248
Period size: 105 Copynumber: 1.9 Consensus size: 104
12933661 ATGTAAGTTA
* *
12933671 TAAATTTTAGTAAGTAATATATTTAAGTAATGTAATATATTTTAGTAAGTAATGTAATATATACT
1 TAAATTTTAGTAAGTAATATATTTAAGTAATGTAATATATTTCAGTAAGTAATGTAATATATA-G
* * *
12933736 TAAACTTTAGTAAGTCATGTATTTAAGTAATATATTTAAG
65 TAAACTATAGAAAATCATGTATTTAAGTAATATATTTAAG
* * *
12933776 TAAATTTTAGTAAGTAATGTATTTAAGTTATGTAATATATTTCGGTAAGTAATGTAAGTA-AT-G
1 TAAATTTTAGTAAGTAATATATTTAAGTAATGTAATATATTTCAGTAAGTAATGTAA-TATATAG
12933839 TAATA-TATAGCGGAAAAT-ATGTATTTAAGTAAT
65 TAA-ACTATA---GAAAATCATGTATTTAAGTAAT
12933872 GTACGTTATA
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
103 6 0.07
104 1 0.01
105 70 0.84
106 6 0.07
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.42
Consensus pattern (104 bp):
TAAATTTTAGTAAGTAATATATTTAAGTAATGTAATATATTTCAGTAAGTAATGTAATATATAGT
AAACTATAGAAAATCATGTATTTAAGTAATATATTTAAG
Found at i:12935794 original size:338 final size:336
Alignment explanation
Indices: 12935120--12936262 Score: 1193
Period size: 338 Copynumber: 3.4 Consensus size: 336
12935110 AGTTTAAGAA
* * * *
12935120 ACATTTGCGGCGTTTTTTGCAAAAA-CGCCACTAAAAATTAAAGTTC-AAACCGAAAC-GACGCC
1 ACATTTGCGGCGTTTTCT-AAAAAAGCACCACTAAAAATTAAAGTTCTAATCCGAAACGGA-GCC
* * * * * *
12935182 GTTTAATTAAGCTTTAATGCACAGTTCTGGCATTTTCTGTAAAAACACCAGTAAAATTTAATTTG
64 GTTTTATTAAGCTTTAATGCACAGTTCTGGCGTTTTCTGTTAAAACGCCACTAAAAATTAATTTG
* ** * * *
12935247 CTTAAGCAAAACGGGGTCGTTTAGACAATATTTTAAGTCA-TTTTGCGGTGTTTCGTGCAAAAAC
129 CTTAAGCTAAACGAAGACGTTTAGACAATATTTTAAGTTACTTTTGCGGCGTTTCGTG-AAAAAC
* * * * * *
12935311 GCCACTATAAATTAAGAGAAACGGCGCCATTGGATTAATTTAGAGAAAATTCTAAGTTAAAAAAC
193 GCCAC-AAAAATTAAAAGAAACGGCGCCGTTGAATTAATATAGAGAAAATGCTAAGTTAAAAAAC
* * * * *** * *
12935376 -TAGTACAGAAATGACGTCATTGAGA-C-AAAATTTTAAGACAATTTTGCGGCAAATCCTGGACA
257 GT-GTACAGAAACGGCGTCGTT-A-ACCAAAAATTTTAAGACACTTTTGCGGCGTTTCTTGAACA
*
12935438 AACACCGCTATTGCTTGT
319 AACGCCGCTATTGCTTGT
* * *
12935456 ACATTCGCGGCGTTTTCT-AAAAAGCACCACTAAAATTTAAAGTTCTAATCCGAAACGGAGCCAT
1 ACATTTGCGGCGTTTTCTAAAAAAGCACCACTAAAAATTAAAGTTCTAATCCGAAACGGAGCCGT
* * * *
12935520 TTTATTAAGCTTTAATGCACATTTCTGGTGTTTTCTGCTAAAACGCCAGTAAAAATTAATTTGCT
66 TTTATTAAGCTTTAATGCACAGTTCTGGCGTTTTCTGTTAAAACGCCACTAAAAATTAATTTGCT
* * * *
12935585 TAAGCTAAACGAAGCCGTTTAGGCAATATTTTATGTTACTTTTTGCGGCGTTTTGTGTAAAAACG
131 TAAGCTAAACGAAGACGTTTAGACAATATTTTAAGTTAC-TTTTGCGGCGTTTCGTG-AAAAACG
*
12935650 CCACAAGAAATTAAAAGAAACGGCGCCGTTGAATTAATATAGAGAAAATGCTAAG-TATAAAAGC
194 CCACAA-AAATTAAAAGAAACGGCGCCGTTGAATTAATATAGAGAAAATGCTAAGTTA-AAAAAC
* * * *
12935714 GTGTACAGAGACGGCGTCGTTTACCAAAAATTTTAAGACACTTTTGCGACGTTTATTGAACAAAC
257 GTGTACAGAAACGGCGTCGTTAACCAAAAATTTTAAGACACTTTTGCGGCGTTTCTTGAACAAAC
*
12935779 GCCGCTATAGCTTGT
322 GCCGCTATTGCTTGT
* * * * * * *
12935794 ATATTTGCAGTG-TTTCTAAAGAAGCGCCAC-AAAGAATTAAGGTTCTAATCCGAAACGGCA-CT
1 ACATTTGCGGCGTTTTCTAAAAAAGCACCACTAAA-AATTAAAGTTCTAATCCGAAACGG-AGCC
* * *
12935856 GTTTTGTTAAGATTTAATGCACATTTCTGGCGTTTTCCT-TTAAAACGCCACTAAAAATTAATTT
64 GTTTTATTAAGCTTTAATGCACAGTTCTGGCGTTTT-CTGTTAAAACGCCACTAAAAATTAATTT
* * ** * * * * *
12935920 GCTTAAGTTAGACGTCGATGTTTAGCCAATATTTCAAGTCACTTTTGCGGCGTTTCCTGAACAAA
128 GCTTAAGCTAAACGAAGACGTTTAGACAATATTTTAAGTTACTTTTGCGGCGTTTCGTGAA-AAA
* * * *
12935985 CGCCACTAAAAATTAACATAAACGGCGCCGTTTAATTAATATAGAGAAAATGCTAAGTTAAAAAT
192 CGCCAC-AAAAATTAAAAGAAACGGCGCCGTTGAATTAATATAGAGAAAATGCTAAGTTAAAAAA
* * * *
12936050 TGTGGACAGAAACGGCGTCGTTCAACC-AAAATTTTAAGTCACTTTTGCGGCGTTTCTTGTACAA
256 CGTGTACAGAAACGGCGTCGTT-AACCAAAAATTTTAAGACACTTTTGCGGCGTTTCTTGAACAA
**
12936114 ACGCCGCTATTGCTTCA
320 ACGCCGCTATTGCTTGT
* * * *** * * *
12936131 ACAGTAGCGGCGTTTT-TAACAAAAACACCACTAATTGTTAAAGTTCTAATCGGAAACTGCGCCG
1 ACATTTGCGGCGTTTTCTAA-AAAAGCACCACTAAAAATTAAAGTTCTAATCCGAAACGGAGCCG
* * * *
12936195 TTTTATTAAGCTTCAATGCACAGTTCTGGCGTTTT-TTTTAAAACGCCACTAAAAATTATTTTAC
65 TTTTATTAAGCTTTAATGCACAGTTCTGGCGTTTTCTGTTAAAACGCCACTAAAAATTAATTTGC
12936259 TTAA
130 TTAA
12936263 ACCAAACGGT
Statistics
Matches: 674, Mismatches: 110, Indels: 45
0.81 0.13 0.05
Matches are distributed among these distances:
334 5 0.01
335 19 0.03
336 121 0.18
337 192 0.28
338 331 0.49
339 6 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (336 bp):
ACATTTGCGGCGTTTTCTAAAAAAGCACCACTAAAAATTAAAGTTCTAATCCGAAACGGAGCCGT
TTTATTAAGCTTTAATGCACAGTTCTGGCGTTTTCTGTTAAAACGCCACTAAAAATTAATTTGCT
TAAGCTAAACGAAGACGTTTAGACAATATTTTAAGTTACTTTTGCGGCGTTTCGTGAAAAACGCC
ACAAAAATTAAAAGAAACGGCGCCGTTGAATTAATATAGAGAAAATGCTAAGTTAAAAAACGTGT
ACAGAAACGGCGTCGTTAACCAAAAATTTTAAGACACTTTTGCGGCGTTTCTTGAACAAACGCCG
CTATTGCTTGT
Found at i:12937506 original size:26 final size:26
Alignment explanation
Indices: 12937461--12937517 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
12937451 TAAAAATAGC
*
12937461 ATTTC-AATTTTTCCATGTGTT-TTT
1 ATTTCAAATTTTTCCACGTGTTATTT
*
12937485 ATTTCAAATTCTTTCTACGTGTTATTT
1 ATTTCAAATT-TTTCCACGTGTTATTT
*
12937512 TTTTCA
1 ATTTCA
12937518 GAAGATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 5 0.19
25 4 0.15
26 10 0.37
27 8 0.30
ACGTcount: A:0.19, C:0.14, G:0.07, T:0.60
Consensus pattern (26 bp):
ATTTCAAATTTTTCCACGTGTTATTT
Found at i:12937712 original size:41 final size:41
Alignment explanation
Indices: 12937626--12937717 Score: 96
Period size: 41 Copynumber: 2.2 Consensus size: 41
12937616 ATAAACGCTG
* * * *
12937626 CTAAAACCACGAGCATTAGCGGCGCAAAACTAAAAACGCCG
1 CTAAAACCCCGAACATTAGCGGCGCAAAACTAAAAACACCA
** *
12937667 CTAAAACCCCGAACATTAGCGGCG-ATATTCTGAAAACACCA
1 CTAAAACCCCGAACATTAGCGGCGCA-AAACTAAAAACACCA
*
12937708 CTAAAGCCCC
1 CTAAAACCCC
12937718 CAAAAGGTCA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 1 0.02
41 41 0.98
ACGTcount: A:0.39, C:0.32, G:0.16, T:0.13
Consensus pattern (41 bp):
CTAAAACCCCGAACATTAGCGGCGCAAAACTAAAAACACCA
Found at i:12937864 original size:89 final size:89
Alignment explanation
Indices: 12937713--12937975 Score: 401
Period size: 89 Copynumber: 3.0 Consensus size: 89
12937703 CACCACTAAA
* * *
12937713 GCCCCCAAAAGGTCAACAAACTACGTCGTTGGGTTTGGTTTTTTTGCGGCGTTTTCCTCAAAAAC
1 GCCCCCAAAAGGTCAACAAACGACGTCGTTGGGTTTGGTTTTTTTGCGGTGTTTTCCCCAAAAAC
12937778 GCCGCTAATGTTTTCTTTAGTGGC
66 GCCGCTAATGTTTTCTTTAGTGGC
* *
12937802 GCCCCCAAAAGGTCAACAAACGACGTCATTGGGTTTGGTTTTTTTGCGGTGTTTTCCCCAAAAAT
1 GCCCCCAAAAGGTCAACAAACGACGTCGTTGGGTTTGGTTTTTTTGCGGTGTTTTCCCCAAAAAC
*
12937867 GCCACTAATGTTTTCTTTAGTGGC
66 GCCGCTAATGTTTTCTTTAGTGGC
* *
12937891 GCCCCCAAAA-G----CAAACGACGTCGTTGGGTTTGGTTTTTTTACGGTGTTTTCTCCAAAAAC
1 GCCCCCAAAAGGTCAACAAACGACGTCGTTGGGTTTGGTTTTTTTGCGGTGTTTTCCCCAAAAAC
* *
12937951 GCCGCTAGTGTTTTCTTTTGTGGC
66 GCCGCTAATGTTTTCTTTAGTGGC
12937975 G
1 G
12937976 TTTTTTTATA
Statistics
Matches: 161, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
84 67 0.42
88 1 0.01
89 93 0.58
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (89 bp):
GCCCCCAAAAGGTCAACAAACGACGTCGTTGGGTTTGGTTTTTTTGCGGTGTTTTCCCCAAAAAC
GCCGCTAATGTTTTCTTTAGTGGC
Found at i:12939730 original size:16 final size:16
Alignment explanation
Indices: 12939709--12939757 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
12939699 TGATTTTTTA
12939709 ATTAATAAAATATTAT
1 ATTAATAAAATATTAT
*
12939725 ATTAATATAAT-TTA-
1 ATTAATAAAATATTAT
12939739 ATT-ATAAAAATATTGAT
1 ATTAAT-AAAATATT-AT
12939756 AT
1 AT
12939758 AAAATGGAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
13 2 0.07
14 7 0.26
15 5 0.19
16 11 0.41
17 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
ATTAATAAAATATTAT
Found at i:12947002 original size:17 final size:17
Alignment explanation
Indices: 12946974--12947013 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
12946964 AGGATAGTGA
*
12946974 GGAAGATGAGAAATAAAT
1 GGAAGATGAGAAA-AAAG
12946992 GGAAG-TGAGAAAAAAG
1 GGAAGATGAGAAAAAAG
12947008 GGAAGA
1 GGAAGA
12947014 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:12948960 original size:41 final size:41
Alignment explanation
Indices: 12948901--12949001 Score: 148
Period size: 41 Copynumber: 2.5 Consensus size: 41
12948891 CGAACCCAAT
* * *
12948901 ATGAAACGCCTAAACTTGTGGGATTGATTAAGGTCCTTGTA
1 ATGAAACGCCTAAGCTTGTGAGATTGATTAAGGTCATTGTA
** *
12948942 ATGAAACATCTAAGCTTGTGAGATTGATTAGGGTCATTGTA
1 ATGAAACGCCTAAGCTTGTGAGATTGATTAAGGTCATTGTA
12948983 ATGAAACGCCTAAGCTTGT
1 ATGAAACGCCTAAGCTTGT
12949002 TAACATTCTC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (41 bp):
ATGAAACGCCTAAGCTTGTGAGATTGATTAAGGTCATTGTA
Found at i:12950728 original size:17 final size:18
Alignment explanation
Indices: 12950694--12950729 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
12950684 TTTGTTTTTT
12950694 TATGAATATTTTTCTATA
1 TATGAATATTTTTCTATA
12950712 TATGAATATTTTT-TATA
1 TATGAATATTTTTCTATA
12950729 T
1 T
12950730 TTATACTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (18 bp):
TATGAATATTTTTCTATA
Found at i:12950978 original size:21 final size:24
Alignment explanation
Indices: 12950954--12951014 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
12950944 TTATGTACCT
12950954 TTTA-TTCTTT-ATTT-TTTATTA
1 TTTAGTTCTTTCATTTGTTTATTA
12950975 TTTAGTTCTTTCATTTGTTTATTAA
1 TTTAGTTCTTTCATTTGTTTATT-A
12951000 TTT-GTGT-TTTCATTT
1 TTTAGT-TCTTTCATTT
12951015 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:12951136 original size:15 final size:15
Alignment explanation
Indices: 12951116--12951150 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
12951106 TTTCTATGCC
12951116 ATTGTTATATTTATT
1 ATTGTTATATTTATT
*
12951131 ATTGTTGTATTTATT
1 ATTGTTATATTTATT
12951146 ATTGT
1 ATTGT
12951151 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:12962794 original size:44 final size:43
Alignment explanation
Indices: 12962663--12963724 Score: 478
Period size: 44 Copynumber: 24.6 Consensus size: 43
12962653 CCAGTAATCC
* * * * *
12962663 TATCTCCCTGAGGTTGCAGTGGAGCGGATTAA-AACCTTAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TCT
* * * * * * *
12962707 TATCTCTCTGAAGTTGCAG-AGAGCAG-GT-CGCATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCT
*
12962747 TATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCT
* * *
12962791 TATC-CTCCTGAAATTGCAGT-GAGGCAGACTGAAGATGGCAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCAAGTCT
* * * *
12962836 TATCTCCCTGAAGTTGCGGTGGAGCAGA-TTA-AAGCCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTCT
* * * * *
12962880 TATCTCCCTGAGGTTGCAGTGGAGCGGATTAA-AACCTTAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TCT
* * * * * * *
12962924 CATCT--CTGAAGTTGCAG-AGAACAGA-TCA-CATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCT
12962962 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCT
* *
12963006 TATC-CTCCTGAAGTTGCAGT-GAGGCAGGCTAA-ATATGGCAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAGA-A--GCAAGTCT
* * * * * *
12963051 GATCTCCTTGAAGTTGCAGTGGAGCAGA-TTAGAACCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A-AGTCT
* ** * * *
12963095 TATC-CCACTGAGGTTGCAGTGGAGTGGATTAA-AACCTTAGATCT
1 TATCTCC-CTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TCT
* * * * * * *
12963139 TATCTCTCTGAAGTTGTAG-AGAGCAGA-T-CGCATCCAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCT
*
12963179 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAGCAAGTCT
* *
12963223 TATC-CTCCTGAAGTTGCAGT-GAGGCAGACTAAAGATGGCAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCAAGTCT
* * * ** * *
12963268 TATCTCCCTGAAATTACAGTGGAGCAGATTAATGCTG-ATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAA-GAAGCA-AGTCT
* * *
12963312 TATCTCCCTGAGGTTGCAGTGGAGC-GTATTAA-AATCACAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAG-ACTAAGAAGCA-AGTCT
* * * * * *
12963355 TATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCT
**
12963395 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATTAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCT
*
12963439 TATC-CTCCTGAAGTTGCAGT-GAGACAGACTGAAGATGGCGAA-TCT
1 TATCTC-CCTGAAGTTGCAGTGGAG-CAGACT-AAGA-AGC-AAGTCT
* * * *
12963484 TATCTCCCTGAAGTTGCAGTGGAGTAGA-TTA-AAGCCAATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTCT
* * * *
12963528 TATCTCCCTGAAGTTGCAGTTGAGCGGATTAA-AACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA-AG-TCT
* * * * * * **
12963572 TATCTCTCTGAAGTTGCAGTAGAGTAGA-TCA-CATCGGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCT
* * * * *
12963613 TATCTCCTTGAAGTTACAGTAGAGTATACTCAAGAAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-AAGCAAGTCT
* * * * * *
12963658 TATC-CCCTTGAAATTGCAGTGGAACAGACTAAATAAACAAATCC
1 TATCTCCC-TGAAGTTGCAGTGGAGCAGACT-AAGAAGCAAGTCT
* *
12963702 TGTCTCCCT-AAGTTGTAGTGGAG
1 TATCTCCCTGAAGTTGCAGTGGAG
12963725 TAGATTAGAG
Statistics
Matches: 779, Mismatches: 165, Indels: 149
0.71 0.15 0.14
Matches are distributed among these distances:
38 7 0.01
39 3 0.00
40 79 0.10
41 69 0.09
42 36 0.05
43 77 0.10
44 335 0.43
45 158 0.20
46 15 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCT
Found at i:12963247 original size:217 final size:217
Alignment explanation
Indices: 12962657--12963731 Score: 1547
Period size: 217 Copynumber: 5.0 Consensus size: 217
12962647 CGGTGGCCAG
12962657 TAATCCTATCTCCCTGAGGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTT
1 TAATCCTATCTCCCTGAGGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTT
* *
12962722 GCAGAGAGCAGGTCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAA
66 GCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAA
* *
12962787 GTCTTATCCTCCTGAAATTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTG
131 GTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTCCCTGAAGTTG
*
12962852 CGGTGGAGCAGATTAAAGCCGA
196 CAGTGGAGCAGATTAAAGCCGA
*
12962874 TAATCCTATCTCCCTGAGGTTGCAGTGGAGCGGATTAAAACCTTAGATCTCA--TCTCTGAAGTT
1 TAATCCTATCTCCCTGAGGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTT
* *
12962937 GCAGAGAACAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAA
66 GCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAA
* * * *
12963002 GTCTTATCCTCCTGAAGTTGCAGTGAGGCAGGCTAAATATGGCAAATCTGATCTCCTTGAAGTTG
131 GTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTCCCTGAAGTTG
12963067 CAGTGGAGCAGATTAGAA-CCGA
196 CAGTGGAGCAGATTA-AAGCCGA
*
12963089 TAATCCTATC-CCACTGAGGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGT
1 TAATCCTATCTCC-CTGAGGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGT
* * *
12963153 TGTAGAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
65 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
*
12963218 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTCCCTGAAATT
130 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTCCCTGAAGTT
* * *
12963283 ACAGTGGAGCAGATTAATGCTGA
195 GCAGTGGAGCAGATTAAAGCCGA
* * **
12963306 TAATCCTATCTCCCTGAGGTTGCAGTGGAGCGTATTAAAATCACAG-TCTTATCTCTCTGAAGTT
1 TAATCCTATCTCCCTGAGGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTT
**
12963370 GCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATTAA
66 GCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAA
* * *
12963435 GTCTTATCCTCCTGAAGTTGCAGTGAGACAGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTG
131 GTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTCCCTGAAGTTG
* *
12963500 CAGTGGAGTAGATTAAAGCCAA
196 CAGTGGAGCAGATTAAAGCCGA
* * **
12963522 TAATCCTATCTCCCTGAAGTTGCAGTTGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
1 TAATCCTATCTCCCTGAGGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTT
* * ** * * * * * *
12963587 GCAGTAGAGTAGATCACATCGGGTCTTATCTCCTTGAAGTTACAGTAGAGTATACTCAAGAAAGC
66 GCAG-AGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGC
* * * ** * *
12963652 AAGTCTTATCC-CCTTGAAATTGCAGTG-GAACAGACTAAATA-AACAAATCCTGTCTCCCT-AA
129 AAGTCTTATCCTCC-TGAAGTTGCAGTGAG-GCAGACTAAAGATGGCAAATCTTATCTCCCTGAA
* *
12963713 GTTGTAGTGGAGTAGATTA
192 GTTGCAGTGGAGCAGATTA
12963732 GAGTGATGGA
Statistics
Matches: 776, Mismatches: 71, Indels: 22
0.89 0.08 0.03
Matches are distributed among these distances:
214 2 0.00
215 196 0.25
216 201 0.26
217 279 0.36
218 60 0.08
219 38 0.05
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (217 bp):
TAATCCTATCTCCCTGAGGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTT
GCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAA
GTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTCCCTGAAGTTG
CAGTGGAGCAGATTAAAGCCGA
Found at i:12965014 original size:24 final size:24
Alignment explanation
Indices: 12964978--12965033 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
12964968 TCCGCGTGTT
* *
12964978 TTTTAGCGGAGGGGAAAATTGCGC
1 TTTTAGCCGAGGGGAAAATTACGC
*
12965002 TTTTAGCCTAGGGGAAAATTACGC
1 TTTTAGCCGAGGGGAAAATTACGC
12965026 TTTTAGCC
1 TTTTAGCC
12965034 CCTCCGCCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (24 bp):
TTTTAGCCGAGGGGAAAATTACGC
Found at i:12965114 original size:21 final size:21
Alignment explanation
Indices: 12965069--12965114 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
12965059 TTAAGTTTTT
*
12965069 ATTTTATTTTTTAGATTTACC
1 ATTTTATTTTTTAGATTTACA
12965090 ATTTTATTTATTTTA-ATTT-CA
1 ATTTTA-TT-TTTTAGATTTACA
12965111 ATTT
1 ATTT
12965115 GGTCTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 11 0.50
22 6 0.27
23 5 0.23
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (21 bp):
ATTTTATTTTTTAGATTTACA
Found at i:12965390 original size:17 final size:18
Alignment explanation
Indices: 12965356--12965391 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
12965346 TTTGTTTTTT
12965356 TATGAATATTTTTCTATA
1 TATGAATATTTTTCTATA
*
12965374 TATGAAT-TTTTTTTATA
1 TATGAATATTTTTCTATA
12965391 T
1 T
12965392 TTATACGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (18 bp):
TATGAATATTTTTCTATA
Found at i:12966895 original size:303 final size:302
Alignment explanation
Indices: 12966349--12966957 Score: 1173
Period size: 303 Copynumber: 2.0 Consensus size: 302
12966339 TGGTACCAAA
*
12966349 TTTTGGGCATTACGGGGGTGCTAATCCTTCTTTGTACGTAACTGACTCCCGAACCCGTTTTTTTT
1 TTTTGGGCATTACGGGGGTGCTAATCCTTCCTTGTACGTAACTGACTCCCGAACCCGTTTTTTTT
12966414 CTAAAACTCGTAGACCAAAGCTATTTTTTAGGTGATCCAATCACACATCAATAAAAGATTGGTGG
66 CTAAAACTCGTAGACCAAAGCTATTTTTTAGGTGATCCAATCACACATCAATAAAAGATTGGTGG
12966479 CGACTCCCAATTTTTATCGACAACTAATTTTTTTCCAAAAATAAAAATGGTTTCGACATACATAA
131 CGACTCCCAATTTTTATCGACAACTAATTTTTTTCCAAAAATAAAAATGGTTTCGACATACATAA
12966544 AAAGGGTAAAGTACTTTAATAAGTGCAAGTCCTCCAATGGATTTATTTGTAAAATTTAATAGTTG
196 AAAGGGTAAAGTACTTTAATAAGTGCAAGTCCTCCAATGGATTTATTTGTAAAATTTAATAGTTG
12966609 TGTTAATTTTATAAACTTTGTTATCTTTGATTGAATATCATG
261 TGTTAATTTTATAAACTTTGTTATCTTTGATTGAATATCATG
* *
12966651 TTTTGGGCGTTACGGGGGTGCTAATCCTTCCTTGTACGTAACTGACTCCCTAACCCGTTTTTTTT
1 TTTTGGGCATTACGGGGGTGCTAATCCTTCCTTGTACGTAACTGACTCCCGAACCCG-TTTTTTT
12966716 TCTAAAACTCGTAGACCAAAGCTATTTTTTAGGTGATCCAATCACACATCAATAAAAGATTGGTG
65 TCTAAAACTCGTAGACCAAAGCTATTTTTTAGGTGATCCAATCACACATCAATAAAAGATTGGTG
*
12966781 GCGACTCCTAATTTTTATCGACAACTAATTTTTTTCCAAAAATAAAAATGGTTTCGACATACATA
130 GCGACTCCCAATTTTTATCGACAACTAATTTTTTTCCAAAAATAAAAATGGTTTCGACATACATA
12966846 AAAAGGGTAAAGTACTTTAATAAGTGCAAGTCCTCCAATGGATTTATTTGTAAAATTTAATAGTT
195 AAAAGGGTAAAGTACTTTAATAAGTGCAAGTCCTCCAATGGATTTATTTGTAAAATTTAATAGTT
12966911 GTGTTAATTTTATAAACTTTGTTATCTTTGATTGAATATCATG
260 GTGTTAATTTTATAAACTTTGTTATCTTTGATTGAATATCATG
12966954 TTTT
1 TTTT
12966958 AATGAGCTCC
Statistics
Matches: 302, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
302 54 0.18
303 248 0.82
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (302 bp):
TTTTGGGCATTACGGGGGTGCTAATCCTTCCTTGTACGTAACTGACTCCCGAACCCGTTTTTTTT
CTAAAACTCGTAGACCAAAGCTATTTTTTAGGTGATCCAATCACACATCAATAAAAGATTGGTGG
CGACTCCCAATTTTTATCGACAACTAATTTTTTTCCAAAAATAAAAATGGTTTCGACATACATAA
AAAGGGTAAAGTACTTTAATAAGTGCAAGTCCTCCAATGGATTTATTTGTAAAATTTAATAGTTG
TGTTAATTTTATAAACTTTGTTATCTTTGATTGAATATCATG
Found at i:12969079 original size:21 final size:21
Alignment explanation
Indices: 12969053--12969100 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
12969043 AAAAGGGTCT
12969053 AAATTATGAGTTTTTAAAAGG
1 AAATTATGAGTTTTTAAAAGG
12969074 AAATTATGAGTTTTTAAAAGG
1 AAATTATGAGTTTTTAAAAGG
*
12969095 CAATTA
1 AAATTA
12969101 AACTAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.38
Consensus pattern (21 bp):
AAATTATGAGTTTTTAAAAGG
Found at i:12970715 original size:39 final size:39
Alignment explanation
Indices: 12970672--12970775 Score: 127
Period size: 39 Copynumber: 2.7 Consensus size: 39
12970662 ATAAATATGT
*
12970672 TTTGAGTATTGTGATATATGCTTAAATGTTATGTGATTA
1 TTTGAGTATTGTGATATATGCTTAAATGTTAGGTGATTA
* **
12970711 TTTGAGTATTGTGATATATACTTGTATGTTAGGTGATTA
1 TTTGAGTATTGTGATATATGCTTAAATGTTAGGTGATTA
* * * **
12970750 TATGTGTAATACGATATATGCTTAAA
1 TTTGAGTATTGTGATATATGCTTAAA
12970776 AGTGAATATG
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (39 bp):
TTTGAGTATTGTGATATATGCTTAAATGTTAGGTGATTA
Found at i:12975706 original size:9 final size:9
Alignment explanation
Indices: 12975692--12975717 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
12975682 TATTCGATCT
12975692 TTATTATTG
1 TTATTATTG
12975701 TTATTATTG
1 TTATTATTG
12975710 TTATTATT
1 TTATTATT
12975718 TAAAAGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (9 bp):
TTATTATTG
Found at i:12976466 original size:10 final size:10
Alignment explanation
Indices: 12976431--12976466 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
12976421 AATAGACATG
12976431 AAAATAAATA
1 AAAATAAATA
*
12976441 AAAACGAAATA
1 AAAA-TAAATA
12976452 AAAATAAATA
1 AAAATAAATA
12976462 AAAAT
1 AAAAT
12976467 TATACAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (10 bp):
AAAATAAATA
Found at i:12977636 original size:3 final size:3
Alignment explanation
Indices: 12977628--12977675 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
12977618 TAAAAAACTG
* * * *
12977628 ATA ATA ATA GTA TTTA ATA ATA GTA ATA GTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12977674 AT
1 AT
12977676 TTAGACATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
3 35 0.95
4 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:12982238 original size:29 final size:29
Alignment explanation
Indices: 12982196--12982251 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
12982186 GGTCGAAAAA
12982196 AATGAATCTCTTGAACAATCAGAGTTAAC
1 AATGAATCTCTTGAACAATCAGAGTTAAC
12982225 AATGAATCTCTTGAACAATCAGAGTTA
1 AATGAATCTCTTGAACAATCAGAGTTA
12982252 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:0.16, G:0.14, T:0.29
Consensus pattern (29 bp):
AATGAATCTCTTGAACAATCAGAGTTAAC
Found at i:12983241 original size:21 final size:21
Alignment explanation
Indices: 12983202--12983241 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
12983192 CATACGAATT
*
12983202 TTTTCTTGGGCTTACTTTGAA
1 TTTTCTTGGGCTTAATTTGAA
12983223 TTTT-TTGGGCTTAGATTTG
1 TTTTCTTGGGCTTA-ATTTG
12983242 TGATTGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.12, C:0.10, G:0.23, T:0.55
Consensus pattern (21 bp):
TTTTCTTGGGCTTAATTTGAA
Found at i:12983518 original size:5 final size:5
Alignment explanation
Indices: 12983510--12983548 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
12983500 TATTGTTCAT
12983510 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATT
12983549 GAATATTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:12985928 original size:12 final size:12
Alignment explanation
Indices: 12985911--12985951 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
12985901 TGAGGGTAGG
12985911 ATCTGATTATGT
1 ATCTGATTATGT
*
12985923 ATCTGAATATGT
1 ATCTGATTATGT
* *
12985935 ATTTGATTATGC
1 ATCTGATTATGT
12985947 ATCTG
1 ATCTG
12985952 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:12986675 original size:17 final size:18
Alignment explanation
Indices: 12986617--12986677 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 18
12986607 ACCCTCTTAC
* *
12986617 TATATTATATAATGCTATA
1 TATATTATATAGT-ATATA
12986636 TCATATTATATAGTATATAA
1 T-ATATTATATAGTATAT-A
*
12986656 TATATTA-ATAGTTTATA
1 TATATTATATAGTATATA
12986673 TATAT
1 TATAT
12986678 ACATCAATAA
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:12989567 original size:17 final size:17
Alignment explanation
Indices: 12989545--12989579 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
12989535 TCCTTATGTA
12989545 TATTTGTTTCAT-TTATT
1 TATTTGTTT-ATATTATT
12989562 TATTTGTTTATATTATT
1 TATTTGTTTATATTATT
12989579 T
1 T
12989580 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:12990207 original size:98 final size:98
Alignment explanation
Indices: 12990034--12990228 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
12990024 TACAATAAAA
*
12990034 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTC
1 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
* *
12990099 CTCTAGAATCCCAAACTCGGAATATTTCCTTTT
66 CTCTAAAATCCCAAACTCGGAAGATTTCCTTTT
12990132 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
1 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
*
12990197 CTTTAAAATCCCAAACTCGGAAGATTTCCTTT
66 CTCTAAAATCCCAAACTCGGAAGATTTCCTTT
12990229 ATTATTTAAA
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
CTCTAAAATCCCAAACTCGGAAGATTTCCTTTT
Found at i:12991339 original size:22 final size:21
Alignment explanation
Indices: 12991304--12991406 Score: 74
Period size: 19 Copynumber: 5.1 Consensus size: 21
12991294 AAAGGGTATC
* *
12991304 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
12991325 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
12991348 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
12991367 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
12991386 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
12991405 TA
1 TA
12991407 TATATTATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
19 43 0.61
21 3 0.04
22 15 0.21
23 10 0.14
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:12991347 original size:23 final size:22
Alignment explanation
Indices: 12991304--12991361 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
12991294 AAAGGGTATC
* *
12991304 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
12991325 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
12991348 TGCATATCATATCT
1 TACAAATCATATCT
12991362 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:12991364 original size:19 final size:19
Alignment explanation
Indices: 12991340--12991431 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
12991330 AATCATATCT
12991340 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
12991359 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
12991378 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
12991397 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
12991416 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
12991432 CCTGAAGATT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 63 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:12991387 original size:38 final size:38
Alignment explanation
Indices: 12991340--12991431 Score: 175
Period size: 38 Copynumber: 2.4 Consensus size: 38
12991330 AATCATATCT
12991340 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
12991378 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
12991416 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
12991432 CCTGAAGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:12992080 original size:132 final size:132
Alignment explanation
Indices: 12991852--12992487 Score: 1044
Period size: 132 Copynumber: 4.8 Consensus size: 132
12991842 TAGGACTTAC
* * *
12991852 AATCTTCAACCTATTCCACTGCTGACCAGGG-AGATATG-ATTACTGGCTTCAATGTACTCCACT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAG-TA-GAATTACTGGCTTCAATGTACTCCACT
* * * *
12991915 GTAACCACAGGGGGGTAAAATCCACCATTTTCGATCTGCTCCAGTACTGCTTAGGGAGATAAGAT
64 GTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
12991980 CTGA
129 CTGA
12991984 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * *
12992049 AACCACAAGGAGGTAAAATCCGCCATATTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
12992114 GA
131 GA
* *
12992116 AATCTTCAATCTATTCCACTGTTGTCCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
12992181 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGAATAAGA-C
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAG-ATAAGATC
12992245 TGA
130 TGA
12992248 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * * *
12992313 AACTACAGGGATGTAAAATCCGCCATCTTTGATATGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
12992378 GA
131 GA
* * *
12992380 AATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCTACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
*
12992445 AACCATAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
12992488 GTCAATGCAG
Statistics
Matches: 473, Mismatches: 27, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
131 7 0.01
132 458 0.97
133 8 0.02
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
GA
Found at i:12998648 original size:32 final size:32
Alignment explanation
Indices: 12998535--12998648 Score: 94
Period size: 32 Copynumber: 3.6 Consensus size: 32
12998525 GGACCTAGAA
* *
12998535 AATATAAAAAT-ATGATATTTGAA-ATAATTT
1 AATATAAAAATAATTATATTTAAATATAATTT
* *
12998565 CATAT-AAAATATTTA-ATTTCAAAATATAATTTT
1 AATATAAAAATAATTATATTT--AAATATAA-TTT
* ** *
12998598 AA-ATAAAACTAAAAATATTTTAATATAATTT
1 AATATAAAAATAATTATATTTAAATATAATTT
12998629 AATATAAAAATAATTATATT
1 AATATAAAAATAATTATATT
12998649 AAACATATTA
Statistics
Matches: 63, Mismatches: 13, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
29 9 0.14
30 6 0.10
31 7 0.11
32 27 0.43
33 10 0.16
34 4 0.06
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (32 bp):
AATATAAAAATAATTATATTTAAATATAATTT
Found at i:12998707 original size:26 final size:26
Alignment explanation
Indices: 12998678--12998765 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 26
12998668 ATATTATTTT
12998678 TATTAAATTATATTTAATAATAATTA
1 TATTAAATTATATTTAATAATAATTA
* * * *
12998704 TATTAAAATATGATTAAATTATTTATTA
1 TATTAAATTAT-ATTTAA-TAATAATTA
* **
12998732 TTATTAAATTATTTTTAATAATAATCC
1 -TATTAAATTATATTTAATAATAATTA
12998759 TATTAAA
1 TATTAAA
12998766 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:12998743 original size:55 final size:58
Alignment explanation
Indices: 12998637--12998767 Score: 187
Period size: 55 Copynumber: 2.3 Consensus size: 58
12998627 TTAATATAAA
* *
12998637 AATAATTATATTAAACATATTATTAAATTATATATTATTTTTATTAAATTATATTTAAT
1 AATAATTATATTAAA-ATATGATTAAATTATATATTATTATTATTAAATTATATTTAAT
*
12998696 AATAATTATATTAAAATATGATTAAA-T-TAT-TTATTATTATTAAATTATTTTTAAT
1 AATAATTATATTAAAATATGATTAAATTATATATTATTATTATTAAATTATATTTAAT
**
12998751 AATAATCCTATTAAAAT
1 AATAATTATATTAAAAT
12998768 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:13000830 original size:22 final size:22
Alignment explanation
Indices: 13000800--13000841 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13000790 AAAATCTACT
* *
13000800 TTTTTTTTTGTTGTTGTTTTAA
1 TTTTATTTTCTTGTTGTTTTAA
13000822 TTTTATTTTCTTGTTGTTTT
1 TTTTATTTTCTTGTTGTTTT
13000842 CTCCCTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.02, G:0.12, T:0.79
Consensus pattern (22 bp):
TTTTATTTTCTTGTTGTTTTAA
Found at i:13000957 original size:30 final size:30
Alignment explanation
Indices: 13000923--13000987 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
13000913 ACTTATTTTA
13000923 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
13000953 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
13000983 TTGTT
1 TTGTT
13000988 TGTTAAGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:13001103 original size:18 final size:18
Alignment explanation
Indices: 13001068--13001105 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
13001058 GAAATATTTA
*
13001068 TTTTGATGTTTTTAATAT
1 TTTTGATGTTTATAATAT
13001086 TTTTGATGTATTAT-ATAT
1 TTTTGATGT-TTATAATAT
13001104 TT
1 TT
13001106 AAAATTATAT
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:13002889 original size:18 final size:18
Alignment explanation
Indices: 13002857--13002907 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
13002847 ATACCCATTT
*
13002857 CTCTCCATC-TTTCTTTC
1 CTCTCTATCTTTTCTTTC
13002874 CTCTCTATCTTTTCTTTC
1 CTCTCTATCTTTTCTTTC
*
13002892 CTCTCTTATCTCTTCT
1 CTCTC-TATCTTTTCT
13002908 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:13010831 original size:51 final size:51
Alignment explanation
Indices: 13010754--13010864 Score: 186
Period size: 51 Copynumber: 2.2 Consensus size: 51
13010744 ACATGGATCA
* *
13010754 CACTTATCACTTGTCACTGATAAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTGTCAATTGTCACTGATAAGATAAGTGTAGCTAAAGCTACCACTTAT
* *
13010805 CACTTGTCAATTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTGTCAATTGTCACTGATAAGATAAGTGTAGCTAAAGCTACCACTTAT
13010856 CACTTGTCA
1 CACTTGTCA
13010865 CTGATCAGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (51 bp):
CACTTGTCAATTGTCACTGATAAGATAAGTGTAGCTAAAGCTACCACTTAT
Found at i:13012235 original size:12 final size:12
Alignment explanation
Indices: 13012218--13012251 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
13012208 AACACTCCAT
13012218 AAATATTTATAA
1 AAATATTTATAA
13012230 AAATATTTATAA
1 AAATATTTATAA
13012242 AAATATTTAT
1 AAATATTTAT
13012252 GGCTCGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AAATATTTATAA
Found at i:13019909 original size:3 final size:3
Alignment explanation
Indices: 13019901--13019929 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13019891 AGAGTATGAA
13019901 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13019930 GTAGTAGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13023539 original size:61 final size:61
Alignment explanation
Indices: 13023463--13023587 Score: 171
Period size: 62 Copynumber: 2.0 Consensus size: 61
13023453 CTACAGAGAG
* * * *
13023463 CTTTTTCTTTGTGCAAAGAATCTTACTGTTG-TTTTTTTGTCTTTGTCTTGCAGGGAATTT
1 CTTTTTCTTTGTGCAAAGAATCTCACTGTTGATTCTTCTGTCCTTGTCTTGCAGGGAATTT
* * *
13023523 CTTTTTCCTTTGTGCAAAGAATGTCATTGTTGATTCTTCTGTCCTTGTCTTGTAGGGAATTT
1 CTTTTT-CTTTGTGCAAAGAATCTCACTGTTGATTCTTCTGTCCTTGTCTTGCAGGGAATTT
13023585 CTT
1 CTT
13023588 CATCTTTTGA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 6 0.11
61 22 0.39
62 28 0.50
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.51
Consensus pattern (61 bp):
CTTTTTCTTTGTGCAAAGAATCTCACTGTTGATTCTTCTGTCCTTGTCTTGCAGGGAATTT
Found at i:13027917 original size:53 final size:53
Alignment explanation
Indices: 13027807--13027983 Score: 164
Period size: 53 Copynumber: 3.3 Consensus size: 53
13027797 TAACTAGTGT
* * * ** *
13027807 GTTATGACATCATATGGGTAAAAAAACCATGTCATGTAAGACTGTAACTAT-TAG
1 GTTATGGCATCATATGGGT-AAAACACCATATCATGTAAGACCATAAC-ATGTGG
* * *
13027861 GTTATGGCATGATATGGGTAGAACACCATATCGTGTAAGACCATAACATGTGG
1 GTTATGGCATCATATGGGTAAAACACCATATCATGTAAGACCATAACATGTGG
* * *
13027914 GTTAGGGCATTATATGGGAAAAAGC-CCATATCATGTAAGA-CAGTAAC-TGGTGG
1 GTTATGGCATCATATGGGTAAAA-CACCATATCATGTAAGACCA-TAACAT-GTGG
*
13027967 GTTATGGAATCATATGG
1 GTTATGGCATCATATGG
13027984 AAAGATTTAA
Statistics
Matches: 102, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
52 5 0.05
53 79 0.77
54 18 0.18
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (53 bp):
GTTATGGCATCATATGGGTAAAACACCATATCATGTAAGACCATAACATGTGG
Found at i:13028207 original size:28 final size:28
Alignment explanation
Indices: 13028166--13028270 Score: 95
Period size: 28 Copynumber: 3.7 Consensus size: 28
13028156 AAGGGTAAGA
* * *
13028166 CTTTGTGGCAAACCTCTTAAAGGATAGC
1 CTTTGTGGTAAACCTCTTAAAGGAAAAC
* *
13028194 CTTTGTGGTGAACCTGTTAAAGGAAAAC
1 CTTTGTGGTAAACCTCTTAAAGGAAAAC
* * *
13028222 CTTTGTGGTAAAACT-TTGGAAAGGTAAGC
1 CTTTGTGGTAAACCTCTT--AAAGGAAAAC
* *
13028251 CTTTGTGGCAAACCTTTTAA
1 CTTTGTGGTAAACCTCTTAA
13028271 TGAACGCCTT
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
27 2 0.03
28 38 0.60
29 21 0.33
30 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (28 bp):
CTTTGTGGTAAACCTCTTAAAGGAAAAC
Found at i:13030418 original size:6 final size:6
Alignment explanation
Indices: 13030407--13030438 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
13030397 ATGGGCCTCG
*
13030407 ATTCAT ATTCAT ATTCAT ATTCAT ATTTAT AT
1 ATTCAT ATTCAT ATTCAT ATTCAT ATTCAT AT
13030439 CATTCAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.53
Consensus pattern (6 bp):
ATTCAT
Found at i:13033360 original size:60 final size:62
Alignment explanation
Indices: 13033186--13033556 Score: 450
Period size: 63 Copynumber: 6.0 Consensus size: 62
13033176 TCTTTGTAGC
* * * *
13033186 AAACATACATTCGGATAACATATATATATAATTCAAACAATTAAATTCATCTTATAGAACTCA
1 AAACATACATTCGGCTAACATAT-TATATAATTCATACAATTAGATTCAACTTATAGAACTCA
* * * *
13033249 AAACATACATTCGACTAACATATATATATATAATTTATACAATTAGCTTCAACTAATAGAACTCA
1 AAACATACATTCGGCTAAC--ATAT-TATATAATTCATACAATTAGATTCAACTTATAGAACTCA
* *
13033314 ATACATACATT-GGCTAACATATT-TATAATTCATACAATTAGTTTCAACTTATCA-AACTCA
1 AAACATACATTCGGCTAACATATTATATAATTCATACAATTAGATTCAACTTAT-AGAACTCA
* *
13033374 AAACATACATTCGGCTAACATATTTATATAATTCAT-CAAATTAAATTCAGCTTATAGAACTCA
1 AAACATACATTCGGCTAACATA-TTATATAATTCATAC-AATTAGATTCAACTTATAGAACTCA
*
13033437 AAACATACATT-GGCTAACATA-TATATAATTCATACAATTAGTTTCAACTTATCA-AACTCA
1 AAACATACATTCGGCTAACATATTATATAATTCATACAATTAGATTCAACTTAT-AGAACTCA
** * * *
13033497 AAATGTACATTCGGCTAACATATTTATATAATTCATAAAATTAAATTCATCTTATAGAAC
1 AAACATACATTCGGCTAACATA-TTATATAATTCATACAATTAGATTCAACTTATAGAAC
13033557 ACACACACAT
Statistics
Matches: 268, Mismatches: 26, Indels: 28
0.83 0.08 0.09
Matches are distributed among these distances:
60 83 0.31
61 24 0.09
62 19 0.07
63 88 0.33
64 6 0.02
65 48 0.18
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (62 bp):
AAACATACATTCGGCTAACATATTATATAATTCATACAATTAGATTCAACTTATAGAACTCA
Found at i:13033469 original size:123 final size:122
Alignment explanation
Indices: 13033186--13033556 Score: 510
Period size: 123 Copynumber: 3.0 Consensus size: 122
13033176 TCTTTGTAGC
* * ** *
13033186 AAACATACATTCGGATAACATATATATATAATTCAAACAATTAAATTCATCTTAT-AGAACTCAA
1 AAACATACATT-GGCTAAC--ATATATATAATTCATACAATTAGTTTCAACTTATCA-AACTCAA
* * ** *
13033250 AACATACATTCGACTAACATATATATATATAATTTATACAATTAGCTTCAACTAATAGAACTCA
62 AACATACATTCGGCTAACATAT-T-TATATAATTCATA-AATTAAATTCAACTTATAGAACTCA
* *
13033314 ATACATACATTGGCTAACATATTTATAATTCATACAATTAGTTTCAACTTATCAAACTCAAAACA
1 AAACATACATTGGCTAACATATATATAATTCATACAATTAGTTTCAACTTATCAAACTCAAAACA
*
13033379 TACATTCGGCTAACATATTTATATAATTCATCAAATTAAATTCAGCTTATAGAACTCA
66 TACATTCGGCTAACATATTTATATAATTCAT-AAATTAAATTCAACTTATAGAACTCA
**
13033437 AAACATACATTGGCTAACATATATATAATTCATACAATTAGTTTCAACTTATCAAACTCAAAATG
1 AAACATACATTGGCTAACATATATATAATTCATACAATTAGTTTCAACTTATCAAACTCAAAACA
*
13033502 TACATTCGGCTAACATATTTATATAATTCATAAAATTAAATTCATCTTATAGAAC
66 TACATTCGGCTAACATATTTATATAATTCAT-AAATTAAATTCAACTTATAGAAC
13033557 ACACACACAT
Statistics
Matches: 222, Mismatches: 19, Indels: 9
0.89 0.08 0.04
Matches are distributed among these distances:
123 146 0.66
124 2 0.01
125 57 0.26
126 1 0.00
127 6 0.03
128 10 0.05
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (122 bp):
AAACATACATTGGCTAACATATATATAATTCATACAATTAGTTTCAACTTATCAAACTCAAAACA
TACATTCGGCTAACATATTTATATAATTCATAAATTAAATTCAACTTATAGAACTCA
Found at i:13038144 original size:15 final size:14
Alignment explanation
Indices: 13038123--13038158 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
13038113 ATAATCCTTA
*
13038123 ATAATTATCTTAAT
1 ATAATTATCCTAAT
13038137 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
13038152 ATAATTA
1 ATAATTA
13038159 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:13040022 original size:5 final size:5
Alignment explanation
Indices: 13040012--13040073 Score: 54
Period size: 5 Copynumber: 12.0 Consensus size: 5
13040002 AGTAATAAAT
* * *
13040012 AATAA AATAA AATAA AGTAA TAA-ATA AATTA AAGAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA -AATA-A AATAA AATAA AATAA AATAA AATAA
*
13040063 TAAAAA AATAA
1 -AATAA AATAA
13040074 TAAAAAAATC
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
5 39 0.87
6 6 0.13
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:13040114 original size:11 final size:10
Alignment explanation
Indices: 13040005--13040110 Score: 77
Period size: 11 Copynumber: 9.9 Consensus size: 10
13039995 CCAAATAAGT
13040005 AATAAATAATAA
1 AATAAA-AA-AA
*
13040017 AATAAAATAA
1 AATAAAAAAA
* *
13040027 AGTAATAAATA
1 AATAA-AAAAA
* *
13040038 AATTAAAGAA
1 AATAAAAAAA
*
13040048 AATAAAATAA
1 AATAAAAAAA
13040058 AATAATAAAAA
1 AATAA-AAAAA
13040069 AATAATAAAAA
1 AATAA-AAAAA
**
13040080 AATCTCAAAAA
1 AAT-AAAAAAA
13040091 AATAAAAAATA
1 AATAAAAAA-A
13040102 AATAAAAAA
1 AATAAAAAA
13040111 TAAAGATTCG
Statistics
Matches: 75, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
10 26 0.35
11 43 0.57
12 6 0.08
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (10 bp):
AATAAAAAAA
Found at i:13046570 original size:29 final size:29
Alignment explanation
Indices: 13046533--13046588 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
13046523 AAATAAAATC
*
13046533 TTAAAATTAAATAATCCTTA-ATAATTATT
1 TTAAAATT-AATAATCCTAATATAATTATT
* *
13046562 TTAATATTAATTATCCTAATATAATTA
1 TTAAAATTAATAATCCTAATATAATTA
13046589 AAATAGAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (29 bp):
TTAAAATTAATAATCCTAATATAATTATT
Found at i:13053946 original size:24 final size:24
Alignment explanation
Indices: 13053914--13053962 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
13053904 TCAATTCATT
13053914 AGAACTAGGTTCCATTACAACATG
1 AGAACTAGGTTCCATTACAACATG
13053938 AGAACTAGGTTCCATTACAACATG
1 AGAACTAGGTTCCATTACAACATG
13053962 A
1 A
13053963 AAGATCTAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (24 bp):
AGAACTAGGTTCCATTACAACATG
Found at i:13059409 original size:100 final size:101
Alignment explanation
Indices: 13059220--13059467 Score: 297
Period size: 100 Copynumber: 2.4 Consensus size: 101
13059210 TGATCATAAC
* * *
13059220 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCTCATGCCATG
1 ATGCCAAA-CCATGT-CCAGACATGGTCTTACATGGGATCTTATCATATCGGTGCTCACGCCATG
*
13059285 TCCCAGACATGGTCTTACGGGGGACCACTC-ATCTC-G
64 TCCCAGACATGGTCTTACAGGGGACCACTCAATCTCAG
*
13059321 ATGCCAACACCATGTCTCAGACATGGTCTTACATGGGA-CTTATCATCTCGGTGC-CAACGCCAT
1 ATGCCAA-ACCATGTC-CAGACATGGTCTTACATGGGATCTTATCATATCGGTGCTC-ACGCCAT
* *
13059384 GTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
63 GTCCCAGACATGGTCTTACAGGGGACCACTCA--ATCTC-A-G
*
13059427 ATGCCAATGCCATGTCCGAGACATGGTCTTACATGGGATCT
1 ATGCCAA-ACCATGTCC-AGACATGGTCTTACATGGGATCT
13059468 CTTTACCCAA
Statistics
Matches: 127, Mismatches: 9, Indels: 16
0.84 0.06 0.11
Matches are distributed among these distances:
99 1 0.01
100 48 0.38
101 34 0.27
102 1 0.01
103 5 0.04
105 1 0.01
106 35 0.28
107 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (101 bp):
ATGCCAAACCATGTCCAGACATGGTCTTACATGGGATCTTATCATATCGGTGCTCACGCCATGTC
CCAGACATGGTCTTACAGGGGACCACTCAATCTCAG
Found at i:13059439 original size:56 final size:53
Alignment explanation
Indices: 13059220--13059469 Score: 261
Period size: 50 Copynumber: 4.8 Consensus size: 53
13059210 TGATCATAAC
* **
13059220 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATA--TCGG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATATCTCGG
* ** *
13059272 -TGCTC-ATGCCATGTCCCAGACATGGTCTTACGGGGGACCACTC--ATCTC-G
1 ATGC-CAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCTCGG
* *
13059321 ATGCCAACACCATGTCTCAGACATGGTCTTACATGGGA-CT-T-ATCATCTCGG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-ATCTCGG
13059372 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-ATCTC--GG
* * *
13059427 ATGCCAATGCCATGTCCGAGACATGGTCTTACATGGGATCTCT
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
13059470 TTACCCAAAT
Statistics
Matches: 165, Mismatches: 18, Indels: 26
0.79 0.09 0.12
Matches are distributed among these distances:
48 2 0.01
49 3 0.02
50 75 0.45
51 35 0.21
52 2 0.01
53 7 0.04
55 2 0.01
56 39 0.24
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.26
Consensus pattern (53 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCTCGG
Found at i:13059842 original size:30 final size:30
Alignment explanation
Indices: 13059807--13059864 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
13059797 CCTCGACTCT
*
13059807 AACTTTGT-CAAAATTATAATTTTGCCCCTA
1 AACTTT-TACAAAATTACAATTTTGCCCCTA
* *
13059837 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
13059865 AAGGCTCAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.31, C:0.22, G:0.05, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:13061457 original size:29 final size:29
Alignment explanation
Indices: 13061414--13061502 Score: 133
Period size: 29 Copynumber: 3.1 Consensus size: 29
13061404 ACCTCACTTT
* *
13061414 TATACCTAAAGATTTAGATCGCTTGTCTC
1 TATACCTAAAGATTTAGATCACTCGTCTC
* *
13061443 TATACCTAAATATTTAGATCACTCGTGTC
1 TATACCTAAAGATTTAGATCACTCGTCTC
*
13061472 TATACCTAAAGATTTAGATCACTCATCTC
1 TATACCTAAAGATTTAGATCACTCGTCTC
13061501 TA
1 TA
13061503 AGTTCCCCCT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.37
Consensus pattern (29 bp):
TATACCTAAAGATTTAGATCACTCGTCTC
Found at i:13062998 original size:14 final size:14
Alignment explanation
Indices: 13062975--13063030 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
13062965 CTATGGTTAG
*
13062975 GGTTTTGGGTTTTT
1 GGTTTAGGGTTTTT
**
13062989 GGTTTAGGG-TTAG
1 GGTTTAGGGTTTTT
13063002 GGTTTTAGGGTTTTT
1 GG-TTTAGGGTTTTT
13063017 AGGTTTAGGGTTTT
1 -GGTTTAGGGTTTT
13063031 AAAGAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
13 4 0.12
14 15 0.44
15 13 0.38
16 2 0.06
ACGTcount: A:0.09, C:0.00, G:0.38, T:0.54
Consensus pattern (14 bp):
GGTTTAGGGTTTTT
Found at i:13063009 original size:8 final size:8
Alignment explanation
Indices: 13062971--13063031 Score: 55
Period size: 8 Copynumber: 8.4 Consensus size: 8
13062961 TCTGCTATGG
13062971 TTAGGGTT
1 TTAGGGTT
13062979 TT-GGGTT
1 TTAGGGTT
*
13062986 TT-TGG-T
1 TTAGGGTT
13062992 TTAGGG--
1 TTAGGGTT
13062998 TTAGGGTT
1 TTAGGGTT
13063006 TTAGGGTTT
1 TTAGGG-TT
13063015 TTA-GG-T
1 TTAGGGTT
13063021 TTAGGGTT
1 TTAGGGTT
13063029 TTA
1 TTA
13063032 AAGAAAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
6 13 0.29
7 13 0.29
8 14 0.31
9 5 0.11
ACGTcount: A:0.11, C:0.00, G:0.36, T:0.52
Consensus pattern (8 bp):
TTAGGGTT
Found at i:13063201 original size:95 final size:95
Alignment explanation
Indices: 13063026--13063340 Score: 266
Period size: 96 Copynumber: 3.3 Consensus size: 95
13063016 TAGGTTTAGG
* * * * * * * *
13063026 GTTTTAAAGAAAAAATTAAATAAATAAGGGATTAGGGTGT-CTTAATTAAATTAATTATAAAATT
1 GTTTTGAAGGAAAAATCAAATAAATTAGGGTTTAGTGT-TACTTGAGTAAATTAATTAT-AAATT
* * * * * *
13063090 TT--CAAAATTGGTTTAGGTTTCGTATTTATC
64 TTAAAAAAATTAGATTAGGTTTAGTATTAAGC
*
13063120 GTTTGTGAA-GAAAAATCAATTAAATTAGGGTTTAAG-GTTACTTGAGTAAATTAATTA-AAATT
1 GTTT-TGAAGGAAAAATCAAATAAATTAGGGTTT-AGTGTTACTTGAGTAAATTAATTATAAA-T
* *
13063182 TTTAAAAAAATTAGATTAGGGTTTAGTGTTAAGG
63 TTTAAAAAAATTAGATTA-GGTTTAGTATTAAGC
* * *
13063216 GTTTTTAAGGAAAAATGAAATAAATTAGGGTTTAGTGTTACTTGAGTAAATTAATTATAAA-TTC
1 GTTTTGAAGGAAAAATCAAATAAATTAGGGTTTAGTGTTACTTGAGTAAATTAATTATAAATTTT
* * * *
13063280 AAAAAAAATAGATTAGAGTTTAGTGTTTAGG
66 AAAAAAATTAGATTAG-GTTTAGTATTAAGC
* * *
13063311 GTTTTTAAAGAAAAACTTAAATAAATTAGG
1 GTTTTGAAGGAAAAA-TCAAATAAATTAGG
13063341 TTTTGGGGTT
Statistics
Matches: 185, Mismatches: 24, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
92 3 0.02
93 5 0.03
94 41 0.22
95 63 0.34
96 70 0.38
97 3 0.02
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.38
Consensus pattern (95 bp):
GTTTTGAAGGAAAAATCAAATAAATTAGGGTTTAGTGTTACTTGAGTAAATTAATTATAAATTTT
AAAAAAATTAGATTAGGTTTAGTATTAAGC
Found at i:13063240 original size:96 final size:95
Alignment explanation
Indices: 13063127--13063340 Score: 306
Period size: 96 Copynumber: 2.2 Consensus size: 95
13063117 ATCGTTTGTG
* *
13063127 AAGAAAAATCAATTAAATTAGGGTTTAAG-GTTACTTGAGTAAATTAATTA-AAATTTTTAAAAA
1 AAGAAAAATCAAATAAATTAGGGTTT-AGTGTTACTTGAGTAAATTAATTATAAA--TTCAAAAA
* *
13063190 AATTAGATTAGGGTTTAGTGTTAAGGGTTTTTA
63 AAATAGATTAGAGTTTAGTGTTAAGGGTTTTTA
* *
13063223 AGGAAAAATGAAATAAATTAGGGTTTAGTGTTACTTGAGTAAATTAATTATAAATTCAAAAAAAA
1 AAGAAAAATCAAATAAATTAGGGTTTAGTGTTACTTGAGTAAATTAATTATAAATTCAAAAAAAA
*
13063288 TAGATTAGAGTTTAGTGTTTAGGGTTTTTA
66 TAGATTAGAGTTTAGTGTTAAGGGTTTTTA
*
13063318 AAGAAAAACTTAAATAAATTAGG
1 AAGAAAAA-TCAAATAAATTAGG
13063341 TTTTGGGGTT
Statistics
Matches: 106, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
95 46 0.43
96 57 0.54
97 3 0.03
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.36
Consensus pattern (95 bp):
AAGAAAAATCAAATAAATTAGGGTTTAGTGTTACTTGAGTAAATTAATTATAAATTCAAAAAAAA
TAGATTAGAGTTTAGTGTTAAGGGTTTTTA
Found at i:13063615 original size:126 final size:125
Alignment explanation
Indices: 13063389--13063678 Score: 465
Period size: 126 Copynumber: 2.3 Consensus size: 125
13063379 ATTTAAAAAG
* *
13063389 GCTCCCACGTGGACGCTCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTTCT
1 GCTCCCACGTGGACG-TTTTTTGCTATAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTTCT
*
13063454 GAGCAAATAGTGCCAAAAACGCTTTAAGTACGATGCTTTGTCAGCAAAAGTACTGAAAGAA
65 GAGCAAATAGTGCCAAAAACGCTTTAAGCACGATGCTTTGTCAGCAAAAGTACTGAAAGAA
* *
13063515 GCTCCCACGTGGACGTATTTTTGCTATAGTAGCTCCTGAAAAAATAATTTCGAGTAGATGTTTCT
1 GCTCCCACGTGGACGT-TTTTTGCTATAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTTCT
* *
13063580 GAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAGAA
65 GAGCAAATAGTGCCAAAAACGCTTTAAGCACGATGCTTTGTCAGCAAAAGTACTGAAAGAA
*
13063641 GCTCCCACGTGGACGCGTTTTTGCTACT-GTAGCTCCTG
1 GCTCCCACGTGGACG-TTTTTTGCTA-TAGTAGCTCCTG
13063679 TTTGGCCTGA
Statistics
Matches: 153, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
125 1 0.01
126 151 0.99
127 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (125 bp):
GCTCCCACGTGGACGTTTTTTGCTATAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTTCTG
AGCAAATAGTGCCAAAAACGCTTTAAGCACGATGCTTTGTCAGCAAAAGTACTGAAAGAA
Found at i:13066298 original size:43 final size:42
Alignment explanation
Indices: 13066217--13066327 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 42
13066207 ATATTCAGTG
* * *
13066217 ATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGG
1 ATACGGGGAATCAGCACTTAGCAACCACTTTCACAATCAAGA
* * * * *
13066259 ATACAGTGGAATCAGCACTTAGCAATCACTTTTAGAATCAATA
1 ATAC-GGGGAATCAGCACTTAGCAACCACTTTCACAATCAAGA
* *
13066302 ATTCGGGGAATCAGTACTTAGCAACC
1 ATACGGGGAATCAGCACTTAGCAACC
13066328 CCTCGAGGAA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 23 0.41
43 33 0.59
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (42 bp):
ATACGGGGAATCAGCACTTAGCAACCACTTTCACAATCAAGA
Found at i:13066389 original size:41 final size:41
Alignment explanation
Indices: 13066334--13066480 Score: 213
Period size: 41 Copynumber: 3.6 Consensus size: 41
13066324 AACCCCTCGA
*
13066334 GGAATCTGCACTTAGCAACCCATTTTTTATCAGAGTTTCAG
1 GGAATCTGCACTTAGCAACCCCTTTTTTATCAGAGTTTCAG
* * *
13066375 GAAATCTGCACTTAGCAACCCCTTTTTTATTAGAGTTTCGG
1 GGAATCTGCACTTAGCAACCCCTTTTTTATCAGAGTTTCAG
* * *
13066416 GGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCAG
1 GGAATCTGCACTTAGCAACCCCTTTTTTATCAGAGTTTCAG
* *
13066457 GGAATCTGTACTTAGCAAACCCTT
1 GGAATCTGCACTTAGCAACCCCTT
13066481 ACATTCAATG
Statistics
Matches: 94, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 94 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (41 bp):
GGAATCTGCACTTAGCAACCCCTTTTTTATCAGAGTTTCAG
Found at i:13068309 original size:116 final size:116
Alignment explanation
Indices: 13068168--13068376 Score: 305
Period size: 116 Copynumber: 1.8 Consensus size: 116
13068158 ACTTTGTATT
* *
13068168 ATTTATATTTTTTAAATCAAATAATATAGAAATATTCAGAATATTGACTTATTTAAAAGAAAATC
1 ATTTATATTTTTTAAATCAAATAATATAGAAATATTCAAAATATTGACATATTTAAAAGAAAATC
* *
13068233 TATTTTATTAAAAATATTAAA-GTAAATTACAATTACTTCATTCAAAACAAC
66 TATTATATTAAAAAT-GTAAATGTAAATTACAATTACTTCATTCAAAACAAC
* ** **
13068284 ATTT-TATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTGTGATATTTAAAAGAATTT
1 ATTTATATTTT-TTAAATCAAATAATATAGAAATATTCAAAATATTGACATATTTAAAAGAAAAT
13068348 CTATTATATTAAAAATGTAAATGTAAATT
65 CTATTATATTAAAAATGTAAATGTAAATT
13068377 TCTATTTTAT
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
115 10 0.12
116 72 0.88
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.41
Consensus pattern (116 bp):
ATTTATATTTTTTAAATCAAATAATATAGAAATATTCAAAATATTGACATATTTAAAAGAAAATC
TATTATATTAAAAATGTAAATGTAAATTACAATTACTTCATTCAAAACAAC
Found at i:13068412 original size:34 final size:35
Alignment explanation
Indices: 13068373--13068440 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 35
13068363 TGTAAATGTA
*
13068373 AATTTCTATTTTATTACATGAAATAATAT-AAAAG
1 AATTTCTATTTTATTACATCAAATAATATCAAAAG
13068407 AATTTCTATTTTATTACATCAAATAATATCAAAA
1 AATTTCTATTTTATTACATCAAATAATATCAAAA
13068441 TATTCAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 28 0.88
35 4 0.12
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (35 bp):
AATTTCTATTTTATTACATCAAATAATATCAAAAG
Found at i:13068595 original size:21 final size:22
Alignment explanation
Indices: 13068571--13068618 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
13068561 GCGGGGGTTG
13068571 TGGTTGC-TCCAGT-GGGGATTC
1 TGGTTGCTTCCAGTAGGGGA-TC
13068592 TGGTT-CTTCCAGTAGGGGATC
1 TGGTTGCTTCCAGTAGGGGATC
13068613 TGGTTG
1 TGGTTG
13068619 TTGGTGTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 1 0.04
21 18 0.75
22 5 0.21
ACGTcount: A:0.10, C:0.17, G:0.38, T:0.35
Consensus pattern (22 bp):
TGGTTGCTTCCAGTAGGGGATC
Done.